Compilation of selected deep-sea biological data for the US subseabed disposal project

International Nuclear Information System (INIS)

Gomez, L.S.; Marietta, M.G.; Jackson, D.W.

1987-03-01

The US Subseabed Disposal Project (SDP) has compiled an extensive deep-sea biological data base to be used in calculating biological parameters of state and rate included in mathematical models of oceanographic transport of radionuclides. The data base is organized around a model deep-sea ecosystem which includes the following components: zooplankton, fish and other nekton, invertebrate benthic megafauna, benthic macrofauna, benthic meiofauna, heterotrophic microbiota, as well as suspended and sediment particulate organic carbon. Measurements of abundance and activity rates (e.g., respiration, production, sedimentation, etc.) reported in the international oceanographic literature are summarized in 23 tables. Included in these tables are the latitudinal position of the studies, as well as information describing sampling techniques and any special notes needed to better assess the data presented. This report has been prepared primarily as a resource document to be used in calculating parameter values for various modeling applications, and for preparing historical data reviews for other SDP reports. Depending on the intended use, these data will require further reduction and unit conversion

Strategy for assessing the technical, environmental, and engineering feasibility of subseabed disposal

International Nuclear Information System (INIS)

Anderson, D.R.; Boyer, D.G.; Herrmann, H.; Kelly, J.; Talbert, D.M.

1980-01-01

This paper presents the strategy and management techniques used in the development of the US Subseabed Disposal Program (SDP) for possible disposal of both high-level waste and spent fuel. These have been developed through joint efforts of the Department of Energy (DOE), Division of Waste Isolation, the Sandia Technical Program Manager, the Technical Program Coordinators, the Advisory Group, and the Principal Investigators. Three subsections of this paper address the various components which make up the SDP strategy and management techniques. The first section will summarize the US DOE high-level waste and spent fuel disposal program and the position that the SDP occupies within that program. The second section, the Subseabed Program Plan, addresses the technical and administrative tools which are employed to facilitate the day-to-day operation of the SDP. The third section addresses the current studies and future plans for addressing the legal, political, and international uncertainties that must be resolved prior to the time the SDP reaches the final engineering phases

Subseabed Disposal Project chemical response studies. Annual report, October 1982-September 1983

International Nuclear Information System (INIS)

Brush, L.H.

1985-10-01

Studies of the chemical response of deep-sea sediments to a subseabed repository for high-level radioactive waste continued during Fiscal Year 1983. Chemical Response Studies comprise Waste Package, Near-Field, and Far-Field Studies. This year, as in the past, investigators in the US Subseabed Disposal Project (SDP) carried out most of these chemical response experiments with red clay from the MPG 1 study location 1500 km north of Hawaii. The results of all studies carried out to date imply that oxidized red clay would form a highly effective barrier to radionuclides that form cationic species, but that anionic radionuclides would begin to escape from the sediment to the overlying water column on the order of thousands of years after emplacement. In Fiscal Year 1984, investigators in the US SDP will initiate chemical response studies with mildly reduced Atlantic clay- and carbonate-rich sediments in cooperation with the Sediment Barrier Task Group of the Organization for Economic Cooperation and Development - Nuclear Energy Agency Coordinated Program on the Assessment of the Subseabed Disposal of Radioactive Waste (Seabed Working Group). The objective of these US studies will be to quantify the chemical response of Atlantic sediments to a subseabed repository with a level of confidence similar to that for Pacific red clay

Site qualification plan for the Subseabed Disposal Program

International Nuclear Information System (INIS)

Laine, E.P.; Anderson, D.R.; Hollister, C.D.

1983-01-01

In our evolving study to identify and examine sites in subseabed geological formations for use as repositories for high-level nuclear wastes, two primary criteria guide all phases of this work: the stability and barrier criteria of the site. The stability criterion defines areas of the seabed not likely to be disturbed by tectonic forces and oceanographic changes during the lifetime of a waste repository. The barrier criterion defines those subseabed geological formations most likely to form an effective barrier to the release of radionuclides. Because of the large area of the oceans, a phased approach has been adopted so that successively smaller areas of the seafloor can be studied in ever greater detail. The first phase, which is complete, has identified the abyssal clay deposits that are remote from tectonic boundaries and continental margins as being the regions (<10/sup 6/ km/sup 2/) on the seafloor within which acceptable sites might be most readily identified. The second phase involves downgrading less desirable areas within these regions using archived seismic reflection profiling, sediment cores, and oceanographic data. This winnowing process identifies locations about one degree square (≤10/sup 4/ km/sup 2/) for more detailed field studies during the first part of the third phase. From these locations candidate sites will be chosen, based on detailed geological and geophysical surveying. The second part of the third phase will involve detailed monitoring of the candidate sites to determine long-term baseline conditions. After monitoring is underway, a pilot repository will be established, using waste canisters

Subseabed disposal program annual report, January-December 1980. Volume II. Appendices (principal investigator progress reports). Part 1

International Nuclear Information System (INIS)

Hinga, K.R.

1981-07-01

Volume II of the sixth annual report describing the progress and evaluating the status of the Subseabed Disposal Program contains the appendices referred to in Volume I, Summary and Status. Because of the length of Volume II, it has been split into two parts for publication purposes. Part 1 contains Appendices A-Q; Part 2 contains Appendices R-MM. Separate abstracts have been prepared for each appendix for inclusion in the Energy Data Base

Subseabed disposal program annual report, January-December 1980. Volume II. Appendices (principal investigator progress reports). Part 1

Energy Technology Data Exchange (ETDEWEB)

Hinga, K.R. (ed.)

1981-07-01

Volume II of the sixth annual report describing the progress and evaluating the status of the Subseabed Disposal Program contains the appendices referred to in Volume I, Summary and Status. Because of the length of Volume II, it has been split into two parts for publication purposes. Part 1 contains Appendices A-Q; Part 2 contains Appendices R-MM. Separate abstracts have been prepared for each appendix for inclusion in the Energy Data Base.

Subseabed radionuclide migration studies and preliminary repository design concepts

International Nuclear Information System (INIS)

Brush, L.H.

1982-01-01

Geochemical research carried out by the US Subseabed Disposal Program is described. Data from studies of high-temperature interactions between sediments and pore water (seawater) and from studies of sorption and diffusion of radionuclides in oxidized, deep-sea sediments are used, along with results from heat transfer studies, to predict migration rates of raionuclides in a subseabed repository. Preliminary results for most radionuclides in oxidized sediments are very encouraging. Fission products with moderate K/sub D/ values (10 2 to 10 5 ml/g) and actinides with high K/sub D/ values (10 3 to 10 6 ml/g) would not migrate significant distances before decaying to innocuous concentrations. Among this group are 137 Cs, 90 Sr, and 239 Pu. The results for anionic species in oxidized sediments are less encouraging. Planning for field verification of these laboratory and modeling studies is currently under way. Conceptual repository designs and emplacement options are also described. 33 references, 15 figures, 1 table

Subseabed disposal program annual report, January-December 1979. Volume II. Appendices (principal investigator progress reports). Part 1 of 2

International Nuclear Information System (INIS)

Talbert, D.M.

1981-04-01

Volume II of the sixth annual report describing the progress and evaluating the status of the Subseabed Disposal Program contains the appendices referred to in Volume I, Summary and Status. Because of the length of Volume II, it has been split into two parts for publication purposes. Part 1 contains Appendices A-O; Part 2 contains Appendices P-FF. Separate abstracts have been prepared of each Appendix for inclusion in the Energy Data Base

Subseabed disposal program annual report, January-December 1979. Volume II. Appendices (principal investigator progress reports). Part 2 of 2

International Nuclear Information System (INIS)

Talbert, D.M.

1981-04-01

Volume II of the sixth annual report describing the progress and evaluating the status of the Subseabed Disposal Program contains the appendices referred to in Volume II, Summary and Status. Because of the length of Volume II, it has been split into two parts for publication purposes. Part 1 contains Appendices A-O; Part 2 contains Appendices P-FF. Separate abstracts have been prepared for each appendix for inclusion in the Energy Data Base

Interim radiological safety standards and evaluation procedures for subseabed high-level waste disposal

International Nuclear Information System (INIS)

Klett, R.D.

1997-06-01

The Seabed Disposal Project (SDP) was evaluating the technical feasibility of high-level nuclear waste disposal in deep ocean sediments. Working standards were needed for risk assessments, evaluation of alternative designs, sensitivity studies, and conceptual design guidelines. This report completes a three part program to develop radiological standards for the feasibility phase of the SDP. The characteristics of subseabed disposal and how they affect the selection of standards are discussed. General radiological protection standards are reviewed, along with some new methods, and a systematic approach to developing standards is presented. The selected interim radiological standards for the SDP and the reasons for their selection are given. These standards have no legal or regulatory status and will be replaced or modified by regulatory agencies if subseabed disposal is implemented. 56 refs., 29 figs., 15 tabs

Program criteria for subseabed disposal of radioactive waste: site qualification plan

International Nuclear Information System (INIS)

Laine, E.P.; Anderson, D.R.; Hollister, C.D.

1982-05-01

This document describes the evolving methodology which is being used to identify, and study sites in subseabed geological formations which may be candidates for use as repositories for high-level nuclear waste. Two primary criteria guide all phases of this work: the stability and barrier criteria. The stability criterion defines areas of the seabed that are unlikely to be disturbed by tectonic forces and oceanographic changes durig the lifetime of a waste repository. The barrier criterion defines those subseabed geological formations most likely to form an effective barrier to the release of radionuclides. Because of the large area of the oceans, a phased approach has been adopted through which successively smaller areas of the sea floor are studied in ever greater detail. The first phase, which is complete, has identified abyssal clay deposits that are remote from tectonic boundaries and continental margins as being the regions (>10 5 km 2 ) on the sea floor within which acceptable sites might be most readily identified. The second phase involves downgrading less desirable areas (>10 4 km 2 ) within these regions, using archived seismic reflection profiling, sediment cores, and oceanographic data. This winnowing process identifies locations about one degree square (greater than or equal to 10 4 km 2 ) for more detailed field studies during the first part of the third phase. From these locations candidate sites (less than or equal to 10 4 km 2 ) will be chosen based on detailed geological and geophysical surveying. In the second part of the third phase, detailed monitoring of the candidate sites will begin to determine long-term baseline conditions. After monitoring is underway, a pilot repository will be established using waste canisters. Based on this work, a site selection/rejection report will be written. The fourth and last phase will involve extended monitoring of oceanographic conditions at each repository

Performance assessment overview for subseabed disposal of high level radioactive waste

International Nuclear Information System (INIS)

Klett, R.D.

1997-06-01

The Subseabed Disposal Project (SDP) was part of an international program that investigated the feasibility of high-level radioactive waste disposal in the deep ocean sediments. This report briefly describes the seven-step iterative performance assessment procedures used in this study and presents representative results of the last iteration. The results of the performance are compared to interim standards developed for the SDP, to other conceptual repositories, and to related metrics. The attributes, limitations, uncertainties, and remaining tasks in the SDP feasibility phase are discussed

International program to study subseabed disposal of high-level radioactive wastes

International Nuclear Information System (INIS)

Carlin, E.M.; Hinga, K.R.; Knauss, J.A.

1984-01-01

This report provides an overview of the international program to study seabed disposal of nuclear wastes. Its purpose is to inform legislators, other policy makers, and the general public as to the history of the program, technological requirements necessary for feasibility assessment, legal questions involved, international coordination of research, national policies, and research and development activities. Each of these major aspects of the program is presented in a separate section. The objective of seabed burial, similar to its continental counterparts, is to contain and to isolate the wastes. The subseabed option should not be confuesed with past practices of ocean dumping which have introduced wastes into ocean waters. Seabed disposal refers to the emplacement of solidified high-level radioactive waste (with or without reprocessing) in certain geologically stable sediments of the deep ocean floor. Specially designed surface ships would transport waste canisters from a port facility to the disposal site. Canisters would be buried from a few tens to a few hundreds of meters below the surface of ocean bottom sediments, and hence would not be in contact with the overlying ocean water. The concept is a multi-barrier approach for disposal. Barriers, including waste form, canister, ad deep ocean sediments, will separate wastes from the ocean environment. High-level wastes (HLW) would be stabilized by conversion into a leach-resistant solid form such as glass. This solid would be placed inside a metallic canister or other type of package which represents a second barrier. The deep ocean sediments, a third barrier, are discussed in the Feasibility Assessment section. The waste form and canister would provide a barrier for several hundred years, and the sediments would be relied upon as a barrier for thousands of years. 62 references, 3 figures, 2 tables

Nuclear power and radioactive waste: a sub-seabed disposal option

International Nuclear Information System (INIS)

Deese, D.A.

1978-01-01

The radioactive waste disposal programs of most countries are still focused on investigation of land-based geologic formations as possible containment media for radioactive wastes. Important discoveries in geological oceanography and amazing advances in ocean engineering over the past decade have, however, led several countries to investigate another promising possibility for geologic disposal of radioactive waste--isolation within the deep seabed or sub-seabed disposal. Beyond the various technical advantages and disadvantages involved, use of the international seabed for radioactive waste disposal raises a multitude of social, economic, political, legal, institutional, and ethical issues. These issues are analyzed in this volume

Subseabed Disposal Program In-Situ Heat Transfer Experiment (ISHTE)

International Nuclear Information System (INIS)

Percival, C.M.

1983-05-01

A heat transfer experiment is being developed in support of the Subseabed Disposal Program. The primary objectives of this experiment are: to provide information on the in situ response of seabed sediment to localized heating; to provide an opportunity to evaluate theoretical models of the response and to observe any unanticipated phenomena which may occur; and to develop and demonstrate the technology necessary to perform waste isolation oriented experiments on the seafloor at depths up to 6000 m. As presently envisaged, the heat transfer experiment will be conducted at a location in the central North Pacific though it could be performed anywhere that the ocean bottom is of the type deemed suitable for the disposal of nuclear waste material. The experiment will be conducted of the seafloor from a recoverable space-frame platform at a depth of approximately 6000 m. A 400-W isotopic heat source will be implanted in the illite sediment and the subsequent response of the sediment to the induced thermal field evaluated. After remote initiation of the experiment, a permanent record of the data obtained will be recorded on board the platform, with selected information transmitted to a surface vessel by acoustic telemetry. The experiment will be operational for one year, after which the entire platform will be recovered. Current plans call for the deployment of the experiment in 1986. Specific activities which will be pursued during the course of the experiment include: measurement of the thermal field; determination of the effective thermal conductivity of the sediment; measurement of pore pressure; evaluation of radionuclide migration processes; pore water sampling; sediment chemistry studies; sediment shear strength measurements; and coring operations in the immediate vicinity of the experiment for postexperiment analysis

Proceedings of a workshop on physical oceanography related to the subseabed disposal of high-level nuclear waste

International Nuclear Information System (INIS)

Marietta, M.G.

1981-04-01

At this workshop a group of expert scientists: (1) assessed the current state of knowledge with regard to the physical oceanographic questions that must be answered generally if high level nuclear waste is to be disposed of on or under the seabed; (2) discussed physical oceanographic science necessarily related to the US Subseabed Disposal Program; (3) recommended necessary research; and (4) identified other ongoing programs with which important liaisons should be made and continued. This report is a collection of workshop presentations, and recommendations, and a synthesis of topical group recommendations into a unified statement of research needs. The US Seabed Disposal Program is described. The goal is to assess the technical, environmental and engineering feasibility of seabed disposal. The environmental studies program will assess possible ecosystem and health effects from radionuclides which may be released due to accidental leakage. Discussion on the following topics are also included: bottom boundary layer; mixing across isopycnal surfaces; circulation modeling; mesoscale dispersion; deep circulation of the Pacific Ocean; vertical transport at edges; instrumentation; chemical oceanography; plutonium distribution in the Pacific; biology report; chemical dumping report; and low-level waste report

Design and development of deep-water piezometer for the Sandia Subseabed Disposal Program

International Nuclear Information System (INIS)

Bennett, R.H.; Burns, J.T.; Lambert, D.N.

1981-01-01

The National Oceanic and Atmospheric Administration (NOAA), Atlantic Oceanographic and Meteorological Laboratories (AOML), Marine Geology and Geophysics Laboratory (MGGL) contracted with Sandia Laboratories, Subseabed Disposal Program (SDP) to prepare initial design and to begin development of a piezometer for the In Situ Heat Transfer Experiment (ISHTE). General design specifications and material types were established by mutual agreement between AOML and Sandia during planning meetings. ISHTE experimental objectives were considered of paramount importance in arriving at the piezometer specifications and on the types of materials to be used. AOML's objectives for the design and development of the piezometer in 1980 included: (1) preliminary design of the mechanical components of the piezometer probe, (2) purchasing of basic materials for fabrication of the initial probe, (3) purchasing of a few selected pressure sensors for high-pressure testing, (4) installation of a high-pressure test facility at AOML for testing pressure sensors, and (5) initiating preliminary testing of pressure sensors. Each of the objectives (1 to 5) were completed successfully in 1980. In addition, AOML constructed a prototype piezometer probe which was tested for mechanical performance in situ in submarine sediments on the US Atlantic continental slope aboard the DSRV ALVIN in October 1980 during NOAA allocated ALVIN time. The mechanical performance test was successful

Sub-seabed burial of radioactive waste and liabilities

International Nuclear Information System (INIS)

Reyners, Patrick.

1982-10-01

The author of this report discusses the problems raised by application of the special third party liability system to damage which may result from embedding radioactive waste in the sub-seabed. The matter of general liability of the State for nuclear damage caused to the environment is also dealt with in this paper. (NEA) [fr

Legal, political, and institutional implications of the seabed assessment program for radioactive waste disposal

International Nuclear Information System (INIS)

Deese, D.A.

1977-01-01

Sub-seabed disposal of high-level radioactive waste is discussed. The following conclusions are drawn: The outcome will be determined largely by the national political stances taken toward a sub-seabed disposal program. Political and diplomatic responses from individual countries should be expected to be heavily influenced by the number, type, and timing of options available for high-level waste disposal. The budgetary and institutional support Washington gives to the sub-seabed program will have a crucial influence on the progress of sub-seabed science and technology over the next three to five years. Despite the growing need of nations, such as Japan and Britain, for a high-level waste disposal option, a sub-seabed program will probably not be employed if it is not strongly funded and supported by the United States. Clearly, there are enough level and political obstacles to destroy or delay a sub-seabed disposal program. The nontechnical hurdles to seabed disposal at least equal the scientific and technical ones. But, on the other hand, there are important potential social and political benefits to be gained from any serious attempt to mount a successful sub-seabed program. These lie principally in international cooperation on waste management, environmental protection, nonproliferation of nuclear weapons, and governing the deep seabed

Swedish subseabed store - phase 1 nears completion

International Nuclear Information System (INIS)

Daglish, James

1987-01-01

The paper concerns the storage of radioactive waste in the subseabed in Sweden. The wastes are low- and intermediate-level reactor wastes arising from the Swedish nuclear power programme. The repository is a cavern which has been excavated under the seabed in the Baltic Sea, about a kilometre out from shore. The specifications of the repository are given, along with the volume of the radioactive wastes to be stored in it. (UK)

Legal aspects of sub-seabed disposal of radioactive waste

International Nuclear Information System (INIS)

Reyners, P.

1981-10-01

In connection with methods for disposal of highly radioactive waste, that consisting of burying such waste in the sub-seabed arouses an increasingly marked interest among specialists. Apart from the technical difficulties still to be overcome and current safety assessments, this method gives rise to quite considerable legal and political problems. Their solution will undoubtedly have a bearing on its chances of being implemented. (NEA) [fr

Migration of radionuclide chains in subseabed disposal

International Nuclear Information System (INIS)

Ray, A.K.; Nuttall, H.E.

1982-01-01

In this study of subseabed disposal, the two dimensional (axial and radial) migration of radionuclide chains released from a canister located in a sedimentary layer bounded at the top by the ocean and at the bottom by an impermeable basalt zone is analyzed to determine the escape rate of radionuclides into the seawater. Analytical solutions have been derived to represent the transient concentration profiles within the sediment, flux and discharge rates to the water column of each member present in a decay chain. Using the properties of chain members present in actinide decay systems, the effects of half-life, adsorption equilibrium and other relevant parameters are elucidated. 4 figures, 1 table

Review of science and technology for disposal of low-level waste on the seabed and high-level waste in the subseabed

International Nuclear Information System (INIS)

Anderson, D.R.; Boyer, D.G.; Hollister, C.D.

1983-01-01

In 1980 it was recommended that an effort be made to increase the scientific data base relating to the oceanographic and biological characteristic of the Northeast Atlantic dumping area. The overall safety of sea dumping operations depends on a number of factors such as the characteristics of the dumping site, the amount, composition, conditioning, and packaging of waste, and the way in which operations are organized and controlled. An NEA research and environmental surveillance program related to sea disposal of low-level radioactive waste (LLW) is proceeding. Information from these studies will apply to disposal of LLW such as reactors from nuclear submarines and contaminated soil, as well as to packaged LLW. In Sweden, construction has begun on a repository located in the granitic rock beneath the seabed. The feasibility of a concept of burying high-level radioactive waste within the geologically stable formations of the deep ocean floor is being assessed. These subseabed options for a waste repository are being considered for several reasons. The granitic rock selected for the Swedish repository has a low hydraulic gradient, thereby reducing the amount of radioactivity tht will diffuse out of the repository. The sea water that covers the repository will dilute and disperse any radioisotopes that do escape from the repository. The other nations studying the feasibility of a subseabed repository are examining the fine-grained clay formations within the stable, predictable deep-sea regions, away from the boundaries of the lithospheric plates and productive surface waters. This clay has properties that may serve to permanently isolate radioactive waste. The most important characteristics of such clays are their vertical and lateral uniformity, low permeability, very high cation retention capacity, and potential for self-healing when disturbed

Performance assessment of geological isolation systems for radioactive waste. Disposal into the sub-seabed

International Nuclear Information System (INIS)

Mobbs, S.F.; Charles, D.; Delow, C.E.; McColl, N.P.

1988-01-01

This report describes an assessment of the radiological impact of sub-seabed disposal of vitrified high level waste, carried out as part of the PAGIS project of the CEC Research Programme on radioactive waste. Where possible the data used in this study have been taken from those provided by the Nuclear Energy Agency Seabed Working Group. The waste was assumed to be placed into the sub-seabed sediments by means of the free fall penetrator technique. An alternative method, emplacement in a deep borehole, was also studied. Three disposal sites were considered: the reference site Great Meteor East, in the N.E. Atlantic, and two alternative sites: Southern Nares Abyssal Plain in the N.W. Atlantic and Cape Verde Rise in N.E. Atlantic. Models were used to describe the release of radionuclides from the waste, their migration through the sediments, their dispersion in the world oceans and the pathways to man. For the normal evolution scenario, best estimate peak individual dose rates for the penetrator option was evaluated at 2 x 10 -10 Sv y -1 arising 0.1 million years after emplacement. The collective dose commitment was 10,000 man Sv. The corresponding figures for the borehole option were 2 x 10 -14 Sv y -1 and 1 man Sv. The risks from seven altered evolution scenarios were also calculated and the risk was predicted to be always less than 10 -9 y -1 . Uncertainty and sensitivity analyses were also performed and showed that the peak dose was most sensitive to variations in Kd values, pore water velocity, pore water diffusivity and burial depth. This document is one of a set of 5 reports covering a relevant project of the European Community on a nuclear safety subject having very wide interest. The five volumes are: the summary (EUR 11775-EN), the clay (EUR 11776-EN), the granite (EUR 11777-FR), the salt (EUR 11778-EN) and the sub-seabed (EUR 11779-EN)

Subseabed disposal: systematic application of the site qualification plan

International Nuclear Information System (INIS)

Shephard, L.E.; Damuth, J.E.; Hayes, D.B.; Heath, G.R.; Laine, E.P.; Leinen, M.; Tucholke, B.E.

1982-01-01

Two criteria, geologic stability and barrier effectiveness, form the basis of the Subseabed Disposal Program's site qualification plan to evaluate the ocean basins and identify those regions having characteristics most favorable for containment of radioactive waste. Stability criteria are used to define those regions least likely to be disturbed by tectonic forces or oceanographic changes during the lifetime of a waste repository. Barrier criteria define those lithologies most likely to form an effective barrier to the release of radionuclides. Two north Pacific regions and three north Atlantic regions (PAC I and II and ATL I, II, and III, respectively) have thus far been selected for further investigation based on the site qualification plan. The PAC I region, centered on the Shatsky Rise in the northwest Pacific, has been subdivided into areas and locations on the basis of an exhaustive review of data available in the archives of national and international agencies and institutions. Results from three locations surveyed and sampled within the PAC I region (VEMA cruise 36-12) suggest some variability in seismic reflector character and lithology, attributable partially to the effects of the North Pacific current. PAC II, located northeast of Hawaii, represents a generic study region characteristic of the Pacific pelagic, abyssal hill environment. Seismic reflection surveys and sampling indicate uniform sediment properties and processes, both laterally and vertically, within the PAC II region. Initial investigation of Regions ATL I, II, and III, located within the distal Nares abyssal plain, the distal Sohm abyssal plain, and the Cape Verde region, respectively, suggests certain smaller areas within these regions warrant more detailed study

Nuclear waste disposal in subseabed geologic formatons: the Seabed Disposal Program

International Nuclear Information System (INIS)

Anderson, D.R.

1979-05-01

The goal of the Seabed Disposal Program is to assess the technical and environmental feasibility of using geologic formations under the sea floor for the disposal of processed high-level radioactive wastes or repackaged spent reactor fuel. Studies are focused on the abyssal hill regions of the sea floors in the middle of tectonic plates and under massive surface current gyres. The red-clay sediments here are from 50 to 100 meters thick, are continuously depositional (without periods of erosion), and have been geologically and climatologically stable for millions of years. Mineral deposits and biological activity are minimal, and bottom currents are weak and variable. Five years of research have revealed no technological reason why nuclear waste disposal in these areas would be impractical. However, scientific assessment is not complete. Also, legal political, and sociological factors may well become the governing elements in such use of international waters. These factors are being examined as part of the work of the Seabed Working Group, an international adjunct of the Seabed Program, with members from France, England, Japan, Canada, and the United States

Nuclear waste disposal in subseabed geologic formatons: the Seabed Disposal Program

Energy Technology Data Exchange (ETDEWEB)

Anderson, D.R.

1979-05-01

The goal of the Seabed Disposal Program is to assess the technical and environmental feasibility of using geologic formations under the sea floor for the disposal of processed high-level radioactive wastes or repackaged spent reactor fuel. Studies are focused on the abyssal hill regions of the sea floors in the middle of tectonic plates and under massive surface current gyres. The red-clay sediments here are from 50 to 100 meters thick, are continuously depositional (without periods of erosion), and have been geologically and climatologically stable for millions of years. Mineral deposits and biological activity are minimal, and bottom currents are weak and variable. Five years of research have revealed no technological reason why nuclear waste disposal in these areas would be impractical. However, scientific assessment is not complete. Also, legal political, and sociological factors may well become the governing elements in such use of international waters. These factors are being examined as part of the work of the Seabed Working Group, an international adjunct of the Seabed Program, with members from France, England, Japan, Canada, and the United States.

Radionuclide disequilibria studies for investigating the integrity of potential nuclear waste disposal sites: subseabed studies

International Nuclear Information System (INIS)

Laul, J.C.; Thomas, C.W.; Petersen, M.R.; Perkins, R.W.

1981-09-01

This study of subseabed sediments indicates that natural radionuclides can be employed to define past long-term migration rates and thereby evaluate the integrity of potential disposal sites in ocean sediments. The study revealed the following conclusions: (1) the sedimentation rate of both the long and short cores collected in the North Pacific is 2.5 mm/1000 yr or 2.5 m/m.yr in the upper 3 meters; (2) the sedimentation rate has been rather constant over the last one million years; and (3) slow diffusive processes dominate within the sediment. Reworking of the sediment by physical processes or organisms is not observed

Why consider subseabed disposal of high-level nuclear wastes

International Nuclear Information System (INIS)

Heath, G.R.; Hollister, C.D.; Anderson, D.R.; Leinen, M.

1983-01-01

There exist large areas of the deep seabed that warrant assessment as potential disposal sites for high-level radioactive wastes because (1) they are far from seismically and tectonically active lithospheric plate boundaries; (2) they are far from active or young volcanoes; (3) they contain thick layers of very uniform fine-grained clays; (4) they are devoid of natural resources likely to be exploited in the foreseeable future; (5) the geologic and oceanographic processes governing the deposition of sediments in such areas are well understood, and have been remarkably insensitive to past oceanic and climatic changes; and (6) sedimentary records of tens of millions of years of slow, uninterrupted deposition of fine-grained clay support predictions of the future stability of such sites. Data accumulated to date on the permeability, ion-retardation properties, and mechanical strength of pelagic clayey sediments indicate that they can act as a primary barrier to the escape of buried radionuclides. Work in progress should determine within the current decade whether subseabed disposal is environmentally acceptable and technically feasible, as well as address the legal, political, and social issues raised by this new concept

Why consider subseabed disposal of high-level nuclear waste

International Nuclear Information System (INIS)

Heath, G.R.; Hollister, C.D.; Anderson, D.R.; Leinen, M.

1980-01-01

Large areas of the deep seabed warrant assessment as potential disposal sites for high-level radioactive waste because: (1) they are far from seismically and tectonically active lithospheric plate boundaries; (2) they are far from active or young volcanos; (3) they contain thick layers of very uniform fine-grained clays; (4) they are devoid of natural resources likely to be exploited in the forseeable future; (5) the geologic and oceanographic processes governing the deposition of sediments in such areas are well understood, and are remarkably insensitive to past oceanographic and climatic changes; and (6) sedmentary records of tens of millions of years of slow, uninterrupted deposition of fine grained clay support predictions of the future stability of such sites. Data accumulated to date on the permeability, ion-retardation properties, and mechanical strength of pelagic clay sediments indicate that they can act as a primary barrier to the escape of buried nuclides. Work in progress should determine within the current decade whether subseabed disposal is environmentally acceptable and technically feasible, as well as address the legal, political and social issues raised by this new concept

Public education and participation

International Nuclear Information System (INIS)

Kelly, J.E.

1982-01-01

As prescribed in Step 1 of the Public Education and Participation Process (attachment 1), industry, public interest groups, and decision-makers were briefed about the Subseabed Disposal Program. In regard to public interest groups, Drs. Hollister and Kelly were invited to present the technical and policy aspects of the Subseabed Program at a public forum in Hawaii sponsored by the Hawaii League of Women Voters, the Health Physics Society, and the East-West Center. The sponsors videotaped the forum for a film, entitled Slowly Dying Embers: Radioactive Waste and the Pacific, which will be shown on television in Hawaii. In response to requests for information about the Subseabed Program, Congressional Staff, Representatives, and Senators (attachment 2) were briefed about the Subseabed Program as legislation related to the Program moved through Congress (attachment 3). Science oriented publications also were contacted about the Program

Subseabed Disposal Program plan. Volume I. Overview

International Nuclear Information System (INIS)

1980-01-01

Some of the most stable geologic formations are underneath the deep oceans. Purpose of this program is to assess the technical, environmental, and engineering feasibility of disposing of packaged high-level waste and/or repackaged spent reactor fuel in these formations

Subseabed disposal program annual report, January-December 1978. Volume II. Principal investigator progress reports

International Nuclear Information System (INIS)

1979-10-01

The topics covered in this report include: geologic siting considerations for the disposal of radioactive wastes into submarine geologic formations; geologic assessment of the MPG-1 regions Central North Pacific; site mapping; geotechnical aspects of subsurface seabed disposal; heat transfer, thermal and fluid physics in the deep ocean sediments; mechanical response predictive capability; sediment-seawater interaction at 300 0 C, 500 bars; stability of actinides in chloride media; cannister corrosion studies; nuclide sorption and migration; development of apparatus and measurement of thermal conductivity of seabed illite and smectite at temperatures to 500 0 C at simulated depths to 15,000 ft (9000 psi); in-situ heat transfer experiments; preliminary seabed disposal transport modeling studies; radionuclide migration studies; radionuclide distributions in deep ocean cores; benthic biological studies; deep sea microbial studies; activity rates of abyssal communities; Deep-towed RUM III (Sandia Seabed working platform): a third-generation remote underwater manipulator; long coring facility program; transportation; legal, political, and institutional implications of the Seabed Program for radioactive waste disposal

Differing responses of the estuarine bivalve Limecola balthica to lowered water pH caused by potential CO2 leaks from a sub-seabed storage site in the Baltic Sea: An experimental study.

Science.gov (United States)

Sokołowski, Adam; Brulińska, Dominika; Mirny, Zuzanna; Burska, Dorota; Pryputniewicz-Flis, Dorota

2018-02-01

Sub-Seabed CCS is regarded as a key technology for the reduction of CO 2 emissions, but little is known about the mechanisms through which leakages from storage sites impact benthic species. In this study, the biological responses of the infaunal bivalve Limecola balthica to CO 2 -induced seawater acidification (pH7.7, 7.0, and 6.3) were quantified in 56-day mesocosm experiments. Increased water acidity caused changes in behavioral and physiological traits, but even the most acidic conditions did not prove to be fatal. In response to hypercapnia, the bivalves approached the sediment surface and increased respiration rates. Lower seawater pH reduced shell weight and growth, while it simultaneously increased soft tissue weight; this places L. balthica in a somewhat unique position among marine invertebrates. Copyright © 2017 Elsevier Ltd. All rights reserved.

Laboratory simulation system, using Carcinus maenas as the model organism, for assessing the impact of CO2 leakage from sub-seabed injection and storage.

Science.gov (United States)

Rodríguez-Romero, Araceli; Jiménez-Tenorio, Natalia; Riba, Inmaculada; Blasco, Julián

2016-01-01

The capture and storage of CO2 in sub-seabed geological formations has been proposed as one of the potential options to decrease atmospheric CO2 concentrations in order to mitigate the abrupt and irreversible consequences of climate change. However, it is possible that CO2 leakages could occur during the injection and sequestration procedure, with significant repercussions for the marine environment. We investigate the effects of acidification derived from possible CO2 leakage events on the European green crab, Carcinus maenas. To this end, a lab-scale experiment involving direct release of CO2 was conducted at pH values between 7.7 and 6.15. Female crabs were exposed for 10 days to sediment collected from two different coastal areas, one with relatively uncontaminated sediment (RSP) and the other with known contaminated sediment (MZ and ML), under the pre-established seawater pH conditions. Survival rate, histopathological damage and metal (Fe, Mn, Cu, Zn, Cr, Cd and Pb) and As accumulation in gills and hepatopancreas tissue were employed as endpoints. In addition, the obtained results were compared with the results of the physico-chemical characterization of the sediments, which included the determination of the metals Fe, Mn, Cu, Zn, Cr, Pb and Cd, the metalloid As, certain polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs), as well as nonchemical sediment properties (grain size, organic carbon and total organic matter). Significant associations were observed between pH and the histological damage. Concentrations of Fe, Mn, Cr, Pb, Cd and PAHs in sediment, presented significant negative correlations with the damage to gills and hepatopancreas, and positive correlations with metal accumulation in both tissues. The results obtained in this study reveal the importance of sediment properties in the biological effects caused by possible CO2 leakage. However, a clear pattern was not observed between metal accumulation in tissues and p

Biology task group

International Nuclear Information System (INIS)

Anon.

1981-01-01

The accomplishments of the task group studies over the past year are reviewed. The purposes of biological investigations, in the context of subseabed disposal, are: an evaluation of the dose to man; an estimation of effects on the ecosystem; and an estimation of the influence of organisms on and as barriers to radionuclide migration. To accomplish these ends, the task group adopted the following research goals: (1) acquire more data on biological accumulation of specific radionuclides, such as those of Tc, Np, Ra, and Sr; (2) acquire more data on transfer coefficients from sediment to organism; (3) Calculate mass transfer rates, construct simple models using them, and estimate collective dose commitment; (4) Identify specific pathways or transfer routes, determine the rates of transfer, and make dose limit calculations with simple models; (5) Calculate dose rates to and estimate irradiation effects on the biota as a result of waste emplacement, by reference to background irradiation calculations. (6) Examine the effect of the biota on altering sediment/water radionuclide exchange; (7) Consider the biological data required to address different accident scenarios; (8) Continue to provide the basic biological information for all of the above, and ensure that the system analysis model is based on the most realistic and up-to-date concepts of marine biologists; and (9) Ensure by way of free exchange of information that the data used in any model are the best currently available

The USGS role in mapping the nation's submerged lands

Science.gov (United States)

Schwab, Bill; Haines, John

2004-01-01

The seabed provides habitat for a diverse marine life having commercial, recreational, and intrinsic value. The habitat value of the seabed is largely a function of the geological structure and related geological, biological, oceanologic, and geochemical processes. Of equal importance, the nation's submerged lands contain energy and mineral resources and are utilized for the siting of offshore infrastructure and waste disposal. Seabed character and processes influence the safety and viability of offshore operations. Seabed and subseabed characterization is a prerequisite for the assessment, protection, and utilization of both living and non-living marine resources. A comprehensive program to characterize and understand the nation's submerged lands requires scientific expertise in the fields of geology, biology, hydrography, and oceanography. The U.S. Geological Survey (USGS) has long experience as the Federal agency charged with conducting geologic research and mapping in both coastal and offshore regions. The USGS Coastal and Marine Geology Program (CMGP) leads the nation in expertise related to characterization of seabed and subseabed geology, geological processes, seabed dynamics, and (in collaboration with the National Oceanic and Atmospheric Administration (NOAA) and international partners) habitat geoscience. Numerous USGS studies show that sea-floor geology and processes determine the character and distribution of biological habitats, control coastal evolution, influence the coastal response to storm events and human alterations, and determine the occurrence and concentration of natural resources.

Programming languages for synthetic biology.

Science.gov (United States)

Umesh, P; Naveen, F; Rao, Chanchala Uma Maheswara; Nair, Achuthsankar S

2010-12-01

In the backdrop of accelerated efforts for creating synthetic organisms, the nature and scope of an ideal programming language for scripting synthetic organism in-silico has been receiving increasing attention. A few programming languages for synthetic biology capable of defining, constructing, networking, editing and delivering genome scale models of cellular processes have been recently attempted. All these represent important points in a spectrum of possibilities. This paper introduces Kera, a state of the art programming language for synthetic biology which is arguably ahead of similar languages or tools such as GEC, Antimony and GenoCAD. Kera is a full-fledged object oriented programming language which is tempered by biopart rule library named Samhita which captures the knowledge regarding the interaction of genome components and catalytic molecules. Prominent feature of the language are demonstrated through a toy example and the road map for the future development of Kera is also presented.

Exemplary Programs in Secondary School Biology.

Science.gov (United States)

McComas, William F.; Penick, John E.

1989-01-01

Summarizes 10 exemplary programs which address topics on individualized biology, a modified team approach, limnology, physical anthropology, the relevance of biology to society, ecology, and health. Provides names and addresses of contact persons for further information. Units cover a broad range of abilities and activities. (RT)

Simple Calculation Programs for Biology Methods in Molecular ...

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Methods in Molecular Biology. GMAP: A program for mapping potential restriction sites. RE sites in ambiguous and non-ambiguous DNA sequence; Minimum number of silent mutations required for introducing a RE sites; Set ...

Physical and biological transport

International Nuclear Information System (INIS)

Marietta, M.G.

1979-01-01

In order to evaluate the feasibility of sub-seabed waste disposal, it is necessary to consider the results of leakage or accidental failure to emplace the canister within the deep-sea sediments. Such accidental release is possible for any waste disposal option, and the associated risks must be evaluated so that comparisons between options can be made. Therefore, one must be able to trace the migration of escaped radionuclides from the canister site within the sediments (or possibly elsewhere for various accident events), through the sediments, water column, and ecosystem to man. Only in this way can the environmental impact of sub-seabed nuclear waste disposal be quantitatively evaluated. A mathematical model which describes this migration of radionuclides through the various transport mechanisms of the sea must be written in order to quantify the release of a given amount of waste material. This model is directed towards answering two questions. What is the effect upon the marine environment, and what is the effect upon man. These questions require a predictive capability for the levels of radioactivity in the marine biota and for the dose to man

BioBlocks: Programming Protocols in Biology Made Easier.

Science.gov (United States)

Gupta, Vishal; Irimia, Jesús; Pau, Iván; Rodríguez-Patón, Alfonso

2017-07-21

The methods to execute biological experiments are evolving. Affordable fluid handling robots and on-demand biology enterprises are making automating entire experiments a reality. Automation offers the benefit of high-throughput experimentation, rapid prototyping, and improved reproducibility of results. However, learning to automate and codify experiments is a difficult task as it requires programming expertise. Here, we present a web-based visual development environment called BioBlocks for describing experimental protocols in biology. It is based on Google's Blockly and Scratch, and requires little or no experience in computer programming to automate the execution of experiments. The experiments can be specified, saved, modified, and shared between multiple users in an easy manner. BioBlocks is open-source and can be customized to execute protocols on local robotic platforms or remotely, that is, in the cloud. It aims to serve as a de facto open standard for programming protocols in Biology.

Chemical and biological nonproliferation program. FY99 annual report

Energy Technology Data Exchange (ETDEWEB)

NONE

2000-03-01

This document is the first of what will become an annual report documenting the progress made by the Chemical and Biological Nonproliferation Program (CBNP). It is intended to be a summary of the program's activities that will be of interest to both policy and technical audiences. This report and the annual CBNP Summer Review Meeting are important vehicles for communication with the broader chemical and biological defense and nonproliferation communities. The Chemical and Biological Nonproliferation Program Strategic Plan is also available and provides additional detail on the program's context and goals. The body of the report consists of an overview of the program's philosophy, goals and recent progress in the major program areas. In addition, an appendix is provided with more detailed project summaries that will be of interest to the technical community.

[Progress in synthetic biology of "973 Funding Program" in China].

Science.gov (United States)

Chen, Guoqiang; Wang, Ying

2015-06-01

This paper reviews progresses made in China from 2011 in areas of "Synthetic Biology" supported by State Basic Research 973 Program. Till the end of 2014, 9 "synthetic biology" projects have been initiated with emphasis on "microbial manufactures" with the 973 Funding Program. Combined with the very recent launch of one project on "mammalian cell synthetic biology" and another on "plant synthetic biology", Chinese "synthetic biology" research reflects its focus on "manufactures" while not giving up efforts on "synthetic biology" of complex systems.

Review of biological monitoring programs at nuclear facilities

International Nuclear Information System (INIS)

Quintana, L.R.; Oakes, T.W.; Shank, K.E.

Biological monitoring programs, as well as relevant radioecological research studies, are reviewed at specific Department of Energy facilities; the program at Oak Ridge National Laboratory is discussed in detail. The biological measurements that are being used for interpreting the impact of a facility on its surrounding environment and nearby population are given. Suggestions which could facilitate interlaboratory comparison studies are presented

Establishing a national biological laboratory safety and security monitoring program.

Science.gov (United States)

Blaine, James W

2012-12-01

The growing concern over the potential use of biological agents as weapons and the continuing work of the Biological Weapons Convention has promoted an interest in establishing national biological laboratory biosafety and biosecurity monitoring programs. The challenges and issues that should be considered by governments, or organizations, embarking on the creation of a biological laboratory biosafety and biosecurity monitoring program are discussed in this article. The discussion focuses on the following questions: Is there critical infrastructure support available? What should be the program focus? Who should be monitored? Who should do the monitoring? How extensive should the monitoring be? What standards and requirements should be used? What are the consequences if a laboratory does not meet the requirements or is not willing to comply? Would the program achieve the results intended? What are the program costs? The success of a monitoring program can depend on how the government, or organization, responds to these questions.

Chemical and biological nonproliferation program. FY99 annual report; ANNUAL

International Nuclear Information System (INIS)

NONE

2000-01-01

This document is the first of what will become an annual report documenting the progress made by the Chemical and Biological Nonproliferation Program (CBNP). It is intended to be a summary of the program's activities that will be of interest to both policy and technical audiences. This report and the annual CBNP Summer Review Meeting are important vehicles for communication with the broader chemical and biological defense and nonproliferation communities. The Chemical and Biological Nonproliferation Program Strategic Plan is also available and provides additional detail on the program's context and goals. The body of the report consists of an overview of the program's philosophy, goals and recent progress in the major program areas. In addition, an appendix is provided with more detailed project summaries that will be of interest to the technical community

Effect of subseabed salt domes on Tidal Residual currents in the Persian Gulf

Science.gov (United States)

Mashayekh Poul, Hossein; Backhaus, Jan; Dehghani, Ali; Huebner, Udo

2016-05-01

Geological studies in the Persian Gulf (PG) have revealed the existence of subseabed salt-domes. With suitable filtering of a high-resolution PG seabed topography, it is seen that the domes leave their signature in the seabed, i.e., numerous hills and valleys with amplitudes of several tens of meters and radii from a few up to tens of kilometers. It was suspected that the "shark skin" of the PG seabed may affect the tidal residual flow. The interaction of tidal dynamics and these obstacles was investigated in a nonlinear hydrodynamic numerical tidal model of the PG. The model was first used to characterize flow patterns of residual currents generated by a tidal wave passing over symmetric, elongated and tilted obstacles. Thereafter it was applied to the entire PG. The model was forced at its open boundary by the four dominant tidal constituents residing in the PG. Each tidal constituent was simulated separately. Results, i.e., tidal residual currents in the PG, as depicted by Lagrangian trajectories reveal a stationary flow that is very rich in eddies. Each eddy can be identified with a topographic obstacle. This confirms that the tidal residual flow field is strongly influenced by the nonlinear interaction of the tidal wave with the bottom relief which, in turn, is deformed by salt-domes beneath the seabed. Different areas of maximum residual current velocities are identified for major tidal constituents. The pattern of trajectories indicates the presence of two main cyclonic gyres and several adjacent gyres rotating in opposite directions and a strong coastal current in the northern PG.

Radiological assessment of the consequences of the disposal of high-level radioactive waste in subseabed sediments

International Nuclear Information System (INIS)

de Marsily, G.; Behrendt, V.; Ensminger, D.A.

1987-01-01

The radiological assessment of the seabed option consists in estimating the detriment to man and to the environment that could result from the disposal of high-level waste (HLW) within the seabed sediments in deep oceans. The assessment is made for the high-level waste (vitrified glass) produced by the reprocessing of 10 5 tons of heavy metal from spent fuel, which represents the amount of waste generated by 3333 reactor-yr of 900-MW(electric) reactors, i.e., 3000 GW(electric) x yr. The disposal option considered is to use 14,667 steel penetrators, each of them containing five canisters of HLW glass (0.15 m 3 each). These penetrators would reach a depth of 50 m in the sediments and would be placed at an average distance of 180 m from each other, requiring a disposal area on the order of 22 x 22 km. Two such potential disposal areas in the Atlantic Ocean were studied, Great Meteor East (GME) and South Nares Abyssal Plains (SNAP). A special ship design is proposed to minimize transportation accidents. Approximately 100 shipments would be necessary to dispose of the proposed amount of waste. The results of this radiological assessment seem to show that the disposal of HLW in subseabed sediments is radiologically a very acceptable option

Transient compartment model for the transfer of radioactivity from sub-seabed repositories

International Nuclear Information System (INIS)

Karpf, A.D.

1993-01-01

Pollution in the deep ocean can originate not only from the disposal of radioactive or chemotoxic waste but also by sea transport accidents or by deep ocean mining processes. The numerical compartment model IMPONADOR albeit developed for the assessment of a subseabed repository of radioactive vitrified waste can be applied to all these cases because of its modular character. The condition for excellent repository properties is the burial of the waste deep into the abyssal sediment. In the case of vitrified radioactive waste this had been ensured by dropping torpedo-like penetrators from the ocean surface which reached sediment depths of up to 35 m at a final speed of some 200 km/h. After intrusion the plasticity of the sediment closes the canal again tightly. The corrosion of the containers is slow at 4 C and the migration of nuclides is even slower since it can take place only by diffusion owing to the absence of any pressure heads and hence currents in the groundwater of this depth. The sediment therefore constitutes the best barrier, enhanced still by sorption. Mixing in the oceans is a complicated process but proceeds within about 500 a, the dilution of the nuclides being the actual 'barrier'. However, before reaching the marine biospere and human beings via seafood the nuclides are scavenged very effectively by sinking particles, remainders of tiny animals, and buried forever on the ocean floor. The code IMPONADOR does not only describe the time dependent equivalent doses but also displays the partition of the whole inventory into the various compartments at different times. This represents a very helpful and intuitive mean for studying the sensitivity of the individual barriers on the total results. IMPONADOR uses BASIC and runs on a PC while being able to implicate complicated informations about sediment properties and ocean currents. (orig.) [de

An interdepartmental Ph.D. program in computational biology and bioinformatics: the Yale perspective.

Science.gov (United States)

Gerstein, Mark; Greenbaum, Dov; Cheung, Kei; Miller, Perry L

2007-02-01

Computational biology and bioinformatics (CBB), the terms often used interchangeably, represent a rapidly evolving biological discipline. With the clear potential for discovery and innovation, and the need to deal with the deluge of biological data, many academic institutions are committing significant resources to develop CBB research and training programs. Yale formally established an interdepartmental Ph.D. program in CBB in May 2003. This paper describes Yale's program, discussing the scope of the field, the program's goals and curriculum, as well as a number of issues that arose in implementing the program. (Further updated information is available from the program's website, www.cbb.yale.edu.)

Yucca Mountain Biological resources monitoring program

International Nuclear Information System (INIS)

1991-01-01

The US Department of Energy (US DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize Yucca Mountain as a possible site for a geological repository for high-level radioactive waste. To ensure site characterization activities do not adversely affect the Yucca Mountain area, an environmental program, the Yucca Mountain Biological Resources Monitoring Program, has been implemented monitor and mitigate environmental impacts and to ensure activities comply with applicable environmental laws. Potential impacts to vegetation, small mammals, and the desert tortoise (an indigenous threatened species) are addressed, as are habitat reclamation, radiological monitoring, and compilation of baseline data. This report describes the program in Fiscal Years 1989 and 1990. 12 refs., 4 figs., 17 tabs

Yucca Mountain Biological Resources Monitoring Program

International Nuclear Information System (INIS)

1992-01-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize Yucca Mountain as a possible site for a geologic repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a repository. To ensure that site characterization activities (SCA) do not adversely affect the Yucca Mountain area, an environmental program has been implemented to monitor and mitigate potential impacts and to ensure that activities comply with applicable environmental regulations. This report describes the activities and accomplishments during fiscal year 1991 (FY91) for six program areas within the Terrestrial Ecosystem component of the YMP environmental program. The six program areas are Site Characterization Activities Effects, Desert Tortoises, Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support

Subseabed Disposal Project annual report, FY85 to termination of project: Physical Oceanography and Water Column Geochemistry Studies, October 1984 through May 1986

Energy Technology Data Exchange (ETDEWEB)

Kupferman, S.L. (ed.)

1987-05-01

This report covers the work of the Physical Oceanography and Water Column Geochemistry (POWCG) Studies Group of the Subseabed Disposal Project (SDP) from October 1984 to termination of the project in May 1986. The overview of the work includes an introduction, general descriptions of the activities, and a summary. Detailed discussions are included as appendices. During the period of this report the POWCG Studies Group held a meeting to develop a long-term research plan for the Nares Abyssal Plain, which was recently designated as a study area for the Environmental Study Group of the SDP. The POWCG Studies Group has also planned and participated in two interdisciplinary oceanographic missions to the Nares which have resulted in the acquisition of data and samples which can be used to begin to understand the workings of the ecosystem at the site, and for developing a preliminary site assessment. The papers in the appendices have been processed for inclusion in the Energy Data Base.

Subseabed Disposal Project annual report, FY85 to termination of project: Physical Oceanography and Water Column Geochemistry Studies, October 1984 through May 1986

International Nuclear Information System (INIS)

Kupferman, S.L.

1987-05-01

This report covers the work of the Physical Oceanography and Water Column Geochemistry (POWCG) Studies Group of the Subseabed Disposal Project (SDP) from October 1984 to termination of the project in May 1986. The overview of the work includes an introduction, general descriptions of the activities, and a summary. Detailed discussions are included as appendices. During the period of this report the POWCG Studies Group held a meeting to develop a long-term research plan for the Nares Abyssal Plain, which was recently designated as a study area for the Environmental Study Group of the SDP. The POWCG Studies Group has also planned and participated in two interdisciplinary oceanographic missions to the Nares which have resulted in the acquisition of data and samples which can be used to begin to understand the workings of the ecosystem at the site, and for developing a preliminary site assessment. The papers in the appendices have been processed for inclusion in the Energy Data Base

BioBlocks: Programming protocols in biology made easier

OpenAIRE

Pau, Ivan; Gupta, Vishal; Irimia, Jesus; Rodriguez-Paton, Alfonso

2016-01-01

The methods to execute biological experiments are evolving. Affordable fluid handling robots and on-demand biology enterprises are making automating entire experiments a reality. Automation offers the benefit of high-throughput experimentation, rapid prototyping and improved reproducibility of results. However, learning to automate and codify experiments is a difficult task as it requires programming expertise. Here, we present a web-based visual development environment called BioBlocks for d...

Programming Morphogenesis through Systems and Synthetic Biology.

Science.gov (United States)

Velazquez, Jeremy J; Su, Emily; Cahan, Patrick; Ebrahimkhani, Mo R

2018-04-01

Mammalian tissue development is an intricate, spatiotemporal process of self-organization that emerges from gene regulatory networks of differentiating stem cells. A major goal in stem cell biology is to gain a sufficient understanding of gene regulatory networks and cell-cell interactions to enable the reliable and robust engineering of morphogenesis. Here, we review advances in synthetic biology, single cell genomics, and multiscale modeling, which, when synthesized, provide a framework to achieve the ambitious goal of programming morphogenesis in complex tissues and organoids. Copyright © 2017 Elsevier Ltd. All rights reserved.

Simple Calculation Programs for Biology Immunological Methods

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Immunological Methods. Computation of Ab/Ag Concentration from EISA data. Graphical Method; Raghava et al., 1992, J. Immuno. Methods 153: 263. Determination of affinity of Monoclonal Antibody. Using non-competitive ...

Yucca Mountain biological resources monitoring program

International Nuclear Information System (INIS)

1993-02-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize Yucca Mountain as a potential site for a geologic repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a potential repository. To ensure that site characterization activities (SCA) do not adversely affect the environment at Yucca Mountain, an environmental program has been implemented to monitor and mitigate potential impacts and ensure activities comply with applicable environmental regulations. This report describes the activities and accomplishments of EG ampersand G Energy Measurements, Inc. (EG ampersand G/EM) during fiscal year 1992 (FY92) for six program areas within the Terrestrial Ecosystem component of the YMP environmental program. The six program areas are Site Characterization Effects, Desert Tortoises, Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support

Simple Calculation Programs for Biology Other Methods

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. Simple Calculation Programs for Biology Other Methods. Hemolytic potency of drugs. Raghava et al., (1994) Biotechniques 17: 1148. FPMAP: methods for classification and identification of microorganisms 16SrRNA. graphical display of restriction and fragment map of ...

The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide.

Science.gov (United States)

Anupama, Jigisha; Francescatto, Margherita; Rahman, Farzana; Fatima, Nazeefa; DeBlasio, Dan; Shanmugam, Avinash Kumar; Satagopam, Venkata; Santos, Alberto; Kolekar, Pandurang; Michaut, Magali; Guney, Emre

2018-01-01

Education and training are two essential ingredients for a successful career. On one hand, universities provide students a curriculum for specializing in one's field of study, and on the other, internships complement coursework and provide invaluable training experience for a fruitful career. Consequently, undergraduates and graduates are encouraged to undertake an internship during the course of their degree. The opportunity to explore one's research interests in the early stages of their education is important for students because it improves their skill set and gives their career a boost. In the long term, this helps to close the gap between skills and employability among students across the globe and balance the research capacity in the field of computational biology. However, training opportunities are often scarce for computational biology students, particularly for those who reside in less-privileged regions. Aimed at helping students develop research and academic skills in computational biology and alleviating the divide across countries, the Student Council of the International Society for Computational Biology introduced its Internship Program in 2009. The Internship Program is committed to providing access to computational biology training, especially for students from developing regions, and improving competencies in the field. Here, we present how the Internship Program works and the impact of the internship opportunities so far, along with the challenges associated with this program.

The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide.

Directory of Open Access Journals (Sweden)

Jigisha Anupama

2018-01-01

Full Text Available Education and training are two essential ingredients for a successful career. On one hand, universities provide students a curriculum for specializing in one's field of study, and on the other, internships complement coursework and provide invaluable training experience for a fruitful career. Consequently, undergraduates and graduates are encouraged to undertake an internship during the course of their degree. The opportunity to explore one's research interests in the early stages of their education is important for students because it improves their skill set and gives their career a boost. In the long term, this helps to close the gap between skills and employability among students across the globe and balance the research capacity in the field of computational biology. However, training opportunities are often scarce for computational biology students, particularly for those who reside in less-privileged regions. Aimed at helping students develop research and academic skills in computational biology and alleviating the divide across countries, the Student Council of the International Society for Computational Biology introduced its Internship Program in 2009. The Internship Program is committed to providing access to computational biology training, especially for students from developing regions, and improving competencies in the field. Here, we present how the Internship Program works and the impact of the internship opportunities so far, along with the challenges associated with this program.

Quantum Biology at the Cellular Level - elements of the research program

OpenAIRE

Bordonaro, Michael; Ogryzko, Vasily

2013-01-01

Quantum Biology is emerging as a new field at the intersection between fundamental physics and biology, promising novel insights into the nature and origin of biological order. We discuss several elements of QBCL (Quantum Biology at Cellular Level), a research program designed to extend the reach of quantum concepts to higher than molecular levels of biological organization. Key words. decoherence, macroscopic superpositions, basis-dependence, formal superposition, non-classical correlations,...

Oral biology in middle age: a history of the University at Buffalo Oral Biology PhD Program.

Science.gov (United States)

Scannapieco, F A

2014-05-01

In 1960, the first Department of Oral Biology in the United States dedicated to the conduct of research, graduate biomedical research education, and the provision of basic oral science education for the DDS curriculum was established at the University at Buffalo. In 1963, the Department organized the first PhD Program in Oral Biology in the United States. This PhD program has produced a large cadre of oral health researchers, many of whom have gone on to make major contributions to dental research and education. This article provides a brief history of the program, the context within which the program was organized and developed, and a description of some of the many faculty, students, and fellows associated with the program. Additionally, to celebrate the 50th anniversary of this program, a symposium, entitled "The Oral Microbiome, Immunity and Chronic Disease", was held on June 12-14, 2013, in Buffalo, New York. The proceedings are published online in Advances in Dental Research (2014, Vol. 26).

Design and validation of general biology learning program based on scientific inquiry skills

Science.gov (United States)

Cahyani, R.; Mardiana, D.; Noviantoro, N.

2018-03-01

Scientific inquiry is highly recommended to teach science. The reality in the schools and colleges is that many educators still have not implemented inquiry learning because of their lack of understanding. The study aims to1) analyze students’ difficulties in learning General Biology, 2) design General Biology learning program based on multimedia-assisted scientific inquiry learning, and 3) validate the proposed design. The method used was Research and Development. The subjects of the study were 27 pre-service students of general elementary school/Islamic elementary schools. The workflow of program design includes identifying learning difficulties of General Biology, designing course programs, and designing instruments and assessment rubrics. The program design is made for four lecture sessions. Validation of all learning tools were performed by expert judge. The results showed that: 1) there are some problems identified in General Biology lectures; 2) the designed products include learning programs, multimedia characteristics, worksheet characteristics, and, scientific attitudes; and 3) expert validation shows that all program designs are valid and can be used with minor revisions. The first section in your paper.

Small-scale modelling of the physiochemical impacts of CO2 leaked from sub-seabed reservoirs or pipelines within the North Sea and surrounding waters.

Science.gov (United States)

Dewar, Marius; Wei, Wei; McNeil, David; Chen, Baixin

2013-08-30

A two-fluid, small scale numerical ocean model was developed to simulate plume dynamics and increases in water acidity due to leakages of CO2 from potential sub-seabed reservoirs erupting, or pipeline breaching into the North Sea. The location of a leak of such magnitude is unpredictable; therefore, multiple scenarios are modelled with the physiochemical impact measured in terms of the movement and dissolution of the leaked CO2. A correlation for the drag coefficient of bubbles/droplets free rising in seawater is presented and a sub-model to predict the initial bubble/droplet size forming on the seafloor is proposed. With the case studies investigated, the leaked bubbles/droplets fully dissolve before reaching the water surface, where the solution will be dispersed into the larger scale ocean waters. The tools developed can be extended to various locations to model the sudden eruption, which is vital in determining the fate of the CO2 within the local waters. Copyright © 2013 Elsevier Ltd. All rights reserved.

BIOLOGICAL MONITORING PROGRAM FOR EAST FORK POPLAR CREEK

Energy Technology Data Exchange (ETDEWEB)

ADAMS, S.M.; ASHWOOD, T.L.; BEATY, T.W.; BRANDT, C.C.

1997-10-24

In May 1985, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge Y-12 Plant. As a condition of the permit a Biological Monitoring and Abatement Program (BMAP) was developed to demonstrate that the effluent limitations established for the Y- 12 Plant protect the classified uses of the receiving stream (East Fork Poplar Creek; EFPC), in particular, the growth and propagation of aquatic life (Lear et al. 1989). A second objective of the BMAP is to document the ecological effects resulting from the implementation of a water pollution control program designed to eliminate direct discharges of wastewaters to EFPC and to minimize the inadvertent release of pollutants to the environment. Because of the complex nature of the discharges to EFPC and the temporal and spatial variability in the composition of the discharges, a comprehensive, integrated approach to biological monitoring was developed. A new permit was issued to the Y-12 Plant on April 28, 1995 and became effective on July 1, 1995. Biological monitoring continues to be required under the new permit. The BMAP consists of four major tasks that reflect different but complementary approaches to evaluating the effects of the Y-12 Plant discharges on the aquatic integrity of EFPC. These tasks are (1) toxicity monitoring, (2) biological indicator studies, (3) bioaccumulation studies, and (4) ecological surveys of the periphyton, benthic macroinvertebrate, and fish communities.

Biological monitoring program for East Fork Poplar Creek

Energy Technology Data Exchange (ETDEWEB)

Adams, S.M.; Ashwood, T.L.; Beaty, T.W.; Brandt, C.C.; Christensen, S.W.; Cicerone, D.S.; Greeley, M.S. Jr.; Hill, W.R.; Kszos, L.S.

1997-04-18

In May 1985, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge Y-12 Plant. As a condition of the permit, a Biological Monitoring and Abatement Program (BMAP) was developed to demonstrate that the effluent limitations established for the Y-12 Plant protect the classified uses of the receiving stream (East Fork Poplar Creek; EFPC), in particular, the growth and propagation of aquatic life (Lear et al. 1989). A second objective of the BMAP is to document the ecological effects resulting from the implementation of a water pollution control program designed to eliminate direct discharges of wastewaters to EFPC and to minimize the inadvertent release of pollutants to the environment. Because of the complex nature of the discharges to EFPC and the temporal and spatial variability in the composition of the discharges, a comprehensive, integrated approach to biological monitoring was developed. A new permit was issued to the Y-12 Plant on April 28, 1995 and became effective on July 1, 1995. Biological monitoring continues to be required under the new permit. The BMAP consists of four major tasks that reflect different but complementary approaches to evaluating the effects of the Y-12 Plant discharges on the aquatic integrity of EFPC. These tasks are (1) toxicity monitoring, (2) biological indicator studies, (3) bioaccumulation studies, and (4) ecological surveys of the periphyton, benthic macroinvertebrate, and fish communities.

The inception and evolution of a unique masters program in cancer biology, prevention and control.

Science.gov (United States)

Cousin, Carolyn; Blancato, Jan

2010-09-01

The University of the District of Columbia (UDC) and the Lombardi Comprehensive Cancer Center (LCCC), Georgetown University Medical Center established a Masters Degree Program in Cancer Biology, Prevention and Control at UDC that is jointly administered and taught by UDC and LCCC faculty. The goal of the Masters Degree Program is to educate students as master-level cancer professionals capable of conducting research and service in cancer biology, prevention, and control or to further advance the education of students to pursue doctoral studies. The Program's unique nature is reflected in its philosophy "the best cancer prevention and control researchers are those with a sound understanding of cancer biology". This program is a full-time, 2-year, 36-credit degree in which students take half of their coursework at UDC and half of their coursework at LCCC. During the second year, students are required to conduct research either at LCCC or UDC. Unlike most cancer biology programs, this unique Program emphasizes both cancer biology and cancer outreach training.

Programming biological models in Python using PySB.

Science.gov (United States)

Lopez, Carlos F; Muhlich, Jeremy L; Bachman, John A; Sorger, Peter K

2013-01-01

Mathematical equations are fundamental to modeling biological networks, but as networks get large and revisions frequent, it becomes difficult to manage equations directly or to combine previously developed models. Multiple simultaneous efforts to create graphical standards, rule-based languages, and integrated software workbenches aim to simplify biological modeling but none fully meets the need for transparent, extensible, and reusable models. In this paper we describe PySB, an approach in which models are not only created using programs, they are programs. PySB draws on programmatic modeling concepts from little b and ProMot, the rule-based languages BioNetGen and Kappa and the growing library of Python numerical tools. Central to PySB is a library of macros encoding familiar biochemical actions such as binding, catalysis, and polymerization, making it possible to use a high-level, action-oriented vocabulary to construct detailed models. As Python programs, PySB models leverage tools and practices from the open-source software community, substantially advancing our ability to distribute and manage the work of testing biochemical hypotheses. We illustrate these ideas using new and previously published models of apoptosis.

The Implementation of Research-based Learning on Biology Seminar Course in Biology Education Study Program of FKIP UMRAH

Science.gov (United States)

Amelia, T.

2018-04-01

Biology Seminar is a course in Biology Education Study Program of Faculty of Teacher Training and Education University of Maritim Raja Ali Haji (FKIP UMRAH) that requires students to have the ability to apply scientific attitudes, perform scientific writing and undertake scientific publications on a small scale. One of the learning strategies that can drive the achievement of learning outcomes in this course is Research-Based Learning. Research-Based Learning principles are considered in accordance with learning outcomes in Biology Seminar courses and generally in accordance with the purpose of higher education. On this basis, this article which is derived from a qualitative research aims at describing Research-based Learning on Biology Seminar course. Based on a case study research, it was known that Research-Based Learning on Biology Seminar courses is applied through: designing learning activities around contemporary research issues; teaching research methods, techniques and skills explicitly within program; drawing on personal research in designing and teaching courses; building small-scale research activities into undergraduate assignment; and infusing teaching with the values of researchers.

Lex genetica: the law and ethics of programming biological code.

Science.gov (United States)

Burk, Dan L

2002-01-01

Recent advances in genetic engineering now allow the design of programmable biological artifacts. Such programming may include usage constraints that will alter the balance of ownership and control for biotechnology products. Similar changes have been analyzed in the context of digital content management systems, and while this previous work is useful in analyzing issues related to biological programming, the latter technology presents new conceptual problems that require more comprehensive evaluation of the interplay between law and technologically embedded values. In particular, the ability to embed contractual terms in technological artifacts now requires a re-examination of disclosure and consent in transactions involving such artifacts.

Implementation and evaluation of a training program as part of the Cooperative Biological Engagement Program in Azerbaijan

Directory of Open Access Journals (Sweden)

April eJohnson

2015-10-01

Full Text Available A training program for animal and human health professionals has been implemented in Azerbaijan through a joint agreement between the United States Defense Threat Reduction Agency and the Government of Azerbaijan. The training program is administered as part of the Cooperative Biological Engagement Program, and targets key employees in Azerbaijan’s disease surveillance system including physicians, veterinarians, epidemiologists, and laboratory personnel. Training is aimed at improving detection, diagnosis, and response to especially dangerous pathogens, although the techniques and methodologies can be applied to other pathogens and diseases of concern. Biosafety and biosecurity training is provided to all trainees within the program. Prior to 2014, a variety of international agencies and organizations provided training, which resulted in gaps related to lack of coordination of training materials and content. In 2014 a new training program was implemented in order to address those gaps. This paper provides an overview of the Cooperative Biological Engagement Program training program in Azerbaijan, a description of how the program fits into existing national training infrastructure, and an evaluation of the new program’s effectiveness to date. Long-term sustainability of the program is also discussed.

Continuing training program in radiation protection in biological research centers

International Nuclear Information System (INIS)

Escudero, R.; Hidalgo, R.M.; Usera, F.; Macias, M.T.; Mirpuri, E.; Perez, J.; Sanchez, A.

2008-01-01

specific training program in radiation protection to meet the different needs of all workers in a biological research center. This program aims to ensure compliance with the relevant national legislation and to minimize the possibility of radiological incidents and accidents in this kind of center. This study has involved contributions from six nationally and internationally recognized Spanish biological research centers that have active training programs in radiation protection, and the design of the program presented here has been informed by the teaching experience of the training staff involved. The training method is based on introductory and refresher courses for personnel in direct contact with the radioactive facility and also for indirectly associated personnel. The courses will include guideline manuals (print or electronic), training through seminars or online materials, and also personnel evaluation, visits to the radioactive facility or practical training as required. The introductory courses are intended for newly incorporated personnel. The refresher courses are fundamentally designed to accommodate possible changes to national legal regulations, working conditions or the in-house radiological protection controls. Maintenance and instrumentation workers, cleaners, administrative personnel, etc. who are associated with the radioactive facility indirectly. These workers are affected by the work in the radioactive facility to varying degrees, and they therefore also require information and training in radiological protection tailored to their level of interaction with the installation. The aim of this study was to design a specific training program in radiation protection to meet the different needs of all workers in a biological research center. This program aims to ensure compliance with the relevant national legislation and to minimize the possibility of radiological incidents and accidents in this kind of center. This study has involved contributions from

Oak Ridge Y-12 Plant Biological Monitoring and Abatement Program Plan

Energy Technology Data Exchange (ETDEWEB)

Adams, S.M.; Brandt, C.C.; Christensen, S.W.; Greeley, M.S.JR.; Hill, W.R.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.

2000-09-01

The revised Biological Monitoring and Abatement Program (BMAP) for East Fork Poplar Creek (EFPC) at the Oak Ridge Y-12 Plant, as described, will be conducted as required by the National Pollutant Discharge Elimination System permit issued for the Y-12 Plant on April 28, 1995 and became effective July 1, 1995. The basic approach to biological monitoring used in this program was developed by the staff in the Environmental Science Division (ESD) at the Oak Ridge National Laboratory (ORNL) at the request of the Y-12 Plant. The revision to the BMAP plan is based on results of biological monitoring conducted during the period of 1985 to present. Details of the specific procedures used in the current routine monitoring program are provided; experimental designs for future studies are described in less detail. The overall strategy used in developing this plan was, and continues to be, to use the results obtained from each task to define the scope of future monitoring efforts. Such efforts may require more intensive sampling than initially proposed in some areas (e.g., additional bioaccumulation monitoring if results indicate unexpectedly high PCBs or Hg) or a reduction in sampling intensity in others (e.g., reduction in the number of sampling sites when no impact is still observed). The program scope will be re-evaluated annually. By using the results of previous monitoring efforts to define the current program and to guide us in the development of future studies, an effective integrated monitoring program has been developed to assess the impacts of Y-12 Plant operations (past and present) on the biota of EFPC and to document the ecological effects of remedial actions.

Publications of the planetary biology program for 1975: A special bibliography. [on NASA programs and research projects on extraterrestrial life

Science.gov (United States)

Souza, K. A. (Compiler); Young, R. S. (Compiler)

1976-01-01

The Planetary Biology Program of the National Aeronautics and Space Administration is the first and only integrated program to methodically investigate the planetary events which may have been responsible for, or related to, the origin, evolution, and distribution of life in the universe. Research supported by this program is divided into the seven areas listed below: (1) chemical evolution, (2) organic geochemistry, (3) life detection, (4) biological adaptation, (5) bioinstrumentation, (6) planetary environments, and (7) origin of life. The arrangement of references in this bibliography follows the division of research described above. Articles are listed alphabetically by author under the research area with which they are most closely related. Only those publications which resulted from research supported by the Planetary Biology Program and which bear a 1975 publication date have been included. Abstracts and theses are not included because of the preliminary and abbreviated nature of the former and the frequent difficulty of obtaining the latter.

StrateGene: object-oriented programming in molecular biology.

Science.gov (United States)

Carhart, R E; Cash, H D; Moore, J F

1988-03-01

This paper describes some of the ways that object-oriented programming methodologies have been used to represent and manipulate biological information in a working application. When running on a Xerox 1100 series computer, StrateGene functions as a genetic engineering workstation for the management of information about cloning experiments. It represents biological molecules, enzymes, fragments, and methods as classes, subclasses, and members in a hierarchy of objects. These objects may have various attributes, which themselves can be defined and classified. The attributes and their values can be passed from the classes of objects down to the subclasses and members. The user can modify the objects and their attributes while using them. New knowledge and changes to the system can be incorporated relatively easily. The operations on the biological objects are associated with the objects themselves. This makes it easier to invoke them correctly and allows generic operations to be customized for the particular object.

Oak Ridge Y-12 Plant biological monitoring and abatement program (BMAP) plan

Energy Technology Data Exchange (ETDEWEB)

Adams, S.M.; Brandt, C.C.; Cicerone, D.S. [and others

1998-02-01

The proposed Biological Monitoring and Abatement Program (BMAP) for East Fork Poplar Creek (EFPC) at the Oak Ridge Y-12 Plant, as described, will be conducted for the duration of the National Pollutant Discharge Elimination System permit issued for the Y-12 Plant on April 28, 1995, and which became effective July 1, 1995. The basic approach to biological monitoring used in this program was developed by the staff in the Environmental Sciences Division at the Oak Ridge National Laboratory at the request of Y-12 Plant personnel. The proposed BMAP plan is based on results of biological monitoring conducted since 1985. Details of the specific procedures used in the current routine monitoring program are provided, but experimental designs for future studies are described in less detail. The overall strategy used in developing this plan was, and continues to be, to use the results obtained from each task to define the scope of future monitoring efforts. Such efforts may require more intensive sampling than initially proposed in some areas or a reduction in sampling intensity in others. By using the results of previous monitoring efforts to define the current program and to guide them in the development of future studies, an effective integrated monitoring program has been developed to assess the impacts of the Y-12 Plant operation on the biota of EFPC and to document the ecological effects of remedial actions.

Oak Ridge Y-12 Plant biological monitoring and abatement program (BMAP) plan

International Nuclear Information System (INIS)

Adams, S.M.; Brandt, C.C.; Cicerone, D.S.

1998-02-01

The proposed Biological Monitoring and Abatement Program (BMAP) for East Fork Poplar Creek (EFPC) at the Oak Ridge Y-12 Plant, as described, will be conducted for the duration of the National Pollutant Discharge Elimination System permit issued for the Y-12 Plant on April 28, 1995, and which became effective July 1, 1995. The basic approach to biological monitoring used in this program was developed by the staff in the Environmental Sciences Division at the Oak Ridge National Laboratory at the request of Y-12 Plant personnel. The proposed BMAP plan is based on results of biological monitoring conducted since 1985. Details of the specific procedures used in the current routine monitoring program are provided, but experimental designs for future studies are described in less detail. The overall strategy used in developing this plan was, and continues to be, to use the results obtained from each task to define the scope of future monitoring efforts. Such efforts may require more intensive sampling than initially proposed in some areas or a reduction in sampling intensity in others. By using the results of previous monitoring efforts to define the current program and to guide them in the development of future studies, an effective integrated monitoring program has been developed to assess the impacts of the Y-12 Plant operation on the biota of EFPC and to document the ecological effects of remedial actions

Biological Monitoring and Abatement Program for the Oak Ridge K-25 Site

International Nuclear Information System (INIS)

Kszos, L.A.; Adams, S.M.; Ashwood, T.L.; Blaylock, B.G.; Greeley, M.S.; Loar, J.M.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.; Shoemaker, B.A.; Hinzman, R.L.

1993-02-01

A proposed Biological Monitoring and Abatement Program (BMAP) for the Oak Ridge K-25 Site was prepared in December 1992 as required by the renewed National Pollutant Discharge Elimination System permit that was issued on October 1, 1992. The proposed BMAP consists of four tasks that reflect different but complementary approaches to evaluating the effects of K-25 Site effluents on the ecological integrity of Mitchell Branch, Poplar Creek, and the Poplar Creek embayment of the Clinch River. These tasks include (1) ambient toxicity monitoring, (2) bioaccumulation monitoring, (3) assessment of fish health, and (4) instream monitoring of biological communities. This overall BMAP plan combines established protocols with current biological monitoring techniques to assess environmental compliance and quantify ecological recovery. The BMAP will also determine whether the effluent limits established for the K-25 Site protect the designated use of the receiving streams (Mitchell Branch, Poplar Creek, and Clinch River) for growth and propagation of fish and other aquatic life. Results obtained from this biological monitoring program will also be used to document the ecological effects (and effectiveness) of remedial actions

Biological Monitoring and Abatement Program for the Oak Ridge K-25 Site

Energy Technology Data Exchange (ETDEWEB)

Kszos, L. A.; Adams, S. M.; Ashwood, T. L.; Blaylock, B. G.; Greeley, M. S.; Loar, J. M.; Peterson, M. J.; Ryon, M. G.; Smith, J. G.; Southworth, G. R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States). Environmental Sciences Div.; Shoemaker, B. A. [Oak Ridge K-25 Site, TN (United States); Hinzman, R. L. [Oak Ridge Research Inst., TN (United States)

1993-02-01

A proposed Biological Monitoring and Abatement Program (BMAP) for the Oak Ridge K-25 Site was prepared in December 1992 as required by the renewed National Pollutant Discharge Elimination System permit that was issued on October 1, 1992. The proposed BMAP consists of four tasks that reflect different but complementary approaches to evaluating the effects of K-25 Site effluents on the ecological integrity of Mitchell Branch, Poplar Creek, and the Poplar Creek embayment of the Clinch River. These tasks include (1) ambient toxicity monitoring, (2) bioaccumulation monitoring, (3) assessment of fish health, and (4) instream monitoring of biological communities. This overall BMAP plan combines established protocols with current biological monitoring techniques to assess environmental compliance and quantify ecological recovery. The BMAP will also determine whether the effluent limits established for the K-25 Site protect the designated use of the receiving streams (Mitchell Branch, Poplar Creek, and Clinch River) for growth and propagation of fish and other aquatic life. Results obtained from this biological monitoring program will also be used to document the ecological effects (and effectiveness) of remedial actions.

Technical and socio-political issues in radioactive waste disposal 1986. Vol. 2

International Nuclear Information System (INIS)

Parker, F.L.; Kasperson, R.E.; Andersson, T.L.; Parker, S.A.

1987-11-01

Subseabed disposal of high level radioactive waste and spent fuel, in contrast to land based mined geologic repositories, has not yet been judged by any nation or international bodies to be technologically acceptable, but it is presently considered to be the only available alternative to land based geologic disposal. The work under the scientific program for subseabed disposal the most truly international of all the radioactive waste program, was proceeding along a well defined route to proof or rejection of concept. This date will certainly be delayed because of the withdrawal of the USA from the program. The work under the aegis of the NEA will result in a report in 1987 that will be a status report. To date no scientific information has emerged that would negate the advantages of the subseabed disposal method. Validation of some of the models has not been completed. The option, if possible, would be very attractive for many reasons including no easy direct exposure to man, no contamination of potential drinking water supplies, no near neighbors, an international solution rather than a parochial solution, and location in a formation with highly desirable attributes (stability, exchange capacity, etc.) that may not be available in every nation with a nuclear energy program. Even if the scientific feasibility were proven, then there still remain enormous institutional obstacles to be overcome including the determined opposition of many countries on ecological and philosophical grounds, the existence of international treaties that appear to prohibit such disposal and the fact that it is not the first choice for disposal of spent nuclear fuel or high level radioactive waste. (orig./HP)

OAK RIDGE Y-12 PLANT BIOLOGICAL MONITORING AND ABATEMENT PROGRAM (BMAP) PLAN

Energy Technology Data Exchange (ETDEWEB)

ADAMS, S.M.; BRANDT, C.C.; CHRISTENSEN, S.W.; CICERONE, D.S.; GREELEY, M.S.JR; HILL, W.R.; HUSTON, M.S.; KSZOS, L.A.; MCCARTHY, J.F.; PETERSON, M.J.; RYON, M.G.; SMITH, J.G.; SOUTHWORTH, G.R.; STEWART, A.J.

1998-10-01

The proposed Biological Monitoring and Abatement Program (BMAP) for East Fork Poplar Creek (EFPC) at the Oak Ridge Y-12 Plant, as described, will be conducted for the duration of the National Pollutant Discharge Elimination System permit issued for the Y-12 Plant on April 28, 1995, and which became effective July 1, 1995. The basic approach to biological monitoring used in this program was developed by the staff in the Environmental Sciences Division at the Oak Ridge National Laboratory at the request of Y- 12 Plant personnel. The proposed BMAP plan is based on results of biological monitoring conducted since 1985. Details of the specific procedures used in the current routine monitoring program are provided but experimental designs for future studies are described in less detail. The overall strategy used in developing this plan was, and continues to be, to use the results obtained from each task to define the scope of future monitoring efforts. Such efforts may require more intensive sampling than initially proposed in some areas (e.g., additional toxicity testing if initial results indicate low survival or reproduction) or a reduction in sampling intensity in others (e.g., reduction in the number of sampling sites when no impact is observed). By using the results of previous monitoring efforts to define the current program and to guide us in the development of future studies, an effective integrated monitoring program has been developed to assess the impacts of the Y-12 Plant operation on the biota of EFPC and to document the ecological effects of remedial actions.

On the implementation of the Biological Threat Reduction Program in the Republic of Uzbekistan

OpenAIRE

Tuychiev, Laziz; Madaminov, Marifjon

2013-01-01

Objective To review the implementation of the Biological Threat Reduction Program (BTRP) of the U.S. Defense Threat Reduction Agency in the Republic of Uzbekistan since 2004. Introduction The Biological Threat Reduction Program (BTRP) has been being implemented in the Republic of Uzbekistan since 2004 within the framework of the Agreement between the Government of the Republic of Uzbekistan and the Government of the United States of America Concerning Cooperation in the Area of the Promotion ...

Automatic compilation from high-level biologically-oriented programming language to genetic regulatory networks.

Science.gov (United States)

Beal, Jacob; Lu, Ting; Weiss, Ron

2011-01-01

The field of synthetic biology promises to revolutionize our ability to engineer biological systems, providing important benefits for a variety of applications. Recent advances in DNA synthesis and automated DNA assembly technologies suggest that it is now possible to construct synthetic systems of significant complexity. However, while a variety of novel genetic devices and small engineered gene networks have been successfully demonstrated, the regulatory complexity of synthetic systems that have been reported recently has somewhat plateaued due to a variety of factors, including the complexity of biology itself and the lag in our ability to design and optimize sophisticated biological circuitry. To address the gap between DNA synthesis and circuit design capabilities, we present a platform that enables synthetic biologists to express desired behavior using a convenient high-level biologically-oriented programming language, Proto. The high level specification is compiled, using a regulatory motif based mechanism, to a gene network, optimized, and then converted to a computational simulation for numerical verification. Through several example programs we illustrate the automated process of biological system design with our platform, and show that our compiler optimizations can yield significant reductions in the number of genes (~ 50%) and latency of the optimized engineered gene networks. Our platform provides a convenient and accessible tool for the automated design of sophisticated synthetic biological systems, bridging an important gap between DNA synthesis and circuit design capabilities. Our platform is user-friendly and features biologically relevant compiler optimizations, providing an important foundation for the development of sophisticated biological systems.

Syllabus for an Associate Degree Program in Applied Marine Biology and Oceanography.

Science.gov (United States)

Banerjee, Tapan

Included is a detailed outline of the content of each course required or offered as an elective in the associate degree program. With an 18 or 19 unit load each semester the program requires two years, and includes 64 hours at sea every semester. In addition to chemistry, physics, biology, and oceanography courses, there is a required course in…

8th Asia oceania congress of nuclear medicine and biology final program abstracts

International Nuclear Information System (INIS)

2004-01-01

The eighth Asia and Oceania congress of nuclear medicine and biology was held in Beijing, China, October 9-13 2004. The congress also held satellite meeting in Hong Kong SAR, China October 16-17 2004 and in Shanghai, China October 15 2005 respectively. The congress was sponsored by Chinese Society of Nuclear Medicine and organized by Asia and Oceania Federation of Nuclear Medicine and Biology. The final program includes 379 pieces abstracts, whose contents contain nuclear medicine diagnosis and therapy and biology

The ASM-NSF Biology Scholars Program: An Evidence-Based Model for Faculty Development.

Science.gov (United States)

Chang, Amy L; Pribbenow, Christine M

2016-05-01

The American Society for Microbiology (ASM) established its ASM-NSF (National Science Foundation) Biology Scholars Program (BSP) to promote undergraduate education reform by 1) supporting biologists to implement evidence-based teaching practices, 2) engaging life science professional societies to facilitate biologists' leadership in scholarly teaching within the discipline, and 3) participating in a teaching community that fosters disciplinary-level science, technology, engineering, and mathematics (STEM) reform. Since 2005, the program has utilized year-long residency training to provide a continuum of learning and practice centered on principles from the scholarship of teaching and learning (SoTL) to more than 270 participants ("scholars") from biology and multiple other disciplines. Additionally, the program has recruited 11 life science professional societies to support faculty development in SoTL and discipline-based education research (DBER). To identify the BSP's long-term outcomes and impacts, ASM engaged an external evaluator to conduct a study of the program's 2010-2014 scholars (n = 127) and society partners. The study methods included online surveys, focus groups, participant observation, and analysis of various documents. Study participants indicate that the program achieved its proposed goals relative to scholarship, professional society impact, leadership, community, and faculty professional development. Although participants also identified barriers that hindered elements of their BSP participation, findings suggest that the program was essential to their development as faculty and provides evidence of the BSP as a model for other societies seeking to advance undergraduate science education reform. The BSP is the longest-standing faculty development program sponsored by a collective group of life science societies. This collaboration promotes success across a fragmented system of more than 80 societies representing the life sciences and helps

Breaking down Barriers: A Bridge Program Helps First-Year Biology Students Connect with Faculty

Science.gov (United States)

Cooper, Katelyn M.; Ashley, Michael; Brownell, Sara E.

2018-01-01

Summer bridge programs often aim to build social connections for first-year students to ease their transition into college, yet few studies have reported on bridge programs successfully leading to these outcomes. We backward designed a summer bridge program for incoming biology majors to increase the comfort and connections among students and…

Constitutive properties and material model development for marine sediments in support of the subseabed disposal program

International Nuclear Information System (INIS)

Baladi, G.Y.; Akers, S.A.

1981-01-01

The purpose of the theoretical investigation was to develop an appropriate elastic-plastic effective-stress constitutive model and the necessary numerical algorithms for seabed sediments for use in computer code simulations of both early-time dynamic penetration of waste canisters and late-time hole closure. The purpose of the experimental program was to provide high-pressure dynamic stress-strain and strength properties for seabed sediments of interest, which in conjunction with data provided by the University of Rhode Island (URI), could be used to guide the development and verification of a constitutive model for such materials. The results of the theoretical program are documented in Part I of this report, which contains four chapters. The fundamental basis of elastic-plastic constitutive models is presented in Chapter 1. The numerical implementation of the elastic-plastic models is discussed in Chapter 2. The development of the effective-stress constitutive model for seabed sediments is presented in Chapter 3. The behavior of this effective-stress model under hydrostatic and triaxial compression test conditions is illustrated in Chapter 4. Part II deals with the experimental program and includes five chapters. Chapter 1 deals with background geotechnical information regarding the physical properties of seabed sediments and presents the scope of the experimental program. Testing equipment and specimen preparation are described in Chapter 2. Chapter 3 outlines test procedures and techniques. Test results are presented in Chapter 4. Representative constitutive properties for Pacific illite are given in Chapter 5. Comparison of the final effective-stress constitutive model fits with laboratory test data are presented in Part III. The numerical values of the material model constants for Pacific illite are also summarized therein. Part IV contains a summary and recommendations for future work

Biological Monitoring and Abatement Program for the Oak Ridge K-25 Site

International Nuclear Information System (INIS)

Kszos, L.A.; Adams, S.M.; Ashwood, T.L.; Blaylock, B.G.; Greeley, M.S.; Loar, J.M.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.; Hinzman, R.L.; Shoemaker, B.A.

1993-04-01

A proposed Biological Monitoring and Abatement Program (BMAP) for the Oak Ridge K-25 Site was prepared in December 1992 as required by the renewed National Pollutant Discharge Elimination System permit that was issued on October 1, 1992. The proposed BMAP is based on results of biological monitoring conducted from 1986 to 1992 and discussions held on November 12, 1992, between staff of Martin Marietta Energy Systems, Inc. (Oak Ridge National Laboratory and the K-25 Site), and the Tennessee Department of Environment and Conservation, Department of Energy Oversight Division. The proposed BMAP consists of four tasks that reflect different but complementary approaches to evaluating the effects of K-25 Site effluents on the ecological integrity of Mitchell Branch, Poplar Creek, and the Poplar Creek embayment of the Clinch River. These tasks include (1) ambient toxicity monitoring, (2) bioaccumulation monitoring, (3) assessment of fish health, and (4) instream monitoring of biological communities. This overall BMAP plan combines established protocols with current biological monitoring techniques to assess environmental compliance and quantify ecological recovery. The BMAP will also determine whether the effluent limits established for the K-25 Site protect the designated use of the receiving streams (Mitchell Branch, Poplar Creek, and Clinch River) for growth and propagation of fish and other aquatic life. Results obtained from this biological monitoring program will also be used to document the ecological effects (and effectiveness) of remedial actions

Biological Monitoring and Abatement Program for the Oak Ridge K-25 Site

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A.; Adams, S.M.; Ashwood, T.L.; Blaylock, B.G.; Greeley, M.S.; Loar, J.M.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R. (Oak Ridge National Lab., TN (United States)); Hinzman, R.L. (Oak Ridge Research Inst., TN (United States)); Shoemaker, B.A. (Oak Ridge K-25 Site, TN (United States))

1993-04-01

A proposed Biological Monitoring and Abatement Program (BMAP) for the Oak Ridge K-25 Site was prepared in December 1992 as required by the renewed National Pollutant Discharge Elimination System permit that was issued on October 1, 1992. The proposed BMAP is based on results of biological monitoring conducted from 1986 to 1992 and discussions held on November 12, 1992, between staff of Martin Marietta Energy Systems, Inc. (Oak Ridge National Laboratory and the K-25 Site), and the Tennessee Department of Environment and Conservation, Department of Energy Oversight Division. The proposed BMAP consists of four tasks that reflect different but complementary approaches to evaluating the effects of K-25 Site effluents on the ecological integrity of Mitchell Branch, Poplar Creek, and the Poplar Creek embayment of the Clinch River. These tasks include (1) ambient toxicity monitoring, (2) bioaccumulation monitoring, (3) assessment of fish health, and (4) instream monitoring of biological communities. This overall BMAP plan combines established protocols with current biological monitoring techniques to assess environmental compliance and quantify ecological recovery. The BMAP will also determine whether the effluent limits established for the K-25 Site protect the designated use of the receiving streams (Mitchell Branch, Poplar Creek, and Clinch River) for growth and propagation of fish and other aquatic life. Results obtained from this biological monitoring program will also be used to document the ecological effects (and effectiveness) of remedial actions.

Quantum biology at the cellular level--elements of the research program.

Science.gov (United States)

Bordonaro, Michael; Ogryzko, Vasily

2013-04-01

Quantum biology is emerging as a new field at the intersection between fundamental physics and biology, promising novel insights into the nature and origin of biological order. We discuss several elements of QBCL (quantum biology at cellular level) - a research program designed to extend the reach of quantum concepts to higher than molecular levels of biological organization. We propose a new general way to address the issue of environmentally induced decoherence and macroscopic superpositions in biological systems, emphasizing the 'basis-dependent' nature of these concepts. We introduce the notion of 'formal superposition' and distinguish it from that of Schroedinger's cat (i.e., a superposition of macroscopically distinct states). Whereas the latter notion presents a genuine foundational problem, the former one contradicts neither common sense nor observation, and may be used to describe cellular 'decision-making' and adaptation. We stress that the interpretation of the notion of 'formal superposition' should involve non-classical correlations between molecular events in a cell. Further, we describe how better understanding of the physics of Life can shed new light on the mechanism driving evolutionary adaptation (viz., 'Basis-Dependent Selection', BDS). Experimental tests of BDS and the potential role of synthetic biology in closing the 'evolvability mechanism' loophole are also discussed. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Promoting convergence: The integrated graduate program in physical and engineering biology at Yale University, a new model for graduate education.

Science.gov (United States)

Noble, Dorottya B; Mochrie, Simon G J; O'Hern, Corey S; Pollard, Thomas D; Regan, Lynne

2016-11-12

In 2008, we established the Integrated Graduate Program in Physical and Engineering Biology (IGPPEB) at Yale University. Our goal was to create a comprehensive graduate program to train a new generation of scientists who possess a sophisticated understanding of biology and who are capable of applying physical and quantitative methodologies to solve biological problems. Here we describe the framework of the training program, report on its effectiveness, and also share the insights we gained during its development and implementation. The program features co-teaching by faculty with complementary specializations, student peer learning, and novel hands-on courses that facilitate the seamless blending of interdisciplinary research and teaching. It also incorporates enrichment activities to improve communication skills, engage students in science outreach, and foster a cohesive program cohort, all of which promote the development of transferable skills applicable in a variety of careers. The curriculum of the graduate program is integrated with the curricular requirements of several Ph.D.-granting home programs in the physical, engineering, and biological sciences. Moreover, the wide-ranging recruiting activities of the IGPPEB serve to enhance the quality and diversity of students entering graduate school at Yale. We also discuss some of the challenges we encountered in establishing and optimizing the program, and describe the institution-level changes that were catalyzed by the introduction of the new graduate program. The goal of this article is to serve as both an inspiration and as a practical "how to" manual for those who seek to establish similar programs at their own institutions. © 2016 by The International Union of Biochemistry and Molecular Biology, 44(6):537-549, 2016. © 2016 The Authors Biochemistry and Molecular Biology Education published by Wiley Periodicals, Inc. on behalf of International Union of Biochemistry and Molecular Biology.

The ASM-NSF Biology Scholars Program: An Evidence-Based Model for Faculty Development

Directory of Open Access Journals (Sweden)

Amy L. Chang

2016-05-01

Full Text Available The American Society for Microbiology (ASM established its ASM-NSF (National Science Foundation Biology Scholars Program (BSP to promote undergraduate education reform by 1 supporting biologists to implement evidence-based teaching practices, 2 engaging life science professional societies to facilitate biologists’ leadership in scholarly teaching within the discipline, and 3 participating in a teaching community that fosters disciplinary-level science, technology, engineering, and mathematics (STEM reform. Since 2005, the program has utilized year-long residency training to provide a continuum of learning and practice centered on principles from the scholarship of teaching and learning (SoTL to more than 270 participants (“scholars” from biology and multiple other disciplines. Additionally, the program has recruited 11 life science professional societies to support faculty development in SoTL and discipline-based education research (DBER. To identify the BSP’s long-term outcomes and impacts, ASM engaged an external evaluator to conduct a study of the program’s 2010­–2014 scholars (n = 127 and society partners. The study methods included online surveys, focus groups, participant observation, and analysis of various documents. Study participants indicate that the program achieved its proposed goals relative to scholarship, professional society impact, leadership, community, and faculty professional development. Although participants also identified barriers that hindered elements of their BSP participation, findings suggest that the program was essential to their development as faculty and provides evidence of the BSP as a model for other societies seeking to advance undergraduate science education reform. The BSP is the longest-standing faculty development program sponsored by a collective group of life science societies. This collaboration promotes success across a fragmented system of more than 80 societies representing the life

Yucca Mountain Biological Resources Monitoring Program; Annual report, FY91

Energy Technology Data Exchange (ETDEWEB)

NONE

1992-01-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize Yucca Mountain as a possible site for a geologic repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a repository. To ensure that site characterization activities (SCA) do not adversely affect the Yucca Mountain area, an environmental program has been implemented to monitor and mitigate potential impacts and to ensure that activities comply with applicable environmental regulations. This report describes the activities and accomplishments during fiscal year 1991 (FY91) for six program areas within the Terrestrial Ecosystem component of the YMP environmental program. The six program areas are Site Characterization Activities Effects, Desert Tortoises, Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support.

Strengthening cancer biology research, prevention, and control while reducing cancer disparities: student perceptions of a collaborative master's degree program in cancer biology, preventions, and control.

Science.gov (United States)

Jillson, I A; Cousin, C E; Blancato, J K

2013-09-01

This article provides the findings of a survey of previous and current students in the UDC/GU-LCCC master's degree program. This master's degree program, Cancer Biology, Prevention, and Control is administered and taught jointly by faculty of a Minority Serving Institution, the University of the District of Columbia, and the Lombardi Comprehensive Cancer Center to incorporate the strengths of a community-based school with a research intensive medical center. The program was initiated in 2008 through agreements with both University administrations and funding from the National Cancer Institute. The master's degree program is 36 credits with a focus on coursework in biostatistics, epidemiology, tumor biology, cancer prevention, medical ethics, and cancer outreach program design. For two semesters during the second year, students work full-time with a faculty person on a laboratory or outreach project that is a requirement for graduation. Students are supported and encouraged to transition to a doctoral degree after they obtain the master's and many of them are currently in doctorate programs. Since the inception of the program, 45 students have initiated the course of study, 28 have completed the program, and 13 are currently enrolled in the program. The survey was designed to track the students in their current activities, as well as determine which courses, program enhancements, and research experiences were the least and most useful, and to discern students' perceptions of knowledge acquired on various aspects of Cancer Biology Prevention, and Control Master's Program. Thirty of the 35 individuals to whom email requests were sent responded to the survey, for a response rate of 85.7%. The results of this study will inform the strengthening of the Cancer Biology program by the Education Advisory Committee. They can also be used in the development of comparable collaborative master's degree programs designed to address the significant disparities in prevalence of

Biotechnology by Design: An Introductory Level, Project-Based, Synthetic Biology Laboratory Program for Undergraduate Students†

OpenAIRE

Beach, Dale L.; Alvarez, Consuelo J.

2015-01-01

Synthetic biology offers an ideal opportunity to promote undergraduate laboratory courses with research-style projects, immersing students in an inquiry-based program that enhances the experience of the scientific process. We designed a semester-long, project-based laboratory curriculum using synthetic biology principles to develop a novel sensory device. Students develop subject matter knowledge of molecular genetics and practical skills relevant to molecular biology, recombinant DNA techniq...

Yucca Mountain biological resources monitoring program; Annual report FY92

Energy Technology Data Exchange (ETDEWEB)

NONE

1993-02-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize Yucca Mountain as a potential site for a geologic repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a potential repository. To ensure that site characterization activities (SCA) do not adversely affect the environment at Yucca Mountain, an environmental program has been implemented to monitor and mitigate potential impacts and ensure activities comply with applicable environmental regulations. This report describes the activities and accomplishments of EG&G Energy Measurements, Inc. (EG&G/EM) during fiscal year 1992 (FY92) for six program areas within the Terrestrial Ecosystem component of the YMP environmental program. The six program areas are Site Characterization Effects, Desert Tortoises, Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support.

Strategic Plan for the U.S. Geological Survey. Status and Trends of Biological Resources Program: 2004-2009

National Research Council Canada - National Science Library

Dresler, Paul V; James, Daniel L; Geissler, Paul H; Bartish, Timothy M; Coyle, James

2004-01-01

The mission of the USGS Status and Trends of Biological Resources Program is to measure, predict, assess, and report the status and trends of the Nation's biological resources to facilitate research...

Benefits of a Biological Monitoring Program for Assessing Remediation Performance and Long-Term Stewardship - 12272

Energy Technology Data Exchange (ETDEWEB)

Peterson, Mark [Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831 (United States)

2012-07-01

The Biological Monitoring and Abatement Program (BMAP) is a long-running program that was designed to evaluate biological conditions and trends in waters downstream of Department of Energy (DOE) facilities in Oak Ridge, Tennessee. BMAP monitoring has focused on aquatic pathways from sources to biota, which is consistent with the sites' clean water regulatory focus and the overall cleanup strategy which divided remediation areas into watershed administrative units. Specific programmatic goals include evaluating operational and legacy impacts to nearby streams and the effectiveness of implemented remediation strategies at the sites. The program is characterized by consistent, long-term sampling and analysis methods in a multidisciplinary and quantitative framework. Quantitative sampling has shown conclusively that at most Oak Ridge stream sites, fish and aquatic macro-invertebrate communities have improved considerably since the 1980s. Monitoring of mercury and PCBs in fish has shown that remedial and abatement actions have also improved stream conditions, although in some cases biological monitoring suggests further actions are needed. Follow-up investigations have been implemented by BMAP to identify sources or causes, consistent with an adaptive management approach. Biological monitoring results to date have not only been used to assess regulatory compliance, but have provided additional benefits in helping address other components of the DOE's mission, including facility operations, natural resource, and scientific goals. As a result the program has become a key measure of long-term trends in environmental conditions and of high value to the Oak Ridge environmental management community, regulators, and the public. Some of the BMAP lessons learned may be of value in the design, implementation, and application of other long-term monitoring and stewardship programs, and assist environmental managers in the assessment and prediction of the effectiveness of

Biocoder: A programming language for standardizing and automating biology protocols.

Science.gov (United States)

Ananthanarayanan, Vaishnavi; Thies, William

2010-11-08

Published descriptions of biology protocols are often ambiguous and incomplete, making them difficult to replicate in other laboratories. However, there is increasing benefit to formalizing the descriptions of protocols, as laboratory automation systems (such as microfluidic chips) are becoming increasingly capable of executing them. Our goal in this paper is to improve both the reproducibility and automation of biology experiments by using a programming language to express the precise series of steps taken. We have developed BioCoder, a C++ library that enables biologists to express the exact steps needed to execute a protocol. In addition to being suitable for automation, BioCoder converts the code into a readable, English-language description for use by biologists. We have implemented over 65 protocols in BioCoder; the most complex of these was successfully executed by a biologist in the laboratory using BioCoder as the only reference. We argue that BioCoder exposes and resolves ambiguities in existing protocols, and could provide the software foundations for future automation platforms. BioCoder is freely available for download at http://research.microsoft.com/en-us/um/india/projects/biocoder/. BioCoder represents the first practical programming system for standardizing and automating biology protocols. Our vision is to change the way that experimental methods are communicated: rather than publishing a written account of the protocols used, researchers will simply publish the code. Our experience suggests that this practice is tractable and offers many benefits. We invite other researchers to leverage BioCoder to improve the precision and completeness of their protocols, and also to adapt and extend BioCoder to new domains.

Tennessee's East Fork Poplar Creek: A biological monitoring and abatement program

International Nuclear Information System (INIS)

Halbrook, R.S.; Loar, J.M.; Adams, S.M.; Black, M.C.; Boston, H.L.; Greeley, M.S. Jr.; Hill, W.R.; Hinzman, R.L.; McCarthy, J.F.; Peterson, M.J.; Ryon, M.G.; Schilling, E.M.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.; Gatz, A.J.

1991-01-01

On May 1985, a Biological Monitoring Program was developed for East Fork Poplar Creek (EFPC) in eastern Tennessee, United States. This stream originates within the Oak Ridge Y-12 Plant that produces nuclear weapons components for the Department of Energy. Water and sediment in the stream contain metals, organic chemicals, and radionuclides from releases that have occurred over the past 45 years. The creek also receives urban and some agricultural runoff and effluent from the City of Oak Ridge's Wastewater Treatment Facility (WTF). The biological monitoring program includes four major tasks: (1) ambient toxicity testing: (2) bioaccumulation studies; (3) biological indicator studies; and (4) ecological monitoring of stream communities, including periphyton, benthic macroinvertebrates, and fish. Biological conditions are monitored at six sites on EFPC ranging from kilometer 24.4 near the headwaters to kilometer 6.3 near the month. A site on Brushy Fork, A stream just north of Oak Ridge, is used as reference. Ambient (instream) toxicity was monitored through the use of 7-day static-renewal tests that measured the survival and growth of fathead minnow (Pimephales promelas) larvae and the survival and reproduction of a microstrustacean (Ceriodaphnia dubia). Full-strength water from EFPC within the Y-12 Plant boundary was frequently toxic to Ceriodaphnia, but less frequently toxic to the minnow larvae. Chlorine has been identified as an important toxicant in upper EFPC. Water samples from six sites in EFPC downstream from the Y-12 Plant boundary were tested eight times with both species during a 2-year period (October, 1986 through October, 1988). These sites were ranked by the number of times they were ''best'' or ''worst'' for each species. Water samples collected for use in the ambient toxicity tests were routinely analyzed for conductivity, pH, alkalinity, hardness, total residual and free chlorine, and temperature

Review of the algal biology program within the National Alliance for Advanced Biofuels and Bioproducts

Energy Technology Data Exchange (ETDEWEB)

Unkefer, Clifford J.; Sayre, Richard T.; Magnuson, Jon K.; Anderson, Daniel B.; Baxter, Ivan; Blaby, Ian K.; Brown, Judith K.; Carleton, Michael; Cattolico, Rose Ann; Dale, Taraka; Devarenne, Timothy P.; Downes, C. Meghan; Dutcher, Susan K.; Fox, David T.; Goodenough, Ursula; Jaworski, Jan; Holladay, Jonathan E.; Kramer, David M.; Koppisch, Andrew T.; Lipton, Mary S.; Marrone, Babetta L.; McCormick, Margaret; Molnár, István; Mott, John B.; Ogden, Kimberly L.; Panisko, Ellen A.; Pellegrini, Matteo; Polle, Juergen; Richardson, James W.; Sabarsky, Martin; Starkenburg, Shawn R.; Stormo, Gary D.; Teshima, Munehiro; Twary, Scott N.; Unkefer, Pat J.; Yuan, Joshua S.; Olivares, José A.

2017-03-01

In 2010,when the National Alliance for Advanced Biofuels and Bioproducts (NAABB) consortiumbegan, littlewas known about themolecular basis of algal biomass or oil production. Very fewalgal genome sequenceswere available and efforts to identify the best-producing wild species through bioprospecting approaches had largely stalled after the U.S. Department of Energy's Aquatic Species Program. This lack of knowledge included how reduced carbon was partitioned into storage products like triglycerides or starch and the role played bymetabolite remodeling in the accumulation of energy-dense storage products. Furthermore, genetic transformation and metabolic engineering approaches to improve algal biomass and oil yields were in their infancy. Genome sequencing and transcriptional profiling were becoming less expensive, however; and the tools to annotate gene expression profiles under various growth and engineered conditions were just starting to be developed for algae. It was in this context that an integrated algal biology program was introduced in the NAABB to address the greatest constraints limiting algal biomass yield. This review describes the NAABB algal biology program, including hypotheses, research objectives, and strategies to move algal biology research into the twenty-first century and to realize the greatest potential of algae biomass systems to produce biofuels.

Latinamerican Biological Dosimetry Network (LBDNET). International Biological Dosimetry intercomparison Program (exercise 2007-2008)

International Nuclear Information System (INIS)

Di Giorgio, Marina; Vallerga, Maria B.; Radl, A.; Taja, Maria R.

2009-01-01

This paper describes the International Biological Dosimetry Intercomparison Program (exercise 2007-2008) - developed within the framework of the IAEA regional project - RLA/9/054 (Establishment of national capabilities for response to radiological and nuclear emergency) whose general objectives are: assess reproducibility inter-laboratory; identify problems and provide the necessary modifications for collaborative work in accidental situations requiring activation of mutual assistance mechanisms which will form the basis of the Organization of LBDNET. This exercise involves the laboratories of the region: Argentina (laboratory support), Brazil, Chile, Cuba, Mexico, Peru and Uruguay and the laboratory of the Autonomous University of Barcelona-Espana (Joan Francesc Barquinero and staff). Finally, these countries will meet the next time for the drafting of a final report and later publication. (author)

Research program on the biological effects of oil pollution

International Nuclear Information System (INIS)

Barrett, R.T.

1991-12-01

A national research program on the biological effects of oil pollution (FOBO) was initiated by the Norwegian Ministry of Environment in October 1983 in the light of the increasing oil exploration and production activity in the North Sea and northern Norwegian waters. Ambitions were high and five main fields of research were suggested: Seabirds, fish (incl. salmon), marine mammals, the littoral zone and plankton. However, due to the lack of interest on the part of other potential financers, e.g. the Ministry of Fisheries and the oil companies, to participate, the four-year programme had to be limited to the following three topics: Seabirds around bruding colonies and at sea; Higher plants along the shoreline; The littoral zone. The program ran from the autumn of 1985 to the end of 1989 and this report summarizes the main results and conclusions of each project. 95 refs., 52 figs., 9 tabs

Synthetic biology: programming cells for biomedical applications.

Science.gov (United States)

Hörner, Maximilian; Reischmann, Nadine; Weber, Wilfried

2012-01-01

The emerging field of synthetic biology is a novel biological discipline at the interface between traditional biology, chemistry, and engineering sciences. Synthetic biology aims at the rational design of complex synthetic biological devices and systems with desired properties by combining compatible, modular biological parts in a systematic manner. While the first engineered systems were mainly proof-of-principle studies to demonstrate the power of the modular engineering approach of synthetic biology, subsequent systems focus on applications in the health, environmental, and energy sectors. This review describes recent approaches for biomedical applications that were developed along the synthetic biology design hierarchy, at the level of individual parts, of devices, and of complex multicellular systems. It describes how synthetic biological parts can be used for the synthesis of drug-delivery tools, how synthetic biological devices can facilitate the discovery of novel drugs, and how multicellular synthetic ecosystems can give insight into population dynamics of parasites and hosts. These examples demonstrate how this new discipline could contribute to novel solutions in the biopharmaceutical industry.

75 FR 76472 - Biologics Price Competition and Innovation Act of 2009; Meetings on User Fee Program for...

Science.gov (United States)

2010-12-08

... DEPARTMENT OF HEALTH AND HUMAN SERVICES Food and Drug Administration [Docket No. FDA-2010-N-0602] Biologics Price Competition and Innovation Act of 2009; Meetings on User Fee Program for Biosimilar and Interchangeable Biological Product Applications; Request for Notification of Stakeholder Intention To Participate...

AICD -- Advanced Industrial Concepts Division Biological and Chemical Technologies Research Program. 1993 Annual summary report

Energy Technology Data Exchange (ETDEWEB)

Petersen, G.; Bair, K.; Ross, J. [eds.

1994-03-01

The annual summary report presents the fiscal year (FY) 1993 research activities and accomplishments for the United States Department of Energy (DOE) Biological and Chemical Technologies Research (BCTR) Program of the Advanced Industrial Concepts Division (AICD). This AICD program resides within the Office of Industrial Technologies (OIT) of the Office of Energy Efficiency and Renewable Energy (EE). The annual summary report for 1993 (ASR 93) contains the following: A program description (including BCTR program mission statement, historical background, relevance, goals and objectives), program structure and organization, selected technical and programmatic highlights for 1993, detailed descriptions of individual projects, a listing of program output, including a bibliography of published work, patents, and awards arising from work supported by BCTR.

Results of the F/H Effluent Treatment Facility biological monitoring program, July 1987--July 1991

International Nuclear Information System (INIS)

Specht, W.L.

1992-07-01

As required by the South Carolina Department of Health and Environmental Control (SCDHEC) under NPDES Permit SCO000175, biological monitoring was conducted in Upper Three Runs Creek to determine if discharges from the F/H Effluent Treatment Facility have adversely impacted the biotic community of the receiving stream. Data included in this summary report encompass July 1987 through July 1991. As originally designed, the F/H ETF was not expected to remove all of the mercury from the wastewater; therefore, SCDHEC specified that studies be conducted to determine if mercury was bioaccumulating in aquatic biota. Subsequent to approval of the biological monitoring program, an ion exchange column was added to the F/H ETF specifically to remove mercury, which eliminated mercury from the F/H ETF effluent. The results of the biological monitoring program indicate that at the present rate of discharge, the F/H ETF effluent has not adversely affected the receiving stream with respect to any of the parameters that were measured. The effluent is not toxic at the in-stream waste concentration and there is no evidence of mercury bioaccumulation

Developmental biology, the stem cell of biological disciplines.

Science.gov (United States)

Gilbert, Scott F

2017-12-01

Developmental biology (including embryology) is proposed as "the stem cell of biological disciplines." Genetics, cell biology, oncology, immunology, evolutionary mechanisms, neurobiology, and systems biology each has its ancestry in developmental biology. Moreover, developmental biology continues to roll on, budding off more disciplines, while retaining its own identity. While its descendant disciplines differentiate into sciences with a restricted set of paradigms, examples, and techniques, developmental biology remains vigorous, pluripotent, and relatively undifferentiated. In many disciplines, especially in evolutionary biology and oncology, the developmental perspective is being reasserted as an important research program.

L-Lake fish: L-Lake/Steel Creek Biological Monitoring Program, January 1986--December 1991

International Nuclear Information System (INIS)

Sayers, R.E. Jr.; Mealing, H.G. III

1992-04-01

The L Lake Biological Monitoring Program was designed to meet environmental regulatory requirements associated with the re-start of L-Reactor and address portions of Section 316(a) of the Clean Water Act, which requires an applicant for a discharge permit to provide scientific evidence that the discharge causes no significant impact on the indigenous ecosystem. The Department of Energy (DOE) must demonstrate that the discharge of L-Reactor effluent into L Lake will not inhibit the eventual establishment of a ''Balanced Biological Community'' (BBC) in at least 50% of the lake

L-Lake fish: L-Lake/Steel Creek Biological Monitoring Program, January 1986--December 1991

Energy Technology Data Exchange (ETDEWEB)

Sayers, R.E. Jr.; Mealing, H.G. III [Normandeau Associates, Inc., New Ellenton, SC (United States)

1992-04-01

The L Lake Biological Monitoring Program was designed to meet environmental regulatory requirements associated with the re-start of L-Reactor and address portions of Section 316(a) of the Clean Water Act, which requires an applicant for a discharge permit to provide scientific evidence that the discharge causes no significant impact on the indigenous ecosystem. The Department of Energy (DOE) must demonstrate that the discharge of L-Reactor effluent into L Lake will not inhibit the eventual establishment of a ``Balanced Biological Community`` (BBC) in at least 50% of the lake.

The feasibility of heat generating waste disposal into deep ocean sedimentary formations

International Nuclear Information System (INIS)

Murray, C.N.

1986-01-01

The paper briefly reviews the work undertaken to date by the Commission of European Communities ''Sub-Seabed Program'' in collaboration with national programmes of member countries. Special emphasis has been placed on the studies of the characteristics of deep ocean sediments to act as a barrier to the dispersion of radionuclides and the technical investigations carried out to demonstrate engineering feasibility of the option. (author)

Projected costs for mined geologic repositories for dispoal of commercial nuclear wastes

International Nuclear Information System (INIS)

Waddell, J.D.; Dippold, D.G.; McSweeney, T.I.

1982-12-01

This documen reports cost estimates for: (1) the exploration and development activities preceding the final design of terminal isolation facilities for disposal of commercial high-level waste; and (2) the design, construction, operation, and decommissioning of such facilities. Exploration and evelopment costs also include a separate cost category for related programs such as subseabed research, activities of the Transportation Technology Center, and waste disposal impact mitigation activities

Steel Creek water quality: L-Lake/Steel Creek Biological Monitoring Program, November 1985--December 1991

International Nuclear Information System (INIS)

Bowers, J.A.; Kretchmer, D.W.; Chimney, M.J.

1992-04-01

The Savannah River Site (SRS) encompasses 300 sq mi of the Atlantic Coastal Plain in west-central South Carolina. The Savannah River forms the western boundary of the site. Five major tributaries of the Savannah River -- upper Three Runs Creek, Four Mile Creek, Pen Branch, Steel Creek, and Lower Three Runs Creek -- drain the site. All but Upper Three Runs Creek receive, or in the past received, thermal effluents from nuclear production reactors. In 1985, L Lake, a 400-hectare cooling reservoir, was built on the upper reaches of Steel Creek to receive effluent from the restart of L-Reactor, and protect the lower reaches from thermal impacts. The Steel Creek Biological Monitoring Program was designed to meet envirorunental regulatory requirements associated with the restart of L-Reactor and complements the Biological Monitoring Program for L Lake. This extensive program was implemented to address portions of Section 316(a) of the Clean Water Act. The Department of Energy (DOE) must demonstrate that the operation of L-Reactor will not significantly alter the established aquatic ecosystems

American Society for Radiation Oncology (ASTRO) Survey of Radiation Biology Educators in U.S. and Canadian Radiation Oncology Residency Programs

International Nuclear Information System (INIS)

Rosenstein, Barry S.; Held, Kathryn D.; Rockwell, Sara; Williams, Jacqueline P.; Zeman, Elaine M.

2009-01-01

Purpose: To obtain, in a survey-based study, detailed information on the faculty currently responsible for teaching radiation biology courses to radiation oncology residents in the United States and Canada. Methods and Materials: In March-December 2007 a survey questionnaire was sent to faculty having primary responsibility for teaching radiation biology to residents in 93 radiation oncology residency programs in the United States and Canada. Results: The responses to this survey document the aging of the faculty who have primary responsibility for teaching radiation biology to radiation oncology residents. The survey found a dramatic decline with time in the percentage of educators whose graduate training was in radiation biology. A significant number of the educators responsible for teaching radiation biology were not fully acquainted with the radiation sciences, either through training or practical application. In addition, many were unfamiliar with some of the organizations setting policies and requirements for resident education. Freely available tools, such as the American Society for Radiation Oncology (ASTRO) Radiation and Cancer Biology Practice Examination and Study Guides, were widely used by residents and educators. Consolidation of resident courses or use of a national radiation biology review course was viewed as unlikely by most programs. Conclusions: A high priority should be given to the development of comprehensive teaching tools to assist those individuals who have responsibility for teaching radiation biology courses but who do not have an extensive background in critical areas of radiobiology related to radiation oncology. These findings also suggest a need for new graduate programs in radiobiology.

L-Lake zooplankton: L-Lake/Steel Creek Biological Monitoring Program, November 1985--December 1991

Energy Technology Data Exchange (ETDEWEB)

Bowers, J.A. [Westinghouse Savannah River Co., Aiken, SC (United States); Bowen, M. [Normandeau Associates, Inc., New Ellenton, SC (United States)

1992-03-01

The L- Lake Biological Monitoring Program was designed to meet environmental regulatory requirements associated with the restart of L-Reactor and address portions of Section 316(a) of the Clean Water Act, which requires an applicant for a discharge permit to provide scientific evidence that the discharge causes no significant impact on the indigenous ecosystem. The Department of Energy (DOE) must demonstrate that the discharge of L-Reactor affluent into L Lake will not inhibit the eventual establishment of a ``Balanced Biological Community`` (BBC) in at least 50% of the lake. This report details results of monitoring zooplankton populations in L-Lake.

L-Lake zooplankton: L-Lake/Steel Creek Biological Monitoring Program, November 1985--December 1991

International Nuclear Information System (INIS)

Bowers, J.A.; Bowen, M.

1992-03-01

The L- Lake Biological Monitoring Program was designed to meet environmental regulatory requirements associated with the restart of L-Reactor and address portions of Section 316(a) of the Clean Water Act, which requires an applicant for a discharge permit to provide scientific evidence that the discharge causes no significant impact on the indigenous ecosystem. The Department of Energy (DOE) must demonstrate that the discharge of L-Reactor affluent into L Lake will not inhibit the eventual establishment of a ''Balanced Biological Community'' (BBC) in at least 50% of the lake. This report details results of monitoring zooplankton populations in L-Lake

Enhancing the effectiveness of biological control programs of invasive species through a more comprehensive pest management approach.

Science.gov (United States)

DiTomaso, Joseph M; Van Steenwyk, Robert A; Nowierski, Robert M; Vollmer, Jennifer L; Lane, Eric; Chilton, Earl; Burch, Patrick L; Cowan, Phil E; Zimmerman, Kenneth; Dionigi, Christopher P

2017-01-01

Invasive species are one of the greatest economic and ecological threats to agriculture and natural areas in the US and the world. Among the available management tools, biological control provides one of the most economical and long-term effective strategies for managing widespread and damaging invasive species populations of nearly all taxa. However, integrating biological control programs in a more complete integrated pest management approach that utilizes increased information and communication, post-release monitoring, adaptive management practices, long-term stewardship strategies, and new and innovative ecological and genetic technologies can greatly improve the effectiveness of biological control. In addition, expanding partnerships among relevant national, regional, and local agencies, as well as academic scientists and land managers, offers far greater opportunities for long-term success in the suppression of established invasive species. In this paper we direct our recommendations to federal agencies that oversee, fund, conduct research, and develop classical biological control programs for invasive species. By incorporating these recommendations into adaptive management strategies, private and public land managers will have far greater opportunities for long-term success in suppression of established invasive species. © 2016 Society of Chemical Industry. © 2016 Society of Chemical Industry.

Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

International Nuclear Information System (INIS)

Loar, J.M.; Adams, S.M.; Allison, L.J.; Blaylock, B.G.; Boston, H.L.; Huston, M.A.; Kimmel, B.L.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.; Walton, B.T.; Kitchings, J.T.; Olsen, C.R.

1991-09-01

On April 1, 1986, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge National Laboratory (ORNL) (EPA 1986). As specified in Part 3: Special Conditions (Item H) of the permit, a plan for biological monitoring of the Clinch River, White Oak Creek (WOC), Northwest Tributary (NWT) of WOC, Melton Branch (MB), Fifth Creek, and First Creek shall be submitted for approval to the US Environmental Protection Agency (EPA) and the Tennessee Department of Health and Environment (TDHE) within 90 days of the effective date of the permit. The plan, which is referred to in Part 3 (H) of the permit as the Biological Monitoring Plan and Abatement Program (BMPAP), describes characterization monitoring studies to be conducted for the duration of the permit (5 years). In order to be consistent with the terminology used for the Biological Monitoring and Abatement Programs for the Oak Ridge Y-12 Plan and the Oak Ridge K-25 Plant, BMPAP will subsequently be referred to as the Biological Monitoring and Abatement Program (BMAP). The proposed BMAP outlined in this document is based on preliminary discussions held on December 9, 1985, between staff of Martin Marietta Energy Systems, Inc. (ORNL and Central Management), the US Department of Energy (DOE), EPA, and TDHE. 232 refs., 11 figs., 7 tabs

Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

Energy Technology Data Exchange (ETDEWEB)

Loar, J.M.; Adams, S.M.; Allison, L.J.; Blaylock, B.G.; Boston, H.L.; Huston, M.A.; Kimmel, B.L.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.; Walton, B.T.; Kitchings, J.T.; Olsen, C.R.

1991-09-01

On April 1, 1986, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge National Laboratory (ORNL) (EPA 1986). As specified in Part 3: Special Conditions (Item H) of the permit, a plan for biological monitoring of the Clinch River, White Oak Creek (WOC), Northwest Tributary (NWT) of WOC, Melton Branch (MB), Fifth Creek, and First Creek shall be submitted for approval to the US Environmental Protection Agency (EPA) and the Tennessee Department of Health and Environment (TDHE) within 90 days of the effective date of the permit. The plan, which is referred to in Part 3 (H) of the permit as the Biological Monitoring Plan and Abatement Program (BMPAP), describes characterization monitoring studies to be conducted for the duration of the permit (5 years). In order to be consistent with the terminology used for the Biological Monitoring and Abatement Programs for the Oak Ridge Y-12 Plan and the Oak Ridge K-25 Plant, BMPAP will subsequently be referred to as the Biological Monitoring and Abatement Program (BMAP). The proposed BMAP outlined in this document is based on preliminary discussions held on December 9, 1985, between staff of Martin Marietta Energy Systems, Inc. (ORNL and Central Management), the US Department of Energy (DOE), EPA, and TDHE. 232 refs., 11 figs., 7 tabs.

Cost-Benefit Analysis for Biological Control Programs That Targeted Insect Pests of Eucalypts in Urban Landscapes of California.

Science.gov (United States)

Paine, T D; Millar, J G; Hanks, L M; Gould, J; Wang, Q; Daane, K; Dahlsten, D L; Mcpherson, E G

2015-12-01

As well as being planted for wind breaks, landscape trees, and fuel wood, eucalypts are also widely used as urban street trees in California. They now are besieged by exotic insect herbivores of four different feeding guilds. The objective of the current analysis was to determine the return on investment from biological control programs that have targeted these pests. Independent estimates of the total number of eucalypt street trees in California ranged from a high of 476,527 trees (based on tree inventories from 135 California cities) to a low of 190,666 trees (based on 49 tree inventories). Based on a survey of 3,512 trees, the estimated mean value of an individual eucalypt was US$5,978. Thus, the total value of eucalypt street trees in California ranged from more than US$1.0 billion to more than US$2.8 billion. Biological control programs that targeted pests of eucalypts in California have cost US$2,663,097 in extramural grants and University of California salaries. Consequently, the return derived from protecting the value of this resource through the biological control efforts, per dollar expended, ranged from US$1,070 for the high estimated number of trees to US$428 for the lower estimate. The analyses demonstrate both the tremendous value of urban street trees, and the benefits that stem from successful biological control programs aimed at preserving these trees. Economic analyses such as this, which demonstrate the substantial rates of return from successful biological control of invasive pests, may play a key role in developing both grass-roots and governmental support for future urban biological control efforts. © The Authors 2015. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Biological and Environmental Research Program at Oak Ridge National Laboratory, FY 1992--1994

International Nuclear Information System (INIS)

1992-01-01

This report is the 1992--1994 Program Director's Overview Report for Oak Ridge National Laboratory's (ORNL's) Biological and Environmental Research (BER) Program, and as such it addresses KP-funded work at ORNL conducted during FY 1991 and in progress during FY 1992; it also serves as a planning document for the remainder of FY 1992 through FY 1994. Non-BER funded work at ORNL relevant to the mission of OHER is also discussed. The second section of the report describes ORNL facilities and resources used by the BER program. The third section addresses research management practices at ORNL. The fourth, fifth, and sixth sections address BER-funded research in progress, program accomplishments and research highlights, and program orientation for the remainder of FY 1992 through FY 1994, respectively. Work for non-BER sponsors is described in the seventh section, followed by a discussion of significant near and long-term issues facing BER work at ORNL in the eighth section. The last section provides a statistical summary of BER research at ORNL. Appendices supplement the above topics with additional detail

Yucca Mountain Biological Resources Monitoring Program. Progress report, October 1992--December 1993

International Nuclear Information System (INIS)

1994-05-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of (as amended in 1987) to study and characterize the suitability of Yucca Mountain as a potential geologic repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a potential repository. To ensure that site characterization activities do not adversely affect the environment at Yucca Mountain, a program has been implemented to monitor and mitigate potential impacts and ensure activities comply with applicable environmental regulations. This report describes the activities and accomplishments of EG ampersand G Energy Measurements, Inc. (EG ampersand G/EM) from October 1992 through December 1993 for six program areas within the Terrestrial Ecosystem component of the environmental program for the Yucca Mountain Site Characterization Project (YMP): Site Characterization Effects, Desert Tortoises (Gopherus agassizii), Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support

Yucca Mountain Biological Resources Monitoring Program. Progress report, January 1994--December 1994

International Nuclear Information System (INIS)

1995-07-01

The US Department of Energy (DOE) is required by the Nuclear Waste Policy Act of 1982 (as amended in 1987) to study and characterize the suitability of Yucca Mountain as a potential geological repository for high-level nuclear waste. During site characterization, the DOE will conduct a variety of geotechnical, geochemical, geological, and hydrological studies to determine the suitability of Yucca Mountain as a potential repository. To ensure that site characterization activities do not adversely affect the environment at Yucca Mountain, a program has been implemented to monitor and mitigate potential impacts and ensure activities comply with applicable environmental regulations. This report describes the activities and accomplishments of EG and G Energy Measurements, Inc. (EG and G/EM) from January 1994 through December 1994 for six program areas within the Terrestrial Ecosystem component of the environmental program for the Yucca Mountain Site Characterization Project (YMP): Site Characterization Effects, Desert Tortoises (Gopherus agassizii), Habitat Reclamation, Monitoring and Mitigation, Radiological Monitoring, and Biological Support

Integrative Biological Chemistry Program Includes the Use of Informatics Tools, GIS and SAS Software Applications

Science.gov (United States)

D'Souza, Malcolm J.; Kashmar, Richard J.; Hurst, Kent; Fiedler, Frank; Gross, Catherine E.; Deol, Jasbir K.; Wilson, Alora

2015-01-01

Wesley College is a private, primarily undergraduate minority-serving institution located in the historic district of Dover, Delaware (DE). The College recently revised its baccalaureate biological chemistry program requirements to include a one-semester Physical Chemistry for the Life Sciences course and project-based experiential learning…

78 FR 20924 - Center for Biologics Evaluation and Research eSubmitter Pilot Evaluation Program for...

Science.gov (United States)

2013-04-08

..., Office of Blood Research and Review, Center for Biologics Evaluation and Research (HFM-375), Food and... assist CBER in the final development and release of this electronic program for use by industry. III... DEPARTMENT OF HEALTH AND HUMAN SERVICES Food and Drug Administration [Docket No. FDA-2013-N-0248...

Biological and Environmental Research Program at Oak Ridge National Laboratory, FY 1992--1994

Energy Technology Data Exchange (ETDEWEB)

1992-01-01

This report is the 1992--1994 Program Director's Overview Report for Oak Ridge National Laboratory's (ORNL's) Biological and Environmental Research (BER) Program, and as such it addresses KP-funded work at ORNL conducted during FY 1991 and in progress during FY 1992; it also serves as a planning document for the remainder of FY 1992 through FY 1994. Non-BER funded work at ORNL relevant to the mission of OHER is also discussed. The second section of the report describes ORNL facilities and resources used by the BER program. The third section addresses research management practices at ORNL. The fourth, fifth, and sixth sections address BER-funded research in progress, program accomplishments and research highlights, and program orientation for the remainder of FY 1992 through FY 1994, respectively. Work for non-BER sponsors is described in the seventh section, followed by a discussion of significant near and long-term issues facing BER work at ORNL in the eighth section. The last section provides a statistical summary of BER research at ORNL. Appendices supplement the above topics with additional detail.

GPSR: A Resource for Genomics Proteomics and Systems Biology

Indian Academy of Sciences (India)

GPSR: A Resource for Genomics Proteomics and Systems Biology · Simple Calculation Programs for Biology Immunological Methods · Simple Calculation Programs for Biology Methods in Molecular Biology · Simple Calculation Programs for Biology Other Methods · PowerPoint Presentation · Slide 6 · Slide 7 · Prediction of ...

User's Guide to Biome Information from the United States International Biological Program (IBP). First Edition.

Science.gov (United States)

Hinckley, A. Dexter; Haug, Peter T.

This publication is a guide to the biome research conducted under the International Biological Program. The guide lists biome researchers by interest and by biome as well as a central list. A site list, map, information sources section reporting abstracts, bibliographies, journals, books, evaluations, and data books are also included. Three…

Post decommissioning monitoring of uranium mines; a watershed monitoring program based on biological response

International Nuclear Information System (INIS)

Russel, C.; Coggan, A.; Ludgate, I.

2006-01-01

Rio Algom Limited and Denison Mines own and operated uranium mines in the Elliot Lake area. The mines operated from the late 1950's to the mid 1960's and again for the early 1970's to the 1990's when the mines ceased operations. There are eleven decommissioned mines in the Serpent River watershed. At the time of decommissioning each mine had it's own monitoring program, which had evolved over the operating life of the mine and did not necessarily reflect the objectives associated with the monitoring of decommissioned sites. In order to assess the effectiveness of the decommissioning plans and monitoring the cumulative effects within the watershed, a single watershed monitoring program was developed in 1999: the Serpent River Watershed Monitoring Program which focused on water and sediment quality within the watershed and response of the biological community over time. In order to address other 'source area' monitoring, three complimentary objective-focused programs were developed 1) the In- Basin Monitoring Program, 2) the Source Area Monitoring Program and 3) the TMA Operational Monitoring Program. Through development this program framework and monitoring programs that were objective- focused, more meaningful data has been provided while providing a significant reduction in the cost of monitoring. These programs allow for the reduction in scope over time in response to improvement in the watershed. This talk will describe the development of these programs, their implementation and effectiveness. (author)

Shoreline ecology program for Prince William Sound, Alaska, following the Exxon Valdez oil spill. Part 3: Biology

International Nuclear Information System (INIS)

Gilfillan, E.S.; Page, D.S.; Harner, E.J.; Boehm, P.D.

1995-01-01

This study describes the biological results of a comprehensive shoreline ecology program designed to assess ecological recovery in Prince William Sound following the Exxon Valdez oil spill on march 24, 1989. The program is an application of the ''Sediment Quality Triad'' approach, combining chemical, toxicological, and biological measurements. The study was designed so that results could be extrapolated to the entire spill zone in Prince William Sound. The spill affected four major shoreline habitat types in Prince William Sound: pebble/gravel, boulder/cobble, sheltered bedrock, and exposed bedrock. The study design had two components: (1) one-time stratified random sampling at 64 sites representing four habitats and four oiling levels (including unoiled reference sites) and (2) periodic sampling at 12 nonrandomly chosen sites that included some of the most heavily oiled locations in the sound. Biological communities on rock surfaces and in intertidal and shallow subtidal sediments were analyzed for differences resulting from to oiling in each of 16 habitat/tide zone combinations. Statistical methods included univariate analyses of individual species abundances and community parameter variables (total abundance, species richness, and Shannon diversity), and multivariate correspondence analysis of community structure. 58 refs., 13 figs., 9 tabs

Mathematical modeling of biological processes

CERN Document Server

Friedman, Avner

2014-01-01

This book on mathematical modeling of biological processes includes a wide selection of biological topics that demonstrate the power of mathematics and computational codes in setting up biological processes with a rigorous and predictive framework. Topics include: enzyme dynamics, spread of disease, harvesting bacteria, competition among live species, neuronal oscillations, transport of neurofilaments in axon, cancer and cancer therapy, and granulomas. Complete with a description of the biological background and biological question that requires the use of mathematics, this book is developed for graduate students and advanced undergraduate students with only basic knowledge of ordinary differential equations and partial differential equations; background in biology is not required. Students will gain knowledge on how to program with MATLAB without previous programming experience and how to use codes in order to test biological hypothesis.

Computational biology

DEFF Research Database (Denmark)

Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

2011-01-01

Computation via biological devices has been the subject of close scrutiny since von Neumann’s early work some 60 years ago. In spite of the many relevant works in this field, the notion of programming biological devices seems to be, at best, ill-defined. While many devices are claimed or proved t...

Quarterly Progress Report - Biological Monitoring Program for East Fork Poplar Creek

Energy Technology Data Exchange (ETDEWEB)

Adams, S.M.; Christensen, S.W.; Greeley, M.S.jr; Hill, W.R.; McCarthy, J.F.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.

2000-10-18

In May 1985, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge Y-12 Plant. As a condition of the permit, a Biological Monitoring and Abatement Program (BMAP) was developed to demonstrate that the effluent limitations established for the Y-12 Plant protect the classified uses of the receiving stream (East Fork Poplar Creek; EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). A second objective of the BMAP is to document the ecological effects resulting from the implementation of a water pollution control program designed to eliminate direct discharges of wastewaters to EFPC and to minimize the inadvertent release of pollutants to the environment. Because of the complex nature of the discharges to EFPC and the temporal and spatial variability in the composition of the discharges, a comprehensive, integrated approach to biological monitoring was developed. A new permit was issued to the Y-12 Plant on April 28, 1995 and became effective on July 1, 1995. Biological monitoring continues to be required under the new permit. The BMAP consists of four major tasks that reflect different but complementary approaches to evaluating the effects of the Y-12 Plant discharges on the aquatic integrity of EFPC. These tasks are (1) toxicity monitoring, (2) biological indicator studies, (3) bioaccumulation studies, and (4) ecological surveys of the periphyton, benthic macroinvertebrate, and fish communities. Monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) concentration of mercury in the adjacent floodplain, (5) appropriate habitat distribution, and

Quarterly Progress Report - Biological Monitoring Program for East Fork Poplar Creek

Energy Technology Data Exchange (ETDEWEB)

Adams, S. M.; Christensen, S. W.; Greeley, M.S. jr; McCracken, M.K.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth G. R.; Stewart, A. J.

2001-01-19

In May 1985, a National Pollutant Discharge Elimination System (NPDES) permit was issued for the Oak Ridge Y-12 National Security Complex (formerly the Oak Ridge Y-12 Plant). As a condition of the permit, a Biological Monitoring and Abatement Program (BMAP) was developed to demonstrate that the effluent limitations established for the Y-12 Complex protect the classified uses of the receiving stream (East Fork Poplar Creek; EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). A second objective of the BMAP is to document the ecological effects resulting from the implementation of a water pollution control program designed to eliminate direct discharges of wastewaters to EFPC and to minimize the inadvertent release of pollutants to the environment. Because of the complex nature of the discharges to EFPC and the temporal and spatial variability in the composition of the discharges, a comprehensive, integrated approach to biological monitoring was developed. A new permit was issued to the Y-12 Complex on April 28, 1995 and became effective on July 1, 1995. Biological monitoring continues to be required under the new permit. The BMAP consists of four major tasks that reflect different but complementary approaches to evaluating the effects of the Y-12 Complex discharges on the aquatic integrity of EFPC. These tasks are (1) toxicity monitoring, (2) biological indicator studies, (3) bioaccumulation studies, and (4) ecological surveys of the periphyton, benthic macroinvertebrate, and fish communities. Monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) concentration of mercury in the

Effects from climatic changes and increased UV radiation. How is this dealt with in the research program on biologic variety

International Nuclear Information System (INIS)

Loebersli, Else

1999-01-01

The aim of the project is to widen the knowledge on a sustainable use of biological resources and conservation of the particularity and versatility of the nature. The ecosystems natural composition, function and dynamics will be investigated as well as human impacts on these ecosystems. Analysis of the reasons for the threats and the efficiency of various dispositions will be carried out. The main areas of the program are: 1) Biological diversity, composition, function and dynamics. 2) Effects of damage in habitats. 3) Introductions of strange species and genotypes, including genetically modified organisms. 4) Management of the versatility. Currently the program has 9 projects

The fetal programming of telomere biology hypothesis: an update.

Science.gov (United States)

Entringer, Sonja; de Punder, Karin; Buss, Claudia; Wadhwa, Pathik D

2018-03-05

Research on mechanisms underlying fetal programming of health and disease risk has focused primarily on processes that are specific to cell types, organs or phenotypes of interest. However, the observation that developmental conditions concomitantly influence a diverse set of phenotypes, the majority of which are implicated in age-related disorders, raises the possibility that such developmental conditions may additionally exert effects via a common underlying mechanism that involves cellular/molecular ageing-related processes. In this context, we submit that telomere biology represents a process of particular interest in humans because, firstly, this system represents among the most salient antecedent cellular phenotypes for common age-related disorders; secondly, its initial (newborn) setting appears to be particularly important for its long-term effects; and thirdly, its initial setting appears to be plastic and under developmental regulation. We propose that the effects of suboptimal intrauterine conditions on the initial setting of telomere length and telomerase expression/activity capacity may be mediated by the programming actions of stress-related maternal-placental-fetal oxidative, immune, endocrine and metabolic pathways in a manner that may ultimately accelerate cellular dysfunction, ageing and disease susceptibility over the lifespan. This perspectives paper provides an overview of each of the elements underlying this hypothesis, with an emphasis on recent developments, findings and future directions.This article is part of the theme issue 'Understanding diversity in telomere dynamics'. © 2018 The Author(s).

Toward synthesizing executable models in biology.

Science.gov (United States)

Fisher, Jasmin; Piterman, Nir; Bodik, Rastislav

2014-01-01

Over the last decade, executable models of biological behaviors have repeatedly provided new scientific discoveries, uncovered novel insights, and directed new experimental avenues. These models are computer programs whose execution mechanistically simulates aspects of the cell's behaviors. If the observed behavior of the program agrees with the observed biological behavior, then the program explains the phenomena. This approach has proven beneficial for gaining new biological insights and directing new experimental avenues. One advantage of this approach is that techniques for analysis of computer programs can be applied to the analysis of executable models. For example, one can confirm that a model agrees with experiments for all possible executions of the model (corresponding to all environmental conditions), even if there are a huge number of executions. Various formal methods have been adapted for this context, for example, model checking or symbolic analysis of state spaces. To avoid manual construction of executable models, one can apply synthesis, a method to produce programs automatically from high-level specifications. In the context of biological modeling, synthesis would correspond to extracting executable models from experimental data. We survey recent results about the usage of the techniques underlying synthesis of computer programs for the inference of biological models from experimental data. We describe synthesis of biological models from curated mutation experiment data, inferring network connectivity models from phosphoproteomic data, and synthesis of Boolean networks from gene expression data. While much work has been done on automated analysis of similar datasets using machine learning and artificial intelligence, using synthesis techniques provides new opportunities such as efficient computation of disambiguating experiments, as well as the ability to produce different kinds of models automatically from biological data.

Mammalian Synthetic Biology: Engineering Biological Systems.

Science.gov (United States)

Black, Joshua B; Perez-Pinera, Pablo; Gersbach, Charles A

2017-06-21

The programming of new functions into mammalian cells has tremendous application in research and medicine. Continued improvements in the capacity to sequence and synthesize DNA have rapidly increased our understanding of mechanisms of gene function and regulation on a genome-wide scale and have expanded the set of genetic components available for programming cell biology. The invention of new research tools, including targetable DNA-binding systems such as CRISPR/Cas9 and sensor-actuator devices that can recognize and respond to diverse chemical, mechanical, and optical inputs, has enabled precise control of complex cellular behaviors at unprecedented spatial and temporal resolution. These tools have been critical for the expansion of synthetic biology techniques from prokaryotic and lower eukaryotic hosts to mammalian systems. Recent progress in the development of genome and epigenome editing tools and in the engineering of designer cells with programmable genetic circuits is expanding approaches to prevent, diagnose, and treat disease and to establish personalized theranostic strategies for next-generation medicines. This review summarizes the development of these enabling technologies and their application to transforming mammalian synthetic biology into a distinct field in research and medicine.

Towards Synthesizing Executable Models in Biology

Directory of Open Access Journals (Sweden)

Jasmin eFisher

2014-12-01

Full Text Available Over the last decade, executable models of biological behaviors have repeatedly provided new scientific discoveries, uncovered novel insights, and directed new experimental avenues. These models are computer programs whose execution mechanistically simulates aspects of the cell’s behaviors. If the observed behavior of the program agrees with the observed biological behavior, then the program explains the phenomena. This approach has proven beneficial for gaining new biological insights and directing new experimental avenues. One advantage of this approach is that techniques for analysis of computer programs can be applied to the analysis of executable models. For example, one can confirm that a model agrees with experiments for all possible executions of the model (corresponding to all environmental conditions, even if there are a huge number of executions. Various formal methods have been adapted for this context, for example, model checking or symbolic analysis of state spaces. To avoid manual construction of executable models, one can apply synthesis, a method to produce programs automatically from high-level specifications. In the context of biological modelling, synthesis would correspond to extracting executable models from experimental data. We survey recent results about the usage of the techniques underlying synthesis of computer programs for the inference of biological models from experimental data. We describe synthesis of biological models from curated mutation experiment data, inferring network connectivity models from phosphoproteomic data, and synthesis of Boolean networks from gene expression data. While much work has been done on automated analysis of similar datasets using machine learning and artificial intelligence, using synthesis techniques provides new opportunities such as efficient computation of disambiguating experiments, as well as the ability to produce different kinds of models automatically from biological data.

Advanced high school biology in an era of rapid change: a summary of the biology panel report from the NRC Committee on Programs for Advanced Study of Mathematics and Science in American High Schools.

Science.gov (United States)

Wood, William B

2002-01-01

A recently released National Research Council (NRC) report, Learning and Understanding: Improving Advanced Study of Mathematics and Science in U.S. High Schools, evaluated and recommended changes in the Advanced Placement (AP), International Baccalaureate (IB), and other advanced secondary school science programs. As part of this study, discipline-specific panels were formed to evaluate advanced programs in biology, chemistry, physics, and mathematics. Among the conclusions of the Content Panel for Biology were that AP courses in particular suffer from inadequate quality control as well as excessive pressure to fulfill their advanced placement function, which encourages teachers to attempt coverage of all areas of biology and emphasize memorization of facts rather than in-depth understanding. In this essay, the Panel's principal findings are discussed, with an emphasis on its recommendation that colleges and universities should be strongly discouraged from using performance on either the AP examination or the IB examination as the sole basis for automatic placement out of required introductory courses for biology majors and distribution requirements for nonmajors.

The Molecular Biology Capstone Assessment: A Concept Assessment for Upper-Division Molecular Biology Students

Science.gov (United States)

Couch, Brian A.; Wood, William B.; Knight, Jennifer K.

2015-01-01

Measuring students' conceptual understandings has become increasingly important to biology faculty members involved in evaluating and improving departmental programs. We developed the Molecular Biology Capstone Assessment (MBCA) to gauge comprehension of fundamental concepts in molecular and cell biology and the ability to apply these concepts in…

Structural Molecular Biology 2017 | SSRL

Science.gov (United States)

Highlights Training Workshops & Summer Schools Summer Students Structural Molecular Biology Illuminating experimental driver for structural biology research, serving the needs of a large number of academic and — Our Mission The SSRL Structural Molecular Biology program operates as an integrated resource and has

The iSBTc/SITC primer on tumor immunology and biological therapy of cancer: a summary of the 2010 program

Directory of Open Access Journals (Sweden)

Urba Walter J

2011-01-01

Full Text Available Abstract The Society for Immunotherapy of Cancer, SITC (formerly the International Society for Biological Therapy of Cancer, iSBTc, aims to improve cancer patient outcomes by advancing the science, development and application of biological therapy and immunotherapy. The society and its educational programs have become premier destinations for interaction and innovation in the cancer biologics community. For over a decade, the society has offered the Primer on Tumor Immunology and Biological Therapy of Cancer™ in conjunction with its Annual Scientific Meeting. This report summarizes the 2010 Primer that took place October 1, 2010 in Washington, D.C. as part of the educational offerings associated with the society's 25th anniversary. The target audience was basic and clinical investigators from academia, industry and regulatory agencies, and included clinicians, post-doctoral fellows, students, and allied health professionals. Attendees were provided a review of basic immunology and educated on the current status and most recent advances in tumor immunology and clinical/translational caner immunology. Ten prominent investigators presented on the following topics: innate immunity and inflammation; an overview of adaptive immunity; dendritic cells; tumor microenvironment; regulatory immune cells; immune monitoring; cytokines in cancer immunotherapy; immune modulating antibodies; cancer vaccines; and adoptive T cell therapy. Presentation slides, a Primer webinar and additional program information are available online on the society's website.

UC Merced Center for Computational Biology Final Report

Energy Technology Data Exchange (ETDEWEB)

Colvin, Michael; Watanabe, Masakatsu

2010-11-30

Final report for the UC Merced Center for Computational Biology. The Center for Computational Biology (CCB) was established to support multidisciplinary scientific research and academic programs in computational biology at the new University of California campus in Merced. In 2003, the growing gap between biology research and education was documented in a report from the National Academy of Sciences, Bio2010 Transforming Undergraduate Education for Future Research Biologists. We believed that a new type of biological sciences undergraduate and graduate programs that emphasized biological concepts and considered biology as an information science would have a dramatic impact in enabling the transformation of biology. UC Merced as newest UC campus and the first new U.S. research university of the 21st century was ideally suited to adopt an alternate strategy - to create a new Biological Sciences majors and graduate group that incorporated the strong computational and mathematical vision articulated in the Bio2010 report. CCB aimed to leverage this strong commitment at UC Merced to develop a new educational program based on the principle of biology as a quantitative, model-driven science. Also we expected that the center would be enable the dissemination of computational biology course materials to other university and feeder institutions, and foster research projects that exemplify a mathematical and computations-based approach to the life sciences. As this report describes, the CCB has been successful in achieving these goals, and multidisciplinary computational biology is now an integral part of UC Merced undergraduate, graduate and research programs in the life sciences. The CCB began in fall 2004 with the aid of an award from U.S. Department of Energy (DOE), under its Genomes to Life program of support for the development of research and educational infrastructure in the modern biological sciences. This report to DOE describes the research and academic programs

Biotechnology by Design: An Introductory Level, Project-Based, Synthetic Biology Laboratory Program for Undergraduate Students.

Science.gov (United States)

Beach, Dale L; Alvarez, Consuelo J

2015-12-01

Synthetic biology offers an ideal opportunity to promote undergraduate laboratory courses with research-style projects, immersing students in an inquiry-based program that enhances the experience of the scientific process. We designed a semester-long, project-based laboratory curriculum using synthetic biology principles to develop a novel sensory device. Students develop subject matter knowledge of molecular genetics and practical skills relevant to molecular biology, recombinant DNA techniques, and information literacy. During the spring semesters of 2014 and 2015, the Synthetic Biology Laboratory Project was delivered to sophomore genetics courses. Using a cloning strategy based on standardized BioBrick genetic "parts," students construct a "reporter plasmid" expressing a reporter gene (GFP) controlled by a hybrid promoter regulated by the lac-repressor protein (lacI). In combination with a "sensor plasmid," the production of the reporter phenotype is inhibited in the presence of a target environmental agent, arabinose. When arabinose is absent, constitutive GFP expression makes cells glow green. But the presence of arabinose activates a second promoter (pBAD) to produce a lac-repressor protein that will inhibit GFP production. Student learning was assessed relative to five learning objectives, using a student survey administered at the beginning (pre-survey) and end (post-survey) of the course, and an additional 15 open-ended questions from five graded Progress Report assignments collected throughout the course. Students demonstrated significant learning gains (p Biology Laboratory Project enhanced their understanding of molecular genetics. The laboratory project is highly adaptable for both introductory and advanced courses.

Implementation of an Education-Focused PhD Program in Anatomy and Cell Biology at Indiana University: Lessons Learned and Future Challenges

Science.gov (United States)

Brokaw, James J.; O'Loughlin, Valerie D.

2015-01-01

In 2008, the Indiana University School of Medicine, in collaboration with the School of Education, admitted its first student to a newly approved PhD program in Anatomy and Cell Biology focusing on educational research rather than biomedical research. The goal of the program is twofold: (1) to provide students with extensive training in all of the…

Ameliorating the biological impacts of childhood adversity: A review of intervention programs.

Science.gov (United States)

Purewal Boparai, Sukhdip K; Au, Vanessa; Koita, Kadiatou; Oh, Debora Lee; Briner, Susan; Burke Harris, Nadine; Bucci, Monica

2018-05-01

Childhood adversity negatively impacts the biological development of children and has been linked to poor health outcomes across the life course. The purpose of this literature review is to explore and evaluate the effectiveness of interventions that have addressed an array of biological markers and physical health outcomes in children and adolescents affected by adversity. PubMed, CINAHL, PsychInfo, Sociological Abstracts databases and additional sources (Cochrane, WHO, NIH trial registries) were searched for English language studies published between January 2007 and September 2017. Articles with a childhood adversity exposure, biological health outcome, and evaluation of intervention using a randomized controlled trial study design were selected. The resulting 40 intervention studies addressed cortisol outcomes (n = 20) and a range of neurological, epigenetic, immune, and other outcomes (n = 22). Across institutional, foster care, and community settings, intervention programs demonstrated success overall for improving or normalizing morning and diurnal cortisol levels, and ameliorating the impacts of adversity on brain development, epigenetic regulation, and additional outcomes in children. Factors such as earlier timing of intervention, high quality and nurturant parenting traits, and greater intervention engagement played a role in intervention success. This study underlines progress and promise in addressing the health impacts of adversity in children. Ongoing research efforts should collect baseline data, improve retention, replicate studies in additional samples and settings, and evaluate additional variables, resilience factors, mediators, and long-term implications of results. Clinicians should integrate lessons from the intervention sciences for preventing and treating the health effects of adversity in children and adolescents. Copyright © 2018 The Authors. Published by Elsevier Ltd.. All rights reserved.

Review of models for use in probabilistic assessments of the disposal of high level radioactive wastes on or beneath the seabed: appendix III

International Nuclear Information System (INIS)

Hooper, A.G.; Gibson, A.E.

1985-08-01

MARINRAD (MARINe RADionuclide Transport and Dose) is a system of computer programs designed to evaluate the consequences from release of radioactive waste into the ocean. It is presently being used in safety assessment studies for the Subseabed Disposal Program by Sandia National Laboratories. MARINRAD calculates doses to humans and biota and health effects to humans. The MARINRAD software system is composed of three computer programs: ORIGEN, MARRAD and MAROUT. The use of the ORIGEN program to generate a nuclide inventory file is optional. The MARRAD program incorporates an ocean transport box model that calculates radionuclide concentrations as a function of time, and a steady-state food-chain model that calculates the biota concentration factors. Program MAROUT evaluates a pathways-to-man model which is used to calculate dose and health effects to man for up to seven different exposure pathways. (author)

Reducing Future International Chemical and Biological Dangers.

Energy Technology Data Exchange (ETDEWEB)

Haddal, Chad [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Bull, Diana L. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Hernandez, Patricia Marie [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Foley, John T. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2017-12-01

The International Biological and Chemical Threat Reduction Program at Sandia National Laboratories is developing a 15 - year technology road map in support the United States Government efforts to reduce international chemical and biological dangers . In 2017, the program leadership chartered an analysis team to explore dangers in the future international chemical and biological landscape through engagements with national security experts within and beyond Sandia to gain a multidisciplinary perspective on the future . This report offers a hi gh level landscape of future chemical and biological dangers based upon analysis of those engagements and provides support for further technology road map development.

A Comparative Study of Compression Methods and the Development of CODEC Program of Biological Signal for Emergency Telemedicine Service

Energy Technology Data Exchange (ETDEWEB)

Yoon, T.S.; Kim, J.S. [Changwon National University, Changwon (Korea); Lim, Y.H. [Visionite Co., Ltd., Seoul (Korea); Yoo, S.K. [Yonsei University, Seoul (Korea)

2003-05-01

In an emergency telemedicine system such as the High-quality Multimedia based Real-time Emergency Telemedicine(HMRET) service, it is very important to examine the status of the patient continuously using the multimedia data including the biological signals(ECG, BP, Respiration, S{sub p}O{sub 2}) of the patient. In order to transmit these data real time through the communication means which have the limited transmission capacity, it is also necessary to compress the biological data besides other multimedia data. For this purpose, we investigate and compare the ECG compression techniques in the time domain and in the wavelet transform domain, and present an effective lossless compression method of the biological signals using JPEG Huffman table for an emergency telemedicine system. And, for the HMRET service, we developed the lossless compression and reconstruction program of the biological signals in MSVC++ 6.0 using DPCM method and JPEG Huffman table, and tested in an internet environment. (author). 15 refs., 17 figs., 7 tabs.

Master in oral biology program: A path to addressing the need for future dental educators.

Science.gov (United States)

Jergenson, Margaret A; Barritt, Laura C; O'Kane, Barbara J; Norton, Neil S

2017-11-01

In dental education, the anatomical sciences, which include gross anatomy, histology, embryology, and neuroanatomy, encompass an important component of the basic science curriculum. At Creighton University School of Dentistry, strength in anatomic science education has been coupled with a solid applicant pool to develop a novel Master of Science in Oral Biology, Anatomic Sciences track degree program. The program provides a heavy emphasis on developing teaching skills in predoctoral students as well as exposure to research processes to encourage the cohort to pursuing a career in academic dentistry. The individuals considered for this program are applicants for admission to the School of Dentistry that have not been accepted into the entering dental class for that year. The students undertake a two year curriculum, studying anatomic sciences with a special emphasis on teaching. The students also must complete a research project that requires a thesis. The students in the program are guaranteed acceptance to dental school upon successful completion of the program. After six years, the first ten students have received their Master of Science degrees and continued in dental school. The program is favorably viewed by the faculty and participating students. It is also considered successful by metrics. Nine of the ten graduates have said they would like to participate in academic dentistry in some capacity during their careers. Anat Sci Educ 10: 607-612. © 2017 American Association of Anatomists. © 2017 American Association of Anatomists.

Survey and discussion of models applicable to the transport and fate thrust area of the Department of Energy Chemical and Biological Nonproliferation Program

Energy Technology Data Exchange (ETDEWEB)

NONE

1997-09-01

The availability and easy production of toxic chemical and biological agents by domestic and international terrorists pose a serious threat to US national security, especially to civilian populations in and around urban areas. To address this threat, the Department of Energy (DOE) has established the Chemical and Biological Nonproliferation Program (CBNP) with the goal of focusing the DOE`s technical resources and expertise on capabilities to deny, deter, mitigate and respond to clandestine releases of chemical and biological agents. With the intent to build on DOE core competencies, the DOE has established six technology thrust areas within the CBNP Program: Biological Information Resources; Point Sensor Systems; Stand-off Detection; Transport and Fate; Decontamination; and Systems Analysis and Integration. The purpose of the Transport and Fate Thrust is to accurately predict the dispersion, concentration and ultimate fate of chemical and biological agents released into the urban and suburban environments and has two major goals: (1) to develop an integrated and validated state-of-the-art atmospheric transport and fate modeling capability for chemical and biological agent releases within the complex urban environment from the regional scale down to building and subway interiors, and (2) to apply this modeling capability in a broad range of simulation case studies of chemical and biological agent release scenarios in suburban, urban and confined (buildings and subways) environments and provide analysis for the incident response user community. Sections of this report discuss subway transport and fate models; buildings interior transport and fate modeling; models for flow and transport around buildings; and local-regional meteorology and dispersion models.

Cost-benefit analysis for biological control programs that target insects pests of eucalypts in urban landscapes of California

Science.gov (United States)

T.D. Paine; J.G. Millar; L.M. Hanks; J. Gould; Q. Wang; K. Daane; D.L. Dahlsten; E.G. McPherson

2015-01-01

As well as being planted for wind breaks, landscape trees, and fuel wood, eucalypts are also widely used as urban street trees in California. They now are besieged by exotic insect herbivores of four different feeding guilds. The objective of the current analysis was to determine the return on investment from biological control programs that have targeted these pests....

Fourth report on the Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

Energy Technology Data Exchange (ETDEWEB)

Loar, J.M. [ed.

1994-04-01

In response to a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC) and selected tributaries. BMAP currently consists of six major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs on-site and the aquatic environs off-site. These tasks are (1) toxicity monitoring, (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota, (3) biological indicator studies, (4) instream ecological monitoring, (5) assessment of contaminants in the terrestrial environment, and (6) radioecology of WOC and White Oak Lake. The ecological characterization of the WOC watershed will provide baseline data that can be used to document the ecological effects of the water pollution control program and the remedial action program. The long-term nature of BMAP ensures that the effectiveness of remedial measures will be properly evaluated.

First annual report on the Biological Monitoring and Abatement Program at Oak Ridge National Laboratory

International Nuclear Information System (INIS)

Loar, J.M.; Amano, H.; Jimenez, B.D.; Kitchings, J.T.; Meyers-Schoene, L.; Mohrbacher, D.A.; Olsen, C.R.

1992-08-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. BMAP consists of seven major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs on-site and the aquatic environs off-site. These tasks are (1) toxicity monitoring; (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota; (3) biological indicator studies; (4) instream ecological monitoring; (5) assessment of contaminants in the terrestrial environment; (6) radioecology of WOC and White Oak Lake (WOL); and (7) contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system. This document, the first of a series of annual reports presenting the results of BMAP, describes studies that were conducted from March through December 1986

First annual report on the Biological Monitoring and Abatement Program at Oak Ridge National Laboratory

Energy Technology Data Exchange (ETDEWEB)

Loar, J. M. [ed.; Adams, S. M.; Blaylock, B. G.; Boston, H. L.; Frank, M. L.; Garten, C. T.; Houston, M. A.; Kimmel, B. L.; Ryon, M. G.; Smith, J. G.; Southworth, G. R.; Stewart, A. J.; Walton, B. T.; Berry, J. B.; Talmage, S. S. [Oak Ridge National Lab., TN (United States); Amano, H. [JAERI, Tokai Res., Establishment, Ibari-Ken (Japan); Jimenez, B. D. [School of Pharmacy, Univ. of Puerto Rico (San Juan); Kitchings, J. T. [ERCE, Denver, CO (United States); Meyers-Schoene, L. [Advanced Sciences, Inc., Fernald, OH (United States); Mohrbacher, D. A. [Univ. of Tennessee, Knoxville, TN (United States); Olsen, C. R. [USDOE Office of Energy Research, Washington, DC (United States). Office of Health and Environmental Research

1992-08-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. BMAP consists of seven major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs on-site and the aquatic environs off-site. These tasks are (1) toxicity monitoring; (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota; (3) biological indicator studies; (4) instream ecological monitoring; (5) assessment of contaminants in the terrestrial environment; (6) radioecology of WOC and White Oak Lake (WOL); and (7) contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system. This document, the first of a series of annual reports presenting the results of BMAP, describes studies that were conducted from March through December 1986.

Programming with models: modularity and abstraction provide powerful capabilities for systems biology.

Science.gov (United States)

Mallavarapu, Aneil; Thomson, Matthew; Ullian, Benjamin; Gunawardena, Jeremy

2009-03-06

Mathematical models are increasingly used to understand how phenotypes emerge from systems of molecular interactions. However, their current construction as monolithic sets of equations presents a fundamental barrier to progress. Overcoming this requires modularity, enabling sub-systems to be specified independently and combined incrementally, and abstraction, enabling generic properties of biological processes to be specified independently of specific instances. These, in turn, require models to be represented as programs rather than as datatypes. Programmable modularity and abstraction enables libraries of modules to be created, which can be instantiated and reused repeatedly in different contexts with different components. We have developed a computational infrastructure that accomplishes this. We show here why such capabilities are needed, what is required to implement them and what can be accomplished with them that could not be done previously.

Geochemical, hydrological and biological cycling of energy residuals. Research plan: subsurface transport program

International Nuclear Information System (INIS)

Wobber, F.J.

1985-09-01

Because natural processes associated with the release and the transport of organic compounds, trace metals, and radionuclides are incompletely understood, research in this area is critical if the long term scientific uncertainties about contaminant transport are to be resolved. The processes that control mobilization and attenuation of energy residuals in soils and geological strata, their hydrological transport to and within ground water regimes, and their accumulation in biological systems require research attention. A summary of DOE's core research program is described. It is designed to provide a base of fundamental scientific information so that the geochemical hydrological, and biophysical mechanics that contribute to the transport and long term fate of energy related contaminants in natural systems can be understood

News from the Biological Stain Commission No. 11

DEFF Research Database (Denmark)

Lyon, H O; Horobin, R W

2012-01-01

The 11th issue of News from the Biological Stain Commission (BSC) provides our first impressions of the REACH and ECHA programs. We intend to give a more thorough account of what these important programs actually mean in later editions of News from the Biological Stain Commission. Under the heading...

Report on the Biological Monitoring Program at Paducah Gaseous Diffusion Plant December 1992--December 1993

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A.; Hinzman, R.L.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.

1995-06-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). The goals of BMP are to demonstrate that the effluent limitations established for PGDP protect and maintain the use of Little Bayou and Big Bayou creeks for growth and propagation of fish and other aquatic life, characterize potential health and environmental impacts, document the effects of pollution abatement facilities on stream biota, and recommend any program improvements that would increase effluent treatability. The BMP for PGDP consists of three major tasks: effluent and ambient toxicity monitoring, bioaccumulation studies, and ecological surveys of stream communities (i.e., benthic macroinvertebrates and fish). This report includes ESD activities occurring from December 1992 to December 1993, although activities conducted outside this time period are included as appropriate.

Fetal Programming of Body Composition, Obesity, and Metabolic Function: The Role of Intrauterine Stress and Stress Biology

Directory of Open Access Journals (Sweden)

Sonja Entringer

2012-01-01

Full Text Available Epidemiological, clinical, physiological, cellular, and molecular evidence suggests that the origins of obesity and metabolic dysfunction can be traced back to intrauterine life and supports an important role for maternal nutrition prior to and during gestation in fetal programming. The elucidation of underlying mechanisms is an area of interest and intense investigation. In this perspectives paper we propose that in addition to maternal nutrition-related processes it may be important to concurrently consider the potential role of intrauterine stress and stress biology. We frame our arguments in the larger context of an evolutionary-developmental perspective that supports roles for both nutrition and stress as key environmental conditions driving natural selection and developmental plasticity. We suggest that intrauterine stress exposure may interact with the nutritional milieu, and that stress biology may represent an underlying mechanism mediating the effects of diverse intrauterine perturbations, including but not limited to maternal nutritional insults (undernutrition and overnutrition, on brain and peripheral targets of programming of body composition, energy balance homeostasis, and metabolic function. We discuss putative maternal-placental-fetal endocrine and immune/inflammatory candidate mechanisms that may underlie the long-term effects of intrauterine stress. We conclude with a commentary of the implications for future research and clinical practice.

Managing biological diversity

Science.gov (United States)

Samson, Fred B.; Knopf, Fritz L.

1993-01-01

Biological diversity is the variety of life and accompanying ecological processes (Off. Technol. Assess. 1987, Wilcove and Samson 1987, Keystone 1991). Conservation of biological diversity is a major environmental issue (Wilson 1988, Counc. Environ. Quality 1991). The health and future of the earth's ecological systems (Lubchenco et al. 1991), global climate change (Botkin 1990), and an ever-increasing rate in loss of species, communities, and ecological systems (Myers 1990) are among issues drawing biological diversity to the mainstream of conservation worldwide (Int. Union Conserv. Nat. and Nat. Resour. [IUCN] et al. 1991). The legal mandate for conserving biological diversity is now in place (Carlson 1988, Doremus 1991). More than 19 federal laws govern the use of biological resources in the United States (Rein 1991). The proposed National Biological Diversity Conservation and Environmental Research Act (H.R. 585 and S.58) notes the need for a national biological diversity policy, would create a national center for biological diversity research, and recommends a federal interagency strategy for ecosystem conservation. There are, however, hard choices ahead for the conservation of biological diversity, and biologists are grappling with how to set priorities in research and management (Roberts 1988). We sense disillusion among field biologists and managers relative to how to operationally approach the seemingly overwhelming charge of conserving biological diversity. Biologists also need to respond to critics like Hunt (1991) who suggest a tree farm has more biological diversity than an equal area of old-growth forest. At present, science has played only a minor role in the conservation of biological diversity (Weston 1992) with no unified approach available to evaluate strategies and programs that address the quality and quantity of biological diversity (Murphy 1990, Erwin 1992). Although actions to conserve biological diversity need to be clearly defined by

Micro-Computers in Biology Inquiry.

Science.gov (United States)

Barnato, Carolyn; Barrett, Kathy

1981-01-01

Describes the modification of computer programs (BISON and POLLUT) to accommodate species and areas indigenous to the Pacific Coast area. Suggests that these programs, suitable for PET microcomputers, may foster a long-term, ongoing, inquiry-directed approach in biology. (DS)

Regulated programmed lysis of recombinant Salmonella in host tissues to release protective antigens and confer biological containment

OpenAIRE

Kong, Wei; Wanda, Soo-Young; Zhang, Xin; Bollen, Wendy; Tinge, Steven A.; Roland, Kenneth L.; Curtiss, Roy

2008-01-01

We have devised and constructed a biological containment system designed to cause programmed bacterial cell lysis with no survivors. We have validated this system, using Salmonella enterica serovar Typhimurium vaccines for antigen delivery after colonization of host lymphoid tissues. The system is composed of two parts. The first component is Salmonella typhimurium strain χ8937, with deletions of asdA and arabinose-regulated expression of murA, two genes required for peptidoglycan synthesis a...

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant, January--December 1997

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.

1998-03-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). A plan for the biological monitoring of the receiving streams was implemented in 1987 and consisted of ecological surveys, toxicity monitoring of effluents and receiving streams, evaluation of bioaccumulation of trace contaminants in biota, and supplemental chemical characterization of effluents. Beginning in fall 1991, the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory added data collection and report preparation to its responsibilities for the PGDP BMP. The BMP has been continued because it has proven to be extremely valuable in (1) identifying those effluents with the potential for adversely affecting instream fauna, (2) assessing the ecological health of receiving streams, and (3) guiding plans for remediation and protecting human health. The BMP for PGDP consists of three major tasks: (1) effluent toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of benthic macroinvertebrate communities and fish. With the exception of the benthic macroinvertebrate community surveys, this report focuses on activities from January to December 1997.

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant, January-December 1997

International Nuclear Information System (INIS)

Kszos, L.A.; Peterson, M.J.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.

1998-03-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). A plan for the biological monitoring of the receiving streams was implemented in 1987 and consisted of ecological surveys, toxicity monitoring of effluents and receiving streams, evaluation of bioaccumulation of trace contaminants in biota, and supplemental chemical characterization of effluents. Beginning in fall 1991, the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory added data collection and report preparation to its responsibilities for the PGDP BMP. The BMP has been continued because it has proven to be extremely valuable in (1) identifying those effluents with the potential for adversely affecting instream fauna, (2) assessing the ecological health of receiving streams, and (3) guiding plans for remediation and protecting human health. The BMP for PGDP consists of three major tasks: (1) effluent toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of benthic macroinvertebrate communities and fish. With the exception of the benthic macroinvertebrate community surveys, this report focuses on activities from January to December 1997

On the implementation of the Biological Threat Reduction Program in the Republic of Uzbekistan

Science.gov (United States)

Tuychiev, Laziz; Madaminov, Marifjon

2013-01-01

Objective To review the implementation of the Biological Threat Reduction Program (BTRP) of the U.S. Defense Threat Reduction Agency in the Republic of Uzbekistan since 2004. Introduction The Biological Threat Reduction Program (BTRP) has been being implemented in the Republic of Uzbekistan since 2004 within the framework of the Agreement between the Government of the Republic of Uzbekistan and the Government of the United States of America Concerning Cooperation in the Area of the Promotion of Defense Relations and the Prevention of Proliferation of Weapons of Mass Destruction of 06.05.2001. Threat agent detection and response activities that target a list of especially dangerous pathogens are being carried out under the BTRP within the health care system of Uzbekistan. This presentation reviews some of the achievements of the program to date. Results BTRP, in partnership with the Government of Uzbekistan, has funded the establishment of five Regional Diagnostic Laboratories (RDL) and ten Epidemiological Support Units (ESU), operated by the Ministry of Health of Uzbekistan, which are intended to improve the diagnosis of quarantine and especially dangerous infections, and to ensure timely preventive and anti-epidemic measures. RDLs provide a high level of biosafety and biosecurity to conduct rapid laboratory diagnostics (PCR, ELISA) of especially dangerous infections. RDLs are equipped with up-to-date diagnostic laboratory equipment that conforms to internationals standards, as well as with all necessary consumables. Personnel of RDLs have been appropriately trained in epidemiology, clinical and diagnostic techniques for especially dangerous infections, including such state-of-the-art techniques as rapid PCR and ELISA diagnostics, as well as in work and equipment operation safety regulations. Epidemiological Support Units (ESU) have been established on the basis of the Especially Dangerous Infections Divisions of Oblast, city and Rayon Centers for State Sanitary

Biological Water Quality Criteria

Science.gov (United States)

Page contains links to Technical Documents pertaining to Biological Water Quality Criteria, including, technical assistance documents for states, tribes and territories, program overviews, and case studies.

Biological Terrorism: US Policies to Reduce Global Biothreats

Science.gov (United States)

2008-09-01

program for pro- jects that advance BEP objectives. Global Cooperation to develop bio- safety and pathogen security stan- dards that are consistent with...security. The Organization for Economic Cooperation and Development ( OECD ) has recently developed voluntary biosecurity guidelines for implementation...Abbreviations AG Australia Group BEP Biosecurity Engagement Program BSL Biosafety level BWC Biological Weapons Convention BWC-ISU Biological Weapons

Analysis of heat and mass transfer in sub-seabed disposal of nuclear waste

International Nuclear Information System (INIS)

Hickox, C.E.; Gartling, D.K.; McVey, D.F.; Russo, A.J.; Nuttall, H.E.

1980-01-01

A mathematical basis is developed for the prediction of thermal and radionuclide transport in marine sediments. The theory is applied to the study of radioactive waste disposal by emplacement, in specially designed containers, well below the sediment/water interface. Numerical results are obtained for a specified model problem through use of two computer programs designed primarily for the analysis of waste disposal problems. One program (MARIAH) provides descriptions of the temperature and velocity fields induced by the presence of a container of thermally active nuclear waste. A second program (IONMIG), which utilizes the results of the thermal analysis, is used to provide predictions for the migration of four representative radionuclides: 239 Pu, 137 Cs, 129 I, and 99 Tc

Humans in Space: Summarizing the Medico-Biological Results of the Space Shuttle Program

Science.gov (United States)

Risin, Diana; Stepaniak, P. C.; Grounds, D. J.

2011-01-01

As we celebrate the 50th anniversary of Gagarin's flight that opened the era of Humans in Space we also commemorate the 30th anniversary of the Space Shuttle Program (SSP) which was triumphantly completed by the flight of STS-135 on July 21, 2011. These were great milestones in the history of Human Space Exploration. Many important questions regarding the ability of humans to adapt and function in space were answered for the past 50 years and many lessons have been learned. Significant contribution to answering these questions was made by the SSP. To ensure the availability of the Shuttle Program experiences to the international space community NASA has made a decision to summarize the medico-biological results of the SSP in a fundamental edition that is scheduled to be completed by the end of 2011 beginning 2012. The goal of this edition is to define the normal responses of the major physiological systems to short-duration space flights and provide a comprehensive source of information for planning, ensuring successful operational activities and for management of potential medical problems that might arise during future long-term space missions. The book includes the following sections: 1. History of Shuttle Biomedical Research and Operations; 2. Medical Operations Overview Systems, Monitoring, and Care; 3. Biomedical Research Overview; 4. System-specific Adaptations/Responses, Issues, and Countermeasures; 5. Multisystem Issues and Countermeasures. In addition, selected operational documents will be presented in the appendices. The chapters are written by well-recognized experts in appropriate fields, peer reviewed, and edited by physicians and scientists with extensive expertise in space medical operations and space-related biomedical research. As Space Exploration continues the major question whether humans are capable of adapting to long term presence and adequate functioning in space habitats remains to be answered We expect that the comprehensive review of

Biology of Breast Cancer: A Predoctoral Training Program

National Research Council Canada - National Science Library

Maihle, Nita

1996-01-01

.... Thirty-two full-time faculty members currently participate in Mayo's didactic tumor biology training curriculum which supports the training of postdoctoral trainees in NCI sponsored postdoctoral...

Structural Biology Guides Antibiotic Discovery

Science.gov (United States)

Polyak, Steven

2014-01-01

Modern drug discovery programs require the contribution of researchers in a number of specialist areas. One of these areas is structural biology. Using X-ray crystallography, the molecular basis of how a drug binds to its biological target and exerts its mode of action can be defined. For example, a drug that binds into the active site of an…

Second report on the Oak Ridge Y-12 Plant Biological Monitoring and Abatement Program for East Fork Poplar Creek

Energy Technology Data Exchange (ETDEWEB)

Hinzman, R.L. [ed.; Adams, S.M. [Oak Ridge National Lab., TN (United States); Black, M.C. [Oklahoma State Univ., Stillwater, OK (United States)] [and others

1993-06-01

As stipulated in the National Pollutant Discharge Elimination System (NDPES) permit issued to the Oak Ridge Y-12 Plant on May 24, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for the receiving stream, East Fork Poplar Creek (EFPC). The objectives of BMAP are (1) to demonstrate that the current effluent limitations established for the Y-12 Plant protect the classified uses of EFPC (e.g., the growth and propagation of fish and aquatic life), as designated by the Tennessee Department of Environment and Conservation (TDEC) and (2) to document the ecological effects resulting from implementation of a Water Pollution Control Program that includes construction of several large wastewater treatment facilities. BMAP consists of four major tasks: (1) ambient toxicity testing; (2) bioaccumulation studies; (3) biological indicator studies; and (4) ecological surveys of stream communities, including periphyton (attached algae), benthic (bottom-dwelling) macroinvertebrates, and fish. This document, the second in a series of reports on the results of the Y-12 Plant BMAP, describes studies that were conducted between July 1986 and July 1988, although additional data collected outside this time period are included, as appropriate.

Second report on the Oak Ridge Y-12 Plant Biological Monitoring and Abatement Program for East Fork Poplar Creek

International Nuclear Information System (INIS)

Hinzman, R.L.; Black, M.C.

1993-06-01

As stipulated in the National Pollutant Discharge Elimination System (NDPES) permit issued to the Oak Ridge Y-12 Plant on May 24, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for the receiving stream, East Fork Poplar Creek (EFPC). The objectives of BMAP are (1) to demonstrate that the current effluent limitations established for the Y-12 Plant protect the classified uses of EFPC (e.g., the growth and propagation of fish and aquatic life), as designated by the Tennessee Department of Environment and Conservation (TDEC) and (2) to document the ecological effects resulting from implementation of a Water Pollution Control Program that includes construction of several large wastewater treatment facilities. BMAP consists of four major tasks: (1) ambient toxicity testing; (2) bioaccumulation studies; (3) biological indicator studies; and (4) ecological surveys of stream communities, including periphyton (attached algae), benthic (bottom-dwelling) macroinvertebrates, and fish. This document, the second in a series of reports on the results of the Y-12 Plant BMAP, describes studies that were conducted between July 1986 and July 1988, although additional data collected outside this time period are included, as appropriate

First report on the Oak Ridge Y-12 Plant Biological Monitoring and Abatement Program for East Fork Poplar Creek

Energy Technology Data Exchange (ETDEWEB)

Loar, J.M.; Adams, S.M.; Allison, L.J.; Boston, H.L.; Huston, M.A.; McCarthy, J.F.; Smith, J.G.; Southworth, G.R.; Stewart, A.J. (Oak Ridge National Lab., TN (United States)); Black, M.C. (Oklahoma State Univ., Stillwater, OK (United States)); Gatz, A.J. Jr. (Ohio Wesleyan Univ., Delaware, OH (United States)); Hinzman, R.L. (Oak Ridge Research Inst., TN (United States)); Jimenez, B.D. (Puerto Rico Univ.,

1992-07-01

As stipulated in the National Pollutant Discharge Elimination System (NPDES) permit issued to the Oak Ridge Y-12 Plant on May 24, 1985, a Biological Monitoring and Abatement Program (BMAP) was developed for the receiving stream, East Fork Poplar Creek (EFPC). The objectives of the BMAP are (1) to demonstrate that the current effluent limitations established for the Oak Ridge Y-12 Plant protect the uses of EFPC (e.g., the growth and propagation of fish and aquatic life), as designated by the Tennessee Department of Environment and Conservation (TDEC) [formerly the Tennessee Department of Health and Environment (TDHE)], and (2) to document the ecological effects resulting from implementation of a water pollution control program that includes construction of several large wastewater treatment facilities. The BMAP consists of four major tasks: (1) ambient toxicity testing, (2) bioaccumulation studies, (3) biological indicator studies, and (4) ecological surveys of stream communities, including periphyton (attached algae), benthic macroinvertebrates, and fish. This document, the first in a series of reports on the results of the Y-12 Plant BMAP, describes studies that were conducted from May 1985 through September 1986.

Expansion of Biology Teachers' Pedagogical Content Knowledge (PCK) During a Long-Term Professional Development Program

Science.gov (United States)

Rozenszajn, Ronit; Yarden, Anat

2014-02-01

Experienced teachers possess a unique teaching knowledge comprised of an inter-related set of knowledge and beliefs that gives direction and justification to a teacher's actions. This study examined the expansion of two components of pedagogical content knowledge (PCK) of three in-service teachers in the course of a professional development program aimed at designing new teaching and learning materials suggested by the teachers themselves. The research presents an enlargement of previous PCK representations by focusing on a detailed representation of two main PCK domains: teaching and learning, including ten PCK components that emerged in the course of data analysis. This representation enabled revealing the unique PCK held by each teacher and to characterize the expansion of the two components of the participating teachers' PCK during the long-term professional development program. Retention of major parts of the expanded PCK a year after termination of the program implies that designing and implementing new teaching and learning materials based on the teachers' experiences, needs, and knowledge in a workshop format accompanied by biology and science education courses might provide a powerful means for PCK expansion. We recommend that designers of professional development programs be aware of the unique PCK held by each teacher in order to promote meaningful professional development of each teacher. Moreover, the PCK representations that were identified in the course of this study enabled clarifying the "orientation toward teaching science" category of PCK which appears to be unclear in current literature.

Report on the biological monitoring program for Bear Creek at the Oak Ridge Y-12 Plant, Oak Ridge, Tennessee, 1989-1994

International Nuclear Information System (INIS)

Hinzman, R.L.; Beauchamp, J.J.; Cada, G.F.; Peterson, M.J.

1996-04-01

The Bear Creek Valley watershed drains the area surrounding several closed Oak Ridge Y-12 Plant waste disposal facilities. Past waste disposal practices in the Bear Creek Valley resulted in the contamination of Bear Creek and consequent ecological damage. Ecological monitoring by the Biological Monitoring and Abatement Program (BMAP) was initiated in the Bear Creek watershed in May 1984 and continues at present. Studies conducted during the first year provided a detailed characterization of the benthic invertebrate and fish communities in Bear Creek. The initial characterization was followed by a biological monitoring phase in which studies were conducted at reduced intensities

Report on the biological monitoring program for Bear Creek at the Oak Ridge Y-12 Plant, Oak Ridge, Tennessee, 1989-1994

Energy Technology Data Exchange (ETDEWEB)

Hinzman, R.L. [ed.; Beauchamp, J.J.; Cada, G.F.; Peterson, M.J. [and others

1996-04-01

The Bear Creek Valley watershed drains the area surrounding several closed Oak Ridge Y-12 Plant waste disposal facilities. Past waste disposal practices in the Bear Creek Valley resulted in the contamination of Bear Creek and consequent ecological damage. Ecological monitoring by the Biological Monitoring and Abatement Program (BMAP) was initiated in the Bear Creek watershed in May 1984 and continues at present. Studies conducted during the first year provided a detailed characterization of the benthic invertebrate and fish communities in Bear Creek. The initial characterization was followed by a biological monitoring phase in which studies were conducted at reduced intensities.

Hanford Site Biological Resources Mitigation Strategy

International Nuclear Information System (INIS)

Sackschewsky, Michael R

2003-01-01

The Biological Resources Mitigation Strategy (BRMiS), as part of a broader biological resource policy, is designed to aid the U.S. Department of Energy, Richland Operations Office (DOE-RL) in balancing its primary missions of waste cleanup, technology development, and economic diversification with its stewardship responsibilities for the biological resources it administers. This strategy will be applied to all DOE-RL programs as well as all contractor and subcontractor activities

Teaching Molecular Biology with Microcomputers.

Science.gov (United States)

Reiss, Rebecca; Jameson, David

1984-01-01

Describes a series of computer programs that use simulation and gaming techniques to present the basic principles of the central dogma of molecular genetics, mutation, and the genetic code. A history of discoveries in molecular biology is presented and the evolution of these computer assisted instructional programs is described. (MBR)

Understanding Federal regulations as guidelines for classical biological control programs

Science.gov (United States)

Michael E. Montgomery

2011-01-01

This chapter reviews the legislation and rules that provide the foundation for federal regulation of the introduction of natural enemies of insects as biological control agents. It also outlines the steps for complying with regulatory requirements, using biological control of Adelges tsugae Annand, the hemlock woolly adelgid (HWA), as an example. The...

Dynamic programming algorithms for biological sequence comparison.

Science.gov (United States)

Pearson, W R; Miller, W

1992-01-01

Efficient dynamic programming algorithms are available for a broad class of protein and DNA sequence comparison problems. These algorithms require computer time proportional to the product of the lengths of the two sequences being compared [O(N2)] but require memory space proportional only to the sum of these lengths [O(N)]. Although the requirement for O(N2) time limits use of the algorithms to the largest computers when searching protein and DNA sequence databases, many other applications of these algorithms, such as calculation of distances for evolutionary trees and comparison of a new sequence to a library of sequence profiles, are well within the capabilities of desktop computers. In particular, the results of library searches with rapid searching programs, such as FASTA or BLAST, should be confirmed by performing a rigorous optimal alignment. Whereas rapid methods do not overlook significant sequence similarities, FASTA limits the number of gaps that can be inserted into an alignment, so that a rigorous alignment may extend the alignment substantially in some cases. BLAST does not allow gaps in the local regions that it reports; a calculation that allows gaps is very likely to extend the alignment substantially. Although a Monte Carlo evaluation of the statistical significance of a similarity score with a rigorous algorithm is much slower than the heuristic approach used by the RDF2 program, the dynamic programming approach should take less than 1 hr on a 386-based PC or desktop Unix workstation. For descriptive purposes, we have limited our discussion to methods for calculating similarity scores and distances that use gap penalties of the form g = rk. Nevertheless, programs for the more general case (g = q+rk) are readily available. Versions of these programs that run either on Unix workstations, IBM-PC class computers, or the Macintosh can be obtained from either of the authors.

Y-12 National Security Complex Biological Monitoring and Abatement Program 2007 Calendar Yeare Report

Energy Technology Data Exchange (ETDEWEB)

Peterson, M.J.; Greeley, M. S. Jr.; Morris, G. W.; Roy, W. K.; Ryan, M. G.; Smith, J. G.; Southworth, G. R.

2008-07-01

The National Pollutant Discharge Elimination System (NPDES) permit issued for the Oak Ridge Y-12 National Security Complex (Y-12 Complex) which became effective May 1, 2006, continued a requirement for a Biological Monitoring and Abatement Program (BMAP). The BMAP was originally developed in 1985 to demonstrate that the effluent limitations established for the Y-12 Complex protected the classified uses of the receiving stream (East Fork Poplar Creek: EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). The objectives of the current BMAP are similar, specifically to assess stream ecological conditions relative to regulatory limits and criteria, to assess ecological impacts as well as recovery in response to Y-12 operations, and to investigate the causes of continuing impacts. The BMAP consists of three tasks that reflect complementary approaches to evaluating the effects of the Y-12 Complex discharges on the biotic integrity of EFPC. These tasks include: (1) bioaccumulation monitoring, (2) benthic macroinvertebrate community monitoring, and (3) fish community monitoring. As required by the NPDES permit, the BMAP benthic macroinvertebrate community monitoring task includes studies to annually evaluate the receiving stream's biological integrity in comparison to TN Water Quality Criteria. BMAP monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) appropriate habitat distribution, and (5) access. The primary sampling sites include upper EFPC at kilometers (EFKs) 24.4 and 23.4 [upstream and downstream of Lake Reality (LR) respectively]; EFK 18.7 (also EFK 18.2 and 19), located

Second report on the Oak Ridge K-25 Site Biological Monitoring and Abatement Program for Mitchell Branch

Energy Technology Data Exchange (ETDEWEB)

Smith, J.G. [ed.; Adams, S.M.; Hinzman, R.L.; Kszos, L.A.; Loar, J.M.; Peterson, M.J.; Ryon, M.G.; Southworth, G.R. [Oak Ridge National Lab., TN (United States); Crumby, W.D. [Automated Sciences Group, Inc., Oak Ridge, TN (United States)

1994-03-01

On September 11, 1986, a modified National Pollutant Discharge Elimination System permit was issued for the Oak Ridge Gaseous Diffusion Plant (ORGDP; now referred to as the Oak Ridge K-25 Site), a former uranium-enrichment production facility. As required in Part III of the permit, a Biological Monitoring and Abatement Program (BMAP) was developed for the biological monitoring of Mitchell Branch (K-1700 stream) and submitted for approval to the US EPA and the Tennessee Department of Environment and Conservation. The plan described biomonitoring activities that would be conducted over the duration of the permit. The objectives of the BMAP are to demonstrate that the effluent limitations established for the Oak Ridge K-25 Site protect and maintain the use of Mitchell Branch for growth and propagation of fish and other aquatic life, and to document the effects on stream biota resulting from operation of major new pollution abatement facilities. The BMAP consists of four tasks: ambient toxicity testing; bioaccumulation studies; biological indicator studies; and ecological surveys of stream communities, including benthic macroinvertebrates and fish. This document is the second in a series of reports presenting the results of the studies that were conducted over various periods of time between August 1987 and June 1990.

The molecular biology capstone assessment: a concept assessment for upper-division molecular biology students.

Science.gov (United States)

Couch, Brian A; Wood, William B; Knight, Jennifer K

2015-03-02

Measuring students' conceptual understandings has become increasingly important to biology faculty members involved in evaluating and improving departmental programs. We developed the Molecular Biology Capstone Assessment (MBCA) to gauge comprehension of fundamental concepts in molecular and cell biology and the ability to apply these concepts in novel scenarios. Targeted at graduating students, the MBCA consists of 18 multiple-true/false (T/F) questions. Each question consists of a narrative stem followed by four T/F statements, which allows a more detailed assessment of student understanding than the traditional multiple-choice format. Questions were iteratively developed with extensive faculty and student feedback, including validation through faculty reviews and response validation through student interviews. The final assessment was taken online by 504 students in upper-division courses at seven institutions. Data from this administration indicate that the MBCA has acceptable levels of internal reliability (α=0.80) and test-retest stability (r=0.93). Students achieved a wide range of scores with a 67% overall average. Performance results suggest that students have an incomplete understanding of many molecular biology concepts and continue to hold incorrect conceptions previously documented among introductory-level students. By pinpointing areas of conceptual difficulty, the MBCA can provide faculty members with guidance for improving undergraduate biology programs. © 2015 B. A. Couch et al. CBE—Life Sciences Education © 2015 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Subseabed disposal project experiment

International Nuclear Information System (INIS)

Valent, P.J.; Burns, J.T.; Walter, D.J.; Li, H.; Bennett, R.H.

1990-01-01

Induced excess pore water pressures resulting from the insertion of piezometer probes of 8-mm (0.31-in.) diameter and a simulated waste canister of 102-mm (4.0-in.) diameter and the dissipation of these excess pressures were measured during deep-ocean component tests of the In Situ Heat Transfer Experiment (ISHTE). The sediment at the Pacific test site 1100 km north of Oahu, Hawaii, is an illitic clay. Insertion-induced excess pore pressures were found to agree well with those predicted by models. Several aspects of the induced excess pressure dissipation were evaluated including the effects of probe and heater diameter, distal excess pore pressure response, and the synergistic excess pore pressure response from multiple insertions. The dissipation of induced excess pressures measured at each piezometer is predicted well by theory. The same analytical models predict the excess pore pressure history measured at the piezometers in response to the waste canister insertion. Present models were evaluated that predict insertion excess pressures and their dissipation rate at the probe surface and distal, far field, points

Biological Control in Brazil: an overview

OpenAIRE

Parra,José Roberto Postali

2014-01-01

The use of Biological Control methods is on the increase, mainly as a result of the mobilization of human resources in entomology studies since the establishment of graduate programs in this country in the 1960s. This review approaches the retrospective of Biological Control in Brazil in recent decades, with an emphasis on the "culture of applying agrochemicals" adopted by Brazilian growers, which constrains progress in this area. Successful cases of Biological Control have been reported on i...

Biological control program is being developed for brown marmorated stink bug

Directory of Open Access Journals (Sweden)

Jesus Lara

2016-01-01

Full Text Available Brown marmorated stink bug (BMSB is an invasive, polyphagous pest that has been detected in 42 U.S. states. In 2010, it caused millions of dollars in crop damages to apple growers on the East Coast, where it arrived from Asia during the 1990s. In 2002, BMSB was reported in California; since then, it has been detected in 28 counties and is established in at least nine counties. Although this pest has not yet been found on commercial crops in the state, detections of BMSB in commercial orchards have been documented in Oregon and Washington. Proactive research in California has joined national efforts led by U.S. Department of Agriculture researchers to develop a classical biological control program for BMSB. A study is under way to determine potential non-target effects of a specialist egg parasitoid, Trissolcus japonicus (Hymenoptera: Platygastridae, imported from Beijing, China, part of the home range of BMSB. In addition, the role of BMSB natural enemies residing in California is being assessed. A review of the recent research outlines the possible opportunities for reducing the threat BMSB poses to California.

Y-12 National Security Complex Biological Monitoring And Abatement Program 2008 Calendar Year Report

Energy Technology Data Exchange (ETDEWEB)

Peterson, M. J.; Greeley Jr., M. S.; Mathews, T. J.; Morris, G. W.; Roy, W. K.; Ryon, M. G.; Smith, J. G.; Southworth, G. R.

2009-07-01

The National Pollutant Discharge Elimination System (NPDES) permit issued for the Oak Ridge Y-12 National Security Complex (Y-12 Complex) which became effective May 1, 2006, continued a requirement for a Biological Monitoring and Abatement Program (BMAP). The BMAP was originally developed in 1985 to demonstrate that the effluent limitations established for the Y-12 Complex protected the classified uses of the receiving stream (East Fork Poplar Creek: EFPC), in particular, the growth and propagation of aquatic life (Loar et al. 1989). The objectives of the current BMAP are similar, specifically to assess stream ecological conditions relative to regulatory limits and criteria, to assess ecological impacts as well as recovery in response to Y-12 operations, and to investigate the causes of continuing impacts. The BMAP consists of three tasks that reflect complementary approaches to evaluating the effects of the Y-12 Complex discharges on the biotic integrity of EFPC. These tasks include: (1) bioaccumulation monitoring, (2) benthic macroinvertebrate community monitoring, and (3) fish community monitoring. As required by the NPDES permit, the BMAP benthic macroinvertebrate community monitoring task includes studies to annually evaluate the receiving stream's biological integrity in comparison to TN Water Quality Criteria. BMAP monitoring is currently being conducted at five primary EFPC sites, although sites may be excluded or added depending upon the specific objectives of the various tasks. Criteria used in selecting the sites include: (1) location of sampling sites used in other studies, (2) known or suspected sources of downstream impacts, (3) proximity to U.S. Department of Energy (DOE) Oak Ridge Reservation (ORR) boundaries, (4) appropriate habitat distribution, and (5) access. The primary sampling sites include upper EFPC at kilometers (EFKs) 24.4 and 23.4 [upstream and downstream of Lake Reality (LR) respectively]; EFK 18.7 (also EFK 18.2 and 19), located off

Biological Control of Tephritid Fruit Flies in Argentina: Historical Review, Current Status, and Future Trends for Developing a Parasitoid Mass-Release Program.

Science.gov (United States)

Ovruski, Sergio M; Schliserman, Pablo

2012-09-14

In Argentina there are two tephritid fruit fly species of major economic and quarantine importance: the exotic Ceratitis capitata that originated from Southeast Africa and the native Anastrepha fraterculus. In recent years, the use of fruit fly parasitoids as biocontrol agents has received renewed attention. This increasing interest has recently led to the establishment of a program for the mass rearing of five million Diachasmimorpha longicaudata parasitoids per week in the BioPlanta San Juan facility, San Juan, Argentina. The first augmentative releases of D. longicaudata in Argentina are currently occurring on commercial fig crops in rural areas of San Juan as part of an integrated fruit fly management program on an area-wide basis. In this context, research is ongoing to assess the suitability of indigenous parasitoid species for successful mass rearing on larvae of either C. capitata or A. fraterculus. The purpose of this article is to provide a historical overview of the biological control of the fruit fly in Argentina, report on the strategies currently used in Argentina, present information on native parasitoids as potential biocontrol agents, and discuss the establishment of a long-term fruit fly biological control program, including augmentative and conservation modalities, in Argentina's various fruit growing regions.

Biological Control of Tephritid Fruit Flies in Argentina: Historical Review, Current Status, and Future Trends for Developing a Parasitoid Mass-Release Program

Directory of Open Access Journals (Sweden)

Sergio M. Ovruski

2012-09-01

Full Text Available In Argentina there are two tephritid fruit fly species of major economic and quarantine importance: the exotic Ceratitis capitata that originated from Southeast Africa and the native Anastrepha fraterculus. In recent years, the use of fruit fly parasitoids as biocontrol agents has received renewed attention. This increasing interest has recently led to the establishment of a program for the mass rearing of five million Diachasmimorpha longicaudata parasitoids per week in the BioPlanta San Juan facility, San Juan, Argentina. The first augmentative releases of D. longicaudata in Argentina are currently occurring on commercial fig crops in rural areas of San Juan as part of an integrated fruit fly management program on an area-wide basis. In this context, research is ongoing to assess the suitability of indigenous parasitoid species for successful mass rearing on larvae of either C. capitata or A. fraterculus. The purpose of this article is to provide a historical overview of the biological control of the fruit fly in Argentina, report on the strategies currently used in Argentina, present information on native parasitoids as potential biocontrol agents, and discuss the establishment of a long-term fruit fly biological control program, including augmentative and conservation modalities, in Argentina’s various fruit growing regions.

PlasmaDNA: a free, cross-platform plasmid manipulation program for molecular biology laboratories

Directory of Open Access Journals (Sweden)

Rainy Jeffrey

2007-09-01

Full Text Available Abstract Background Most molecular biology experiments, and the techniques associated with this field of study, involve a great deal of engineering in the form of molecular cloning. Like all forms of engineering, perfect information about the starting material is crucial for successful completion of design and strategies. Results We have generated a program that allows complete in silico simulation of the cloning experiment. Starting with a primary DNA sequence, PlasmaDNA looks for restriction sites, open reading frames, primer annealing sequences, and various common domains. The databases are easily expandable by the user to fit his most common cloning needs. PlasmaDNA can manage and graphically represent multiple sequences at the same time, and keeps in memory the overhangs at the end of the sequences if any. This means that it is possible to virtually digest fragments, to add the digestion products to the project, and to ligate together fragments with compatible ends to generate the new sequences. Polymerase Chain Reaction (PCR fragments can also be virtually generated using the primer database, automatically adding to the fragments any 5' extra sequences present in the primers. Conclusion PlasmaDNA is a program available both on Windows and Apple operating systems, designed to facilitate molecular cloning experiments by building a visual map of the DNA. It then allows the complete planning and simulation of the cloning experiment. It also automatically updates the new sequences generated in the process, which is an important help in practice. The capacity to maintain multiple sequences in the same file can also be used to archive the various steps and strategies involved in the cloning of each construct. The program is freely available for download without charge or restriction.

Microfabric of illitic clays from the Pacific deep-sea basin

International Nuclear Information System (INIS)

Burkett, D.J.; Bennett, R.H.; Bryant, W.R.

1990-01-01

The microfabric of deep-sea illitic clays was investigated using electron microscopy in support of the In-Situ Heat Transfer Experiment (ISHTE) Simulation test (ISIMU) and the Subseabed Disposal Program (SDP). Sandia National Laboratories, ISHTE and the field exercises were designed to investigate the thermal, fluid, and mechanical response of the sediment to the emplacement of radioactive waste in the seabed. Clay fabric of an undisturbed core sample, designated RAMA, was compared to dredge, remolded, reconsolidated material in order to investigate the effects of mechanical disturbances from sediment remolding and heater probe insertion and effects of induced thermal gradients caused by heating of the sediment

BSPS Program (ESI-Mass Spectrometry) Biological Sample Data Analysis; Disruption of Bacteria Spores

National Research Council Canada - National Science Library

Lall, Ravi P

2005-01-01

The various biological processing technologies and biological identification approaches are essential for support of the mission to develop and demonstrate an advanced Biological Sample Preparation System...

Molecular biology of the cell

CERN Document Server

Alberts, Bruce; Lewis, Julian

2000-01-01

Molecular Biology of the Cell is the classic in-dept text reference in cell biology. By extracting the fundamental concepts from this enormous and ever-growing field, the authors tell the story of cell biology, and create a coherent framework through which non-expert readers may approach the subject. Written in clear and concise language, and beautifully illustrated, the book is enjoyable to read, and it provides a clear sense of the excitement of modern biology. Molecular Biology of the Cell sets forth the current understanding of cell biology (completely updated as of Autumn 2001), and it explores the intriguing implications and possibilities of the great deal that remains unknown. The hallmark features of previous editions continue in the Fourth Edition. The book is designed with a clean and open, single-column layout. The art program maintains a completely consistent format and style, and includes over 1,600 photographs, electron micrographs, and original drawings by the authors. Clear and concise concept...

An overview of nuclear waste managment

International Nuclear Information System (INIS)

Shemilt, L.W.; Sheng, G.

1982-01-01

A very large amount of scientific and engineering work on nuclear waste managment is being done primarily, but not exclusively, in countries with a nuclear power program. There are basically no technical problems with regard to the safe, temporary storage of either used fuel or reprocessed high-level waste from civilian power programs. Deep terrestrial geologic disposal is the concept that has gained the widest acceptance and for which the technology is best known. Sub-seabed disposal has strong potential in the longer term, but further technological development is required. No clear evidence yet exists for the superiority of any type of host geologic medium over any other for a repository. Salt and granite have been studied most, and each has advantages and disadvantages with respect to the other

Three-dimensional labeling program for elucidation of the geometric properties of biological particles in three-dimensional space.

Science.gov (United States)

Nomura, A; Yamazaki, Y; Tsuji, T; Kawasaki, Y; Tanaka, S

1996-09-15

For all biological particles such as cells or cellular organelles, there are three-dimensional coordinates representing the centroid or center of gravity. These coordinates and other numerical parameters such as volume, fluorescence intensity, surface area, and shape are referred to in this paper as geometric properties, which may provide critical information for the clarification of in situ mechanisms of molecular and cellular functions in living organisms. We have established a method for the elucidation of these properties, designated the three-dimensional labeling program (3DLP). Algorithms of 3DLP are so simple that this method can be carried out through the use of software combinations in image analysis on a personal computer. To evaluate 3DLP, it was applied to a 32-cell-stage sea urchin embryo, double stained with FITC for cellular protein of blastomeres and propidium iodide for nuclear DNA. A stack of optical serial section images was obtained by confocal laser scanning microscopy. The method was found effective for determining geometric properties and should prove applicable to the study of many different kinds of biological particles in three-dimensional space.

First report on the Oak Ridge K-25 Site Biological Monitoring and Abatement Program for Mitchell Branch

Energy Technology Data Exchange (ETDEWEB)

Smith, J.G. [ed.; Adams, S.M.; Kszos, L.A.; Ryon, M.G.; Southworth, G.R.; Loar, J.M.

1993-08-01

A modified National Pollutant Discharge Elimination System permit was issued to the Oak Ridge Gaseous Diffusion Plant (now referred to as the Oak Ridge K-25 Site) on September 11, 1986. The Oak Ridge K-25 Site is a former uranium-enrichment production facility, which is currently managed by Martin Marietta Energy Systems, Inc. for the US Department of Energy. As required in Part III (L) of that permit, a plan for the biological monitoring of Mitchell Branch (K-1700 stream) was prepared and submitted for approval to the US Environmental Protection Agency and the Tennessee Department of Environment and Conservation [formerly the Tennessee Department of Health and Environment (Loar et al. 1992b)]. The K-25 Site Biological Monitoring and Abatement Program (BMAP) described biomonitoring activities that would be conducted over the duration of the permit. Because it was anticipated that the composition of existing effluent streams entering Mitchell Branch would be altered shortly after the modified permit was issued, sampling of the benthic invertebrate and fish communities (Task 4 of BMAP) was initiated in August and September 1986 respectively.

First report on the Oak Ridge K-25 Site Biological Monitoring and Abatement Program for Mitchell Branch

International Nuclear Information System (INIS)

Smith, J.G.; Adams, S.M.; Kszos, L.A.; Ryon, M.G.; Southworth, G.R.; Loar, J.M.

1993-08-01

A modified National Pollutant Discharge Elimination System permit was issued to the Oak Ridge Gaseous Diffusion Plant (now referred to as the Oak Ridge K-25 Site) on September 11, 1986. The Oak Ridge K-25 Site is a former uranium-enrichment production facility, which is currently managed by Martin Marietta Energy Systems, Inc. for the US Department of Energy. As required in Part III (L) of that permit, a plan for the biological monitoring of Mitchell Branch (K-1700 stream) was prepared and submitted for approval to the US Environmental Protection Agency and the Tennessee Department of Environment and Conservation [formerly the Tennessee Department of Health and Environment (Loar et al. 1992b)]. The K-25 Site Biological Monitoring and Abatement Program (BMAP) described biomonitoring activities that would be conducted over the duration of the permit. Because it was anticipated that the composition of existing effluent streams entering Mitchell Branch would be altered shortly after the modified permit was issued, sampling of the benthic invertebrate and fish communities (Task 4 of BMAP) was initiated in August and September 1986 respectively

Incorporating biological control into IPM decision making

Science.gov (United States)

Of the many ways biological control can be incorporated into Integrated Pest Management (IPM) programs, natural enemy thresholds are arguably most easily adopted by stakeholders. Integration of natural enemy thresholds into IPM programs requires ecological and cost/benefit crop production data, thr...

The Role of Synthetic Biology in NASA's Missions

Science.gov (United States)

Rothschild, Lynn J.

2016-01-01

The time has come to for NASA to exploit synthetic biology in pursuit of its missions, including aeronautics, earth science, astrobiology and most notably, human exploration. Conversely, NASA advances the fundamental technology of synthetic biology as no one else can because of its unique expertise in the origin of life and life in extreme environments, including the potential for alternate life forms. This enables unique, creative "game changing" advances. NASA's requirement for minimizing upmass in flight will also drive the field toward miniaturization and automation. These drivers will greatly increase the utility of synthetic biology solutions for military, health in remote areas and commercial purposes. To this end, we have begun a program at NASA to explore the use of synthetic biology in NASA's missions, particular space exploration. As part of this program, we began hosting an iGEM team of undergraduates drawn from Brown and Stanford Universities to conduct synthetic biology research at NASA Ames Research Center. The 2011 team (http://2011.igem.org/Team:Brown-Stanford) produced an award-winning project on using synthetic biology as a basis for a human Mars settlement.

An Integrated Biological Control System At Hanford

International Nuclear Information System (INIS)

Johnson, A.R.; Caudill, J.G.; Giddings, R.F.; Rodriguez, J.M.; Roos, R.C.; Wilde, J.W.

2010-01-01

In 1999 an integrated biological control system was instituted at the U.S. Department of Energy's Hanford Site. Successes and changes to the program needed to be communicated to a large and diverse mix of organizations and individuals. Efforts at communication are directed toward the following: Hanford Contractors (Liquid or Tank Waste, Solid Waste, Environmental Restoration, Science and Technology, Site Infrastructure), General Hanford Employees, and Hanford Advisory Board (Native American Tribes, Environmental Groups, Local Citizens, Washington State and Oregon State regulatory agencies). Communication was done through direct interface meetings, individual communication, where appropriate, and broadly sharing program reports. The objectives of the communication efforts was to have the program well coordinated with Hanford contractors, and to have the program understood well enough that all stakeholders would have confidence in the work performed by the program to reduce or elimate spread of radioactive contamination by biotic vectors. Communication of successes and changes to an integrated biological control system instituted in 1999 at the Department of Energy's Hanford Site have required regular interfaces with not only a diverse group of Hanford contractors (i.e., those responsible for liquid or tank waste, solid wastes, environmental restoration, science and technology, and site infrastructure), and general Hanford employees, but also with a consortium of designated stake holders organized as the Hanford Advisory Board (i.e., Native American tribes, various environmental groups, local citizens, Washington state and Oregon regulatory agencies, etc.). Direct interface meetings, individual communication where appropriate, and transparency of the biological control program were the methods and outcome of this effort.

AN INTEGRATED BIOLOGICAL CONTROL SYSTEM AT HANFORD

Energy Technology Data Exchange (ETDEWEB)

JOHNSON AR; CAUDILL JG; GIDDINGS RF; RODRIGUEZ JM; ROOS RC; WILDE JW

2010-02-11

In 1999 an integrated biological control system was instituted at the U.S. Department of Energy's Hanford Site. Successes and changes to the program needed to be communicated to a large and diverse mix of organizations and individuals. Efforts at communication are directed toward the following: Hanford Contractors (Liquid or Tank Waste, Solid Waste, Environmental Restoration, Science and Technology, Site Infrastructure), General Hanford Employees, and Hanford Advisory Board (Native American Tribes, Environmental Groups, Local Citizens, Washington State and Oregon State regulatory agencies). Communication was done through direct interface meetings, individual communication, where appropriate, and broadly sharing program reports. The objectives of the communication efforts was to have the program well coordinated with Hanford contractors, and to have the program understood well enough that all stakeholders would have confidence in the work performed by the program to reduce or elimated spread of radioactive contamination by biotic vectors. Communication of successes and changes to an integrated biological control system instituted in 1999 at the Department of Energy's Hanford Site have required regular interfaces with not only a diverse group of Hanford contractors (i.e., those responsible for liquid or tank waste, solid wastes, environmental restoration, science and technology, and site infrastructure), and general Hanford employees, but also with a consortium of designated stake holders organized as the Hanford Advisory Board (i.e., Native American tribes, various environmental groups, local citizens, Washington state and Oregon regulatory agencies, etc.). Direct interface meetings, individual communication where appropriate, and transparency of the biological control program were the methods and outcome of this effort.

Cyclobutane-Containing Alkaloids: Origin, Synthesis, and Biological Activities

OpenAIRE

Sergeiko, Anastasia; Poroikov, Vladimir V; Hanuš, Lumir O; Dembitsky, Valery M

2008-01-01

Present review describes research on novel natural cyclobutane-containing alkaloids isolated from terrestrial and marine species. More than 60 biological active compounds have been confirmed to have antimicrobial, antibacterial, antitumor, and other activities. The structures, synthesis, origins, and biological activities of a selection of cyclobutane-containing alkaloids are reviewed. With the computer program PASS some additional biological activities are also predicted, which point toward ...

National Toxicology Program

Science.gov (United States)

... NTP? NTP develops and applies tools of modern toxicology and molecular biology to identify substances in the ... depend on for decisions that matter. The National Toxicology Program provides the scientific basis for programs, activities, ...

DNA Barcoding Investigations Bring Biology to Life

Science.gov (United States)

Musante, Susan

2010-01-01

This article describes how DNA barcoding investigations bring biology to life. Biologists recognize the power of DNA barcoding not just to teach biology through connections to the real world but also to immerse students in the exciting process of science. As an investigator in the Program for the Human Environment at Rockefeller University in New…

Third report on the Oak Ridge K-25 Site Biological Monitoring and Abatement Program for Mitchell Branch

Energy Technology Data Exchange (ETDEWEB)

Hinzman, R.L. [ed.; Adams, S.M.; Ashwood, T.L. [Oak Ridge National Lab., TN (United States)] [and others

1995-08-01

As a condition of the modified National Pollutant Discharge Elimination System (NPDES) permit issued to the Oak Ridge Gaseous Diffusion Plant (ORGDP; now referred to as the Oak Ridge K-25 Site) on September 11, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for the receiving stream (Mitchell Branch or K-1700 stream). On October 1, 1992, a renewed NPDES permit was issued for the K-25 Site. A biological monitoring plan was submitted for Mitchell Branch, Poplar Creek, Poplar Creek Embayment of the Clinch River and any unnamed tributaries of these streams. The objectives of BMAP are to (1) demonstrate that the effluent limitations established for the Oak Ridge K-25 Site protect and maintain the use of Mitchell Branch for growth and propagation of fish and other aquatic life and (2) document the effects on stream biota resulting from operation of major new pollution abatement facilities, including the Central Neutralization Facility (CNF) and the Toxic Substances Control Act (TSCA) incinerator. The BMAP consists of four tasks: (1) toxicity monitoring; (2) bioaccumulation monitoring; (3) assessment of fish health; and (4) instream monitoring of biological communities, including benthic macroinvertebrates and fish. This document, the third in a series, reports on the results of the Oak Ridge K-25 Site BMAP; it describes studies that were conducted over various periods of time between June 1990 and December 1993, although monitoring conducted outside this time period is included, as appropriate.

Third report on the Oak Ridge K-25 Site Biological Monitoring and Abatement Program for Mitchell Branch

International Nuclear Information System (INIS)

Hinzman, R.L.

1995-08-01

As a condition of the modified National Pollutant Discharge Elimination System (NPDES) permit issued to the Oak Ridge Gaseous Diffusion Plant (ORGDP; now referred to as the Oak Ridge K-25 Site) on September 11, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for the receiving stream (Mitchell Branch or K-1700 stream). On October 1, 1992, a renewed NPDES permit was issued for the K-25 Site. A biological monitoring plan was submitted for Mitchell Branch, Poplar Creek, Poplar Creek Embayment of the Clinch River and any unnamed tributaries of these streams. The objectives of BMAP are to (1) demonstrate that the effluent limitations established for the Oak Ridge K-25 Site protect and maintain the use of Mitchell Branch for growth and propagation of fish and other aquatic life and (2) document the effects on stream biota resulting from operation of major new pollution abatement facilities, including the Central Neutralization Facility (CNF) and the Toxic Substances Control Act (TSCA) incinerator. The BMAP consists of four tasks: (1) toxicity monitoring; (2) bioaccumulation monitoring; (3) assessment of fish health; and (4) instream monitoring of biological communities, including benthic macroinvertebrates and fish. This document, the third in a series, reports on the results of the Oak Ridge K-25 Site BMAP; it describes studies that were conducted over various periods of time between June 1990 and December 1993, although monitoring conducted outside this time period is included, as appropriate

Programming in biomolecular computation

DEFF Research Database (Denmark)

Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

2011-01-01

Our goal is to provide a top-down approach to biomolecular computation. In spite of widespread discussion about connections between biology and computation, one question seems notable by its absence: Where are the programs? We identify a number of common features in programming that seem...... conspicuously absent from the literature on biomolecular computing; to partially redress this absence, we introduce a model of computation that is evidently programmable, by programs reminiscent of low-level computer machine code; and at the same time biologically plausible: its functioning is defined...... by a single and relatively small set of chemical-like reaction rules. Further properties: the model is stored-program: programs are the same as data, so programs are not only executable, but are also compilable and interpretable. It is universal: all computable functions can be computed (in natural ways...

Regulating Cancer-Associated Fibroblast Biology in Prostate Cancer

Science.gov (United States)

2017-10-01

AWARD NUMBER: W81XWH-15-1-0512 TITLE: Regulating Cancer-Associated Fibroblast Biology in Prostate Cancer PRINCIPAL INVESTIGATOR: Andrew...SUBTITLE 5a. CONTRACT NUMBER Regulating Cancer-Associated Fibroblast Biology in Prostate Cancer 5b. GRANT NUMBER W81XWH-15-1-0512 5c. PROGRAM...blocked by the addition of Pim inhibitors. These results suggest that the Pim protein kinase can regulate stromal cell biology to modulate epithelial

SASSIE: A program to study intrinsically disordered biological molecules and macromolecular ensembles using experimental scattering restraints

Science.gov (United States)

Curtis, Joseph E.; Raghunandan, Sindhu; Nanda, Hirsh; Krueger, Susan

2012-02-01

A program to construct ensembles of biomolecular structures that are consistent with experimental scattering data are described. Specifically, we generate an ensemble of biomolecular structures by varying sets of backbone dihedral angles that are then filtered using experimentally determined restraints to rapidly determine structures that have scattering profiles that are consistent with scattering data. We discuss an application of these tools to predict a set of structures for the HIV-1 Gag protein, an intrinsically disordered protein, that are consistent with small-angle neutron scattering experimental data. We have assembled these algorithms into a program called SASSIE for structure generation, visualization, and analysis of intrinsically disordered proteins and other macromolecular ensembles using neutron and X-ray scattering restraints. Program summaryProgram title: SASSIE Catalogue identifier: AEKL_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEKL_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: GNU General Public License v3 No. of lines in distributed program, including test data, etc.: 3 991 624 No. of bytes in distributed program, including test data, etc.: 826 Distribution format: tar.gz Programming language: Python, C/C++, Fortran Computer: PC/Mac Operating system: 32- and 64-bit Linux (Ubuntu 10.04, Centos 5.6) and Mac OS X (10.6.6) RAM: 1 GB Classification: 3 External routines: Python 2.6.5, numpy 1.4.0, swig 1.3.40, scipy 0.8.0, Gnuplot-py-1.8, Tcl 8.5, Tk 8.5, Mac installation requires aquaterm 1.0 (or X window system) and Xcode 3 development tools. Nature of problem: Open source software to generate structures of disordered biological molecules that subsequently allow for the comparison of computational and experimental results is limiting the use of scattering resources. Solution method: Starting with an all atom model of a protein, for example, users can input

Angra nuclear plant - environmental control program

International Nuclear Information System (INIS)

Kircher, E.; Cruz, E.S. da

1989-01-01

The pre-operational studies, that were elaborated before the beginning of Angra I Power Plant operation, are described in particular the environmental radiological safety area till the fuel loading in the core reactor. Several aspects are included, as socio-economic survey, seismological analysis, Meteorological Program, marine biology, water cooling system, exposure measures of natural radiation, marine sediments characterization in the effluent dispersion area and Environmental Radiological Monitoring Program. The main environmental programs developed for the operational phase of the Angra I Plant are also presented, citing some considerations about the Meteorological Program, Marine Biology Control Program, Temperature and Chlorine Control in Piraquara de Fora Bay, Radiological Environmental Monitoring Program, Sanitary Effluent Control Program and Radiological Emergency Program. (C.G.C.). 2 refs

Workshop on High-Field NMR and Biological Applications

Science.gov (United States)

Scientists at the Pacific Northwest Laboratory have been working toward the establishment of a new Molecular Science Research Center (MSRC). The primary scientific thrust of this new research center is in the areas of theoretical chemistry, chemical dynamics, surface and interfacial science, and studies on the structure and interactions of biological macromolecules. The MSRC will provide important new capabilities for studies on the structure of biological macromolecules. The MSRC program includes several types of advanced spectroscopic techniques for molecular structure analysis, and a theory and modeling laboratory for molecular mechanics/dynamics calculations and graphics. It is the goal to closely integrate experimental and theoretical studies on macromolecular structure, and to join these research efforts with those of the molecular biological programs to provide new insights into the structure/function relationships of biological macromolecules. One of the areas of structural biology on which initial efforts in the MSRC will be focused is the application of high field, 2-D NMR to the study of biological macromolecules. First, there is interest in obtaining 3-D structural information on large proteins and oligonucleotides. Second, one of the primary objectives is to closely link theoretical approaches to molecular structure analysis with the results obtained in experimental research using NMR and other spectroscopies.

International biological engagement programs facilitate Newcastle disease epidemiological studies

Directory of Open Access Journals (Sweden)

Patti J. Miller

2015-10-01

Full Text Available Infections of poultry species with virulent strains of Newcastle disease virus (NDV cause Newcastle disease (ND, one of the most economically significant and devastating diseases for poultry producers worldwide. Biological engagement programs (BEP between the Southeast Poultry Research Laboratory (SEPRL of the United States Department of Agriculture and laboratories from Russia, Pakistan, Ukraine, Kazakhstan and Indonesia collectively have produced a better understanding of the genetic diversity and evolution of the viruses responsible for ND, which is crucial for the control of the disease. The data from Kazakhstan, Russia and Ukraine identified possible migratory routes for birds that may carry both virulent NDV (vNDV and NDV of low virulence into Europe. In addition, related NDV strains were isolated from wild birds in Ukraine and Nigeria, and from birds in continental USA, Alaska, Russia, and Japan, identifying wild birds as a possible mechanism of intercontinental spread of NDV of low virulence. More recently, the detection of new sub-genotypes of vNDV suggests that a new, fifth, panzootic of ND has already originated in Southeast Asia, extended to the Middle East, and is now entering into Eastern Europe. Despite expected challenges when multiple independent laboratories interact, many scientists from the collaborating countries have successfully been trained by SEPRL on molecular diagnostics, best laboratory practices, and critical biosecurity protocols, providing our partners the capacity to further train other employees and to identify locally the viruses that cause this OIE listed disease. These and other collaborations with partners in Mexico, Bulgaria, Israel, and Tanzania have allowed SEPRL scientists to engage in field studies, to elucidate more aspects of ND epidemiology in endemic countries, and to understand the challenges that the scientists and field veterinarians in these countries face on a daily basis. Finally, new viral

International Biological Engagement Programs Facilitate Newcastle Disease Epidemiological Studies

Science.gov (United States)

Miller, Patti J.; Dimitrov, Kiril M.; Williams-Coplin, Dawn; Peterson, Melanie P.; Pantin-Jackwood, Mary J.; Swayne, David E.; Suarez, David L.; Afonso, Claudio L.

2015-01-01

Infections of poultry species with virulent strains of Newcastle disease virus (NDV) cause Newcastle disease (ND), one of the most economically significant and devastating diseases for poultry producers worldwide. Biological engagement programs between the Southeast Poultry Research Laboratory (SEPRL) of the United States Department of Agriculture and laboratories from Russia, Pakistan, Ukraine, Kazakhstan, and Indonesia collectively have produced a better understanding of the genetic diversity and evolution of the viruses responsible for ND, which is crucial for the control of the disease. The data from Kazakhstan, Russia, and Ukraine identified possible migratory routes for birds that may carry both virulent NDV (vNDV) and NDV of low virulence into Europe. In addition, related NDV strains were isolated from wild birds in Ukraine and Nigeria, and from birds in continental USA, Alaska, Russia, and Japan, identifying wild birds as a possible mechanism of intercontinental spread of NDV of low virulence. More recently, the detection of new sub-genotypes of vNDV suggests that a new, fifth, panzootic of ND has already originated in Southeast Asia, extended to the Middle East, and is now entering into Eastern Europe. Despite expected challenges when multiple independent laboratories interact, many scientists from the collaborating countries have successfully been trained by SEPRL on molecular diagnostics, best laboratory practices, and critical biosecurity protocols, providing our partners the capacity to further train other employes and to identify locally the viruses that cause this OIE listed disease. These and other collaborations with partners in Mexico, Bulgaria, Israel, and Tanzania have allowed SEPRL scientists to engage in field studies, to elucidate more aspects of ND epidemiology in endemic countries, and to understand the challenges that the scientists and field veterinarians in these countries face on a daily basis. Finally, new viral characterization tools

International Biological Engagement Programs Facilitate Newcastle Disease Epidemiological Studies.

Science.gov (United States)

Miller, Patti J; Dimitrov, Kiril M; Williams-Coplin, Dawn; Peterson, Melanie P; Pantin-Jackwood, Mary J; Swayne, David E; Suarez, David L; Afonso, Claudio L

2015-01-01

Infections of poultry species with virulent strains of Newcastle disease virus (NDV) cause Newcastle disease (ND), one of the most economically significant and devastating diseases for poultry producers worldwide. Biological engagement programs between the Southeast Poultry Research Laboratory (SEPRL) of the United States Department of Agriculture and laboratories from Russia, Pakistan, Ukraine, Kazakhstan, and Indonesia collectively have produced a better understanding of the genetic diversity and evolution of the viruses responsible for ND, which is crucial for the control of the disease. The data from Kazakhstan, Russia, and Ukraine identified possible migratory routes for birds that may carry both virulent NDV (vNDV) and NDV of low virulence into Europe. In addition, related NDV strains were isolated from wild birds in Ukraine and Nigeria, and from birds in continental USA, Alaska, Russia, and Japan, identifying wild birds as a possible mechanism of intercontinental spread of NDV of low virulence. More recently, the detection of new sub-genotypes of vNDV suggests that a new, fifth, panzootic of ND has already originated in Southeast Asia, extended to the Middle East, and is now entering into Eastern Europe. Despite expected challenges when multiple independent laboratories interact, many scientists from the collaborating countries have successfully been trained by SEPRL on molecular diagnostics, best laboratory practices, and critical biosecurity protocols, providing our partners the capacity to further train other employes and to identify locally the viruses that cause this OIE listed disease. These and other collaborations with partners in Mexico, Bulgaria, Israel, and Tanzania have allowed SEPRL scientists to engage in field studies, to elucidate more aspects of ND epidemiology in endemic countries, and to understand the challenges that the scientists and field veterinarians in these countries face on a daily basis. Finally, new viral characterization tools

QM/MM hybrid calculation of biological macromolecules using a new interface program connecting QM and MM engines

Energy Technology Data Exchange (ETDEWEB)

Hagiwara, Yohsuke; Tateno, Masaru [Graduate School of Pure and Applied Sciences, University of Tsukuba, Tennodai 1-1-1, Tsukuba Science City, Ibaraki 305-8571 (Japan); Ohta, Takehiro [Center for Computational Sciences, University of Tsukuba, Tennodai 1-1-1, Tsukuba Science City, Ibaraki 305-8577 (Japan)], E-mail: tateno@ccs.tsukuba.ac.jp

2009-02-11

An interface program connecting a quantum mechanics (QM) calculation engine, GAMESS, and a molecular mechanics (MM) calculation engine, AMBER, has been developed for QM/MM hybrid calculations. A protein-DNA complex is used as a test system to investigate the following two types of QM/MM schemes. In a 'subtractive' scheme, electrostatic interactions between QM/MM regions are truncated in QM calculations; in an 'additive' scheme, long-range electrostatic interactions within a cut-off distance from QM regions are introduced into one-electron integration terms of a QM Hamiltonian. In these calculations, 338 atoms are assigned as QM atoms using Hartree-Fock (HF)/density functional theory (DFT) hybrid all-electron calculations. By comparing the results of the additive and subtractive schemes, it is found that electronic structures are perturbed significantly by the introduction of MM partial charges surrounding QM regions, suggesting that biological processes occurring in functional sites are modulated by the surrounding structures. This also indicates that the effects of long-range electrostatic interactions involved in the QM Hamiltonian are crucial for accurate descriptions of electronic structures of biological macromolecules.

Innovations in Undergraduate Chemical Biology Education.

Science.gov (United States)

Van Dyke, Aaron R; Gatazka, Daniel H; Hanania, Mariah M

2018-01-19

Chemical biology derives intellectual vitality from its scientific interface: applying chemical strategies and perspectives to biological questions. There is a growing need for chemical biologists to synergistically integrate their research programs with their educational activities to become holistic teacher-scholars. This review examines how course-based undergraduate research experiences (CUREs) are an innovative method to achieve this integration. Because CUREs are course-based, the review first offers strategies for creating a student-centered learning environment, which can improve students' outcomes. Exemplars of CUREs in chemical biology are then presented and organized to illustrate the five defining characteristics of CUREs: significance, scientific practices, discovery, collaboration, and iteration. Finally, strategies to overcome common barriers in CUREs are considered as well as future innovations in chemical biology education.

TP Atlas: integration and dissemination of advances in Targeted Proteins Research Program (TPRP)-structural biology project phase II in Japan.

Science.gov (United States)

Iwayanagi, Takao; Miyamoto, Sei; Konno, Takeshi; Mizutani, Hisashi; Hirai, Tomohiro; Shigemoto, Yasumasa; Gojobori, Takashi; Sugawara, Hideaki

2012-09-01

The Targeted Proteins Research Program (TPRP) promoted by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan is the phase II of structural biology project (2007-2011) following the Protein 3000 Project (2002-2006) in Japan. While the phase I Protein 3000 Project put partial emphasis on the construction and maintenance of pipelines for structural analyses, the TPRP is dedicated to revealing the structures and functions of the targeted proteins that have great importance in both basic research and industrial applications. To pursue this objective, 35 Targeted Proteins (TP) Projects selected in the three areas of fundamental biology, medicine and pharmacology, and food and environment are tightly collaborated with 10 Advanced Technology (AT) Projects in the four fields of protein production, structural analyses, chemical library and screening, and information platform. Here, the outlines and achievements of the 35 TP Projects are summarized in the system named TP Atlas. Progress in the diversified areas is described in the modules of Graphical Summary, General Summary, Tabular Summary, and Structure Gallery of the TP Atlas in the standard and unified format. Advances in TP Projects owing to novel technologies stemmed from AT Projects and collaborative research among TP Projects are illustrated as a hallmark of the Program. The TP Atlas can be accessed at http://net.genes.nig.ac.jp/tpatlas/index_e.html .

PENGEMBANGAN KURIKULUM JURUSAN TADRIS IPA BIOLOGI IAIN SYEKH NURJATI CIREBON DALAM MENGANTISIPASI PENERAPAN KURIKULUM 2013

Directory of Open Access Journals (Sweden)

Kartimi -

2014-04-01

Full Text Available Rencana penerapan Kurikulum 2013 merupakan momentum yang tepat bagi program studi Tadris IPA-Biologi IAIN Syekh Nurjati Cirebon untuk melakukan review dan evaluasi terhadap kelangsungan kurikulum jurusan yang sedang berlaku, dan sekaligus melakukan pengembangan, perbaikan dan modifikasi kurikulum,  agar dapat beradaptasi terhadap perubah praktek-praktek pendidikan Biologi di Sekolah Menengah. Tujuan penelitian ini adalah: 1 mengetahui karakteristik kurikulum jurusan Tadris IPA-Biologi yang berlaku saat ini, 2 mengetahui karakteristik kurikulum 2013 yang berkaitan dengan pengajaran Biologi di Sekolah Menengah, 3 Merumuskan dan mengembangkan desain kurikulum program studi  Tadris IPA-Biologi sebagai hasil adaptasi terhadap kurikulum 2013. Desain penelitian menggunakan Design and Development Research kategori Product & Tools Research (Richey & Klein, 2007.  Subyek penelitian adalah program studi  Tadris IPA-Biologi IAIN Syekh Nurjati Cirebon. Instrumen yang digunakan adalah: 1 Protokol Analisis Dokumen Kurikulum Program Studi, 2 Protokol Analisis Dokumen Kurikulum 2013 bagi Biologi SMA, 3 Bahan validasi untuk kerangka teori desain kurikulum program studi, 4 Bahan validasi untuk instrumen desain kurikulum program studi. Teknik analisis data dilakukan secara deskriptif dan dianalisis menggunakan statistika deskriptif.  Hasil penelitian menunjukkan bahwa kurikulum program studi Tadris IPA-Biologi IAIN Syekh Nurjati Cirebon telah tersusun sebagai Kurikulum berbasis Kompetensi yang terintegrasi secara akademik dengan muatan ke-Islaman. Kelengkapan dokumen kurikulum program studi masih memerlukan penyempurnaan. Kurikulum 2013 untuk pembelajaran Biologi SMA/MA dikemas sebagai mata pelajaran peminatan Matematika dan Ilmu Alam yang mencakup kompetensi inti sikap spiritual, sikap sosial, pengetahuan dan keterampilan. Masing-masing kompetensi inti tersebut telah dijabarkan menjadi berbagai kompetensi dasar yang mengarah pada pembelajaran yang aktif dan

Infusing Outdoor Field Experiences into the Secondary Biology Curriculum.

Science.gov (United States)

Owens, Ginny

1984-01-01

To offer students biological field experiences, teachers should use their own basic skills, be enthusiastic motivators, participate in community programs/courses/workshops to acquire additional skills/knowledge for outdoor biological education, plan outdoor excursions with safety considerations in mind, and use available resources for classroom…

Biological monitoring and abatement program plan for Oak Ridge National Laboratory

International Nuclear Information System (INIS)

Kszos, L.A.; Anderson, G.E.; Gregory, S.M.; Peterson, M.J.; Ryon, M.G.; Schilling, E.M.; Smith, J.G.; Southworth, G.R.; Phipps, T.L.

1997-06-01

The overall purpose of this plan is to evaluate the receiving streams' biological communities for the duration of the permit and meet the objectives for the ORNL BMAP as outlined in the NPDES permit (Appendix). The ORNL BMAP will focus on those streams in the WOC watershed that (1) receive NPDES discharges and (2) have been identified as ecologically impacted. In response to the newly issued NPDES permit, the tasks that are included in this BMAP plan include monitoring biological communities (fish and benthic invertebrates), monitoring mercury contamination in fish and water, monitoring polychlorinated biphenyl (PCB) contamination in fish, and evaluating temperature loading from ORNL outfalls. The ORNL BMAP will evaluate the effects of sediment and oil and grease, as well as the chlorine control strategy through the use of biological community data. Monitoring will be conducted at sites in WOC, First Creek, Fifth Creek, Melton Branch, and WOL

Biological monitoring and abatement program plan for Oak Ridge National Laboratory

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A.; Anderson, G.E.; Gregory, S.M.; Peterson, M.J.; Ryon, M.G.; Schilling, E.M.; Smith, J.G.; Southworth, G.R. [Oak Ridge National Lab., TN (United States); Phipps, T.L. [CKY, Inc., Oak Ridge, TN (United States)

1997-06-01

The overall purpose of this plan is to evaluate the receiving streams` biological communities for the duration of the permit and meet the objectives for the ORNL BMAP as outlined in the NPDES permit (Appendix). The ORNL BMAP will focus on those streams in the WOC watershed that (1) receive NPDES discharges and (2) have been identified as ecologically impacted. In response to the newly issued NPDES permit, the tasks that are included in this BMAP plan include monitoring biological communities (fish and benthic invertebrates), monitoring mercury contamination in fish and water, monitoring polychlorinated biphenyl (PCB) contamination in fish, and evaluating temperature loading from ORNL outfalls. The ORNL BMAP will evaluate the effects of sediment and oil and grease, as well as the chlorine control strategy through the use of biological community data. Monitoring will be conducted at sites in WOC, First Creek, Fifth Creek, Melton Branch, and WOL.

Geotechnical properties of sediments from North Pacific and Northern Bermuda Rise

International Nuclear Information System (INIS)

Silva, A.J.; Laine, E.P.; Lipkin, J.; Heath, G.R.; Akers, S.A.

1980-01-01

Studies of geotechnical properties for the Sub-seabed Disposal Program have been oriented toward sediment characterization related to effectiveness as a containment media and determination of detailed engineering behavior. Consolidation tests of the deeper samples in the North Pacific clays indicate that the sediment column is normally consolidated. The in-situ coefficient of permeability (k) within the cored depth of 25 meters is relatively constant at 10 -7 cm/sec. Consolidated undrained (CIU) triaxial tests indicate stress-strain properties characteristic of saturated clays with effective angles of friction of 35 0 for smectite and 31 0 for illite. These results are being used in computer modeling efforts. Some general geotechnical property data from the Bermuda Rise are also discussed

[Biological research and security institutes].

Science.gov (United States)

Darsie, G; Falczuk, A J; Bergmann, I E

2006-04-01

The threat of using biological material for ago-bioterrorist ends has risen in recent years, which means that research and diagnostic laboratories, biological agent banks and other institutions authorised to carry out scientific activities have had to implement biosafety and biosecurity measures to counter the threat, while carrying out activities to help prevent and monitor the accidental or intentional introduction of exotic animal diseases. This article briefly sets outthe basic components of biosafety and biosecurity, as well as recommendations on organisational strategies to consider in laboratories that support agro-bioterrorist surveillance and prevention programs.

Programming in biomolecular computation

DEFF Research Database (Denmark)

Hartmann, Lars Røeboe; Jones, Neil; Simonsen, Jakob Grue

2010-01-01

in a strong sense: a universal algorithm exists, that is able to execute any program, and is not asymptotically inefficient. A prototype model has been implemented (for now in silico on a conventional computer). This work opens new perspectives on just how computation may be specified at the biological level......., by programs reminiscent of low-level computer machine code; and at the same time biologically plausible: its functioning is defined by a single and relatively small set of chemical-like reaction rules. Further properties: the model is stored-program: programs are the same as data, so programs are not only...... executable, but are also compilable and interpretable. It is universal: all computable functions can be computed (in natural ways and without arcane encodings of data and algorithm); it is also uniform: new “hardware” is not needed to solve new problems; and (last but not least) it is Turing complete...

Steel Creek primary producers: Periphyton and seston, L-Lake/Steel Creek Biological Monitoring Program, January 1986--December 1991

Energy Technology Data Exchange (ETDEWEB)

Bowers, J.A. [Westinghouse Savannah River Co., Aiken, SC (United States); Toole, M.A.; van Duyn, Y. [Normandeau Associates Inc., New Ellenton, SC (United States)

1992-02-01

The Savannah River Site (SRS) encompasses 300 sq mi of the Atlantic Coastal Plain in west-central South Carolina. Five major tributaries of the Savannah River -- Upper Three Runs Creek, Four Mile Creek, Pen Branch, Steel Creek, and Lower Three Runs Creek -- drain the site. In 1985, L Lake, a 400-hectare cooling reservoir, was built on the upper reaches of Steel Creek to receive effluent from the restart of L-Reactor and to protect the lower reaches from thermal impacts. The Steel Creek Biological Monitoring Program was designed to assess various components of the system and identify and changes due to the operation of L-Reactor or discharge from L Lake. An intensive ecological assessment program prior to the construction of the lake provided baseline data with which to compare data accumulated after the lake was filled and began discharging into the creek. The Department of Energy must demonstrate that the operation of L-Reactor will not significantly alter the established aquatic ecosystems. This report summarizes the results of six years` data from Steel Creek under the L-Lake/Steel Creek Monitoring Program. L Lake is discussed separately from Steel Creek in Volumes NAI-SR-138 through NAI-SR-143.

Steel Creek primary producers: Periphyton and seston, L-Lake/Steel Creek Biological Monitoring Program, January 1986--December 1991

International Nuclear Information System (INIS)

Bowers, J.A.; Toole, M.A.; van Duyn, Y.

1992-02-01

The Savannah River Site (SRS) encompasses 300 sq mi of the Atlantic Coastal Plain in west-central South Carolina. Five major tributaries of the Savannah River -- Upper Three Runs Creek, Four Mile Creek, Pen Branch, Steel Creek, and Lower Three Runs Creek -- drain the site. In 1985, L Lake, a 400-hectare cooling reservoir, was built on the upper reaches of Steel Creek to receive effluent from the restart of L-Reactor and to protect the lower reaches from thermal impacts. The Steel Creek Biological Monitoring Program was designed to assess various components of the system and identify and changes due to the operation of L-Reactor or discharge from L Lake. An intensive ecological assessment program prior to the construction of the lake provided baseline data with which to compare data accumulated after the lake was filled and began discharging into the creek. The Department of Energy must demonstrate that the operation of L-Reactor will not significantly alter the established aquatic ecosystems. This report summarizes the results of six years' data from Steel Creek under the L-Lake/Steel Creek Monitoring Program. L Lake is discussed separately from Steel Creek in Volumes NAI-SR-138 through NAI-SR-143

A program code generator for multiphysics biological simulation using markup languages.

Science.gov (United States)

Amano, Akira; Kawabata, Masanari; Yamashita, Yoshiharu; Rusty Punzalan, Florencio; Shimayoshi, Takao; Kuwabara, Hiroaki; Kunieda, Yoshitoshi

2012-01-01

To cope with the complexity of the biological function simulation models, model representation with description language is becoming popular. However, simulation software itself becomes complex in these environment, thus, it is difficult to modify the simulation conditions, target computation resources or calculation methods. In the complex biological function simulation software, there are 1) model equations, 2) boundary conditions and 3) calculation schemes. Use of description model file is useful for first point and partly second point, however, third point is difficult to handle for various calculation schemes which is required for simulation models constructed from two or more elementary models. We introduce a simulation software generation system which use description language based description of coupling calculation scheme together with cell model description file. By using this software, we can easily generate biological simulation code with variety of coupling calculation schemes. To show the efficiency of our system, example of coupling calculation scheme with three elementary models are shown.

Towards programming languages for genetic engineering of living cells.

Science.gov (United States)

Pedersen, Michael; Phillips, Andrew

2009-08-06

Synthetic biology aims at producing novel biological systems to carry out some desired and well-defined functions. An ultimate dream is to design these systems at a high level of abstraction using engineering-based tools and programming languages, press a button, and have the design translated to DNA sequences that can be synthesized and put to work in living cells. We introduce such a programming language, which allows logical interactions between potentially undetermined proteins and genes to be expressed in a modular manner. Programs can be translated by a compiler into sequences of standard biological parts, a process that relies on logic programming and prototype databases that contain known biological parts and protein interactions. Programs can also be translated to reactions, allowing simulations to be carried out. While current limitations on available data prevent full use of the language in practical applications, the language can be used to develop formal models of synthetic systems, which are otherwise often presented by informal notations. The language can also serve as a concrete proposal on which future language designs can be discussed, and can help to guide the emerging standard of biological parts which so far has focused on biological, rather than logical, properties of parts.

Subseabed disposal of nuclear wastes.

Science.gov (United States)

Hollister, C D; Anderson, D R; Health, G R

1981-09-18

Fine-grained clay formations within stable (predictable) deep-sea regions away from lithospheric plate boundaries and productive surface waters have properties that might serve to permanently isolate radioactive waste. The most important characteristics of such clays are their vertical and lateral unifomity, low permeability, very high cation retention capacity, and potential for self-healing when disturbed. The most attractive abyssal clay formation (oxidized red ciay)covers nearly 30 percent of the sea floor and hence 20 percent of the earth's surface.

Subseabed disposal of nuclear wastes

International Nuclear Information System (INIS)

Hollister, C.D.; Anderson, D.R.; Heath, G.R.

1981-01-01

Fine-grained clay formations within stable (predictable) deep-sea regions away from lithospheric plate boundaries and productive surface waters have properties that might serve to permanently isolate radioactive waste. The most important characteristics of such clays are their vertical and lateral uniformity, low permeability, very high cation retention capacity, and potential for self-healing when disturbed. The most attractive abyssal clay formation (oxidized red clay) covers nearly 30 percent of the sea floor and hence 20 percent of the earth's surface

Conference: Statistical Physics and Biological Information

International Nuclear Information System (INIS)

Gross, David J.; Hwa, Terence

2001-01-01

In the spring of 2001, the Institute for Theoretical Physics ran a 6 month scientific program on Statistical Physics and Biological Information. This program was organized by Walter Fitch (UC Irvine), Terence Hwa (UC San Diego), Luca Peliti (University Federico II), Naples Gary Stormo (Washington University School of Medicine) and Chao Tang (NEC). Overall scientific supervision was provided by David Gross, Director, ITP. The ITP has an online conference/program proceeding which consists of audio and transparencies of almost all of the talks held during this program. Over 100 talks are available on the site at http://online.kitp.ucsb.edu/online/infobio01/

Agent-based modelling in synthetic biology.

Science.gov (United States)

Gorochowski, Thomas E

2016-11-30

Biological systems exhibit complex behaviours that emerge at many different levels of organization. These span the regulation of gene expression within single cells to the use of quorum sensing to co-ordinate the action of entire bacterial colonies. Synthetic biology aims to make the engineering of biology easier, offering an opportunity to control natural systems and develop new synthetic systems with useful prescribed behaviours. However, in many cases, it is not understood how individual cells should be programmed to ensure the emergence of a required collective behaviour. Agent-based modelling aims to tackle this problem, offering a framework in which to simulate such systems and explore cellular design rules. In this article, I review the use of agent-based models in synthetic biology, outline the available computational tools, and provide details on recently engineered biological systems that are amenable to this approach. I further highlight the challenges facing this methodology and some of the potential future directions. © 2016 The Author(s).

GPSR: A Resource for Genomics Proteomics and Systems Biology

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. GPSR: A Resource for Genomics Proteomics and Systems Biology. Small programs as building unit. Why PERL? Why not BioPerl? Why not PERL modules? Advantage of independent programs. Language independent; Can be run independently.

Harnessing QbD, Programming Languages, and Automation for Reproducible Biology.

Science.gov (United States)

Sadowski, Michael I; Grant, Chris; Fell, Tim S

2016-03-01

Building robust manufacturing processes from biological components is a task that is highly complex and requires sophisticated tools to describe processes, inputs, and measurements and administrate management of knowledge, data, and materials. We argue that for bioengineering to fully access biological potential, it will require application of statistically designed experiments to derive detailed empirical models of underlying systems. This requires execution of large-scale structured experimentation for which laboratory automation is necessary. This requires development of expressive, high-level languages that allow reusability of protocols, characterization of their reliability, and a change in focus from implementation details to functional properties. We review recent developments in these areas and identify what we believe is an exciting trend that promises to revolutionize biotechnology. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

Using Biological-Control Research in the Classroom to Promote Scientific Inquiry & Literacy

Science.gov (United States)

Richardson, Matthew L.; Richardson, Scott L.; Hall, David G.

2012-01-01

Scientists researching biological control should engage in education because translating research programs into classroom activities is a pathway to increase scientific literacy among students. Classroom activities focused on biological control target all levels of biological organization and can be cross-disciplinary by drawing from subject areas…

Space Biology in the 21st century

Science.gov (United States)

Halstead, Thora W.; Krauss, Robert W.

1990-01-01

Space Biology is poised to make significant contributions to science in the next century. A carefully crafted, but largely ground-based, program in the United States has evolved major questions that require answers through experiments in space. Science, scientists, and the new long-term spacecrafts designed by NASA will be available for the first time to mount a serious Space Biology effort. The scientific challenge is of such importance that success will provide countless benefits to biologically dependent areas such as medicine, food, and commerce in the decades ahead. The international community is rapidly expanding its role in this field. The United States should generate the resources that will allow progress in Space Biology to match the recognized progress made in aeronautics and the other space sciences.

Canada's Global Partnership Program

International Nuclear Information System (INIS)

Ellis, M.

2007-01-01

Curbing the proliferation of biological weapons (BW) is an essential element of the Global Partnership Against the Spread of Weapons and Materials of Mass Destruction. At the Kananaskis Summit in June 2002, G8 Leaders committed to prevent terrorists, or those that harbour them, from acquiring or developing biological weapons and related materials, equipment and technology. To this end, Canada's Global Partnership Program is investing heavily in biological non-proliferation activities in countries of the former Soviet Union. A comprehensive strategy has been developed to help improve biological safety (biosafety) and biological security (biosecurity) with provision for addressing dual-use concerns. Raising awareness and creating a self-sustaining culture of biosecurity is a key driver of the program. Through this strategy, Canada is assisting various FSU countries to: develop and implement effective and practical biosafety/biosecurity standards and guidelines; establish national and/or regional biosafety associations; develop and deliver effective biosafety and biosecurity training; put in place enhanced physical security measures and equipment. In addition to biosafety and biosecurity, the GPP supports a broad range of Biological Non-Proliferation projects and initiatives, including dozens of projects aimed at redirecting former biological weapons scientists. To date, most of these activities have been supported through Canada's contribution to the International Science and Technology Center (ISTC) and the Science and Technology Centre Ukraine (STCU).(author)

A National Comparison of Biochemistry and Molecular Biology Capstone Experiences

Science.gov (United States)

Aguanno, Ann; Mertz, Pamela; Martin, Debra; Bell, Ellis

2015-01-01

Recognizing the increasingly integrative nature of the molecular life sciences, the "American Society for Biochemistry and Molecular Biology" (ASBMB) recommends that Biochemistry and Molecular Biology (BMB) programs develop curricula based on concepts, content, topics, and expected student outcomes, rather than courses. To that end,…

A Non-Proliferating Fuel Cycle: No Enrichment, Reprocessing or Accessible Spent Fuel - 12375

Energy Technology Data Exchange (ETDEWEB)

Parker, Frank L. [Vanderbilt University (United States)

2012-07-01

Current fuel cycles offer a number of opportunities for access to plutonium, opportunities to create highly enriched uranium and access highly radioactive wastes to create nuclear weapons and 'dirty' bombs. The non-proliferating fuel cycle however eliminates or reduces such opportunities and access by eliminating the mining, milling and enrichment of uranium. The non-proliferating fuel cycle also reduces the production of plutonium per unit of energy created, eliminates reprocessing and the separation of plutonium from the spent fuel and the creation of a stream of high-level waste. It further simplifies the search for land based deep geologic repositories and interim storage sites for spent fuel in the USA by disposing of the spent fuel in deep sub-seabed sediments after storing the spent fuel at U.S. Navy Nuclear Shipyards that have the space and all of the necessary equipment and security already in place. The non-proliferating fuel cycle also reduces transportation risks by utilizing barges for the collection of spent fuel and transport to the Navy shipyards and specially designed ships to take the spent fuel to designated disposal sites at sea and to dispose of them there in deep sub-seabed sediments. Disposal in the sub-seabed sediments practically eliminates human intrusion. Potential disposal sites include Great Meteor East and Southern Nares Abyssal Plain. Such sites then could easily become international disposal sites since they occur in the open ocean. It also reduces the level of human exposure in case of failure because of the large physical and chemical dilution and the elimination of a major pathway to man-seawater is not potable. Of course, the recovery of uranium from sea water and the disposal of spent fuel in sub-seabed sediments must be proven on an industrial scale. All other technologies are already operating on an industrial scale. If externalities, such as reduced terrorist threats, environmental damage (including embedded

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant, January--December 1996

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A. [ed.; Konetsky, B.K.; Peterson, M.J.; Petrie, R.B.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.

1997-06-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous diffusion Plant (PGDP). The PGDP BMP was conducted by the University of Kentucky Between 1987 and 1992 and by staff of the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory (ORNL) from 1991 to present. The goals of BMP are to (1) demonstrate that the effluent limitations established for PGDP protect and maintain the use of Little Bayou and Big Bayou creeks for growth and propagation of fish and other aquatic life, (2) characterize potential environmental impacts, and (3) document the effects of pollution abatement facilities on stream. The BMP for PGDP consists of three major tasks: (1) effluent toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities (i.e., benthic macroinvertebrates and fish). This report focuses on ESD activities occurring from January 1996 to December 1996, although activities conducted outside this time period are included as appropriate.

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant, January - December 1996

International Nuclear Information System (INIS)

Kszos, L.A.; Konetsky, B.K.; Peterson, M.J.; Petrie, R.B.; Ryon, M.G.; Smith, J.G.; Southworth, G.R.

1997-06-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous diffusion Plant (PGDP). The PGDP BMP was conducted by the University of Kentucky Between 1987 and 1992 and by staff of the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory (ORNL) from 1991 to present. The goals of BMP are to (1) demonstrate that the effluent limitations established for PGDP protect and maintain the use of Little Bayou and Big Bayou creeks for growth and propagation of fish and other aquatic life, (2) characterize potential environmental impacts, and (3) document the effects of pollution abatement facilities on stream. The BMP for PGDP consists of three major tasks: (1) effluent toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities (i.e., benthic macroinvertebrates and fish). This report focuses on ESD activities occurring from January 1996 to December 1996, although activities conducted outside this time period are included as appropriate

Genetics in Relation to Biology.

Science.gov (United States)

Stewart, J. Bird

1987-01-01

Claims that most instruction dealing with genetics is limited to sex education and personal hygiene. Suggests that the biology curriculum should begin to deal with other issues related to genetics, including genetic normality, prenatal diagnoses, race, and intelligence. Predicts these topics will begin to appear in British examination programs.…

TinkerCell: modular CAD tool for synthetic biology

Science.gov (United States)

Chandran, Deepak; Bergmann, Frank T; Sauro, Herbert M

2009-01-01

Background Synthetic biology brings together concepts and techniques from engineering and biology. In this field, computer-aided design (CAD) is necessary in order to bridge the gap between computational modeling and biological data. Using a CAD application, it would be possible to construct models using available biological "parts" and directly generate the DNA sequence that represents the model, thus increasing the efficiency of design and construction of synthetic networks. Results An application named TinkerCell has been developed in order to serve as a CAD tool for synthetic biology. TinkerCell is a visual modeling tool that supports a hierarchy of biological parts. Each part in this hierarchy consists of a set of attributes that define the part, such as sequence or rate constants. Models that are constructed using these parts can be analyzed using various third-party C and Python programs that are hosted by TinkerCell via an extensive C and Python application programming interface (API). TinkerCell supports the notion of a module, which are networks with interfaces. Such modules can be connected to each other, forming larger modular networks. TinkerCell is a free and open-source project under the Berkeley Software Distribution license. Downloads, documentation, and tutorials are available at . Conclusion An ideal CAD application for engineering biological systems would provide features such as: building and simulating networks, analyzing robustness of networks, and searching databases for components that meet the design criteria. At the current state of synthetic biology, there are no established methods for measuring robustness or identifying components that fit a design. The same is true for databases of biological parts. TinkerCell's flexible modeling framework allows it to cope with changes in the field. Such changes may involve the way parts are characterized or the way synthetic networks are modeled and analyzed computationally. TinkerCell can readily

TinkerCell: modular CAD tool for synthetic biology

Directory of Open Access Journals (Sweden)

Bergmann Frank T

2009-10-01

Full Text Available Abstract Background Synthetic biology brings together concepts and techniques from engineering and biology. In this field, computer-aided design (CAD is necessary in order to bridge the gap between computational modeling and biological data. Using a CAD application, it would be possible to construct models using available biological "parts" and directly generate the DNA sequence that represents the model, thus increasing the efficiency of design and construction of synthetic networks. Results An application named TinkerCell has been developed in order to serve as a CAD tool for synthetic biology. TinkerCell is a visual modeling tool that supports a hierarchy of biological parts. Each part in this hierarchy consists of a set of attributes that define the part, such as sequence or rate constants. Models that are constructed using these parts can be analyzed using various third-party C and Python programs that are hosted by TinkerCell via an extensive C and Python application programming interface (API. TinkerCell supports the notion of a module, which are networks with interfaces. Such modules can be connected to each other, forming larger modular networks. TinkerCell is a free and open-source project under the Berkeley Software Distribution license. Downloads, documentation, and tutorials are available at http://www.tinkercell.com. Conclusion An ideal CAD application for engineering biological systems would provide features such as: building and simulating networks, analyzing robustness of networks, and searching databases for components that meet the design criteria. At the current state of synthetic biology, there are no established methods for measuring robustness or identifying components that fit a design. The same is true for databases of biological parts. TinkerCell's flexible modeling framework allows it to cope with changes in the field. Such changes may involve the way parts are characterized or the way synthetic networks are modeled

Planetary Biology and Microbial Ecology: Molecular Ecology and the Global Nitrogen cycle

Science.gov (United States)

Nealson, Molly Stone (Editor); Nealson, Kenneth H. (Editor)

1993-01-01

This report summarizes the results of the Planetary Biology and Molecular Ecology's summer 1991 program, which was held at the Marine Biological Laboratory in Woods Hole, Massachusetts. The purpose of the interdisciplinary PBME program is to integrate, via lectures and laboratory work, the contributions of university and NASA scientists and student interns. The goals of the 1991 program were to examine several aspects of the biogeochemistry of the nitrogen cycle and to teach the application of modern methods of molecular genetics to field studies of organisms. Descriptions of the laboratory projects and protocols and abstracts and references of the lectures are presented.

Session II-D. Systems

International Nuclear Information System (INIS)

Hall, R.J.

1981-01-01

The objectives of the Systems Task in the NWTS Program include: development of program requirements, allocation of the requirements to subsystems or tasks, integration of the task activities towards meeting the overall requirements, and assessment of progress towards achievement of the program mission. The Systems Task also includes a number of ancillary activities which are necessary to the program but which do not logically fall into other work-breakdown structure elements. Activities in the Systems Task, which in the NWTS Program are conducted at both the program and project levels, are generally grouped under the heading systems engineering and include identification of requirements, development of a baseline, integration of the system, baseline control, functional analyses, trade-off studies, and system analyses. The following papers in this session address some of the activities and progress that was achieved in the Systems Task in FY 1981: (1) waste isolation system alternatives: a cost comparison; (2) BWIP technical integration and control; (3) BWIP performance evaluation process: a criteria based method; (4) impacts of waste age; (5) systems studies of subseabed disposal; and (6) systems studies of waste transportation

Marine biosurfaces research program

Science.gov (United States)

The Office of Naval Research (ONR) of the U.S. Navy is starting a basic research program to address the initial events that control colonization of surfaces by organisms in marine environments. The program “arises from the Navy's need to understand and ultimately control biofouling and biocorrosion in marine environments,” according to a Navy announcement.The program, “Biological Processes Controlling Surface Modification in the Marine Environment,” will emphasize the application of in situ techniques and modern molecular biological, biochemical, and biophysical approaches; it will also encourage the development of interdisciplinary projects. Specific areas of interest include sensing and response to environmental surface (physiology/physical chemistry), factors controlling movement to and retention at surfaces (behavior/hydrodynamics), genetic regulation of attachment (molecular genetics), and mechanisms of attachment (biochemistry/surface chemistry).

UltraPse: A Universal and Extensible Software Platform for Representing Biological Sequences.

Science.gov (United States)

Du, Pu-Feng; Zhao, Wei; Miao, Yang-Yang; Wei, Le-Yi; Wang, Likun

2017-11-14

With the avalanche of biological sequences in public databases, one of the most challenging problems in computational biology is to predict their biological functions and cellular attributes. Most of the existing prediction algorithms can only handle fixed-length numerical vectors. Therefore, it is important to be able to represent biological sequences with various lengths using fixed-length numerical vectors. Although several algorithms, as well as software implementations, have been developed to address this problem, these existing programs can only provide a fixed number of representation modes. Every time a new sequence representation mode is developed, a new program will be needed. In this paper, we propose the UltraPse as a universal software platform for this problem. The function of the UltraPse is not only to generate various existing sequence representation modes, but also to simplify all future programming works in developing novel representation modes. The extensibility of UltraPse is particularly enhanced. It allows the users to define their own representation mode, their own physicochemical properties, or even their own types of biological sequences. Moreover, UltraPse is also the fastest software of its kind. The source code package, as well as the executables for both Linux and Windows platforms, can be downloaded from the GitHub repository.

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant December 1993 to December 1994

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A. [ed.

1996-05-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). The PGDP BMP was implemented in 1987 by the University of Kentucky. Research staff of the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory (ORNL) served as reviewers and advisers to the University of Kentucky. Beginning in fall 1991, ESD added data collection and report preparation to its responsibilities for the PGDP BMP. The goals of BMP are to (1) demonstrate that the effluent limitations established for PGDP protect and maintain the use of Little Bayou and Big Bayou creeks for growth and propagation of fish and other aquatic life, (2) characterize potential environmental impacts, (3) document the effects of pollution abatement facilities on stream biota, and (4) recommend any program improvements that would increase effluent treatability. In September 1992, a renewed Kentucky Pollutant Discharge Elimination System (KPDES) permit was issued to PGDP. The BMP for PGDP consists of three major tasks: (1) effluent and ambient toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities (i.e., benthic macroinvertebrates and fish). This report includes ESD activities occurring from December 1993 to December 1994, although activities conducted outside this time period are included as appropriate.

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant December 1993 to December 1994

International Nuclear Information System (INIS)

Kszos, L.A.

1996-05-01

On September 24, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). The PGDP BMP was implemented in 1987 by the University of Kentucky. Research staff of the Environmental Sciences Division (ESD) at Oak Ridge National Laboratory (ORNL) served as reviewers and advisers to the University of Kentucky. Beginning in fall 1991, ESD added data collection and report preparation to its responsibilities for the PGDP BMP. The goals of BMP are to (1) demonstrate that the effluent limitations established for PGDP protect and maintain the use of Little Bayou and Big Bayou creeks for growth and propagation of fish and other aquatic life, (2) characterize potential environmental impacts, (3) document the effects of pollution abatement facilities on stream biota, and (4) recommend any program improvements that would increase effluent treatability. In September 1992, a renewed Kentucky Pollutant Discharge Elimination System (KPDES) permit was issued to PGDP. The BMP for PGDP consists of three major tasks: (1) effluent and ambient toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities (i.e., benthic macroinvertebrates and fish). This report includes ESD activities occurring from December 1993 to December 1994, although activities conducted outside this time period are included as appropriate

Biology Division progress report for period of October 1, 1988--September 30, 1989

Energy Technology Data Exchange (ETDEWEB)

1990-02-01

The Biology Division of the Oak Ridge National Laboratory is one component of the Department of Energy's intramural program in life sciences. With respect to experimental biology, the congressionally mandated mission of this Office is to study adverse health effects of energy production and utilization. Within this stated broad mission, common themes among the research programs of the Biology Division are interactions of animals, cells, and molecules with their respective environments. Investigations focus on genetic and somatic effects of radiation and chemicals. Goals include identification and quantification of these effects, elucidation of pathways by which the effects are expressed, assessment of risks associated with radiation and chemical exposures, and establishment of strategies for extrapolation of risk data from animals to humans. Concurrent basic studies in genetics, biochemistry, molecular biology, and cell biology illuminate normal life processes as prerequisites to comprehending mutagenic and carcinogenic effects of environmental agents. This Progress Report is intended to provide both broad perspectives of the Division's research programs and synopses of recent achievements. Readers are invited to contact individual principal investigators for more detailed information, including reprints of publications. 120 refs.

Conference: Statistical Physics and Biological Information; F

International Nuclear Information System (INIS)

Gross, David J.; Hwa, Terence

2001-01-01

In the spring of 2001, the Institute for Theoretical Physics ran a 6 month scientific program on Statistical Physics and Biological Information. This program was organized by Walter Fitch (UC Irvine), Terence Hwa (UC San Diego), Luca Peliti (University Federico II), Naples Gary Stormo (Washington University School of Medicine) and Chao Tang (NEC). Overall scientific supervision was provided by David Gross, Director, ITP. The ITP has an online conference/program proceeding which consists of audio and transparencies of almost all of the talks held during this program. Over 100 talks are available on the site at http://online.kitp.ucsb.edu/online/infobio01/

Computer-aided design of biological circuits using TinkerCell.

Science.gov (United States)

Chandran, Deepak; Bergmann, Frank T; Sauro, Herbert M

2010-01-01

Synthetic biology is an engineering discipline that builds on modeling practices from systems biology and wet-lab techniques from genetic engineering. As synthetic biology advances, efficient procedures will be developed that will allow a synthetic biologist to design, analyze, and build biological networks. In this idealized pipeline, computer-aided design (CAD) is a necessary component. The role of a CAD application would be to allow efficient transition from a general design to a final product. TinkerCell is a design tool for serving this purpose in synthetic biology. In TinkerCell, users build biological networks using biological parts and modules. The network can be analyzed using one of several functions provided by TinkerCell or custom programs from third-party sources. Since best practices for modeling and constructing synthetic biology networks have not yet been established, TinkerCell is designed as a flexible and extensible application that can adjust itself to changes in the field. © 2010 Landes Bioscience

Human Sexuality Education Program.

Science.gov (United States)

Claremont Univ. Center, CA.

This program provides information to students about human sexual biology, behavior and attitudes. The primary intent of the workshops described is to provide fuller information and opportunity for self awareness to encourage participants to be more responsible as sexual beings, and to restructure their attitudes. The program presents the…

Graduate Curriculum for Biological Information Specialists: A Key to Integration of Scale in Biology

Directory of Open Access Journals (Sweden)

Carole L. Palmer

2007-12-01

Full Text Available Scientific data problems do not stand in isolation. They are part of a larger set of challenges associated with the escalation of scientific information and changes in scholarly communication in the digital environment. Biologists in particular are generating enormous sets of data at a high rate, and new discoveries in the biological sciences will increasingly depend on the integration of data across multiple scales. This work will require new kinds of information expertise in key areas. To build this professional capacity we have developed two complementary educational programs: a Biological Information Specialist (BIS masters degree and a concentration in Data Curation (DC. We believe that BISs will be central in the development of cyberinfrastructure and information services needed to facilitate interdisciplinary and multi-scale science. Here we present three sample cases from our current research projects to illustrate areas in which we expect information specialists to make important contributions to biological research practice.

Geotechnical aspects of subseabed disposal of high level radioactive wastes

International Nuclear Information System (INIS)

Silva, A.J.; Calnan, D.I.

1981-01-01

Additional data on geotechnical properties of MPG-1 sediments are presented. New data on Distal Abyssal Plain sediments east of the North Bermuda Rise (MPG-3N) indicates that this region has characteristics which compare favorably with MPG-1. The new permeability results are consistent with previous reported results for MPG-1 with a coefficient of permeability of approximately 10 -7 cm/sec. Preliminary results from MPG-3N indicate permeabilities comparable with those of MPG-1. Results are presented for thirty-seven triaxial compression tests on both undisturbed and remolded illite and smectite clays from the North Central Pacific (MPG-1). A preliminary set of repeated loading triaxial compression tests were performed on illite and smectite remolded clays from MPD-1. A device for anisotropic consolidation and triaxial compression has been developed which will allow the study of stress-strain behavior after anisotropic consolidation with zero lateral deformation. The long-term stress-strain behavior of deep sea sediments is the focus of a two-part testing program: Phase 1; room temperature studies, will be completed in Spring, 1980 and Phase 2; temperature effect studies, is now in the equipment development stage and should be underway by June, 1980. The testing portion of the laboratory Hole Closure study has been completed and most of the results are reported. A final technical report will be completed in June, 1980. The involvement of URI/MGL in this project covers five areas: site characterization, geotechnical analysis for platform foundation configuration, laboratory analysis of sediment-structure interaction development of in-situ vane shear apparatus and post-test analysis of recovered data relating to geotechnical behavior

Darwin, dogs and DNA: Freshman writing about biology

Science.gov (United States)

Grant, Michael C.; Piirto, John

1994-12-01

We describe a successful interdepartmental program at a major research-oriented university that melds freshman writing with freshman biology to the significant benefit of both disciplines. Extensive, repeated feedback on individual student writing projects from two instructors, one a humanities professor, one a biology professor, appears to work synergistically so that learning by the students is significantly enhanced. Particulars derived from five years of experience with intensive, student-centered strategy are included.

Evaluation of the Redesign of an Undergraduate Cell Biology Course

Science.gov (United States)

McEwen, Laura April; Harris, dik; Schmid, Richard F.; Vogel, Jackie; Western, Tamara; Harrison, Paul

2009-01-01

This article offers a case study of the evaluation of a redesigned and redeveloped laboratory-based cell biology course. The course was a compulsory element of the biology program, but the laboratory had become outdated and was inadequately equipped. With the support of a faculty-based teaching improvement project, the teaching team redesigned the…

Research and development program, fiscal year 1970

Energy Technology Data Exchange (ETDEWEB)

1968-04-01

The biomedical program of the Laboratory of Nuclear Medicine and Radiation Biology for FY 1970 is conducted within the scope of the following categories: Somatic Effects of Radiation; Combating Detrimental Effects of Radiation; Molecular and Cellular Level Studies; Environmental Radiation Studies; Radiological and Health Physics and Instrumentation; Cancer Research; and Selected Beneficial Applications. The overall objectives of the Laboratory within these areas of the Biology and Medicine Program may be summarized as follows: (1) investigation of the effects of ionizing radiation on systems of biological significance and on living organisms; (2) assessment and study of the immediate and long term consequences of the environmental radioactivity on flora, fauna, and man; (3) development of beneficial uses of ionizing radiation and radioactive substances in medicine and biology; and (4) the conduct of training and educational activities in fields related to the biological and medical aspects of radiation.

Authorized Course of Instruction for the Quinmester Program. Science: Introduction to Marine Science; Recreation and the Sea; Oceanography; Marine Ecology of South Florida, and Invertebrate Marine Biology.

Science.gov (United States)

Dade County Public Schools, Miami, FL.

All five units, developed for the Dade County Florida Quinmester Program, included in this collection concern some aspect of marine studies. Except for "Recreation and the Sea," intended to give students basic seamanship skills and experience of other marine recreation, all units are designed for students with a background in biology or…

Monitoring technologies for ocean disposal of radioactive waste

Science.gov (United States)

Triplett, M. B.; Solomon, K. A.; Bishop, C. B.; Tyce, R. C.

1982-01-01

The feasibility of using carefully selected subseabed locations to permanently isolate high level radioactive wastes at ocean depths greater than 4000 meters is discussed. Disposal at several candidate subseabed areas is being studied because of the long term geologic stability of the sediments, remoteness from human activity, and lack of useful natural resources. While the deep sea environment is remote, it also poses some significant challenges for the technology required to survey and monitor these sites, to identify and pinpoint container leakage should it occur, and to provide the environmental information and data base essential to determining the probable impacts of any such occurrence. Objectives and technical approaches to aid in the selective development of advanced technologies for the future monitoring of nuclear low level and high level waste disposal in the deep seabed are presented. Detailed recommendations for measurement and sampling technology development needed for deep seabed nuclear waste monitoring are also presented.

North Sea focus on radwaste disposal

International Nuclear Information System (INIS)

Cope, D.

1990-01-01

At the recent North Sea Conference in the Netherlands possible future strategies for managing radioactive waste (radwaste) proved to be a contentious issue. Several of its North Sea littoral neighbours sought a categorical assurance that the UK would forego the option of constructing a subterranean radwaste repository which though accessed from land, extends under the coastline, or a sub-seabed facility reached from an offshore structure. It was pointed out that the UK has no present plans for such a radwaste repository. However, sub-seabed designs as a possibility for future repositories were not ruled out. NIREX has decided to concentrate its exploration work at two sites -Sellafield and Dounreay. Both sites are coastal locations and the government is aware that detailed geological exploration may favour extension of a radwaste repository beyond the shoreline, even if initially developed entirely on land. The design of such a radioactive waste repository is outlined. The position of NIREX and the Radioactive Waste Management Advisory Committee is discussed. (author)

Strategy for future seabed investigations

International Nuclear Information System (INIS)

Richards, A.F.; Murray, C.N.

1989-01-01

The status of seabed disposal studies and possible strategies for future development are reviewed. Background information for strategy development includes presentation of selected recommendations for future studies identified by the NEA/OECD Seabed Working Group, the Engineering Studies Task Group of the Seabed Working Group and the Subseabed Consortium. Inferences from these recommendations, and how sound scientifically based research, significant political perception and technological proof of concept may be related to strategies are considered as a prelude to strategy design. A proposed European strategy, complementary to the 1988 Subseabed Consortium strategy developed in the US, is to proceed to the technological proof of concept by emplacing one or more full-sized waste canisters containing non-radioactive, simulated heat-producing waste by a chosen deployment system. The latter could include the drilled, the penetrator or the pushed-in option. Emplaced canisters would be monitored for an extended period of time, and eventually retrieved for examination. International co-operation and co-ordination of all aspects is recommended. (author)

Molecular Biological Characterization of Air Samples: A Survey of Four Strategically Important Regions

National Research Council Canada - National Science Library

Francesconi, Stephen

2003-01-01

.... In support of this requirement, the Joint Program Office for Biological Defense initiated an aggressive program incorporating the development of air-sampling and agent detecting devices, coined...

Programmed Multi-Image Lectures for College Biology Instruction.

Science.gov (United States)

Jensen, William A.; Knauft, Robert L.

1977-01-01

Discusses the use of a programed multi-image lecture approach for teaching a botany course to nonmajor students at the University of California, Berkeley. Also considers the advantages, production, method of presentation, and design of the multimedia lectures. (HM)

openBEB: open biological experiment browser for correlative measurements.

Science.gov (United States)

Ramakrishnan, Chandrasekhar; Bieri, Andrej; Sauter, Nora; Roizard, Sophie; Ringler, Philippe; Müller, Shirley A; Goldie, Kenneth N; Enimanev, Kaloyan; Stahlberg, Henning; Rinn, Bernd; Braun, Thomas

2014-03-26

New experimental methods must be developed to study interaction networks in systems biology. To reduce biological noise, individual subjects, such as single cells, should be analyzed using high throughput approaches. The measurement of several correlative physical properties would further improve data consistency. Accordingly, a considerable quantity of data must be acquired, correlated, catalogued and stored in a database for subsequent analysis. We have developed openBEB (open Biological Experiment Browser), a software framework for data acquisition, coordination, annotation and synchronization with database solutions such as openBIS. OpenBEB consists of two main parts: A core program and a plug-in manager. Whereas the data-type independent core of openBEB maintains a local container of raw-data and metadata and provides annotation and data management tools, all data-specific tasks are performed by plug-ins. The open architecture of openBEB enables the fast integration of plug-ins, e.g., for data acquisition or visualization. A macro-interpreter allows the automation and coordination of the different modules. An update and deployment mechanism keeps the core program, the plug-ins and the metadata definition files in sync with a central repository. The versatility, the simple deployment and update mechanism, and the scalability in terms of module integration offered by openBEB make this software interesting for a large scientific community. OpenBEB targets three types of researcher, ideally working closely together: (i) Engineers and scientists developing new methods and instruments, e.g., for systems-biology, (ii) scientists performing biological experiments, (iii) theoreticians and mathematicians analyzing data. The design of openBEB enables the rapid development of plug-ins, which will inherently benefit from the "house keeping" abilities of the core program. We report the use of openBEB to combine live cell microscopy, microfluidic control and visual

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant December 1990 to November 1992

Energy Technology Data Exchange (ETDEWEB)

Kszos, L.A. [ed.

1994-03-01

On September 23, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). Beginning in fall 1991, the Environmental Sciences Division (ESD) at Oak Ridge National Lab (ORNL) added data collection and report preparation to its responsibilities for the PGDP BMP. The BMP has been continued because it has proven to be extremely valuable in identifying those effluents with the potential for adversely affecting instream fauna, assessing the ecological health of receiving streams, guiding plans for remediation, and protecting human health. In September 1992, a renewed permit was issued which requires toxicity monitoring of continuous and intermittent outfalls on a quarterly basis. The BMP for PGDP consists of three major tasks: (1) effluent and ambient toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities. This report includes ESD/ORNL activities occurring from December 1990 to November 1992.

Report on the biological monitoring program at Paducah Gaseous Diffusion Plant December 1990 to November 1992

International Nuclear Information System (INIS)

Kszos, L.A.

1994-03-01

On September 23, 1987, the Commonwealth of Kentucky Natural Resources and Environmental Protection Cabinet issued an Agreed Order that required the development of a Biological Monitoring Program (BMP) for the Paducah Gaseous Diffusion Plant (PGDP). Beginning in fall 1991, the Environmental Sciences Division (ESD) at Oak Ridge National Lab (ORNL) added data collection and report preparation to its responsibilities for the PGDP BMP. The BMP has been continued because it has proven to be extremely valuable in identifying those effluents with the potential for adversely affecting instream fauna, assessing the ecological health of receiving streams, guiding plans for remediation, and protecting human health. In September 1992, a renewed permit was issued which requires toxicity monitoring of continuous and intermittent outfalls on a quarterly basis. The BMP for PGDP consists of three major tasks: (1) effluent and ambient toxicity monitoring, (2) bioaccumulation studies, and (3) ecological surveys of stream communities. This report includes ESD/ORNL activities occurring from December 1990 to November 1992

Biological and Environmental Research Network Requirements

Energy Technology Data Exchange (ETDEWEB)

Balaji, V. [Princeton Univ., NJ (United States). Earth Science Grid Federation (ESGF); Boden, Tom [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Cowley, Dave [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Dart, Eli [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Dattoria, Vince [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Desai, Narayan [Argonne National Lab. (ANL), Argonne, IL (United States); Egan, Rob [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Foster, Ian [Argonne National Lab. (ANL), Argonne, IL (United States); Goldstone, Robin [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Gregurick, Susan [U.S. Dept. of Energy, Washington, DC (United States). Biological Systems Science Division; Houghton, John [U.S. Dept. of Energy, Washington, DC (United States). Biological and Environmental Research (BER) Program; Izaurralde, Cesar [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Johnston, Bill [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Joseph, Renu [U.S. Dept. of Energy, Washington, DC (United States). Climate and Environmental Sciences Division; Kleese-van Dam, Kerstin [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Lipton, Mary [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Monga, Inder [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Pritchard, Matt [British Atmospheric Data Centre (BADC), Oxon (United Kingdom); Rotman, Lauren [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Strand, Gary [National Center for Atmospheric Research (NCAR), Boulder, CO (United States); Stuart, Cory [Argonne National Lab. (ANL), Argonne, IL (United States); Tatusova, Tatiana [National Inst. of Health (NIH), Bethesda, MD (United States); Tierney, Brian [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States). ESNet; Thomas, Brian [Univ. of California, Berkeley, CA (United States); Williams, Dean N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Zurawski, Jason [Internet2, Washington, DC (United States)

2013-09-01

The Energy Sciences Network (ESnet) is the primary provider of network connectivity for the U.S. Department of Energy (DOE) Office of Science (SC), the single largest supporter of basic research in the physical sciences in the United States. In support of SC programs, ESnet regularly updates and refreshes its understanding of the networking requirements of the instruments, facilities, scientists, and science programs that it serves. This focus has helped ESnet be a highly successful enabler of scientific discovery for over 25 years. In November 2012, ESnet and the Office of Biological and Environmental Research (BER) of the DOE SC organized a review to characterize the networking requirements of the programs funded by the BER program office. Several key findings resulted from the review. Among them: 1) The scale of data sets available to science collaborations continues to increase exponentially. This has broad impact, both on the network and on the computational and storage systems connected to the network. 2) Many science collaborations require assistance to cope with the systems and network engineering challenges inherent in managing the rapid growth in data scale. 3) Several science domains operate distributed facilities that rely on high-performance networking for success. Key examples illustrated in this report include the Earth System Grid Federation (ESGF) and the Systems Biology Knowledgebase (KBase). This report expands on these points, and addresses others as well. The report contains a findings section as well as the text of the case studies discussed at the review.

INEL Geothermal Environmental Program. Final environmental report

Energy Technology Data Exchange (ETDEWEB)

Thurow, T.L.; Cahn, L.S.

1982-09-01

An overview of environmental monitoring programs and research during development of a moderate temperature geothermal resource in the Raft River Valley is presented. One of the major objectives was to develop programs for environmental assessment and protection that could serve as an example for similar types of development. The monitoring studies were designed to establish baseline conditions (predevelopment) of the physical, biological, and human environment. Potential changes were assessed and adverse environmental impacts minimized. No major environmental impacts resulted from development of the Raft River Geothermal Research Facility. The results of the physical, biological, and human environment monitoring programs are summarized.

Second report on the Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

International Nuclear Information System (INIS)

Loar, J.M.; Appellanis, S.M.; Jimenez, B.D.; Huq, M.V.; Meyers-Schone, L.J.; Mohrbacher, D.A.; Olsen, C.R.

1992-12-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. BMAP consists of seven major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs on-site and the aquatic environs off-site. These tasks are (1) toxicity monitoring; (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota; (3) biological indicator studies; (4) instream ecological monitoring; (5) assessment of contaminants in the terrestrial environment; (6) radioecology of WOC and White Oak Lake (WOL); and (7) contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system. This document, the second of a series of annual reports, described the results of BMAP studies conducted in 1987

Second report on the Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

Energy Technology Data Exchange (ETDEWEB)

Loar, J.M. [ed.; Adams, S.M.; Bailey, R.D.; Blaylock, B.G.; Boston, H.L.; Cox, D.K.; Huston, M.A.; Kimmel, B.L.; Loar, J.M.; Olsen, C.R.; Ryon, M.G.; Shugart, L.R.; Smith, J.G.; Southworth, G.R.; Stewart, A.J.; Walton, B.T.; Talmage, S.S.; Murphy, J.B.; Valentine, C.K. [Oak Ridge National Lab., TN (United States); Appellanis, S.M.; Jimenez, B.D. [Puerto Rico Univ., San Juan (Puerto Rico); Huq, M.V. [Connecticut Dept. of Environmental Protection, Hamden, CT (United States); Meyers-Schone, L.J. [Frankfurter, Gross-Gerau (Germany); Mohrbacher, D.A. [Automated Sciences Group, Inc., Oak Ridge, TN (United States); Olsen, C.R. [USDOE Office of Energy Research, Washington, DC (United States). Environmental Sciences Div.; Stout, J.G. [Cincinnati Univ., OH (United States)

1992-12-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1986, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. BMAP consists of seven major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs on-site and the aquatic environs off-site. These tasks are (1) toxicity monitoring; (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota; (3) biological indicator studies; (4) instream ecological monitoring; (5) assessment of contaminants in the terrestrial environment; (6) radioecology of WOC and White Oak Lake (WOL); and (7) contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system. This document, the second of a series of annual reports, described the results of BMAP studies conducted in 1987.

Biological Control Strategies for Mosquito Vectors of Arboviruses.

Science.gov (United States)

Huang, Yan-Jang S; Higgs, Stephen; Vanlandingham, Dana L

2017-02-10

Historically, biological control utilizes predatory species and pathogenic microorganisms to reduce the population of mosquitoes as disease vectors. This is particularly important for the control of mosquito-borne arboviruses, which normally do not have specific antiviral therapies available. Although development of resistance is likely, the advantages of biological control are that the resources used are typically biodegradable and ecologically friendly. Over the past decade, the advancement of molecular biology has enabled optimization by the manipulation of genetic materials associated with biological control agents. Two significant advancements are the discovery of cytoplasmic incompatibility induced by Wolbachia bacteria, which has enhanced replacement programs, and the introduction of dominant lethal genes into local mosquito populations through the release of genetically modified mosquitoes. As various arboviruses continue to be significant public health threats, biological control strategies have evolved to be more diverse and become critical tools to reduce the disease burden of arboviruses.

Predicting Translation Initiation Rates for Designing Synthetic Biology

International Nuclear Information System (INIS)

Reeve, Benjamin; Hargest, Thomas; Gilbert, Charlie; Ellis, Tom

2014-01-01

In synthetic biology, precise control over protein expression is required in order to construct functional biological systems. A core principle of the synthetic biology approach is a model-guided design and based on the biological understanding of the process, models of prokaryotic protein production have been described. Translation initiation rate is a rate-limiting step in protein production from mRNA and is dependent on the sequence of the 5′-untranslated region and the start of the coding sequence. Translation rate calculators are programs that estimate protein translation rates based on the sequence of these regions of an mRNA, and as protein expression is proportional to the rate of translation initiation, such calculators have been shown to give good approximations of protein expression levels. In this review, three currently available translation rate calculators developed for synthetic biology are considered, with limitations and possible future progress discussed.

Ecological Monitoring and Compliance Program 2007 Report

Energy Technology Data Exchange (ETDEWEB)

Hansen, Dennis; Anderson, David; Derek, Hall; Greger, Paul; Ostler, W. Kent

2008-03-01

In accordance with U.S. Department of Energy (DOE) Order 450.1, 'Environmental Protection Program', the Office of the Assistant Manager for Environmental Management of the DOE, National Nuclear Security Administration Nevada Site Office (NNSA/NSO) requires ecological monitoring and biological compliance support for activities and programs conducted at the Nevada Test Site (NTS). National Security Technologies, LLC (NSTec), Ecological Services has implemented the Ecological Monitoring and Compliance (EMAC) Program to provide this support. EMAC is designed to ensure compliance with applicable laws and regulations, delineate and define NTS ecosystems, and provide ecological information that can be used to predict and evaluate the potential impacts of proposed projects and programs on those ecosystems. This report summarizes the EMAC activities conducted by NSTec during calendar year 2007. Monitoring tasks during 2007 included eight program areas: (a) biological surveys, (b) desert tortoise compliance, (c) ecosystem mapping and data management, (d) sensitive plant monitoring, (e) sensitive and protected/regulated animal monitoring, (f) habitat monitoring, (g) habitat restoration monitoring, and (h) biological monitoring at the Nonproliferation Test and Evaluation Complex (NPTEC). The following sections of this report describe work performed under these eight areas.

Complexity: the organizing principle at the interface of biological (dis ...

Indian Academy of Sciences (India)

RAMRAY BHAT

2017-07-05

Jul 5, 2017 ... opment of complexity theory in the context of biological systems. ... (DST), a mathematical enterprise that deals with the behaviour of ... and application of programming to trace the dynamical .... with the resultant organization being regulated by the ... more regular the pattern, the smaller the program needed.

Instrumental neutron activation analysis of biological samples

International Nuclear Information System (INIS)

Guinn, V.P.; Gavrilas, M.

1990-01-01

The elemental compositions of 18 biological reference materials have been processed, for 14 stepped combinations of irradiation/decay/counting times, by the INAA Advance Prediction Computer Program. The 18 materials studied include 11 plant materials, 5 animal materials, and 2 other biological materials. Of these 18 materials, 14 are NBS Standard Reference Materials and four are IAEA reference materials. Overall, the results show that a mean of 52% of the input elements can be determined to a relative standard deviation of ±10% or better by reactor flux (thermal plus epithermal) INAA

Creating biological nanomaterials using synthetic biology

International Nuclear Information System (INIS)

Rice, MaryJoe K; Ruder, Warren C

2014-01-01

Synthetic biology is a new discipline that combines science and engineering approaches to precisely control biological networks. These signaling networks are especially important in fields such as biomedicine and biochemical engineering. Additionally, biological networks can also be critical to the production of naturally occurring biological nanomaterials, and as a result, synthetic biology holds tremendous potential in creating new materials. This review introduces the field of synthetic biology, discusses how biological systems naturally produce materials, and then presents examples and strategies for incorporating synthetic biology approaches in the development of new materials. In particular, strategies for using synthetic biology to produce both organic and inorganic nanomaterials are discussed. Ultimately, synthetic biology holds the potential to dramatically impact biological materials science with significant potential applications in medical systems. (review)

Creating biological nanomaterials using synthetic biology.

Science.gov (United States)

Rice, MaryJoe K; Ruder, Warren C

2014-02-01

Synthetic biology is a new discipline that combines science and engineering approaches to precisely control biological networks. These signaling networks are especially important in fields such as biomedicine and biochemical engineering. Additionally, biological networks can also be critical to the production of naturally occurring biological nanomaterials, and as a result, synthetic biology holds tremendous potential in creating new materials. This review introduces the field of synthetic biology, discusses how biological systems naturally produce materials, and then presents examples and strategies for incorporating synthetic biology approaches in the development of new materials. In particular, strategies for using synthetic biology to produce both organic and inorganic nanomaterials are discussed. Ultimately, synthetic biology holds the potential to dramatically impact biological materials science with significant potential applications in medical systems.

A glossary for avian conservation biology

Science.gov (United States)

Rolf R. Koford; John B. Dunning; Christine A. Ribic; Deborah M. Finch

1994-01-01

This glossary provides standard definitions for many of the terms used in avian conservation biology. We compiled these definitions to assist communication among researchers, managers, and others involved in the Neotropical Migratory Bird Conservation Program, also known as Partners in Flight. We used existing glossaries and recent literature to prepare this glossary....

Plant biology research and training for the 21st century

Energy Technology Data Exchange (ETDEWEB)

Kelly, K. [ed.

1992-12-31

The committee was assembled in response to a request from the National Science Foundation (NSF), the US Department of Agriculture (USDA), and the US Department of Energy (DoE). The leadership of these agencies asked the National Academy of Sciences through the National Research Council (NRC) to assess the status of plant-science research in the United States in light of the opportunities arising from advances inother areas of biology. NRC was asked to suggest ways of accelerating the application of these new biologic concepts and tools to research in plant science with the aim of enhancing the acquisition of new knowledge about plants. The charge to the committee was to examine the following: Organizations, departments, and institutions conducting plant biology research; human resources involved in plant biology research; graduate training programs in plant biology; federal, state, and private sources of support for plant-biology research; the role of industry in conducting and supporting plant-biology research; the international status of US plant-biology research; and the relationship of plant biology to leading-edge research in biology.

Plant biology research and training for the 21st century

Energy Technology Data Exchange (ETDEWEB)

Kelly, K. (ed.)

1992-01-01

The committee was assembled in response to a request from the National Science Foundation (NSF), the US Department of Agriculture (USDA), and the US Department of Energy (DoE). The leadership of these agencies asked the National Academy of Sciences through the National Research Council (NRC) to assess the status of plant-science research in the United States in light of the opportunities arising from advances inother areas of biology. NRC was asked to suggest ways of accelerating the application of these new biologic concepts and tools to research in plant science with the aim of enhancing the acquisition of new knowledge about plants. The charge to the committee was to examine the following: Organizations, departments, and institutions conducting plant biology research; human resources involved in plant biology research; graduate training programs in plant biology; federal, state, and private sources of support for plant-biology research; the role of industry in conducting and supporting plant-biology research; the international status of US plant-biology research; and the relationship of plant biology to leading-edge research in biology.

Biological Control Strategies for Mosquito Vectors of Arboviruses

Directory of Open Access Journals (Sweden)

Yan-Jang S. Huang

2017-02-01

Full Text Available Historically, biological control utilizes predatory species and pathogenic microorganisms to reduce the population of mosquitoes as disease vectors. This is particularly important for the control of mosquito-borne arboviruses, which normally do not have specific antiviral therapies available. Although development of resistance is likely, the advantages of biological control are that the resources used are typically biodegradable and ecologically friendly. Over the past decade, the advancement of molecular biology has enabled optimization by the manipulation of genetic materials associated with biological control agents. Two significant advancements are the discovery of cytoplasmic incompatibility induced by Wolbachia bacteria, which has enhanced replacement programs, and the introduction of dominant lethal genes into local mosquito populations through the release of genetically modified mosquitoes. As various arboviruses continue to be significant public health threats, biological control strategies have evolved to be more diverse and become critical tools to reduce the disease burden of arboviruses.

Evaluation of DoD Biological Safety and Security Implementation

Science.gov (United States)

2016-04-27

advanced development, efficient production, and timely distribution. Critical Reagent Program products include antibodies, inactivated antigens , genomic...effects to the economy, communicability, low infectious dose, and a history of or current interest in weaponization based on threat reporting. The...unwarranted by the threat. Recommendation #3. Biological Personnel Reliability Program [BPRP] Maintain use of the BPRP tailored to bio -defense work; balance

Challenge: A Multidisciplinary Degree Program in Bioinformatics

Directory of Open Access Journals (Sweden)

Mudasser Fraz Wyne

2006-06-01

Full Text Available Bioinformatics is a new field that is poorly served by any of the traditional science programs in Biology, Computer science or Biochemistry. Known to be a rapidly evolving discipline, Bioinformatics has emerged from experimental molecular biology and biochemistry as well as from the artificial intelligence, database, pattern recognition, and algorithms disciplines of computer science. While institutions are responding to this increased demand by establishing graduate programs in bioinformatics, entrance barriers for these programs are high, largely due to the significant prerequisite knowledge which is required, both in the fields of biochemistry and computer science. Although many schools currently have or are proposing graduate programs in bioinformatics, few are actually developing new undergraduate programs. In this paper I explore the blend of a multidisciplinary approach, discuss the response of academia and highlight challenges faced by this emerging field.

Future of Chemical Engineering: Integrating Biology into the Undergraduate ChE Curriculum

Science.gov (United States)

Mosto, Patricia; Savelski, Mariano; Farrell, Stephanie H.; Hecht, Gregory B.

2007-01-01

Integrating biology in the chemical engineering curriculum seems to be the future for chemical engineering programs nation and worldwide. Rowan University's efforts to address this need include a unique chemical engineering curriculum with an intensive biology component integrated throughout from freshman to senior years. Freshman and Sophomore…

Interdisciplinary Biomathematics: Engaging Undergraduates in Research on the Fringe of Mathematical Biology

Science.gov (United States)

Fowler, Kathleen; Luttman, Aaron; Mondal, Sumona

2013-01-01

The US National Science Foundation's (NSF's) Undergraduate Biology and Mathematics (UBM) program significantly increased undergraduate research in the biomathematical sciences. We discuss three UBM-funded student research projects at Clarkson University that lie at the intersection of not just mathematics and biology, but also other fields. The…

Biological Environmental Sampling Technologies Assessment

Science.gov (United States)

2015-12-01

modular set of aerosol detector, collector, and identifier components. Before the award, the JBTDS program office engaged its combat developers and...collection and identification processes are not integrated into one unit. Concern was also expressed regarding operation of the smartphone -based Biomeme one3...DESCRIPTION (JBTDS) The Joint Biological Tactical Detection System (JBTDS) will be employed as a modular set of capabilities (detector, collector, and

The aims of systems biology: between molecules and organisms.

Science.gov (United States)

Noble, D

2011-05-01

The systems approach to biology has a long history. Its recent rapid resurgence at the turn of the century reflects the problems encountered in interpreting the sequencing of the genome and the failure of that immense achievement to provide rapid and direct solutions to major multi-factorial diseases. This paper argues that systems biology is necessarily multilevel and that there is no privileged level of causality in biological systems. It is an approach rather than a separate discipline. Functionality arises from biological networks that interact with the genome, the environment and the phenotype. This view of biology is very different from the gene-centred views of neo-Darwinism and molecular biology. In neuroscience, the systems approach leads naturally to 2 important conclusions: first, that the idea of 'programs' in the brain is confusing, and second, that the self is better interpreted as a process than as an object. © Georg Thieme Verlag KG Stuttgart · New York.

Information technology developments within the national biological information infrastructure

Science.gov (United States)

Cotter, G.; Frame, M.T.

2000-01-01

Looking out an office window or exploring a community park, one can easily see the tremendous challenges that biological information presents the computer science community. Biological information varies in format and content depending whether or not it is information pertaining to a particular species (i.e. Brown Tree Snake), or a specific ecosystem, which often includes multiple species, land use characteristics, and geospatially referenced information. The complexity and uniqueness of each individual species or ecosystem do not easily lend themselves to today's computer science tools and applications. To address the challenges that the biological enterprise presents the National Biological Information Infrastructure (NBII) (http://www.nbii.gov) was established in 1993. The NBII is designed to address these issues on a National scale within the United States, and through international partnerships abroad. This paper discusses current computer science efforts within the National Biological Information Infrastructure Program and future computer science research endeavors that are needed to address the ever-growing issues related to our Nation's biological concerns.

Introduction to symposium: Arthropods and wildlife conservation: synergy in complex biological systems

Science.gov (United States)

The symposium will discuss the effects of arthropods and other stressors on wildlife conservation programs. Speakers with affiliations in wildlife biology, parasitology and entomology will be included in the program. Research of national and international interest will be presented....

Modeling of biological intelligence for SCM system optimization.

Science.gov (United States)

Chen, Shengyong; Zheng, Yujun; Cattani, Carlo; Wang, Wanliang

2012-01-01

This article summarizes some methods from biological intelligence for modeling and optimization of supply chain management (SCM) systems, including genetic algorithms, evolutionary programming, differential evolution, swarm intelligence, artificial immune, and other biological intelligence related methods. An SCM system is adaptive, dynamic, open self-organizing, which is maintained by flows of information, materials, goods, funds, and energy. Traditional methods for modeling and optimizing complex SCM systems require huge amounts of computing resources, and biological intelligence-based solutions can often provide valuable alternatives for efficiently solving problems. The paper summarizes the recent related methods for the design and optimization of SCM systems, which covers the most widely used genetic algorithms and other evolutionary algorithms.

Modeling of Biological Intelligence for SCM System Optimization

Directory of Open Access Journals (Sweden)

Shengyong Chen

2012-01-01

Full Text Available This article summarizes some methods from biological intelligence for modeling and optimization of supply chain management (SCM systems, including genetic algorithms, evolutionary programming, differential evolution, swarm intelligence, artificial immune, and other biological intelligence related methods. An SCM system is adaptive, dynamic, open self-organizing, which is maintained by flows of information, materials, goods, funds, and energy. Traditional methods for modeling and optimizing complex SCM systems require huge amounts of computing resources, and biological intelligence-based solutions can often provide valuable alternatives for efficiently solving problems. The paper summarizes the recent related methods for the design and optimization of SCM systems, which covers the most widely used genetic algorithms and other evolutionary algorithms.

Modeling of Biological Intelligence for SCM System Optimization

Science.gov (United States)

Chen, Shengyong; Zheng, Yujun; Cattani, Carlo; Wang, Wanliang

2012-01-01

This article summarizes some methods from biological intelligence for modeling and optimization of supply chain management (SCM) systems, including genetic algorithms, evolutionary programming, differential evolution, swarm intelligence, artificial immune, and other biological intelligence related methods. An SCM system is adaptive, dynamic, open self-organizing, which is maintained by flows of information, materials, goods, funds, and energy. Traditional methods for modeling and optimizing complex SCM systems require huge amounts of computing resources, and biological intelligence-based solutions can often provide valuable alternatives for efficiently solving problems. The paper summarizes the recent related methods for the design and optimization of SCM systems, which covers the most widely used genetic algorithms and other evolutionary algorithms. PMID:22162724

[Measures for counteracting of biological terrorism in the Russian Federation].

Science.gov (United States)

Onishchenko, G G

2005-01-01

The article deals with topicality of the problem of ensuring biological safety in Russia. The necessity of a unified state policy aimed at the realization of the concept of biological safety is grounded. In particular, the expediency of the state support of research programs is emphasized. The organizational and practical measures, carried out by the Ministry of Health and Social Development in this field, are analyzed. The list of prospective measures for the organization of effective state regulation in the field of ensuring the biological safety of the country is given.

Ecological Monitoring and Compliance Program Fiscal Year 1999 Report

Energy Technology Data Exchange (ETDEWEB)

Cathy A. Wills

1999-12-01

The Ecological and Compliance program, funded through the U. S. Department of Energy, Nevada Operations Office, monitors the ecosystem of the Nevada Test Site (NTS) and ensures compliance with laws and regulations pertaining to NTS biota. This report summarizes the program's activities conducted by Bechtel Nevada during fiscal year 1999. Program activities included: (1) biological surveys at proposed construction sites (2) desert tortoise compliance (3) ecosystem mapping (4) sensitive species and unique habitat monitoring and (5) biological monitoring at the HAZMAT Spill Center.

An Evaluation of a Biological Slide-Tutorial Program.

Science.gov (United States)

Chan, Gordon L.

Described is an auto-tutorial slide program for zoology students. A self-paced system was devised for observing the subject matter covered in the twelve study units of a zoology course. The post-testing evaluation revealed that students with lower grade point averages achieved scores comparable with students of higher grade point averages.…

Other relevant numerical modelling papers

International Nuclear Information System (INIS)

Chartier, M.

1989-01-01

The ocean modelling is a rapidly evolving science and a large number of results have been published. Several categories of papers are of particular interest for this review: the papers published by the international atomic institutions, such as the NEA (for the CRESP or Subseabed Programs), the IAEA (for example the Safety Series, the Technical Report Series or the TECDOC), and the ICRP, and the papers concerned by more fundamental research, which are published in specific scientific literature. This paper aims to list some of the most relevant publications for the CRESP purposes. It means by no way to be exhaustive, but informative on the incontestable progress recently achieved in that field. One should note that some of these papers are so recent that their final version has not yet been published

Impacts of insufficient instructional materials on teaching biology: Higher education systems in focus

Directory of Open Access Journals (Sweden)

Sutuma Edessa

2017-01-01

Full Text Available Abstract The purpose of this study was to assess and determine impacts of insufficient instructional materials and ineffective lesson delivery methods on teaching in biology higher education. The participants of this study were 60 trainees who graduated in Bachelor of Sciences from eight public universities in majoring biology. Data for the study was collected while these trainees were attending the course of Biology Teaching Methods in the Post Graduate Diploma in Teaching, both in the regular and summer 2015/2016 training programs at Addis Ababa University. The study employs a mixed method design of both qualitative and quantitative data evaluations. Data was collected through classroom observations and interviews with the trainees. The findings indicated that insufficient instructional materials and ineffective teaching methods in higher education had negative impacts; that have affected the skills of performing biological tasks of graduates 71%. In the course of the Post Graduate Diploma in Teaching training, trainees were unsuccessful to conduct essential biological tasks expected from graduates of biology upon the completion of their undergraduate study program. The study was concluded with emphasis on the need to integrate theory and practice through using adequate instructional materials and proper teaching methods in the higher education biology teaching.

Survey of Biology Capstone Courses in American and Canadian Higher Education: Requirement, Content, and Skills

Science.gov (United States)

Haave, Neil C.

2015-01-01

Capstone experiences have high educational impact with various approaches available for biology. However, no information exists regarding the pervasiveness of capstone courses in Canadian and American biology programs. This study surveyed the prevalence and character of biology capstone courses in the USA and Canada. The survey included a majority…

Biology and Medicine Division annual report, 1981-1982

International Nuclear Information System (INIS)

1983-04-01

Separate abstracts were prepared for the 61 research reports in the 1981-1982 annual report for the Biology and Medicine Division of the Lawrence Berkeley Laboratory. Programs reviewed include research medicine, Donner Pavilion, environmental physiology, radiation biophysics and structural biophysics

The Biological and Chemical Oceanography Data Management Office

Science.gov (United States)

Allison, M. D.; Chandler, C. L.; Groman, R. C.; Wiebe, P. H.; Glover, D. M.; Gegg, S. R.

2011-12-01

Oceanography and marine ecosystem research are inherently interdisciplinary fields of study that generate and require access to a wide variety of measurements. In late 2006 the Biological and Chemical Oceanography Sections of the National Science Foundation (NSF) Geosciences Directorate Division of Ocean Sciences (OCE) funded the Biological and Chemical Oceanography Data Management Office (BCO-DMO). In late 2010 additional funding was contributed to support management of research data from the NSF Office of Polar Programs Antarctic Organisms & Ecosystems Program. The BCO-DMO is recognized in the 2011 Division of Ocean Sciences Sample and Data Policy as one of several program specific data offices that support NSF OCE funded researchers. BCO-DMO staff members offer data management support throughout the project life cycle to investigators from large national programs and medium-sized collaborative research projects, as well as researchers from single investigator awards. The office manages and serves all types of oceanographic data and information generated during the research process and contributed by the originating investigators. BCO-DMO has built a data system that includes the legacy data from several large ocean research programs (e.g. United States Joint Global Ocean Flux Study and United States GLOBal Ocean ECosystems Dynamics), to which data have been contributed from recently granted NSF OCE and OPP awards. The BCO-DMO data system can accommodate many different types of data including: in situ and experimental biological, chemical, and physical measurements; modeling results and synthesis data products. The system enables reuse of oceanographic data for new research endeavors, supports synthesis and modeling activities, provides availability of "real data" for K-12 and college level use, and provides decision-support field data for policy-relevant investigations. We will present an overview of the data management system capabilities including: map

National Strategy for Countering Biological Threats: Diplomacy and International Programs

Science.gov (United States)

2010-03-18

Regulations provide a framework for im- proving disease surveillance and reporting worldwide. In this regard, I continue to be concerned that Indonesia is not...State’s Biosecurity Engagement Program ( BEP ) is working to reduce the threat of bioterrorism through coop- erative activities to prevent terrorist...public and animal health worldwide. Since 2006, the BEP program has matured into a $37-million-a- year effort, focused on regions and countries where

Biological and chemical technologies research. FY 1995 annual summary report

Energy Technology Data Exchange (ETDEWEB)

None

1996-03-01

The annual summary report presents the fiscal year (FY) 1995 research activities and accomplishments for the United States Department of Energy (DOE) Biological and Chemical Technologies Research (BCTR) Program. This BCTR program resides within the Office of Industrial Technologies (OIT) of the Office of Energy Efficiency and Renewable Energy (EE). The annual summary report for 1995 (ASR 95) contains the following: program description (including BCTR program mission statement, historical background, relevance, goals and objectives); program structure and organization, selected technical and programmatic highlights for 1995; detailed descriptions of individual projects; a listing of program output, including a bibliography of published work; patents; and awards arising from work supported by the BCTR.

Systems Biology of Immune Response to Live and Inactivated Dengue Virus Vaccines

Science.gov (United States)

2017-09-01

AWARD NUMBER: W81XWH-16-2-0032 TITLE: Systems Biology of Immune Response to Live and Inactivated Dengue Virus Vaccines PRINCIPAL INVESTIGATOR...CONTRACT NUMBER Systems Biology of Immune Response to Live and Inactivated Dengue Virus Vaccines 5b. GRANT NUMBER W81XWH-16-2-0032 5c. PROGRAM ELEMENT...cell) responses will be measured using molecular and cellular approaches and the data analyzed using a systems biology approach. During the first

NASA Space Biology Plant Research for 2010-2020

Science.gov (United States)

Levine, H. G.; Tomko, D. L.; Porterfield, D. M.

2012-01-01

The U.S. National Research Council (NRC) recently published "Recapturing a Future for Space Exploration: Life and Physical Sciences Research for a New Era" (http://www.nap.edu/catalog.php?record id=13048), and NASA completed a Space Biology Science Plan to develop a strategy for implementing its recommendations ( http://www.nasa.gov/exploration/library/esmd documents.html). The most important recommendations of the NRC report on plant biology in space were that NASA should: (1) investigate the roles of microbial-plant systems in long-term bioregenerative life support systems, and (2) establish a robust spaceflight program of research analyzing plant growth and physiological responses to the multiple stimuli encountered in spaceflight environments. These efforts should take advantage of recently emerged analytical technologies (genomics, transcriptomics, proteomics, metabolomics) and apply modern cellular and molecular approaches in the development of a vigorous flight-based and ground-based research program. This talk will describe NASA's strategy and plans for implementing these NRC Plant Space Biology recommendations. New research capabilities for Plant Biology, optimized by providing state-of-the-art automated technology and analytical techniques to maximize scientific return, will be described. Flight experiments will use the most appropriate platform to achieve science results (e.g., ISS, free flyers, sub-orbital flights) and NASA will work closely with its international partners and other U.S. agencies to achieve its objectives. One of NASA's highest priorities in Space Biology is the development research capabilities for use on the International Space Station and other flight platforms for studying multiple generations of large plants. NASA will issue recurring NASA Research Announcements (NRAs) that include a rapid turn-around model to more fully engage the biology community in designing experiments to respond to the NRC recommendations. In doing so, NASA

Third report on the Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

Energy Technology Data Exchange (ETDEWEB)

Loar, J.M. [ed.; Adams, S.M.; Bailey, R.D. [and others

1994-03-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1985, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. The BMAP currently consists of six major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs at ORNL. These are (1) toxicity monitoring, (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota, (3) biological indicator studies, (4) instream ecological monitoring, (5) assessment of contaminants in the terrestrial environment, and (6) radioecology of WOC and White Oak Lake (WOL). The investigation of contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system was originally a task of the BMAP but, in 1988, was incorporated into the Resource Conservation and Recovery Act Facility Investigation for the Clinch River, a separate study to assess offsite contamination from all three Department of Energy facilities in Oak Ridge.

Third report on the Oak Ridge National Laboratory Biological Monitoring and Abatement Program for White Oak Creek Watershed and the Clinch River

International Nuclear Information System (INIS)

Loar, J.M.; Adams, S.M.; Bailey, R.D.

1994-03-01

As a condition of the National Pollutant Discharge Elimination System (NPDES) permit issued to Oak Ridge National Laboratory (ORNL) on April 1, 1985, a Biological Monitoring and Abatement Program (BMAP) was developed for White Oak Creek (WOC); selected tributaries of WOC, including Fifth Creek, First Creek, Melton Branch, and Northwest Tributary; and the Clinch River. The BMAP currently consists of six major tasks that address both radiological and nonradiological contaminants in the aquatic and terrestrial environs at ORNL. These are (1) toxicity monitoring, (2) bioaccumulation monitoring of nonradiological contaminants in aquatic biota, (3) biological indicator studies, (4) instream ecological monitoring, (5) assessment of contaminants in the terrestrial environment, and (6) radioecology of WOC and White Oak Lake (WOL). The investigation of contaminant transport, distribution, and fate in the WOC embayment-Clinch River-Watts Bar Reservoir system was originally a task of the BMAP but, in 1988, was incorporated into the Resource Conservation and Recovery Act Facility Investigation for the Clinch River, a separate study to assess offsite contamination from all three Department of Energy facilities in Oak Ridge

The impact of a prospective survey-based workplace intervention program on employee health, biologic stress markers, and organizational productivity.

Science.gov (United States)

Anderzén, Ingrid; Arnetz, Bengt B

2005-07-01

To study whether knowledge about psychosocial work indicators and a structured method to implement changes based on such knowledge comprise an effective management tool for enhancing organizational as well as employee health and well-being. White- collar employees representing 22 different work units were assessed before and after a 1-year intervention program. Subjective ratings on health and work environment, biologic markers, absenteeism, and productivity were measured. Significant improvements in performance feedback, participatory management, employeeship, skills development, efficiency, leadership, employee well-being, and work-related exhaustion were identified. The restorative hormone testosterone increased during the intervention and changes correlated with increased overall organizational well-being. Absenteeism decreased and productivity improved. Fact-based psychosocial workplace interventions are suggested to be an important process for enhancing employee well-being as well as organizational performance.

Analisis Aplikasi Konsep Gaya dalam Fisika yang Berkaitan dengan Bidang Biologi

Directory of Open Access Journals (Sweden)

Toto Toto

2017-06-01

Full Text Available Abstract In general, students of Biology faculty study program of Universitas Galuh Ciamis viewed physics as a difficult subject (based on interview result of writer with some students. This statement is reinforced by the acquisition of less satisfactory physics courses. They are less interested in the subject of physics with a variety of reasons including counting material that requires them to memorize many formulas and theories. In the course of physics in the biology program should be equipped application of concepts and principles of physics in the field of biology. It is very important to facilitate students in mastering and enjoying physics courses. In this study, documentation study of biology books in the subjects of General Biology in 1st semester. Based on the analysis there are application of the concept of style in the subject material of General Biology namely: capillarity style on xylem and phloem; Force on muscle tissue; And food peristaltic style. The results of this study are useful as a basis for the preparation of physics-oriented teaching materials of biological science, so that biology students are expected to be interested in physics. As a recommendation that analysis of the application of concepts and principles of physics in biology must be done in a continuous manner. Keywords: Style concept application. Abstrak Pada umumnya  mahasiswa prodi pendidikan biologi FKIP Universitas Galuh Ciamis  memandang fisika sebagai mata kuliah yang sulit (berdasarkan hasil wawancara penulis dengan beberapa mahasiswa. Pernyataan ini diperkuat  dengan perolehan nilai mata kuliah fisika yang kurang memuaskan. Mereka kurang tertarik pada mata kuliah fisika dengan berbagai alasan diantaranya banyak materi hitungan yang mengharuskan mereka menghapal banyak rumus dan teori. Dalam perkuliahan fisika pada prodi biologi seharusnya dilengkapi aplikasi konsep dan prinsip-prinsip fisika dalam bidang biologi. Hal tersebut sangat penting untuk

STRUCTURAL BIOLOGY AND MOLECULAR MEDICINE RESEARCH PROGRAM (LSBMM)

International Nuclear Information System (INIS)

Eisenberg, David S.

2008-01-01

The UCLA-DOE Institute of Genomics and Proteomics is an organized research unit of the University of California, sponsored by the Department of Energy through the mechanism of a Cooperative Agreement. Today the Institute consists of 10 Principal Investigators and 7 Associate Members, developing and applying technologies to promote the biological and environmental missions of the Department of Energy, and 5 Core Technology Centers to sustain this work. The focus is on understanding genomes, pathways and molecular machines in organisms of interest to DOE, with special emphasis on developing enabling technologies. Since it was founded in 1947, the UCLA-DOE Institute has adapted its mission to the research needs of DOE and its progenitor agencies as these research needs have changed. The Institute started as the AEC Laboratory of Nuclear Medicine, directed by Stafford Warren, who later became the founding Dean of the UCLA School of Medicine. In this sense, the entire UCLA medical center grew out of the precursor of our Institute. In 1963, the mission of the Institute was expanded into environmental studies by Director Ray Lunt. I became the third director in 1993, and in close consultation with David Galas and John Wooley of DOE, shifted the mission of the Institute towards genomics and proteomics. Since 1993, the Principal Investigators and Core Technology Centers are entirely new, and the Institute has separated from its former division concerned with PET imaging. The UCLA-DOE Institute shares the space of Boyer Hall with the Molecular Biology Institute, and assumes responsibility for the operation of the main core facilities. Fig. 1 gives the organizational chart of the Institute. Some of the benefits to the public of research carried out at the UCLA-DOE Institute include the following: The development of publicly accessible, web-based databases, including the Database of Protein Interactions, and the ProLinks database of genomicly inferred protein function linkages

Classical Biological Control of Invasive Legacy Crop Pests: New Technologies Offer Opportunities to Revisit Old Pest Problems in Perennial Tree Crops

Directory of Open Access Journals (Sweden)

Mark S. Hoddle

2014-12-01

Full Text Available Advances in scientific disciplines that support classical biological control have provided “new tools” that could have important applications for biocontrol programs for some long-established invasive arthropod pests. We suggest that these previously unavailable tools should be used in biological control programs targeting “legacy pests”, even if they have been targets of previously unsuccessful biocontrol projects. Examples of “new tools” include molecular analyses to verify species identities and likely geographic area of origin, climate matching and ecological niche modeling, preservation of natural enemy genetic diversity in quarantine, the use of theory from invasion biology to maximize establishment likelihoods for natural enemies, and improved understanding of the interactions between natural enemy and target pest microbiomes. This review suggests that opportunities exist for revisiting old pest problems and funding research programs using “new tools” for developing biological control programs for “legacy pests” could provide permanent suppression of some seemingly intractable pest problems. As a case study, we use citricola scale, Coccus pseudomagnoliarum, an invasive legacy pest of California citrus, to demonstrate the potential of new tools to support a new classical biological control program targeting this insect.

The Systems Biology Research Tool: evolvable open-source software

Directory of Open Access Journals (Sweden)

Wright Jeremiah

2008-06-01

Full Text Available Abstract Background Research in the field of systems biology requires software for a variety of purposes. Software must be used to store, retrieve, analyze, and sometimes even to collect the data obtained from system-level (often high-throughput experiments. Software must also be used to implement mathematical models and algorithms required for simulation and theoretical predictions on the system-level. Results We introduce a free, easy-to-use, open-source, integrated software platform called the Systems Biology Research Tool (SBRT to facilitate the computational aspects of systems biology. The SBRT currently performs 35 methods for analyzing stoichiometric networks and 16 methods from fields such as graph theory, geometry, algebra, and combinatorics. New computational techniques can be added to the SBRT via process plug-ins, providing a high degree of evolvability and a unifying framework for software development in systems biology. Conclusion The Systems Biology Research Tool represents a technological advance for systems biology. This software can be used to make sophisticated computational techniques accessible to everyone (including those with no programming ability, to facilitate cooperation among researchers, and to expedite progress in the field of systems biology.

Biological Research in Canisters (BRIC) - Light Emitting Diode (LED)

Science.gov (United States)

Levine, Howard G.; Caron, Allison

2016-01-01

The Biological Research in Canisters - LED (BRIC-LED) is a biological research system that is being designed to complement the capabilities of the existing BRIC-Petri Dish Fixation Unit (PDFU) for the Space Life and Physical Sciences (SLPS) Program. A diverse range of organisms can be supported, including plant seedlings, callus cultures, Caenorhabditis elegans, microbes, and others. In the event of a launch scrub, the entire assembly can be replaced with an identical back-up unit containing freshly loaded specimens.

Hemovigilance Program-India

Directory of Open Access Journals (Sweden)

Akanksha Bisht

2013-01-01

Full Text Available A centralized hemovigilance program to assure patient safety and to promote public health has been launched for the first time in India on Dec 10, 2012 in 60 medical colleges in the first phase along with a well-structured program for monitoring adverse reactions associated with blood transfusion and blood product administration. National Institute of Biologicals (NIB will be the National Coordinating Centre for Hemovigilance. This program will be implemented under overall ambit of Pharmacovigilance Program of India (PvPI, which is being coordinated by Indian Pharmacopoeia Commission (IPC. All medical colleges of the country will be enrolled in this program by the year 2016 in order to have a National Centre of Excellence for Hemovigilance at NIB, which will act as a global knowledge platform.

Biological and technological effects of some mulberry varieties and ...

African Journals Online (AJOL)

egyptian hak

The relatively new technique of outline-based geometric morphometrics was applied in a study of the variation in the .... Institute of Math Problems of Biology, Moscow Region, Russia (program). ... PhD Thesis, University of Montellier II. Orsini P ...

The Development of a Post-Baccalaureate Certificate Program in Molecular Diagnostics

Science.gov (United States)

Williams, Gail S.; Brown, Judith D.; Keagle, Martha B.

2000-01-01

A post-baccalaureate certificate program in diagnostic molecular sciences was created in 1995 by the Diagnostic Genetic Sciences Program in the School of Allied Health at the University of Connecticut. The required on-campus lecture and laboratory courses include basic laboratory techniques, health care issues, cell biology, immunology, human genetics, research, management, and molecular diagnostic techniques and laboratory in molecular diagnostics. These courses precede a 6-month, full-time practicum at an affiliated full-service molecular laboratory. The practicum includes amplification and blotting methods, a research project, and a choice of specialized electives including DNA sequencing, mutagenesis, in situ hybridization methods, or molecular diagnostic applications in microbiology. Graduates of the program are immediately eligible to sit for the National Credentialing Agency examination in molecular biology to obtain the credential Clinical Laboratory Specialist in Molecular Biology (CLSp(MB). This description of the University of Connecticut program may assist other laboratory science programs in creating similar curricula. PMID:11232107

Nutritional programming of reproductive development in heifers

Science.gov (United States)

Developmental programming is the biological process by which environmental factors influence the development of the organs and tissues in the body. There are two areas of developmental programming being investigated with applicability to beef production systems to improve performance of replacement...

Kangaroo – A pattern-matching program for biological sequences

Directory of Open Access Journals (Sweden)

Betel Doron

2002-07-01

Full Text Available Abstract Background Biologists are often interested in performing a simple database search to identify proteins or genes that contain a well-defined sequence pattern. Many databases do not provide straightforward or readily available query tools to perform simple searches, such as identifying transcription binding sites, protein motifs, or repetitive DNA sequences. However, in many cases simple pattern-matching searches can reveal a wealth of information. We present in this paper a regular expression pattern-matching tool that was used to identify short repetitive DNA sequences in human coding regions for the purpose of identifying potential mutation sites in mismatch repair deficient cells. Results Kangaroo is a web-based regular expression pattern-matching program that can search for patterns in DNA, protein, or coding region sequences in ten different organisms. The program is implemented to facilitate a wide range of queries with no restriction on the length or complexity of the query expression. The program is accessible on the web at http://bioinfo.mshri.on.ca/kangaroo/ and the source code is freely distributed at http://sourceforge.net/projects/slritools/. Conclusion A low-level simple pattern-matching application can prove to be a useful tool in many research settings. For example, Kangaroo was used to identify potential genetic targets in a human colorectal cancer variant that is characterized by a high frequency of mutations in coding regions containing mononucleotide repeats.

Biological Applications of Hybrid Quantum Mechanics/Molecular Mechanics Calculation

Directory of Open Access Journals (Sweden)

Jiyoung Kang

2012-01-01

Full Text Available Since in most cases biological macromolecular systems including solvent water molecules are remarkably large, the computational costs of performing ab initio calculations for the entire structures are prohibitive. Accordingly, QM calculations that are jointed with MM calculations are crucial to evaluate the long-range electrostatic interactions, which significantly affect the electronic structures of biological macromolecules. A UNIX-shell-based interface program connecting the quantum mechanics (QMs and molecular mechanics (MMs calculation engines, GAMESS and AMBER, was developed in our lab. The system was applied to a metalloenzyme, azurin, and PU.1-DNA complex; thereby, the significance of the environmental effects on the electronic structures of the site of interest was elucidated. Subsequently, hybrid QM/MM molecular dynamics (MD simulation using the calculation system was employed for investigation of mechanisms of hydrolysis (editing reaction in leucyl-tRNA synthetase complexed with the misaminoacylated tRNALeu, and a novel mechanism of the enzymatic reaction was revealed. Thus, our interface program can play a critical role as a powerful tool for state-of-the-art sophisticated hybrid ab initio QM/MM MD simulations of large systems, such as biological macromolecules.

76 FR 8708 - Availability of an Environmental Assessment and Finding of No Significant Impact for a Biological...

Science.gov (United States)

2011-02-15

...] Availability of an Environmental Assessment and Finding of No Significant Impact for a Biological Control Agent... have been prepared by the Animal and Plant Health Inspection Service relative to a proposed biological... review and analysis of environmental impacts associated with the proposed biological control program...

Googling trends in conservation biology.

Science.gov (United States)

Proulx, Raphaël; Massicotte, Philippe; Pépino, Marc

2014-02-01

Web-crawling approaches, that is, automated programs data mining the internet to obtain information about a particular process, have recently been proposed for monitoring early signs of ecosystem degradation or for establishing crop calendars. However, lack of a clear conceptual and methodological framework has prevented the development of such approaches within the field of conservation biology. Our objective was to illustrate how Google Trends, a freely accessible web-crawling engine, can be used to track changes in timing of biological processes, spatial distribution of invasive species, and level of public awareness about key conservation issues. Google Trends returns the number of internet searches that were made for a keyword in a given region of the world over a defined period. Using data retrieved online for 13 countries, we exemplify how Google Trends can be used to study the timing of biological processes, such as the seasonal recurrence of pollen release or mosquito outbreaks across a latitudinal gradient. We mapped the spatial extent of results from Google Trends for 5 invasive species in the United States and found geographic patterns in invasions that are consistent with their coarse-grained distribution at state levels. From 2004 through 2012, Google Trends showed that the level of public interest and awareness about conservation issues related to ecosystem services, biodiversity, and climate change increased, decreased, and followed both trends, respectively. Finally, to further the development of research approaches at the interface of conservation biology, collective knowledge, and environmental management, we developed an algorithm that allows the rapid retrieval of Google Trends data. © 2013 Society for Conservation Biology.

Amchitka radiobiological program progress report, January 1976--December 1976

International Nuclear Information System (INIS)

Nelson, V.A.; Seymour, A.H.

1977-05-01

The Amchitka Radiobiological Program is a continuing program to collect biological and environmental samples for radiometric analyses. Results of analyses for samples collected during 1976 include gamma-emitting radionuclides in air filters, freshwater, birds, lichens, marine algae, marine invertebrates, fish, aufwuchs, and freshwater moss and plants; 90 Sr in rats, birds, and soil; 239 240 Pu in sand, soil, marine algae and fish; and tritium ( 3 H) in seawater, freshwater, and biological organisms

Logic integer programming models for signaling networks.

Science.gov (United States)

Haus, Utz-Uwe; Niermann, Kathrin; Truemper, Klaus; Weismantel, Robert

2009-05-01

We propose a static and a dynamic approach to model biological signaling networks, and show how each can be used to answer relevant biological questions. For this, we use the two different mathematical tools of Propositional Logic and Integer Programming. The power of discrete mathematics for handling qualitative as well as quantitative data has so far not been exploited in molecular biology, which is mostly driven by experimental research, relying on first-order or statistical models. The arising logic statements and integer programs are analyzed and can be solved with standard software. For a restricted class of problems the logic models reduce to a polynomial-time solvable satisfiability algorithm. Additionally, a more dynamic model enables enumeration of possible time resolutions in poly-logarithmic time. Computational experiments are included.

Biology Division progress report for the period of October 1, 1986--September 30, 1988

Energy Technology Data Exchange (ETDEWEB)

1988-09-01

The Biology Division of the Oak Ridge National Laboratory is one component of the Department of Energy's intramural program in life sciences. Accordingly, /approximately/75% of the Division's total budget is derived from the Department of Energy through its Office of Health and Environmental Research. With respect to experimental biology, the congressionally mandated mission of this Office is to study adverse health effects of energy production and utilization. Within this stated broad mission, common themes among the research programs of the Biology Division are interactions of animals, cells, and molecules with their respective environments. Investigations focus on genetic and somatic effects of radiation and chemicals. Goals include identification and quantification of these effects, elucidation of pathways by which the effects are expressed, assessment of risks associated with radiation and chemical exposures, and establishment of strategies for extrapolation of risk data from animals to humans. Concurrent basic studies in genetics, biochemistry, molecular biology, and cell biology illuminate normal life processes as prerequisites to comprehending mutagenic and carcinogenic effects of environmental agents.

A Friendly-Biological Reactor SIMulator (BioReSIM for studying biological processes in wastewater treatment processes

Directory of Open Access Journals (Sweden)

Raul Molina

2014-12-01

Full Text Available Biological processes for wastewater treatments are inherently dynamic systems because of the large variations in the influent wastewater flow rate, concentration composition and the adaptive behavior of the involved microorganisms. Moreover, the sludge retention time (SRT is a critical factor to understand the bioreactor performances when changes in the influent or in the operation conditions take place. Since SRT are usually in the range of 10-30 days, the performance of biological reactors needs a long time to be monitored in a regular laboratory demonstration, limiting the knowledge that can be obtained in the experimental lab practice. In order to overcome this lack, mathematical models and computer simulations are useful tools to describe biochemical processes and predict the overall performance of bioreactors under different working operation conditions and variations of the inlet wastewater composition. The mathematical solution of the model could be difficult as numerous biochemical processes can be considered. Additionally, biological reactors description (mass balance, etc. needs models represented by partial or/and ordinary differential equations associated to algebraic expressions, that require complex computational codes to obtain the numerical solutions. Different kind of software for mathematical modeling can be used, from large degree of freedom simulators capable of free models definition (as AQUASIM, to closed predefined model structure programs (as BIOWIN. The first ones usually require long learning curves, whereas the second ones could be excessively rigid for specific wastewater treatment systems. As alternative, we present Biological Reactor SIMulator (BioReSIM, a MATLAB code for the simulation of sequencing batch reactors (SBR and rotating biological contactors (RBC as biological systems of suspended and attached biomass for wastewater treatment, respectively. This BioReSIM allows the evaluation of simple and complex

The Case for Cyberlearning: Genomics (and Dragons!) in the High School Biology Classroom

Science.gov (United States)

Southworth, Meghan; Mokros, Jan; Dorsey, Chad; Smith, Randy

2010-01-01

GENIQUEST is a cyberlearning computer program that allows students to investigate biological data using a research-based instructional model. In this article, the authors make the case for using cyberlearning to teach students about the rapidly growing fields of genomics and computational biology. (Contains 2 figures and 1 online resource.)

Bayes in biological anthropology.

Science.gov (United States)

Konigsberg, Lyle W; Frankenberg, Susan R

2013-12-01

In this article, we both contend and illustrate that biological anthropologists, particularly in the Americas, often think like Bayesians but act like frequentists when it comes to analyzing a wide variety of data. In other words, while our research goals and perspectives are rooted in probabilistic thinking and rest on prior knowledge, we often proceed to use statistical hypothesis tests and confidence interval methods unrelated (or tenuously related) to the research questions of interest. We advocate for applying Bayesian analyses to a number of different bioanthropological questions, especially since many of the programming and computational challenges to doing so have been overcome in the past two decades. To facilitate such applications, this article explains Bayesian principles and concepts, and provides concrete examples of Bayesian computer simulations and statistics that address questions relevant to biological anthropology, focusing particularly on bioarchaeology and forensic anthropology. It also simultaneously reviews the use of Bayesian methods and inference within the discipline to date. This article is intended to act as primer to Bayesian methods and inference in biological anthropology, explaining the relationships of various methods to likelihoods or probabilities and to classical statistical models. Our contention is not that traditional frequentist statistics should be rejected outright, but that there are many situations where biological anthropology is better served by taking a Bayesian approach. To this end it is hoped that the examples provided in this article will assist researchers in choosing from among the broad array of statistical methods currently available. Copyright © 2013 Wiley Periodicals, Inc.

Is synthetic biology mechanical biology?

Science.gov (United States)

Holm, Sune

2015-12-01

A widespread and influential characterization of synthetic biology emphasizes that synthetic biology is the application of engineering principles to living systems. Furthermore, there is a strong tendency to express the engineering approach to organisms in terms of what seems to be an ontological claim: organisms are machines. In the paper I investigate the ontological and heuristic significance of the machine analogy in synthetic biology. I argue that the use of the machine analogy and the aim of producing rationally designed organisms does not necessarily imply a commitment to mechanical biology. The ideal of applying engineering principles to biology is best understood as expressing recognition of the machine-unlikeness of natural organisms and the limits of human cognition. The paper suggests an interpretation of the identification of organisms with machines in synthetic biology according to which it expresses a strategy for representing, understanding, and constructing living systems that are more machine-like than natural organisms.

Microradiagraphy of biological samples with Timepix

Czech Academy of Sciences Publication Activity Database

Dammer, J.; Weyda, František; Beneš, J.; Sopko, V.; Jakůbek, J.; Vondráček, V.

2011-01-01

Roč. 6, C11005 (2011), s. 1-6 ISSN 1748-0221. [International workshop on radiation imaging detectors /13./. Zurich, 03.07.2011-07.07.2011] R&D Projects: GA MŠk 2B06005 Grant - others:GA MŠk(CZ) LC06041; GA AV ČR(CZ) IAA600550614; GA MŠk(CZ) 2B06007; Research Program(CZ) 6840770029; Research Program(CZ) 6840770040; GA MŠk-spolupráce s CERN(CZ) 1P04LA211 Program:LC; IA; 2B; 1P Institutional research plan: CEZ:AV0Z50070508 Keywords : X-ray detectors * X-ray radiography and digital radiography (DR) * pixelated detectors and associated VLSI electronics Subject RIV: EA - Cell Biology Impact factor: 1.869, year: 2011 http://iopscience.iop.org/1748-0221/6/11/C11005/pdf/1748-0221_6_11_C11005.pdf

Chaste: A test-driven approach to software development for biological modelling

KAUST Repository

Pitt-Francis, Joe

2009-12-01

Chaste (\\'Cancer, heart and soft-tissue environment\\') is a software library and a set of test suites for computational simulations in the domain of biology. Current functionality has arisen from modelling in the fields of cancer, cardiac physiology and soft-tissue mechanics. It is released under the LGPL 2.1 licence. Chaste has been developed using agile programming methods. The project began in 2005 when it was reasoned that the modelling of a variety of physiological phenomena required both a generic mathematical modelling framework, and a generic computational/simulation framework. The Chaste project evolved from the Integrative Biology (IB) e-Science Project, an inter-institutional project aimed at developing a suitable IT infrastructure to support physiome-level computational modelling, with a primary focus on cardiac and cancer modelling. Program summary: Program title: Chaste. Catalogue identifier: AEFD_v1_0. Program summary URL: http://cpc.cs.qub.ac.uk/summaries/AEFD_v1_0.html. Program obtainable from: CPC Program Library, Queen\\'s University, Belfast, N. Ireland. Licensing provisions: LGPL 2.1. No. of lines in distributed program, including test data, etc.: 5 407 321. No. of bytes in distributed program, including test data, etc.: 42 004 554. Distribution format: tar.gz. Programming language: C++. Operating system: Unix. Has the code been vectorised or parallelized?: Yes. Parallelized using MPI. RAM:< 90   Megabytes for two of the scenarios described in Section 6 of the manuscript (Monodomain re-entry on a slab or Cylindrical crypt simulation). Up to 16 Gigabytes (distributed across processors) for full resolution bidomain cardiac simulation. Classification: 3. External routines: Boost, CodeSynthesis XSD, CxxTest, HDF5, METIS, MPI, PETSc, Triangle, Xerces. Nature of problem: Chaste may be used for solving coupled ODE and PDE systems arising from modelling biological systems. Use of Chaste in two application areas are described in this paper: cardiac

Current dichotomy between traditional molecular biological and omic research in cancer biology and pharmacology.

Science.gov (United States)

Reinhold, William C

2015-12-10

There is currently a split within the cancer research community between traditional molecular biological hypothesis-driven and the more recent "omic" forms or research. While the molecular biological approach employs the tried and true single alteration-single response formulations of experimentation, the omic employs broad-based assay or sample collection approaches that generate large volumes of data. How to integrate the benefits of these two approaches in an efficient and productive fashion remains an outstanding issue. Ideally, one would merge the understandability, exactness, simplicity, and testability of the molecular biological approach, with the larger amounts of data, simultaneous consideration of multiple alterations, consideration of genes both of known interest along with the novel, cross-sample comparisons among cell lines and patient samples, and consideration of directed questions while simultaneously gaining exposure to the novel provided by the omic approach. While at the current time integration of the two disciplines remains problematic, attempts to do so are ongoing, and will be necessary for the understanding of the large cell line screens including the Developmental Therapeutics Program's NCI-60, the Broad Institute's Cancer Cell Line Encyclopedia, and the Wellcome Trust Sanger Institute's Cancer Genome Project, as well as the the Cancer Genome Atlas clinical samples project. Going forward there is significant benefit to be had from the integration of the molecular biological and the omic forms or research, with the desired goal being improved translational understanding and application.

Permanent foresty plots: a potentially valuable teaching resource in undergraduate biology porgrams for the Caribbean

Science.gov (United States)

H. Valles; C.M.S. Carrington

2016-01-01

There has been a recent proposal to change the way that biology is taught and learned in undergraduate biology programs in the USA so that students develop a better understanding of science and the natural world. Here, we use this new, recommended teaching– learning framework to assert that permanent forestry plots could be a valuable tool to help develop biology...

Computational Biology Support: RECOMB Conference Series (Conference Support)

Energy Technology Data Exchange (ETDEWEB)

Michael Waterman

2006-06-15

This funding was support for student and postdoctoral attendance at the Annual Recomb Conference from 2001 to 2005. The RECOMB Conference series was founded in 1997 to provide a scientific forum for theoretical advances in computational biology and their applications in molecular biology and medicine. The conference series aims at attracting research contributions in all areas of computational molecular biology. Typical, but not exclusive, the topics of interest are: Genomics, Molecular sequence analysis, Recognition of genes and regulatory elements, Molecular evolution, Protein structure, Structural genomics, Gene Expression, Gene Networks, Drug Design, Combinatorial libraries, Computational proteomics, and Structural and functional genomics. The origins of the conference came from the mathematical and computational side of the field, and there remains to be a certain focus on computational advances. However, the effective use of computational techniques to biological innovation is also an important aspect of the conference. The conference had a growing number of attendees, topping 300 in recent years and often exceeding 500. The conference program includes between 30 and 40 contributed papers, that are selected by a international program committee with around 30 experts during a rigorous review process rivaling the editorial procedure for top-rate scientific journals. In previous years papers selection has been made from up to 130--200 submissions from well over a dozen countries. 10-page extended abstracts of the contributed papers are collected in a volume published by ACM Press and Springer, and are available at the conference. Full versions of a selection of the papers are published annually in a special issue of the Journal of Computational Biology devoted to the RECOMB Conference. A further point in the program is a lively poster session. From 120-300 posters have been presented each year at RECOMB 2000. One of the highlights of each RECOMB conference is a

Knowledge base and functionality of concepts of some Filipino biology teachers in five biology topics

Science.gov (United States)

Barquilla, Manuel B.

2018-01-01

This mixed research, is a snapshot of some Filipino Biology teachers' knowledge structure and how their concepts of the five topics in Biology (Photosynthesis, Cellular Respiration, human reproductive system, Mendelian genetics and NonMendelian genetics) functions and develops inside a biology classroom. The study focuses on the six biology teachers and a total of 222 students in their respective classes. Of the Six (6) teachers, three (3) are under the Science curriculum and the other three (3) are under regular curriculum in both public and private schools in Iligan city and Lanao del Norte, Philippines. The study utilized classroom discourses, concept maps, interpretative case-study method, bracketing method, and concept analysis for qualitative part; the quantitative part uses a nonparametric statistical tool, Kendall's tau Coefficient for determining relationship and congruency while measures of central tendencies and dispersion (mean, and standard deviation) for concept maps scores interpretation. Knowledge Base of Biology teachers were evaluated by experts in field of specialization having a doctorate program (e.g. PhD in Genetics) and PhD Biology candidates. The data collection entailed seven (7) months immersion: one (1) month for preliminary phase for the researcher to gain teachers' and students' confidence and the succeeding six (6) months for main observation and data collection. The evaluation of teachers' knowledge base by experts indicated that teachers' knowledge of (65%) is lower than the minimum (75%) recommended by ABD-el-Khalick and Boujaoude (1997). Thus, the experts believe that content knowledge of the teachers is hardly adequate for their teaching assignment. Moreover, the teachers in this study do not systematically use reallife situation to apply the concepts they teach. They can identify concepts too abstract for their student; however, they seldom use innovative ways to bring the discussion to their students' level of readiness and

SERI Biomass Program. FY 1983 annual report

Energy Technology Data Exchange (ETDEWEB)

Corder, R.E.; Hill, A.M.; Lindsey, H.; Lowenstein, M.Z.; McIntosh, R.P.

1984-02-01

This report summarizes the progress and research accomplishments of the SERI Biomass Program during FY 1983. The SERI Biomass Program consists of three elements: Aquatic Species, Anaerobic Digestion, and Photo/Biological Hydrogen. Each element has been indexed separately. 2 references, 44 figures, 22 tables.

Teaching Cell Biology in Primary Schools

Directory of Open Access Journals (Sweden)

Francele de Abreu Carlan

2014-01-01

Full Text Available Basic concepts of cell biology are essential for scientific literacy. However, because many aspects of cell theory and cell functioning are quite abstract, students experience difficulties understanding them. In this study, we investigated whether diverse teaching resources such as the use of replicas of Leeuwenhoek’s microscope, visualization of cells using an optical microscope, construction of three-dimensional cell models, and reading of a comic book about cells could mitigate the difficulties encountered when teaching cell biology to 8th-grade primary school students. The results suggest that these didactic activities improve students’ ability to learn concrete concepts about cell biology, such as the composition of living beings, growth, and cicatrization. Also, the development of skills was observed, as, for example, the notion of cell size. However, no significant improvements were observed in students’ ability to learn about abstract topics, such as the structures of subcellular organelles and their functions. These results suggest that many students in this age have not yet concluded Piaget’s concrete operational stage, indicating that the concepts required for the significant learning of abstract subjects need to be explored more thoroughly in the process of designing programs that introduce primary school students to cell biology.

Isobio software: biological dose distribution and biological dose volume histogram from physical dose conversion using linear-quadratic-linear model.

Science.gov (United States)

Jaikuna, Tanwiwat; Khadsiri, Phatchareewan; Chawapun, Nisa; Saekho, Suwit; Tharavichitkul, Ekkasit

2017-02-01

To develop an in-house software program that is able to calculate and generate the biological dose distribution and biological dose volume histogram by physical dose conversion using the linear-quadratic-linear (LQL) model. The Isobio software was developed using MATLAB version 2014b to calculate and generate the biological dose distribution and biological dose volume histograms. The physical dose from each voxel in treatment planning was extracted through Computational Environment for Radiotherapy Research (CERR), and the accuracy was verified by the differentiation between the dose volume histogram from CERR and the treatment planning system. An equivalent dose in 2 Gy fraction (EQD 2 ) was calculated using biological effective dose (BED) based on the LQL model. The software calculation and the manual calculation were compared for EQD 2 verification with pair t -test statistical analysis using IBM SPSS Statistics version 22 (64-bit). Two and three-dimensional biological dose distribution and biological dose volume histogram were displayed correctly by the Isobio software. Different physical doses were found between CERR and treatment planning system (TPS) in Oncentra, with 3.33% in high-risk clinical target volume (HR-CTV) determined by D 90% , 0.56% in the bladder, 1.74% in the rectum when determined by D 2cc , and less than 1% in Pinnacle. The difference in the EQD 2 between the software calculation and the manual calculation was not significantly different with 0.00% at p -values 0.820, 0.095, and 0.593 for external beam radiation therapy (EBRT) and 0.240, 0.320, and 0.849 for brachytherapy (BT) in HR-CTV, bladder, and rectum, respectively. The Isobio software is a feasible tool to generate the biological dose distribution and biological dose volume histogram for treatment plan evaluation in both EBRT and BT.

Water Quality Monitoring: An Environmental Studies Unit for Biology 20/30. Teacher's Guide.

Science.gov (United States)

Alberta Environment, Edmonton. Environmental Education Resources Branch.

The objective of this environmental studies unit is to establish a water quality monitoring project for high school students in Alberta while simultaneously providing a unit which meets the objectives of the Biology 20 program (and which may also be used in Biology 10 and 30). Through this project, students assist in the collection,…

Water Quality Monitoring: An Environmental Studies Unit for Biology 20/30. Student Manual.

Science.gov (United States)

Alberta Environment, Edmonton. Environmental Education Resources Branch.

The objective of this environmental studies unit is to establish a water quality monitoring project for high school students in Alberta while simultaneously providing a unit which meets the objectives of the Biology 20 program (and which may also be used in Biology 10 and 30). Through this project, students assist in the collection,…

Biological effects of neutrons

Energy Technology Data Exchange (ETDEWEB)

Ogiu, Toshiaki; Ohmachi, Yasushi; Ishida, Yuka [National Inst. of Radiological Sciences, Chiba (JP)] [and others

2003-03-01

Although the occasion to be exposed to neutrons is rare in our life, except for nuclear accidents like in the critical accident at Tokai-mura in 1999, countermeasures against accident should be always prepared. In the Tokai-mura accident, residents received less than 21 mSv of neutrons and gamma rays. The cancer risks and fetal effects of low doses of neutrons were matters of concern among residents. The purpose of this program is to investigate the relative biological effectiveness (RBE) for leukemias, and thereby to assess risks of neutrons. Animal experiments are planed to obtain the following RBEs: (1) RBE for the induction of leukemias in mice and (2) RBE for effects on fetuses. Cyclotron fast neutrons (10 MeV) and electrostatic accelerator-derived neutrons (2 MeV) are used for exposure in this program. Furthermore, cytological and cytogenetic analyses will be performed. (author)

DATABASES DEVELOPED IN INDIA FOR BIOLOGICAL SCIENCES

Directory of Open Access Journals (Sweden)

Gitanjali Yadav

2017-09-01

databases have also helped in development of novel data mining methods, prediction strategies and data driven application software or web servers. In this article, we give an overview of biological databases developed in India and their impact on data driven research in biology. We also provide some suggestions for planning training programs in biological data science for making transitions to big data revolution in biology by combining advanced techniques like Deep Learning with biological big data.

BioInt: an integrative biological object-oriented application framework and interpreter.

Science.gov (United States)

Desai, Sanket; Burra, Prasad

2015-01-01

BioInt, a biological programming application framework and interpreter, is an attempt to equip the researchers with seamless integration, efficient extraction and effortless analysis of the data from various biological databases and algorithms. Based on the type of biological data, algorithms and related functionalities, a biology-specific framework was developed which has nine modules. The modules are a compilation of numerous reusable BioADTs. This software ecosystem containing more than 450 biological objects underneath the interpreter makes it flexible, integrative and comprehensive. Similar to Python, BioInt eliminates the compilation and linking steps cutting the time significantly. The researcher can write the scripts using available BioADTs (following C++ syntax) and execute them interactively or use as a command line application. It has features that enable automation, extension of the framework with new/external BioADTs/libraries and deployment of complex work flows.

The use contrast agent for imaging biological samples

Czech Academy of Sciences Publication Activity Database

Dammer, J.; Weyda, František; Sopko, V.; Jakůbek, J.

2011-01-01

Roč. 6, C01096 (2011), s. 1-7 ISSN 1748-0221. [International Workshop on Radiation Imaging Detectors /12./. Cambridge, 11.07.2010-15.7.2010] R&D Projects: GA MŠk 2B06005 Grant - others:Research Program(CZ) 6840770029; Research Program(CZ) 6840770040; GA AV ČR(CZ) IAA600550614; GA MŠk(CZ) 2B06007; GA MŠk(CZ) 1PO4LA211; GA MŠk(CZ) LC06041 Program:IA; 2B; LC Institutional research plan: CEZ:AV0Z50070508 Keywords : x-ray radiography and digital radiography (DR) * x-ray detectors * inspections with x-rays Subject RIV: EA - Cell Biology Impact factor: 1.869, year: 2011

Relations between Intuitive Biological Thinking and Biological Misconceptions in Biology Majors and Nonmajors

Science.gov (United States)

Coley, John D.; Tanner, Kimberly

2015-01-01

Research and theory development in cognitive psychology and science education research remain largely isolated. Biology education researchers have documented persistent scientifically inaccurate ideas, often termed misconceptions, among biology students across biological domains. In parallel, cognitive and developmental psychologists have described intuitive conceptual systems—teleological, essentialist, and anthropocentric thinking—that humans use to reason about biology. We hypothesize that seemingly unrelated biological misconceptions may have common origins in these intuitive ways of knowing, termed cognitive construals. We presented 137 undergraduate biology majors and nonmajors with six biological misconceptions. They indicated their agreement with each statement, and explained their rationale for their response. Results indicate frequent agreement with misconceptions, and frequent use of construal-based reasoning among both biology majors and nonmajors in their written explanations. Moreover, results also show associations between specific construals and the misconceptions hypothesized to arise from those construals. Strikingly, such associations were stronger among biology majors than nonmajors. These results demonstrate important linkages between intuitive ways of thinking and misconceptions in discipline-based reasoning, and raise questions about the origins, persistence, and generality of relations between intuitive reasoning and biological misconceptions. PMID:25713093

Regulated programmed lysis of recombinant Salmonella in host tissues to release protective antigens and confer biological containment.

Science.gov (United States)

Kong, Wei; Wanda, Soo-Young; Zhang, Xin; Bollen, Wendy; Tinge, Steven A; Roland, Kenneth L; Curtiss, Roy

2008-07-08

We have devised and constructed a biological containment system designed to cause programmed bacterial cell lysis with no survivors. We have validated this system, using Salmonella enterica serovar Typhimurium vaccines for antigen delivery after colonization of host lymphoid tissues. The system is composed of two parts. The first component is Salmonella typhimurium strain chi8937, with deletions of asdA and arabinose-regulated expression of murA, two genes required for peptidoglycan synthesis and additional mutations to enhance complete lysis and antigen delivery. The second component is plasmid pYA3681, which encodes arabinose-regulated murA and asdA expression and C2-regulated synthesis of antisense asdA and murA mRNA transcribed from the P22 P(R) promoter. An arabinose-regulated c2 gene is present in the chromosome. chi8937(pYA3681) exhibits arabinose-dependent growth. Upon invasion of host tissues, an arabinose-free environment, transcription of asdA, murA, and c2 ceases, and concentrations of their gene products decrease because of cell division. The drop in C2 concentration results in activation of P(R), driving synthesis of antisense mRNA to block translation of any residual asdA and murA mRNA. A highly antigenic alpha-helical domain of Streptococcus pneumoniae Rx1 PspA was cloned into pYA3681, resulting in pYA3685 to test antigen delivery. Mice orally immunized with chi8937(pYA3685) developed antibody responses to PspA and Salmonella outer membrane proteins. No viable vaccine strain cells were detected in host tissues after 21 days. This system has potential applications with other Gram-negative bacteria in which biological containment would be desirable.

Biological AMS at Uppsala University: Status report

International Nuclear Information System (INIS)

Salehpour, Mehran; Forsgard, Niklas; Possnert, Goeran

2010-01-01

In January 2007 a new research program was initiated at Uppsala University focusing on the biological applications of AMS. We have used a 5 MV Pelletron Tandem accelerator to study biological samples. With Microdosing applications in mind, a variety of measurements have been performed on human blood, plasma and urine that have been labeled with a 14 C-labeled pharmaceutical drug covering a concentration range, spanning 3 orders of magnitude. Furthermore, by studying small sample amounts and low concentrations, we have demonstrated sensitivity in the hundred zeptomole range for a small pharmaceutical substance in human blood. Another application of interest, based on the enhanced 14 C activity from the cold war bomb-peak, is dating of DNA molecules providing fundamental data for the regenerative medicine and stem cell research community. We show data on a sensitive carrier method for measuring the isotopic ratio of small biological sample in the few μgC range.

GPSR: A Resource for Genomics Proteomics and Systems Biology

Indian Academy of Sciences (India)

First page Back Continue Last page Overview Graphics. GPSR: A Resource for Genomics Proteomics and Systems Biology. A journey from simple computer programs to drug/vaccine informatics. Limitations of existing web services. History repeats (Web to Standalone); Graphics vs command mode. General purpose ...

Interface between Physics and Biology: Training a New Generation of Creative Bilingual Scientists.

Science.gov (United States)

Riveline, Daniel; Kruse, Karsten

2017-08-01

Whereas physics seeks for universal laws underlying natural phenomena, biology accounts for complexity and specificity of molecular details. Contemporary biological physics requires people capable of working at this interface. New programs prepare scientists who transform respective disciplinary views into innovative approaches for solving outstanding problems in the life sciences. Copyright © 2017 Elsevier Ltd. All rights reserved.

Institute for Multiscale Modeling of Biological Interactions

Energy Technology Data Exchange (ETDEWEB)

Paulaitis, Michael E; Garcia-Moreno, Bertrand; Lenhoff, Abraham

2009-12-26

The Institute for Multiscale Modeling of Biological Interactions (IMMBI) has two primary goals: Foster interdisciplinary collaborations among faculty and their research laboratories that will lead to novel applications of multiscale simulation and modeling methods in the biological sciences and engineering; and Building on the unique biophysical/biology-based engineering foundations of the participating faculty, train scientists and engineers to apply computational methods that collectively span multiple time and length scales of biological organization. The success of IMMBI will be defined by the following: Size and quality of the applicant pool for pre-doctoral and post-doctoral fellows; Academic performance; Quality of the pre-doctoral and post-doctoral research; Impact of the research broadly and to the DOE (ASCR program) mission; Distinction of the next career step for pre-doctoral and post-doctoral fellows; and Faculty collaborations that result from IMMBI activities. Specific details about accomplishments during the three years of DOE support for IMMBI have been documented in Annual Progress Reports (April 2005, June 2006, and March 2007) and a Report for a National Academy of Sciences Review (October 2005) that were submitted to DOE on the dates indicated. An overview of these accomplishments is provided.

Interim Consequence Management Guidance for a Wide-Area Biological Attack

Energy Technology Data Exchange (ETDEWEB)

Raber, Ellen [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Kirvel, Robert [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); MacQueen, Don [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Love, Adam [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Dombroski, Matthew [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); McGrann, Thomas [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Richards, John [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Melius, Carl [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Bunt, Thomas [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Hibbard, Wilthea [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Greenwalt, Robert [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Miles, Robin [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Dillon, Michael [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Mancieri, Sav [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Harris, Steve [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Michalik, Richard [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Wheeler, Richard [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Hoppes, Bill [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Tucker, Mark [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Krauter, Paula [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Knowlton, Robert [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Yang, Lynn [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Franco, Dave [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Einfeld, Wayne [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Brockman, John [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Betty, Rita [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2011-05-17

The Interagency Biological Restoration Demonstration (IBRD) program is a collaborative, interagency effort co-chaired by the Department of Homeland Security and Department of Defense aimed at improving the nation‘s ability to respond to and recover from a large-scale, wide-area, domestic attack involving the release of an environmentally persistent biological warfare agent. The program is focused on understanding interactions between the civilian and military sectors, and in building mutual support to carry out such remediations. This Interim Consequence Management Guidance document provides guidance for decisionmakers in executing activities required to respond to and recover from a biological incident affecting a wide urban area insofar as information is currently available. The spore-forming bacterium Bacillus anthracis is discussed as the biological agent of primary concern because it is the most difficult of known bioterrorism agents to inactivate and is considered to be one of the key threat agents. Most other biological threat agents are much easier to remediate, and in many cases, inactivation would occur naturally within days as a result of environmental exposure; however, the framework and operational questions that need to be addressed are expected to remain the same. The guidance in this document is applicable to (1) enclosed facilities, such as commercial, residential, and continental U.S. military facilities; (2) semi-enclosed facilities, such as subways and public transit facilities; (3) outdoor areas (both localized and wide area), such as building exteriors, streets, parks, and other open spaces; (4) drinking water facilities; and (5) drinking water sources. This document follows an interagency framework [Planning Guidance for Recovery Following Biological Incidents (DHS and EPA 2009)]—which considered Raber et al. (2002) in its development—but takes the framework to a more operational level and provides guidance at key action and decision

Conservation Compromises: The MAB and the Legacy of the International Biological Program, 1964-1974.

Science.gov (United States)

Schleper, Simone

2017-02-01

This article looks at the International Biological Program (IBP) as the predecessor of UNESCO's well-known and highly successful Man and the Biosphere Programme (MAB). It argues that international conservation efforts of the 1970s, such as the MAB, must in fact be understood as a compound of two opposing attempts to reform international conservation in the 1960s. The scientific framework of the MAB has its origins in disputes between high-level conservationists affiliated with the International Union for the Conservation of Nature and Natural Resources (IUCN) about what the IBP meant for the future of conservation. Their respective visions entailed different ecological philosophies as much as diverging sets of political ideologies regarding the global implementation of conservation. Within the IBP's Conservation Section, one group propagated a universal systems approach to conservation with a centralized, technocratic management of nature and society by an elite group of independent scientific experts. Within IUCN, a second group based their notion of environmental expert roles on a more descriptive and local ecology of resource mapping as practiced by UNESCO. When the IBP came to an end in 1974, both groups' ecological philosophies played into the scientific framework underlying the MAB's World Network or Biosphere Reserves. The article argues that it is impossible to understand the course of conservation within the MAB without studying the dynamics and discourses between the two underlying expert groups and their respective visions for reforming conservation.

A Brief Introduction to Chinese Biological Biological

Institute of Scientific and Technical Information of China (English)

无

2005-01-01

Chinese Biological Abstracts sponsored by the Library, the Shanghai Institutes for Biological Sciences, the Biological Documentation and Information Network, all of the Chinese Academy of Sciences, commenced publication in 1987 and was initiated to provide access to the Chinese information in the field of biology.

Neutrons in Biology. A satellite meeting of the IUPAB/EBSA biophysics congress

Energy Technology Data Exchange (ETDEWEB)

Koji, Yoshida; Longeville, St.; Motomu, Tanaka; Blackledge, M.; Ebel, Ch.; Cooper, J.B.; Curmi, P.; Ferrand, M.; Gutberlet, T.; Huang, Huey Hang; Haub, T.; Mitsuhiro, Hirai; Geoff, Kneale; Langan, P.; Masahisa, Wada; Junji, Sugiyama; Yoshiharu, Nishiyama; Chanzy, H.; Leckband, D.; Meilleur, F.; Nawroth, Th.; Paciaroni, A.; Parak, F.; Gaede, H.C.; Soubias, O.; Luckett, K.M.; Polozov, I.V.; Wong, K.K.Y.; Yeliseev, A.A.; Gawrisch, K.; Deme, B.; Marchal, D.; Hanson, L.; Podjarny, A.; Mitschler, A.; Hazemann, I.; Blakeley, M.; Dauvergne, M.T.; Meilleur, F.; Budayova-Spano, M.; Van Zandt, M.; Ginell, S.; Joachimiak, A.; Myles, D.; Timmins, P.A.; Pebay-Peyroula, E; Welte, W.; Prince, S.M.; Howard, T.D.; Myles, D.A.A.; Wilkinson, C.; Papiz, M.Z.; Freer, A.A.; Cogdell, R.J.; Isaacs, N.W.; Papiz, M.Z.; Prince, S.M.; Howard, T.D.; Cogdell, R.J.; Isaacs, N.W.; Rheinstaedter, M.; Sapede, D.; Svergun, D.; Tarek, M.; Tehei, M.; Trewhella, J.; Watts, A.; Zaccai, G.J

2005-07-01

This meeting focussed on the study of the structure and dynamics of biological molecules, with particular emphasis on neutron and complementary methods as well as related enabling technologies. The program covered biological problems that are being addressed by neutron scattering and those where there is the potential to do so in the future. This document provides the abstracts of the different presentations. (A.L.B.)

Neutrons in Biology. A satellite meeting of the IUPAB/EBSA biophysics congress

International Nuclear Information System (INIS)

Koji, Yoshida; Longeville, St.; Motomu, Tanaka; Blackledge, M.; Ebel, Ch.; Cooper, J.B.; Curmi, P.; Ferrand, M.; Gutberlet, T.; Huang, Huey Hang; Haub, T.; Mitsuhiro, Hirai; Geoff, Kneale; Langan, P.; Masahisa, Wada; Junji, Sugiyama; Yoshiharu, Nishiyama; Chanzy, H.; Leckband, D.; Meilleur, F.; Nawroth, Th.; Paciaroni, A.; Parak, F.; Gaede, H.C.; Soubias, O.; Luckett, K.M.; Polozov, I.V.; Wong, K.K.Y.; Yeliseev, A.A.; Gawrisch, K.; Deme, B.; Marchal, D.; Hanson, L.; Podjarny, A.; Mitschler, A.; Hazemann, I.; Blakeley, M.; Dauvergne, M.T.; Meilleur, F.; Budayova-Spano, M.; Van Zandt, M.; Ginell, S.; Joachimiak, A.; Myles, D.; Timmins, P.A.; Pebay-Peyroula, E; Welte, W.; Prince, S.M.; Howard, T.D.; Myles, D.A.A.; Wilkinson, C.; Papiz, M.Z.; Freer, A.A.; Cogdell, R.J.; Isaacs, N.W.; Papiz, M.Z.; Prince, S.M.; Howard, T.D.; Cogdell, R.J.; Isaacs, N.W.; Rheinstaedter, M.; Sapede, D.; Svergun, D.; Tarek, M.; Tehei, M.; Trewhella, J.; Watts, A.; Zaccai, G.J.

2005-01-01

This meeting focussed on the study of the structure and dynamics of biological molecules, with particular emphasis on neutron and complementary methods as well as related enabling technologies. The program covered biological problems that are being addressed by neutron scattering and those where there is the potential to do so in the future. This document provides the abstracts of the different presentations. (A.L.B.)

Relations between intuitive biological thinking and biological misconceptions in biology majors and nonmajors.

Science.gov (United States)

Coley, John D; Tanner, Kimberly

2015-03-02

Research and theory development in cognitive psychology and science education research remain largely isolated. Biology education researchers have documented persistent scientifically inaccurate ideas, often termed misconceptions, among biology students across biological domains. In parallel, cognitive and developmental psychologists have described intuitive conceptual systems--teleological, essentialist, and anthropocentric thinking--that humans use to reason about biology. We hypothesize that seemingly unrelated biological misconceptions may have common origins in these intuitive ways of knowing, termed cognitive construals. We presented 137 undergraduate biology majors and nonmajors with six biological misconceptions. They indicated their agreement with each statement, and explained their rationale for their response. Results indicate frequent agreement with misconceptions, and frequent use of construal-based reasoning among both biology majors and nonmajors in their written explanations. Moreover, results also show associations between specific construals and the misconceptions hypothesized to arise from those construals. Strikingly, such associations were stronger among biology majors than nonmajors. These results demonstrate important linkages between intuitive ways of thinking and misconceptions in discipline-based reasoning, and raise questions about the origins, persistence, and generality of relations between intuitive reasoning and biological misconceptions. © 2015 J. D. Coley and K. Tanner. CBE—Life Sciences Education © 2015 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

On Beyond Star Trek, the Role of Synthetic Biology in Nasa's Missions

Science.gov (United States)

Rothschild, Lynn J.

2016-01-01

The time has come to for NASA to exploit the nascent field of synthetic biology in pursuit of its mission, including aeronautics, earth science, astrobiology and notably, human exploration. Conversely, NASA advances the fundamental technology of synthetic biology as no one else can because of its unique expertise in the origin of life and life in extreme environments, including the potential for alternate life forms. This enables unique, creative "game changing" advances. NASA's requirement for minimizing upmass in flight will also drive the field toward miniaturization and automation. These drivers will greatly increase the utility of synthetic biology solutions for military, health in remote areas and commercial purposes. To this end, we have begun a program at NASA to explore the use of synthetic biology in NASA's missions, particularly space exploration. As part of this program, we began hosting an iGEM team of undergraduates drawn from Brown and Stanford Universities to conduct synthetic biology research at NASA Ames Research Center. The 2011 team (http://2011.igem.org/Team:Brown-Stanford) produced an award-winning project on using synthetic biology as a basis for a human Mars settlement and the 2012 team has expanded the use of synthetic biology to estimate the potential for life in the clouds of other planets (http://2012.igem.org/Team:Stanford-Brown; http://www.calacademy.org/sciencetoday/igem-competition/). More recent projects from the Stanford-Brown team have expanded our ideas of how synthetic biology can aid NASA's missions from "Synthetic BioCommunication" (http://2013.igem.org/Team:Stanford-Brown) to a "Biodegradable UAS (drone)" in collaboration with Spelman College (http://2014.igem.org/Team:StanfordBrownSpelman#SBS%20iGEM) and most recently, "Self-Folding Origami" (http://2015.igem.org/Team:Stanford-Brown), the winner of the 2015 award for Manufacturing.

HIRFL-CSR physics program

International Nuclear Information System (INIS)

Xu, Hushan

2009-01-01

The research activities at HIRFL-CSR cover the fields of the radio-biology, material science, atomic physics, and nuclear physics. This talk will mainly concentrate on the program on nuclear physics with the existing and planned experimental setups at HIRFL-CSR. (author)

Guidelines for Developing Successful Short Advanced Courses in Systems Medicine and Systems Biology

KAUST Repository

Gomez-Cabrero, David

2017-08-23

Summary Systems medicine and systems biology have inherent educational challenges. These have largely been addressed either by providing new masters programs or by redesigning undergraduate programs. In contrast, short courses can respond to a different need: they can provide condensed updates for professionals across academia, the clinic, and industry. These courses have received less attention. Here, we share our experiences in developing and providing such courses to current and future leaders in systems biology and systems medicine. We present guidelines for how to reproduce our courses, and we offer suggestions for how to select students who will nurture an interdisciplinary learning environment and thrive there.

Guidelines for Developing Successful Short Advanced Courses in Systems Medicine and Systems Biology

KAUST Repository

Gomez-Cabrero, David; Marabita, Francesco; Tarazona, Sonia; Cano, Isaac; Roca, Josep; Conesa, Ana; Sabatier, Philippe; Tegner, Jesper

2017-01-01

Summary Systems medicine and systems biology have inherent educational challenges. These have largely been addressed either by providing new masters programs or by redesigning undergraduate programs. In contrast, short courses can respond to a different need: they can provide condensed updates for professionals across academia, the clinic, and industry. These courses have received less attention. Here, we share our experiences in developing and providing such courses to current and future leaders in systems biology and systems medicine. We present guidelines for how to reproduce our courses, and we offer suggestions for how to select students who will nurture an interdisciplinary learning environment and thrive there.

Developmental biology, the stem cell of biological disciplines

OpenAIRE

Gilbert, Scott F.

2017-01-01

Developmental biology (including embryology) is proposed as "the stem cell of biological disciplines.” Genetics, cell biology, oncology, immunology, evolutionary mechanisms, neurobiology, and systems biology each has its ancestry in developmental biology. Moreover, developmental biology continues to roll on, budding off more disciplines, while retaining its own identity. While its descendant disciplines differentiate into sciences with a restricted set of paradigms, examples, and techniques, ...

Central American Environmental Defense Program in the Mesoamerican Biological Corridor

National Research Council Canada - National Science Library

Griffard, Bernie

2002-01-01

.... Crossing eight national borders this program aims to protect existing ecosystems, while at the same time promoting sustainable development projects that help to alleviate poverty in the region...

Biological and Chemical Technologies Research at OIT: Annual Summary Report, FY 1997

Energy Technology Data Exchange (ETDEWEB)

Peterson, G. [National Renewable Energy Lab. (NREL), Golden, CO (United States)

1998-03-01

The annual summary report presents the fiscal year (FY) 1 997 research activities and accomplishments for the United States Department of Energy (DOE) Biological and Chemical Technologies Research (BCTR) Program. This BCTR program resides within the Office of Industrial Technologies (OIT) of the Office of Energy Efficiency and Renewable Energy (EE). The annual summary report for 1997 (ASR 97) contains the following: program description (including BCTR program mission statement, historical background, relevance, goals and objectives); program structure and organization; selected technical and programmatic highlights for 1 997; detailed descriptions of individual projects; and a listing of program output, including a bibliography of published work, patents, and awards arising from work supported by the program.

Biology and Medicine Division annual report, 1981-1982. [Lead abstract

Energy Technology Data Exchange (ETDEWEB)

1983-04-01

Separate abstracts were prepared for the 61 research reports in the 1981-1982 annual report for the Biology and Medicine Division of the Lawrence Berkeley Laboratory. Programs reviewed include research medicine, Donner Pavilion, environmental physiology, radiation biophysics and structural biophysics. (KRM)

DEMONSTRATION OF AN INTEGRATED, PASSIVE BIOLOGICAL TREATMENT PROCESS FOR AMD

Science.gov (United States)

An innovative, cost-effective, biological treatment process has been designed by MSE Technology Applications, Inc. to treat acid mine drainage (AMD). A pilot-scale demonstration is being conducted under the Mine Waste Technology Program using water flowing from an abandoned mine ...

Analysis of Parallel Algorithms on SMP Node and Cluster of Workstations Using Parallel Programming Models with New Tile-based Method for Large Biological Datasets.

Science.gov (United States)

Shrimankar, D D; Sathe, S R

2016-01-01

Sequence alignment is an important tool for describing the relationships between DNA sequences. Many sequence alignment algorithms exist, differing in efficiency, in their models of the sequences, and in the relationship between sequences. The focus of this study is to obtain an optimal alignment between two sequences of biological data, particularly DNA sequences. The algorithm is discussed with particular emphasis on time, speedup, and efficiency optimizations. Parallel programming presents a number of critical challenges to application developers. Today's supercomputer often consists of clusters of SMP nodes. Programming paradigms such as OpenMP and MPI are used to write parallel codes for such architectures. However, the OpenMP programs cannot be scaled for more than a single SMP node. However, programs written in MPI can have more than single SMP nodes. But such a programming paradigm has an overhead of internode communication. In this work, we explore the tradeoffs between using OpenMP and MPI. We demonstrate that the communication overhead incurs significantly even in OpenMP loop execution and increases with the number of cores participating. We also demonstrate a communication model to approximate the overhead from communication in OpenMP loops. Our results are astonishing and interesting to a large variety of input data files. We have developed our own load balancing and cache optimization technique for message passing model. Our experimental results show that our own developed techniques give optimum performance of our parallel algorithm for various sizes of input parameter, such as sequence size and tile size, on a wide variety of multicore architectures.

Analysis of Parallel Algorithms on SMP Node and Cluster of Workstations Using Parallel Programming Models with New Tile-based Method for Large Biological Datasets

Science.gov (United States)

Shrimankar, D. D.; Sathe, S. R.

2016-01-01

Sequence alignment is an important tool for describing the relationships between DNA sequences. Many sequence alignment algorithms exist, differing in efficiency, in their models of the sequences, and in the relationship between sequences. The focus of this study is to obtain an optimal alignment between two sequences of biological data, particularly DNA sequences. The algorithm is discussed with particular emphasis on time, speedup, and efficiency optimizations. Parallel programming presents a number of critical challenges to application developers. Today’s supercomputer often consists of clusters of SMP nodes. Programming paradigms such as OpenMP and MPI are used to write parallel codes for such architectures. However, the OpenMP programs cannot be scaled for more than a single SMP node. However, programs written in MPI can have more than single SMP nodes. But such a programming paradigm has an overhead of internode communication. In this work, we explore the tradeoffs between using OpenMP and MPI. We demonstrate that the communication overhead incurs significantly even in OpenMP loop execution and increases with the number of cores participating. We also demonstrate a communication model to approximate the overhead from communication in OpenMP loops. Our results are astonishing and interesting to a large variety of input data files. We have developed our own load balancing and cache optimization technique for message passing model. Our experimental results show that our own developed techniques give optimum performance of our parallel algorithm for various sizes of input parameter, such as sequence size and tile size, on a wide variety of multicore architectures. PMID:27932868

Confinement by compartment

International Nuclear Information System (INIS)

Karpf, A.D.

1989-01-01

Feasibility studies of yet undefined sub-seabed repositories require assessment models and codes which are easier to be applied, more versatile and more concise in displaying the results. This contribution on assessment is presented, running on a microcomputer, which can make use of sophisticated general circulation ocean models and which shows a way of representing results for activity, barrier affectivity and sensitivity

Seabed disposal of high-level nuclear wastes: an alternative viewpoint

International Nuclear Information System (INIS)

Glasby, G.P.

1985-01-01

Various comments on a published article on subseabed disposal of nuclear wastes are presented. These include the scale of the proposed operation, the technical problems of canister retrievability, the feasibility of the free-fall penetrometer disposal method, canister lifetime, the possible contravention of the 1972 London Dumping Convention and land-based geological repositories as an alternative method of disposal. (author)

Minimizing casualties in biological and chemical threats (war and terrorism): the importance of information to the public in a prevention program.

Science.gov (United States)

Noy, Shabtai

2004-01-01

The most effective means of defending against biological or chemical warfare, whether in war or as a result of terror, is the use of primary prevention. The main goal of such a prevention program is to minimize the human loss by reducing the number of casualties (fatalities, physical wounds, and psychological injury). A secondary objective is to prevent the widespread sense of helplessness in the general population. These two aims complement each other. The more the public is active in defending itself, rather than viewing itself as helpless, the lesser the expected number of casualties of any kind. In order to achieve these two goals, educating the civilian population about risk factors and pointing out appropriate defensive strategies is critical. In the absence of an effective prevention program and active participation by the public, there is a high risk for massive numbers of physical and psychological casualties. An essential ingredient of any preventive program, which ultimately may determine the success or failure of all other protective actions, is early, gradual dissemination of information and guidance to the public, so that citizens can become active participants in the program. The public needs to be given information concerning the nature of the threat and effective methods of coping with it, should an unconventional attack occur. Lack of such adaptive behavior (such as wearing protective gear) is likely to bring about vast numbers of physical and psychological casualties. These large numbers may burden the medical, political, and public safety systems beyond their ability to manage. Failure to provide reasonable prevention and effective interventions can lead to a destruction of the social and emotional fabric of individuals and the society. Furthermore, inadequate preparation, education, and communication can result in the development of damaging mistrust of the political and military leadership, disintegration of social and political structures

Biology Students Building Computer Simulations Using StarLogo TNG

Science.gov (United States)

Smith, V. Anne; Duncan, Ishbel

2011-01-01

Confidence is an important issue for biology students in handling computational concepts. This paper describes a practical in which honours-level bioscience students simulate complex animal behaviour using StarLogo TNG, a freely-available graphical programming environment. The practical consists of two sessions, the first of which guides students…

Northeast Cooperative Research Study Fleet (SF) Program Biological Sampling Data

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — Northeast Cooperative Research Study Fleet (SF) Program partners with a subset of commercial fishermen to collect high quality, high resolution, haul by haul...

Biology and Medicine Division annual report, 1987

International Nuclear Information System (INIS)

1988-04-01

Modern biology is characterized by rapid change. The development of new tools and the results derived from their application to various biological systems require significant shifts in our concepts and the strategies that are adopted to analyze and elucidate mechanisms. In parallel with exciting new scientific developments our organizational structure and programmatic emphases have altered. These changes and developments have enabled the life sciences at LBL to be better positioned to create and respond to new opportunities. The work summarized in this annual report reflects a vital multifaceted research program that is in the vanguard of the areas represented. We are committed to justifying the confidence expressed by LBL through the new mission statement and reorganizational changes designed to give greater prominence to the life sciences

Biology and Medicine Division annual report, 1987

Energy Technology Data Exchange (ETDEWEB)

1988-04-01

Modern biology is characterized by rapid change. The development of new tools and the results derived from their application to various biological systems require significant shifts in our concepts and the strategies that are adopted to analyze and elucidate mechanisms. In parallel with exciting new scientific developments our organizational structure and programmatic emphases have altered. These changes and developments have enabled the life sciences at LBL to be better positioned to create and respond to new opportunities. The work summarized in this annual report reflects a vital multifaceted research program that is in the vanguard of the areas represented. We are committed to justifying the confidence expressed by LBL through the new mission statement and reorganizational changes designed to give greater prominence to the life sciences.

Automated discovery of functional generality of human gene expression programs.

Directory of Open Access Journals (Sweden)

Georg K Gerber

2007-08-01

Full Text Available An important research problem in computational biology is the identification of expression programs, sets of co-expressed genes orchestrating normal or pathological processes, and the characterization of the functional breadth of these programs. The use of human expression data compendia for discovery of such programs presents several challenges including cellular inhomogeneity within samples, genetic and environmental variation across samples, uncertainty in the numbers of programs and sample populations, and temporal behavior. We developed GeneProgram, a new unsupervised computational framework based on Hierarchical Dirichlet Processes that addresses each of the above challenges. GeneProgram uses expression data to simultaneously organize tissues into groups and genes into overlapping programs with consistent temporal behavior, to produce maps of expression programs, which are sorted by generality scores that exploit the automatically learned groupings. Using synthetic and real gene expression data, we showed that GeneProgram outperformed several popular expression analysis methods. We applied GeneProgram to a compendium of 62 short time-series gene expression datasets exploring the responses of human cells to infectious agents and immune-modulating molecules. GeneProgram produced a map of 104 expression programs, a substantial number of which were significantly enriched for genes involved in key signaling pathways and/or bound by NF-kappaB transcription factors in genome-wide experiments. Further, GeneProgram discovered expression programs that appear to implicate surprising signaling pathways or receptor types in the response to infection, including Wnt signaling and neurotransmitter receptors. We believe the discovered map of expression programs involved in the response to infection will be useful for guiding future biological experiments; genes from programs with low generality scores might serve as new drug targets that exhibit minimal

Making developmental biology relevant to undergraduates in an era of economic rationalism in Australia.

Science.gov (United States)

Key, Brian; Nurcombe, Victor

2003-01-01

This report describes the road map we followed at our university to accommodate three main factors: financial pressure within the university system; desire to enhance the learning experience of undergraduates; and motivation to increase the prominence of the discipline of developmental biology in our university. We engineered a novel, multi-year undergraduate developmental biology program which was "student-oriented," ensuring that students were continually exposed to the underlying principles and philosophy of this discipline throughout their undergraduate career. Among its key features are introductory lectures in core courses in the first year, which emphasize the relevance of developmental biology to tissue engineering, reproductive medicine, therapeutic approaches in medicine, agriculture and aquaculture. State-of-the-art animated computer graphics and images of high visual impact are also used. In addition, students are streamed into the developmental biology track in the second year, using courses like human embryology and courses shared with cell biology, which include practicals based on modern experimental approaches. Finally, fully dedicated third-year courses in developmental biology are undertaken in conjunction with stand-alone practical courses where students experiencefirst-hand work in a research laboratory. Our philosophy is a "cradle-to-grave" approach to the education of undergraduates so as to prepare highly motivated, enthusiastic and well-educated developmental biologists for entry into graduate programs and ultimately post-doctoral research.

BCTR: Biological and Chemical Technologies Research 1994 annual summary report

Energy Technology Data Exchange (ETDEWEB)

Petersen, G.

1995-02-01

The annual summary report presents the fiscal year (FY) 1994 research activities and accomplishments for the United States Department of Energy (DOE) Biological and Chemical Technologies Research (BCTR) Program of the Advanced Industrial Concepts Division (AICD). This AICD program resides within the Office of Industrial Technologies (OIT) of the Office of Energy Efficiency and Renewable Energy (EE). Although the OIT was reorganized in 1991 and AICD no longer exists, this document reports on efforts conducted under the former structure. The annual summary report for 1994 (ASR 94) contains the following: program description (including BCTR program mission statement, historical background, relevance, goals and objectives); program structure and organization, selected technical and programmatic highlights for 1994; detailed descriptions of individual projects; a listing of program output, including a bibliography of published work; patents, and awards arising from work supported by BCTR.

Current research in Canada on biological effects of ionizing radiation

International Nuclear Information System (INIS)

Marko, A.M.

1980-05-01

A survey of current research in Canada on the biological effects of ionizing radiation has been compiled. The list of projects has been classified according to structure (organizational state of the test system) as well as according to the type of effects. Using several assumptions, ballpark estimates of expenditures on these activities have been made. Agencies funding these research activities have been tabulated and the break-down of research in government laboratories and in academic institutions has been designated. Wherever possible, comparisons have been made outlining differences or similarities that exist between the United States and Canada concerning biological radiation research. It has been concluded that relevant research in this area in Canada is inadequate. Wherever possible, strengths and weaknesses in radiation biology programs have been indicated. The most promising course for Canada to follow is to support adequately fundamental studies of the biological effects of radiation. (auth)

On Designing Multicore-Aware Simulators for Systems Biology Endowed with OnLine Statistics

Directory of Open Access Journals (Sweden)

Marco Aldinucci

2014-01-01

Full Text Available The paper arguments are on enabling methodologies for the design of a fully parallel, online, interactive tool aiming to support the bioinformatics scientists .In particular, the features of these methodologies, supported by the FastFlow parallel programming framework, are shown on a simulation tool to perform the modeling, the tuning, and the sensitivity analysis of stochastic biological models. A stochastic simulation needs thousands of independent simulation trajectories turning into big data that should be analysed by statistic and data mining tools. In the considered approach the two stages are pipelined in such a way that the simulation stage streams out the partial results of all simulation trajectories to the analysis stage that immediately produces a partial result. The simulation-analysis workflow is validated for performance and effectiveness of the online analysis in capturing biological systems behavior on a multicore platform and representative proof-of-concept biological systems. The exploited methodologies include pattern-based parallel programming and data streaming that provide key features to the software designers such as performance portability and efficient in-memory (big data management and movement. Two paradigmatic classes of biological systems exhibiting multistable and oscillatory behavior are used as a testbed.

On designing multicore-aware simulators for systems biology endowed with OnLine statistics.

Science.gov (United States)

Aldinucci, Marco; Calcagno, Cristina; Coppo, Mario; Damiani, Ferruccio; Drocco, Maurizio; Sciacca, Eva; Spinella, Salvatore; Torquati, Massimo; Troina, Angelo

2014-01-01

The paper arguments are on enabling methodologies for the design of a fully parallel, online, interactive tool aiming to support the bioinformatics scientists .In particular, the features of these methodologies, supported by the FastFlow parallel programming framework, are shown on a simulation tool to perform the modeling, the tuning, and the sensitivity analysis of stochastic biological models. A stochastic simulation needs thousands of independent simulation trajectories turning into big data that should be analysed by statistic and data mining tools. In the considered approach the two stages are pipelined in such a way that the simulation stage streams out the partial results of all simulation trajectories to the analysis stage that immediately produces a partial result. The simulation-analysis workflow is validated for performance and effectiveness of the online analysis in capturing biological systems behavior on a multicore platform and representative proof-of-concept biological systems. The exploited methodologies include pattern-based parallel programming and data streaming that provide key features to the software designers such as performance portability and efficient in-memory (big) data management and movement. Two paradigmatic classes of biological systems exhibiting multistable and oscillatory behavior are used as a testbed.

Dual Enrollment Academy Programs

Science.gov (United States)

Gonzalez, Nicolas; Chavez, Guadalupe

2009-01-01

Dual Enrollment Engineering (DEEA) and Medical Science (DEMSA) Academies are two-year dual enrollment programs for high school students. Students explore engineering and medical careers through college coursework. Students prepare for higher education in engineering and medical fields while completing associate degrees in biology or engineering…

Angra nuclear plant - environmental control program; Usina Nuclear de Angra: programa de controle ambiental

Energy Technology Data Exchange (ETDEWEB)

Kircher, E; Cruz, E.S. da [FURNAS, Rio de Janeiro, RJ (Brazil)

1990-12-31

The pre-operational studies, that were elaborated before the beginning of Angra I Power Plant operation, are described in particular the environmental radiological safety area till the fuel loading in the core reactor. Several aspects are included, as socio-economic survey, seismological analysis, Meteorological Program, marine biology, water cooling system, exposure measures of natural radiation, marine sediments characterization in the effluent dispersion area and Environmental Radiological Monitoring Program. The main environmental programs developed for the operational phase of the Angra I Plant are also presented, citing some considerations about the Meteorological Program, Marine Biology Control Program, Temperature and Chlorine Control in Piraquara de Fora Bay, Radiological Environmental Monitoring Program, Sanitary Effluent Control Program and Radiological Emergency Program. (C.G.C.). 2 refs.

Biology Division progress report, October 1, 1993--September 30, 1995

Energy Technology Data Exchange (ETDEWEB)

NONE

1995-10-01

This Progress Report summarizes the research endeavors of the Biology Division of the Oak Ridge National Laboratory during the period October 1, 1993, through September 30, 1995. The report is structured to provide descriptions of current activities and accomplishments in each of the Division`s major organizational units. Lists of information to convey the entire scope of the Division`s activities are compiled at the end of the report. Attention is focused on the following research activities: molecular, cellular, and cancer biology; mammalian genetics and development; genome mapping program; and educational activities.

Program Solicitation 2001.2. Closing Date: 15 August 2001. FY 2001 Small Business Innovation Research (SBIR) Program

National Research Council Canada - National Science Library

2001-01-01

...), and Chemical and Biological Defense (CBD) hereafter referred to as DoD Components, invite small business firms to submit proposals under this solicitation for the Small Business Innovation Research (SBIR) program...

Gender Differences in Patients' Beliefs About Biological, Environmental, Behavioral, and Psychological Risk Factors in a Cardiac Rehabilitation Program

Directory of Open Access Journals (Sweden)

Mozhgan Saeidi

2014-11-01

Full Text Available Introduction: There are significant gender differences in the epidemiology and presentation of cardiovascular diseases (CVDs, physiological aspects of CVDs, response to diagnostic tests or interventions, and prevalence or incidence of the associated risk factors. Considering the independent influence of gender on early dire consequences of such diseases, this study was conducted to investigate gender differences in patients' beliefs about biological, environmental, behavioral, and psychological risk factors in a cardiac rehabilitation program. Materials and Methods: This study has cross sectional design. The sample was composed of 775 patients referred to cardiac rehabilitation unit in Imam Ali Hospital in Kermanshah, Iran. The data were collected using clinical interview and patients’ medical records. The data were analyzed using descriptive statistics such as mean, standard deviation, and chi-square test​​. To do the statistical analysis, SPSS version 20 was utilized. Results: As the results indicated, there was a significant difference between the beliefs of men and women about risk factors of heart disease (X2= 48.36; P

Pembangunan Kebun Biologi Wamena*[establishment of Wamena Biological Gardens

OpenAIRE

Rahmansyah, M; Latupapua, HJD

2003-01-01

The richness of biological resources (biodiversity) in mountainous area of Papua is an asset that has to be preserved.Exploitation of natural resources often cause damage on those biological assets and as genetic resources.Care has to be taken to overcome the situation of biological degradation, and alternate steps had been shaped on ex-situ biological conservation. Wamena Biological Gardens, as an ex-situ biological conservation, has been established to keep the high mountain biological and ...

Development trend of radiation biology research-systems radiation biology

International Nuclear Information System (INIS)

Min Rui

2010-01-01

Radiation biology research has past 80 years. We have known much more about fundamentals, processes and results of biology effects induced by radiation and various factors that influence biology effects wide and deep, however many old and new scientific problems occurring in the field of radiation biology research remain to be illustrated. To explore and figure these scientific problems need systemic concept, methods and multi dimension view on the base of considerations of complexity of biology system, diversity of biology response, temporal and spatial process of biological effects during occurrence, and complex feed back network of biological regulations. (authors)

FIELD INVESTIGATION OF BIOLOGICAL TOILET SYSTEMS AND GREY WATER TREATMENT

Science.gov (United States)

The objective of the field program was to determine the operational characteristics and overall acceptability of popular models of biological toilets and a few select grey water systems. A field observation scheme was devised to take advantage of in-use sites throughout the State...

Galloylation of polyphenols alters their biological activity

Czech Academy of Sciences Publication Activity Database

Karas, D.; Ulrichová, J.; Valentová, Kateřina

2017-01-01

Roč. 105, JUL 2017 (2017), s. 223-240 ISSN 0278-6915 R&D Projects: GA MŠk(CZ) LD15082; GA MŠk(CZ) LD15084; GA MŠk(CZ) LO1304 Grant - others:GA ČR(CZ) GAP303/12/G163 Program:GA Institutional support: RVO:61388971 Keywords : Polyphenols * Gallic acid * Galloylation Subject RIV: CE - Biochemistry OBOR OECD: Biochemistry and molecular biology Impact factor: 3.778, year: 2016

A computer program for monitoring the biological treatment of waste waters (CDBAR); Programa informatico para el control de la depuracion biologica de aguas residuales (CDBAR)

Energy Technology Data Exchange (ETDEWEB)

Bove Porta, J.; Milan Cabre, D.

2001-07-01

The problems, such as bulking, foaming, etc., involved in managing a waste water treatment plant (WWTP) employing an activated sludge biological process have a biochemical origin. Correcting them requires identifying the micro-organisms responsible for the pathology in question, whether the problems are due to there being too many or too few of these organisms. It is therefore necessary to have a good microscope and staff trained in identifying such micro-organisms. Never the less, to attain speed and efficiency, it is necessary to have more means. That is why the CDBAR project was carried out. This is a simple computer application that includes numerous photographs of microscopic organisms from samples taken in Spain and Portugal. Once the anomaly has been identified, the computer application it-self includes a program of corrective actions that will allow the biological reactor, the most important part of a WWTP, to function normally. Finally, a glossary has been prepared so that the meaning of any term can be looked up quickly and easily. (Author) 16 refs.

Relations between Intuitive Biological Thinking and Biological Misconceptions in Biology Majors and Nonmajors

Science.gov (United States)

Coley, John D.; Tanner, Kimberly

2015-01-01

Research and theory development in cognitive psychology and science education research remain largely isolated. Biology education researchers have documented persistent scientifically inaccurate ideas, often termed "misconceptions," among biology students across biological domains. In parallel, cognitive and developmental psychologists…

Differential Equations Models in Biology, Epidemiology and Ecology

CERN Document Server

Martelli, Mario

1991-01-01

The past forty years have been the stage for the maturation of mathematical biolo~ as a scientific field. The foundations laid by the pioneers of the field during the first half of this century have been combined with advances in ap­ plied mathematics and the computational sciences to create a vibrant area of scientific research with established research journals, professional societies, deep subspecialty areas, and graduate education programs. Mathematical biology is by its very nature cross-disciplinary, and research papers appear in mathemat­ ics, biology and other scientific journals, as well as in the specialty journals devoted to mathematical and theoretical biology. Multiple author papers are common, and so are collaborations between individuals who have academic bases in different traditional departments. Those who seek to keep abreast of current trends and problems need to interact with research workers from a much broader spectrum of fields than is common in the traditional mono-culture discipline...

Frontiers in nuclear medicine symposium: Nuclear medicine & molecular biology

Energy Technology Data Exchange (ETDEWEB)

NONE

1995-04-01

This document contains the abstracts from the American College of Nuclear Physicians 1993 Fall Meeting entitled, `Frontiers in Nuclear Medicine Symposium: Nuclear Medicine and Molecular Biology`. This meeting was sponsored by the US DOE, Office of Health and Environmental Research, Office of Energy Research. The program chairman was Richard C. Reba, M.D.

Synthetic Biology: Putting Synthesis into Biology

Science.gov (United States)

Liang, Jing; Luo, Yunzi; Zhao, Huimin

2010-01-01

The ability to manipulate living organisms is at the heart of a range of emerging technologies that serve to address important and current problems in environment, energy, and health. However, with all its complexity and interconnectivity, biology has for many years been recalcitrant to engineering manipulations. The recent advances in synthesis, analysis, and modeling methods have finally provided the tools necessary to manipulate living systems in meaningful ways, and have led to the coining of a field named synthetic biology. The scope of synthetic biology is as complicated as life itself – encompassing many branches of science, and across many scales of application. New DNA synthesis and assembly techniques have made routine the customization of very large DNA molecules. This in turn has allowed the incorporation of multiple genes and pathways. By coupling these with techniques that allow for the modeling and design of protein functions, scientists have now gained the tools to create completely novel biological machineries. Even the ultimate biological machinery – a self-replicating organism – is being pursued at this moment. It is the purpose of this review to dissect and organize these various components of synthetic biology into a coherent picture. PMID:21064036

Sandia National Laboratories performance assessment methodology for long-term environmental programs : the history of nuclear waste management.

Energy Technology Data Exchange (ETDEWEB)

Marietta, Melvin Gary; Anderson, D. Richard; Bonano, Evaristo J.; Meacham, Paul Gregory (Raytheon Ktech, Albuquerque, NM)

2011-11-01

Sandia National Laboratories (SNL) is the world leader in the development of the detailed science underpinning the application of a probabilistic risk assessment methodology, referred to in this report as performance assessment (PA), for (1) understanding and forecasting the long-term behavior of a radioactive waste disposal system, (2) estimating the ability of the disposal system and its various components to isolate the waste, (3) developing regulations, (4) implementing programs to estimate the safety that the system can afford to individuals and to the environment, and (5) demonstrating compliance with the attendant regulatory requirements. This report documents the evolution of the SNL PA methodology from inception in the mid-1970s, summarizing major SNL PA applications including: the Subseabed Disposal Project PAs for high-level radioactive waste; the Waste Isolation Pilot Plant PAs for disposal of defense transuranic waste; the Yucca Mountain Project total system PAs for deep geologic disposal of spent nuclear fuel and high-level radioactive waste; PAs for the Greater Confinement Borehole Disposal boreholes at the Nevada National Security Site; and PA evaluations for disposal of high-level wastes and Department of Energy spent nuclear fuels stored at Idaho National Laboratory. In addition, the report summarizes smaller PA programs for long-term cover systems implemented for the Monticello, Utah, mill-tailings repository; a PA for the SNL Mixed Waste Landfill in support of environmental restoration; PA support for radioactive waste management efforts in Egypt, Iraq, and Taiwan; and, most recently, PAs for analysis of alternative high-level radioactive waste disposal strategies including repositories deep borehole disposal and geologic repositories in shale and granite. Finally, this report summarizes the extension of the PA methodology for radioactive waste disposal toward development of an enhanced PA system for carbon sequestration and storage systems

The program of international intercomparison of accident dosimetry

International Nuclear Information System (INIS)

2002-06-01

The French institute of radioprotection and nuclear safety (IRSN) has carried out in June 2002 an international intercomparison program for the testing of the physical and biological accident dosimetry techniques. The intercomparison is jointly organized by the IRSN and the OECD-NEA with the sustain of the European commission and the collaboration of the CEA centre of Valduc (France). About 30 countries have participated to this program. Each country has supplied its own dosimeters and biological samples which have been irradiated using the Silene reactor of CEA-Valduc or a 60 Co source. These experiments allow to test the new dosimetric techniques that have been developed since the previous intercomparison program (1993) and to confirm or improve the performances of older techniques. Aside from the intercomparison exercise, this report makes a status of the known radiological accidents and of the effects of high doses of ionizing radiations on human health (symptoms, therapeutics). It explains the phenomenology of criticality accidents, the prevention means, and the history of such accidents up to the Tokai-Mura one in 1999. Finally, the dosimetry of criticality is presented with its physical and biological techniques. (J.S.)

A vision for global monitoring of biological invasions

Czech Academy of Sciences Publication Activity Database

Latombe, G.; Pyšek, Petr; Jeschke, J.M.; Blackburn, T. M.; Bacher, S.; Capinha, C.; Costello, M. J.; Fernández, M.; Gregory, R. D.; Hobern, D.; Hui, C.; Jetz, W.; Kumschick, S.; McGrannachan, C.; Pergl, Jan; Roy, H. E.; Scalera, R.; Squires, Z. E.; Wilson, J. R. U.; Winter, M.; Genovesi, P.; McGeoch, M. A.

2017-01-01

Roč. 213, part B (2017), s. 295-308 ISSN 0006-3207 R&D Projects: GA ČR GB14-36079G Grant - others:AV ČR(CZ) AP1002 Program:Akademická prémie - Praemium Academiae Institutional support: RVO:67985939 Keywords : biological invasions * monitoring * management Subject RIV: EH - Ecology, Behaviour OBOR OECD: Biodiversity conservation Impact factor: 4.022, year: 2016

An Introduction to Programming for Bioscientists: A Python-Based Primer.

Directory of Open Access Journals (Sweden)

Berk Ekmekci

2016-06-01

Full Text Available Computing has revolutionized the biological sciences over the past several decades, such that virtually all contemporary research in molecular biology, biochemistry, and other biosciences utilizes computer programs. The computational advances have come on many fronts, spurred by fundamental developments in hardware, software, and algorithms. These advances have influenced, and even engendered, a phenomenal array of bioscience fields, including molecular evolution and bioinformatics; genome-, proteome-, transcriptome- and metabolome-wide experimental studies; structural genomics; and atomistic simulations of cellular-scale molecular assemblies as large as ribosomes and intact viruses. In short, much of post-genomic biology is increasingly becoming a form of computational biology. The ability to design and write computer programs is among the most indispensable skills that a modern researcher can cultivate. Python has become a popular programming language in the biosciences, largely because (i its straightforward semantics and clean syntax make it a readily accessible first language; (ii it is expressive and well-suited to object-oriented programming, as well as other modern paradigms; and (iii the many available libraries and third-party toolkits extend the functionality of the core language into virtually every biological domain (sequence and structure analyses, phylogenomics, workflow management systems, etc.. This primer offers a basic introduction to coding, via Python, and it includes concrete examples and exercises to illustrate the language's usage and capabilities; the main text culminates with a final project in structural bioinformatics. A suite of Supplemental Chapters is also provided. Starting with basic concepts, such as that of a "variable," the Chapters methodically advance the reader to the point of writing a graphical user interface to compute the Hamming distance between two DNA sequences.

An Introduction to Programming for Bioscientists: A Python-Based Primer.

Science.gov (United States)

Ekmekci, Berk; McAnany, Charles E; Mura, Cameron

2016-06-01

Computing has revolutionized the biological sciences over the past several decades, such that virtually all contemporary research in molecular biology, biochemistry, and other biosciences utilizes computer programs. The computational advances have come on many fronts, spurred by fundamental developments in hardware, software, and algorithms. These advances have influenced, and even engendered, a phenomenal array of bioscience fields, including molecular evolution and bioinformatics; genome-, proteome-, transcriptome- and metabolome-wide experimental studies; structural genomics; and atomistic simulations of cellular-scale molecular assemblies as large as ribosomes and intact viruses. In short, much of post-genomic biology is increasingly becoming a form of computational biology. The ability to design and write computer programs is among the most indispensable skills that a modern researcher can cultivate. Python has become a popular programming language in the biosciences, largely because (i) its straightforward semantics and clean syntax make it a readily accessible first language; (ii) it is expressive and well-suited to object-oriented programming, as well as other modern paradigms; and (iii) the many available libraries and third-party toolkits extend the functionality of the core language into virtually every biological domain (sequence and structure analyses, phylogenomics, workflow management systems, etc.). This primer offers a basic introduction to coding, via Python, and it includes concrete examples and exercises to illustrate the language's usage and capabilities; the main text culminates with a final project in structural bioinformatics. A suite of Supplemental Chapters is also provided. Starting with basic concepts, such as that of a "variable," the Chapters methodically advance the reader to the point of writing a graphical user interface to compute the Hamming distance between two DNA sequences.

A Synthetic Biology Framework for Programming Eukaryotic Transcription Functions

Science.gov (United States)

Khalil, Ahmad S.; Lu, Timothy K.; Bashor, Caleb J.; Ramirez, Cherie L.; Pyenson, Nora C.; Joung, J. Keith; Collins, James J.

2013-01-01

SUMMARY Eukaryotic transcription factors (TFs) perform complex and combinatorial functions within transcriptional networks. Here, we present a synthetic framework for systematically constructing eukaryotic transcription functions using artificial zinc fingers, modular DNA-binding domains found within many eukaryotic TFs. Utilizing this platform, we construct a library of orthogonal synthetic transcription factors (sTFs) and use these to wire synthetic transcriptional circuits in yeast. We engineer complex functions, such as tunable output strength and transcriptional cooperativity, by rationally adjusting a decomposed set of key component properties, e.g., DNA specificity, affinity, promoter design, protein-protein interactions. We show that subtle perturbations to these properties can transform an individual sTF between distinct roles (activator, cooperative factor, inhibitory factor) within a transcriptional complex, thus drastically altering the signal processing behavior of multi-input systems. This platform provides new genetic components for synthetic biology and enables bottom-up approaches to understanding the design principles of eukaryotic transcriptional complexes and networks. PMID:22863014

Biomedical Research Experiences for Biology Majors at a Small College

Science.gov (United States)

Stover, Shawn K.; Mabry, Michelle L.

2010-01-01

A program-level assessment of the biology curriculum at a small liberal arts college validates a previous study demonstrating success in achieving learning outcomes related to content knowledge and communication skills. Furthermore, research opportunities have been provided to complement pedagogical strategies and give students a more complete…

Simultaneous biological nutrient removal: evaluation of autotrophic denitrification, heterotrophic nitrification, and biological phosphorus removal in full-scale systems.

Science.gov (United States)

Littleton, Helen X; Daigger, Glen T; Strom, Peter F; Cowan, Robert A

2003-01-01

Simultaneous biological nutrient removal (SBNR) is the biological removal of nitrogen and phosphorus in excess of that required for biomass synthesis in a biological wastewater treatment system without defined anaerobic or anoxic zones. Evidence is growing that significant SBNR can occur in many systems, including the aerobic zone of systems already configured for biological nutrient removal. Although SBNR systems offer several potential advantages, they cannot be fully realized until the mechanisms responsible for SBNR are better understood. Consequently, a research program was initiated with the basic hypothesis that three mechanisms might be responsible for SBNR: the reactor macroenvironment, the floc microenvironment, and novel microorganisms. Previously, the nutrient removal capabilities of seven full-scale, staged, closed-loop bioreactors known as Orbal oxidation ditches were evaluated. Chemical analysis and microbiological observations suggested that SBNR occurred in these systems. Three of these plants were further examined in this research to evaluate the importance of novel microorganisms, especially for nitrogen removal. A screening tool was developed to determine the relative significance of the activities of microorganisms capable of autotrophic denitrification and heterotrophic nitrification-aerobic denitrification in biological nutrient removal systems. The results indicated that novel microorganisms were not substantial contributors to SBNR in the plants studied. Phosphorus metabolism (anaerobic release, aerobic uptake) was also tested in one of the plants. Activity within the mixed liquor that was consistent with current theories for phosphorus-accumulating organisms (PAOs) was observed. Along with other observations, this suggests the presence of PAOs in the facilities studied.

Biological effectiveness of neutrons: Research needs

International Nuclear Information System (INIS)

Casarett, G.W.; Braby, L.A.; Broerse, J.J.; Elkind, M.M.; Goodhead, D.T.; Oleinick, N.L.

1994-02-01

The goal of this report was to provide a conceptual plan for a research program that would provide a basis for determining more precisely the biological effectiveness of neutron radiation with emphasis on endpoints relevant to the protection of human health. This report presents the findings of the experts for seven particular categories of scientific information on neutron biological effectiveness. Chapter 2 examines the radiobiological mechanisms underlying the assumptions used to estimate human risk from neutrons and other radiations. Chapter 3 discusses the qualitative and quantitative models used to organize and evaluate experimental observations and to provide extrapolations where direct observations cannot be made. Chapter 4 discusses the physical principles governing the interaction of radiation with biological systems and the importance of accurate dosimetry in evaluating radiation risk and reducing the uncertainty in the biological data. Chapter 5 deals with the chemical and molecular changes underlying cellular responses and the LET dependence of these changes. Chapter 6, in turn, discusses those cellular and genetic changes which lead to mutation or neoplastic transformation. Chapters 7 and 8 examine deterministic and stochastic effects, respectively, and the data required for the prediction of such effects at different organizational levels and for the extrapolation from experimental results in animals to risks for man. Gaps and uncertainties in this data are examined relative to data required for establishing radiation protection standards for neutrons and procedures for the effective and safe use of neutron and other high-LET radiation therapy

Biological effectiveness of neutrons: Research needs

Energy Technology Data Exchange (ETDEWEB)

Casarett, G.W.; Braby, L.A.; Broerse, J.J.; Elkind, M.M.; Goodhead, D.T.; Oleinick, N.L.

1994-02-01

The goal of this report was to provide a conceptual plan for a research program that would provide a basis for determining more precisely the biological effectiveness of neutron radiation with emphasis on endpoints relevant to the protection of human health. This report presents the findings of the experts for seven particular categories of scientific information on neutron biological effectiveness. Chapter 2 examines the radiobiological mechanisms underlying the assumptions used to estimate human risk from neutrons and other radiations. Chapter 3 discusses the qualitative and quantitative models used to organize and evaluate experimental observations and to provide extrapolations where direct observations cannot be made. Chapter 4 discusses the physical principles governing the interaction of radiation with biological systems and the importance of accurate dosimetry in evaluating radiation risk and reducing the uncertainty in the biological data. Chapter 5 deals with the chemical and molecular changes underlying cellular responses and the LET dependence of these changes. Chapter 6, in turn, discusses those cellular and genetic changes which lead to mutation or neoplastic transformation. Chapters 7 and 8 examine deterministic and stochastic effects, respectively, and the data required for the prediction of such effects at different organizational levels and for the extrapolation from experimental results in animals to risks for man. Gaps and uncertainties in this data are examined relative to data required for establishing radiation protection standards for neutrons and procedures for the effective and safe use of neutron and other high-LET radiation therapy.

Interactive analysis of systems biology molecular expression data

Directory of Open Access Journals (Sweden)

Prabhakar Sunil

2008-02-01

Full Text Available Abstract Background Systems biology aims to understand biological systems on a comprehensive scale, such that the components that make up the whole are connected to one another and work through dependent interactions. Molecular correlations and comparative studies of molecular expression are crucial to establishing interdependent connections in systems biology. The existing software packages provide limited data mining capability. The user must first generate visualization data with a preferred data mining algorithm and then upload the resulting data into the visualization package for graphic visualization of molecular relations. Results Presented is a novel interactive visual data mining application, SysNet that provides an interactive environment for the analysis of high data volume molecular expression information of most any type from biological systems. It integrates interactive graphic visualization and statistical data mining into a single package. SysNet interactively presents intermolecular correlation information with circular and heatmap layouts. It is also applicable to comparative analysis of molecular expression data, such as time course data. Conclusion The SysNet program has been utilized to analyze elemental profile changes in response to an increasing concentration of iron (Fe in growth media (an ionomics dataset. This study case demonstrates that the SysNet software is an effective platform for interactive analysis of molecular expression information in systems biology.

Division of Biological and Medical Research research summary 1984-1985

Energy Technology Data Exchange (ETDEWEB)

Barr, S.H. (ed.)

1985-08-01

The Division of Biological and Medical Research at Argonne National Laboratory conducts multidisciplinary research aimed at defining the biological and medical hazards to man from energy technologies and new energy options. These technically oriented studies have a strong base in fundamental research in a variety of scientific disciplines, including molecular and cellular biology, biophysics, genetics, radiobiology, pharmacology, biochemistry, chemistry, environmental toxicology, and epidemiology. This research summary is organized into six parts. The first five parts reflect the Divisional structure and contain the scientific program chapters, which summarize the activities of the individual groups during the calendar year 1984 and the first half of 1985. To provide better continuity and perspective, previous work is sometimes briefly described. Although the summaries are short, efforts have been made to indicate the range of research activities for each group.

Division of Biological and Medical Research research summary 1984-1985

International Nuclear Information System (INIS)

Barr, S.H.

1985-08-01

The Division of Biological and Medical Research at Argonne National Laboratory conducts multidisciplinary research aimed at defining the biological and medical hazards to man from energy technologies and new energy options. These technically oriented studies have a strong base in fundamental research in a variety of scientific disciplines, including molecular and cellular biology, biophysics, genetics, radiobiology, pharmacology, biochemistry, chemistry, environmental toxicology, and epidemiology. This research summary is organized into six parts. The first five parts reflect the Divisional structure and contain the scientific program chapters, which summarize the activities of the individual groups during the calendar year 1984 and the first half of 1985. To provide better continuity and perspective, previous work is sometimes briefly described. Although the summaries are short, efforts have been made to indicate the range of research activities for each group

Neutron instrumentation for biology

Energy Technology Data Exchange (ETDEWEB)

Mason, S.A. [Institut Laue-Langevin, Grenoble (France)

1994-12-31

In the October 1994 round of proposals at the ILL, the external biology review sub- committee was asked to allocate neutron beam time to a wide range of experiments, on almost half the total number of scheduled neutron instruments: on 3 diffractometers, on 3 small angle scattering instruments, and on some 6 inelastic scattering spectrometers. In the 3.5 years since the temporary reactor shutdown, the ILL`s management structure has been optimized, budgets and staff have been trimmed, the ILL reactor has been re-built, and many of the instruments up-graded, many powerful (mainly Unix) workstations have been introduced, and the neighboring European Synchrotron Radiation Facility has established itself as the leading synchrotron radiation source and has started its official user program. The ILL reactor remains the world`s most intense dedicated neutron source. In this challenging context, it is of interest to review briefly the park of ILL instruments used to study the structure and energetics of small and large biological systems. A brief summary will be made of each class of experiments actually proposed in the latest ILL proposal round.

Erasing Borders: A Brief Chronicle of Early Synthetic Biology.

Science.gov (United States)

Peretó, Juli

2016-12-01

Synthetic Biology is currently presented as an emergent field involving the application of engineering principles to living matter. However, the scientific pursuit of making life in a laboratory is not new and has been the ultimate, if somewhat distant, aim of the origin-of-life research program for many years. Actually, over a century ago, the idea that the synthesis of life was indispensable to fully understand its nature already appealed to material scientists and evolutionists alike. Jacques Loeb proposed a research program from an engineering standpoint, following a synthetic method (experimental abiogenesis) and based on his mechanist vision of living beings, which he considered true chemical machines. Early synthetic biology endeavors, such as the premature experiments by Alfonso L. Herrera in Mexico, Stéphane Leduc in France, and John B. Burke in United Kingdom, were easily ridiculed on both scientific and ideological grounds. However, in retrospect, all those attempts should be considered as legitimate and sincere anti-vitalistic efforts to cross the apparent border between inert and living matter.

Student Perceptions of the Cell Biology Laboratory Learning Environment in Four Undergraduate Science Courses in Spain

Science.gov (United States)

De Juan, Joaquin; Pérez-Cañaveras, Rosa M.; Segovia, Yolanda; Girela, Jose Luis; Martínez-Ruiz, Noemi; Romero-Rameta, Alejandro; Gómez-Torres, Maria José; Vizcaya-Moreno, M. Flores

2016-01-01

Cell biology is an academic discipline that organises and coordinates the learning of the structure, function and molecular composition of cells in some undergraduate biomedical programs. Besides course content and teaching methodologies, the laboratory environment is considered a key element in the teaching of and learning of cell biology. The…

Environmental research program. 1992 annual report

Energy Technology Data Exchange (ETDEWEB)

1993-07-01

The objective of the Environmental Research Program is to contribute to the understanding of the formation, mitigation, transport, transformation, and ecological effects of energy-related pollutants on the environment. The program is multidisciplinary and includes fundamental and applied research in chemistry, physics, biology, engineering, and ecology. The program undertakes research and development in efficient and environmentally benign combustion, pollution abatement and destruction, and novel methods of detection and analysis of criteria and non-criteria pollutants. This diverse group investigates combustion, atmospheric processes, flue-gas chemistry, and ecological systems.

Ecological Research Division, Marine Research Program

Energy Technology Data Exchange (ETDEWEB)

1980-05-01

This report presents program summaries of the various projects sponsored during 1979 by the Marine Research Program of the Ecological Research Division. Program areas include the effects of petroleum hydrocarbons on the marine environment; a study of the baseline ecology of a proposed OTEC site near Puerto Rico; the environmental impact of offshore geothermal energy development; the movement of radionuclides through the marine environment; the environmental aspects of power plant cooling systems; and studies of the physical and biological oceangraphy of the continental shelves bordering the United States.

Ecological Research Division, Marine Research Program

International Nuclear Information System (INIS)

1980-05-01

This report presents program summaries of the various projects sponsored during 1979 by the Marine Research Program of the Ecological Research Division. Program areas include the effects of petroleum hydrocarbons on the marine environment; a study of the baseline ecology of a proposed OTEC site near Puerto Rico; the environmental impact of offshore geothermal energy development; the movement of radionuclides through the marine environment; the environmental aspects of power plant cooling systems; and studies of the physical and biological oceangraphy of the continental shelves bordering the United States

Allostatic load and biological anthropology.

Science.gov (United States)

Edes, Ashley N; Crews, Douglas E

2017-01-01

Multiple stressors affect developing and adult organisms, thereby partly structuring their phenotypes. Determining how stressors influence health, well-being, and longevity in human and nonhuman primate populations are major foci within biological anthropology. Although much effort has been devoted to examining responses to multiple environmental and sociocultural stressors, no holistic metric to measure stress-related physiological dysfunction has been widely applied within biological anthropology. Researchers from disciplines outside anthropology are using allostatic load indices (ALIs) to estimate such dysregulation and examine life-long outcomes of stressor exposures, including morbidity and mortality. Following allostasis theory, allostatic load represents accumulated physiological and somatic damage secondary to stressors and senescent processes experienced over the lifespan. ALIs estimate this wear-and-tear using a composite of biomarkers representing neuroendocrine, cardiovascular, metabolic, and immune systems. Across samples, ALIs are associated significantly with multiple individual characteristics (e.g., age, sex, education, DNA variation) of interest within biological anthropology. They also predict future outcomes, including aspects of life history variation (e.g., survival, lifespan), mental and physical health, morbidity and mortality, and likely health disparities between groups, by stressor exposures, ethnicity, occupations, and degree of departure from local indigenous life ways and integration into external and commodified ones. ALIs also may be applied to similar stress-related research areas among nonhuman primates. Given the reports from multiple research endeavors, here we propose ALIs may be useful for assessing stressors, stress responses, and stress-related dysfunction, current and long-term cognitive function, health and well-being, and risk of early mortality across many research programs within biological anthropology. © 2017 American

A Systems Biology Approach to Infectious Disease Research: Innovating the Pathogen-Host Research Paradigm

Energy Technology Data Exchange (ETDEWEB)

Aderem, Alan; Adkins, Joshua N.; Ansong, Charles; Galagan, James; Kaiser, Shari; Korth, Marcus J.; Law, G. L.; McDermott, Jason E.; Proll, Sean; Rosenberger, Carrie; Schoolnik, Gary; Katze, Michael G.

2011-02-01

The 20th century was marked by extraordinary advances in our understanding of microbes and infectious disease, but pandemics remain, food and water borne illnesses are frequent, multi-drug resistant microbes are on the rise, and the needed drugs and vaccines have not been developed. The scientific approaches of the past—including the intense focus on individual genes and proteins typical of molecular biology—have not been sufficient to address these challenges. The first decade of the 21st century has seen remarkable innovations in technology and computational methods. These new tools provide nearly comprehensive views of complex biological systems and can provide a correspondingly deeper understanding of pathogen-host interactions. To take full advantage of these innovations, the National Institute of Allergy and Infectious Diseases recently initiated the Systems Biology Program for Infectious Disease Research. As participants of the Systems Biology Program we think that the time is at hand to redefine the pathogen-host research paradigm.

Vitiligo-like lesions occurring in patients receiving anti-programmed cell death-1 therapies are clinically and biologically distinct from vitiligo.

Science.gov (United States)

Larsabal, Maiana; Marti, Aurélie; Jacquemin, Clément; Rambert, Jérôme; Thiolat, Denis; Dousset, Léa; Taieb, Alain; Dutriaux, Caroline; Prey, Sorilla; Boniface, Katia; Seneschal, Julien

2017-05-01

The use of anti-programmed cell death (PD)-1 therapies in metastatic tumors is associated with cutaneous side effects including vitiligo-like lesions. We sought to characterize clinically and biologically vitiligo-like lesions occurring in patients receiving anti-PD-1 therapies by studying a case series of 8 patients with metastatic tumors and 30 control subjects with vitiligo. Eight patients receiving anti-PD-1 therapies with features of vitiligo-like lesions seen in our department were recruited. Clinical features and photographs were analyzed. For some patients, skin and blood samples were obtained. Results were compared with the vitiligo group. All patients developed lesions localized on photoexposed areas with a specific depigmentation pattern consisting of multiple flecked lesions without Koebner phenomenon. In contrast to vitiligo, patients receiving anti-PD-1 therapies who developed vitiligo-like lesions did not report any personal or family histories of vitiligo, thyroiditis, or other autoimmune disorders. Analysis of blood and skin samples revealed increased C-X-C motif ligand 10 levels in serum of patients developing vitiligo-like lesions, associated with skin infiltration of CD8 T-cells expressing C-X-C motif receptor 3 and producing elevated levels of interferon-γ and tumor necrosis factor-alfa. This cross-sectional study concerned a single center. Clinical and biological patterns of vitiligo-like lesions occurring in patients receiving anti-PD-1 therapies differ from vitiligo, suggesting a different mechanism. Copyright © 2016 American Academy of Dermatology, Inc. Published by Elsevier Inc. All rights reserved.

Quarterly report of Biological and Medical Research Division, April 1955

Energy Technology Data Exchange (ETDEWEB)

Brues, A.M.

1955-04-01

This report is a compilation of 48 investigator prepared summaries of recent progress in individual research programs of the Biology and Medical Division of the Argonne National Laboratory for the quarterly period ending April,1955. Individual reports are about 3-6 pages in length and often contain research data.

Leveraging biology interest to broaden participation in the geosciences

Science.gov (United States)

Perin, S.; Conner, L.; Oxtoby, L.

2017-12-01

It has been well documented that female participation in the geoscience workforce is low. By contrast, the biology workforce has largely reached gender parity. These trends are rooted in patterns of interest among youth. Specifically, girls tend to like biology and value social and societal connections to science (Brotman & Moore 2008). Our NSF-funded project, "BRIGHT Girls," offers two-week summer academies to high school-aged girls, in which the connections between the geosciences and biology are made explicit. We are conducting qualitative research to trace the girls' identity work during this intervention. Using team-based video interaction analysis, we are finding that the fabric of the academy allows girls to "try on" new possible selves in science. Our results imply that real-world, interdisciplinary programs that include opportunities for agency and authentic science practice may be a fruitful approach for broadening participation in the geosciences.

Crossing frontiers in tackling pathways of biological invasions

Czech Academy of Sciences Publication Activity Database

Essl, F.; Bacher, S.; Blackburn, T. M.; Booy, O.; Brundu, G.; Brunel, S.; Cardoso, A.-C.; Eschen, R.; Gallardo, B.; Galil, B.; García-Berthou, E.; Genovesi, P.; Groom, Q.; Harrower, C.; Hulme, P. E.; Katsanevakis, S.; Kenis, M.; Kühn, I.; Kumschick, S.; Martinou, A. F.; Nentwig, W.; O´Flynn, C.; Pagad, S.; Pergl, Jan; Pyšek, Petr; Rabitsch, W.; Richardson, D. M.; Roques, A.; Roy, H. E.; Sclarea, R.; Schindler, S.; Seebens, H.; Vanderhoeven, S.; Vila, M.; Wilson, J. R. U.; Zenetos, A.; Jeschke, J.M.

2015-01-01

Roč. 65, č. 8 (2015), s. 769-782 ISSN 0006-3568 R&D Projects: GA ČR GB14-36079G; GA ČR(CZ) GAP504/11/1028 Grant - others:AV ČR(CZ) AP1002 Program:Akademická prémie - Praemium Academiae Institutional support: RVO:67985939 Keywords : biological invasions * pathways * management Subject RIV: EH - Ecology, Behaviour Impact factor: 4.294, year: 2015

7th Annual Systems Biology Symposium: Systems Biology and Engineering

Energy Technology Data Exchange (ETDEWEB)

Galitski, Timothy P.

2008-04-01

Systems biology recognizes the complex multi-scale organization of biological systems, from molecules to ecosystems. The International Symposium on Systems Biology has been hosted by the Institute for Systems Biology in Seattle, Washington, since 2002. The annual two-day event gathers the most influential researchers transforming biology into an integrative discipline investingating complex systems. Engineering and application of new technology is a central element of systems biology. Genome-scale, or very small-scale, biological questions drive the enigneering of new technologies, which enable new modes of experimentation and computational analysis, leading to new biological insights and questions. Concepts and analytical methods in engineering are now finding direct applications in biology. Therefore, the 2008 Symposium, funded in partnership with the Department of Energy, featured global leaders in "Systems Biology and Engineering."

The Promises of Biology and the Biology of Promises

DEFF Research Database (Denmark)

Lee, Jieun

2015-01-01

commitments with differently imagined futures. I argue that promises are constitutive of the stem cell biology, rather than being derivative of it. Since the biological concept of stem cells is predicated on the future that they promise, the biological life of stem cells is inextricably intertwined...... patients’ bodies in anticipation of materializing the promises of stem cell biology, they are produced as a new form of biovaluable. The promises of biology move beyond the closed circuit of scientific knowledge production, and proliferate in the speculative marketplaces of promises. Part II looks at how...... of technologized biology and biological time can appear promising with the backdrop of the imagined intransigence of social, political, and economic order in the Korean society....

Biological Select Agents and Toxins: Risk-Based Assessment Management and Oversight.

Energy Technology Data Exchange (ETDEWEB)

Burnett, LouAnn Crawford; Brodsky, Benjamin H.

2016-12-01

Sandia National Laboratories' International Biological and Chemical Threat Reduction (SNL/IBCTR) conducted, on behalf of the Federal Select Agent Program (FSAP), a review of risk assessment in modern select agent laboratories. This review and analysis consisted of literature review, interviews of FSAP staff, entities regulated by FSAP, and deliberations of an expert panel. Additionally, SNL/IBCTR reviewed oversight mechanisms used by industries, US agencies, and other countries for high-consequence risks (e.g, nuclear, chemical, or biological materials, aviation, off-shore drilling, etc.) to determine if alternate oversight mechanisms existed that might be applicable to FSAP oversight of biological select agents and toxins. This report contains five findings, based on these reviews and analyses, with recommendations and suggested actions for FSAP to consider.

Biological parameters of onion thrips, Thrips tabaci Lindeman on onion cultivars

Directory of Open Access Journals (Sweden)

Moraiet Maher Ahmed

2017-06-01

Full Text Available Biological parameters of the onion thrips, Thrips tabaci Lindeman were studied on the following onion (Allium cepa L. cultivars: Nasik Red Plus N-53, Onion Dr-301 (Krishna, Onion White, and Nasik Red, at 25±1°C and 65±5% RH. Significant (p < 0.05 differences were found in the life stages and fertility life tables on different cultivars except in the pupal stages. More information about the biological parameters of T. tabaci on onion cultivars can help in designing Integrated Pest Management programs for onion thrips.

Health as science and the biological body as an artifact: the case of Brazil's national TV news program Jornal Nacional.

Science.gov (United States)

Caron, Eduardo; Ianni, Aurea Maria Zöllner; Lefevre, Fernando

2018-04-01

This article presents the findings of a study of the coverage of health, science and technology during 2012 by the Jornal Nacional, a national television news program in Brazil produced by the Rede Globo de Televisão. A total of 246 news stories addressing health-related topics were analyzed, half of which addressed scientific research, technological innovation and hospital care, and were shown to represent a doctor-centered discourse. The findings also show that 82% of the news stories concerning science and technology advertise products that are about to be introduced onto the market, illustrating the commercial nature of this research. The article discusses two aspects portrayed by these news stories that characterize the biological body as an artifact: the construction of a virtual and fragmented body through the diffusion of images of the inside of the body; and the importance of biotechnological issues, which leaves life processes open to molecular manipulation and alteration. The study also questions the nature-culture hybridization present in biotechnological objects.

Building biological foundries for next-generation synthetic biology.

Science.gov (United States)

Chao, Ran; Yuan, YongBo; Zhao, HuiMin

2015-07-01

Synthetic biology is an interdisciplinary field that takes top-down approaches to understand and engineer biological systems through design-build-test cycles. A number of advances in this relatively young field have greatly accelerated such engineering cycles. Specifically, various innovative tools were developed for in silico biosystems design, DNA de novo synthesis and assembly, construct verification, as well as metabolite analysis, which have laid a solid foundation for building biological foundries for rapid prototyping of improved or novel biosystems. This review summarizes the state-of-the-art technologies for synthetic biology and discusses the challenges to establish such biological foundries.

Biology and Medicine Division annual report, 1985

International Nuclear Information System (INIS)

1986-04-01

This book briefly describes the activities of the Biology and Medicine Division of the Lawrence Berkeley Laboratory. During the past year the Donner Pavilion program on the treatment of arteriovenous malformations in the brain has chalked up very significant successes. The disease control rate has been high and objective measures of success using cerebral angiography have been established. The new high resolution positron emitting tomographic imager has been demonstrated to operate successfully. In the Radiation Biophysics program, the availability of higher mass ions up to uranium has allowed us cell and tissue studies in a radiation domain that is entirely new. Using uranium beams, investigators have already made new and exciting findings that are described in the body of the report

Biology and Medicine Division annual report, 1985

Energy Technology Data Exchange (ETDEWEB)

1986-04-01

This book briefly describes the activities of the Biology and Medicine Division of the Lawrence Berkeley Laboratory. During the past year the Donner Pavilion program on the treatment of arteriovenous malformations in the brain has chalked up very significant successes. The disease control rate has been high and objective measures of success using cerebral angiography have been established. The new high resolution positron emitting tomographic imager has been demonstrated to operate successfully. In the Radiation Biophysics program, the availability of higher mass ions up to uranium has allowed us cell and tissue studies in a radiation domain that is entirely new. Using uranium beams, investigators have already made new and exciting findings that are described in the body of the report.

Marine molecular biology: an emerging field of biological sciences.

Science.gov (United States)

Thakur, Narsinh L; Jain, Roopesh; Natalio, Filipe; Hamer, Bojan; Thakur, Archana N; Müller, Werner E G

2008-01-01

An appreciation of the potential applications of molecular biology is of growing importance in many areas of life sciences, including marine biology. During the past two decades, the development of sophisticated molecular technologies and instruments for biomedical research has resulted in significant advances in the biological sciences. However, the value of molecular techniques for addressing problems in marine biology has only recently begun to be cherished. It has been proven that the exploitation of molecular biological techniques will allow difficult research questions about marine organisms and ocean processes to be addressed. Marine molecular biology is a discipline, which strives to define and solve the problems regarding the sustainable exploration of marine life for human health and welfare, through the cooperation between scientists working in marine biology, molecular biology, microbiology and chemistry disciplines. Several success stories of the applications of molecular techniques in the field of marine biology are guiding further research in this area. In this review different molecular techniques are discussed, which have application in marine microbiology, marine invertebrate biology, marine ecology, marine natural products, material sciences, fisheries, conservation and bio-invasion etc. In summary, if marine biologists and molecular biologists continue to work towards strong partnership during the next decade and recognize intellectual and technological advantages and benefits of such partnership, an exciting new frontier of marine molecular biology will emerge in the future.

DOE EPSCoR Initiative in Structural and computational Biology/Bioinformatics

Energy Technology Data Exchange (ETDEWEB)

Wallace, Susan S.

2008-02-21

The overall goal of the DOE EPSCoR Initiative in Structural and Computational Biology was to enhance the competiveness of Vermont research in these scientific areas. To develop self-sustaining infrastructure, we increased the critical mass of faculty, developed shared resources that made junior researchers more competitive for federal research grants, implemented programs to train graduate and undergraduate students who participated in these research areas and provided seed money for research projects. During the time period funded by this DOE initiative: (1) four new faculty were recruited to the University of Vermont using DOE resources, three in Computational Biology and one in Structural Biology; (2) technical support was provided for the Computational and Structural Biology facilities; (3) twenty-two graduate students were directly funded by fellowships; (4) fifteen undergraduate students were supported during the summer; and (5) twenty-eight pilot projects were supported. Taken together these dollars resulted in a plethora of published papers, many in high profile journals in the fields and directly impacted competitive extramural funding based on structural or computational biology resulting in 49 million dollars awarded in grants (Appendix I), a 600% return on investment by DOE, the State and University.

Biological challenges of true space settlement

Science.gov (United States)

Mankins, John C.; Mankins, Willa M.; Walter, Helen

2018-05-01

"Space Settlements" - i.e., permanent human communities beyond Earth's biosphere - have been discussed within the space advocacy community since the 1970s. Now, with the end of the International Space Station (ISS) program fast approaching (planned for 2024-2025) and the advent of low cost Earth-to-orbit (ETO) transportation in the near future, the concept is coming once more into mainstream. Considerable attention has been focused on various issues associated with the engineering and human health considerations of space settlement such as artificial gravity and radiation shielding. However, relatively little attention has been given to the biological implications of a self-sufficient space settlement. Three fundamental questions are explored in this paper: (1) what are the biological "foundations" of truly self-sufficient space settlements in the foreseeable future, (2) what is the minimum scale for such self-sustaining human settlements, and (3) what are the integrated biologically-driven system requirements for such settlements? The paper examines briefly the implications of the answers to these questions in relevant potential settings (including free space, the Moon and Mars). Finally, this paper suggests relevant directions for future research and development in order for such space settlements to become viable in the future.

Space Biology in Russia Today

Science.gov (United States)

Grigoriev, Anatoly; Sychev, Vladimir; Ilyin, Eugene

At present space biology research in Russia is making significant progress in several areas of high priority. Gravitational biology. In April-May 2013, a successful 30-day flight of the biological satellite (biosatellite) Bion-M1 was conducted, which carried rodents (mice and gerbils), geckos, fish, mollusks, crustaceans, microorganisms, insects, lower and higher plants, seeds, etc. The investigations were performed by Russian scientists as well as by researchers from NASA, CNES, DLR and South Korea. Foton-M4 carrying various biological specimens is scheduled to launch in 2014. Work has begun to develop science research programs to be implemented onboard Bion-M2 and Bion-M3 as well as on high apogee recoverable spacecraft. Study of the effects of microgravity on the growth and development of higher plants cultivated over several generations on the International Space Station (ISS) has been recently completed. Space radiobiology. Regular experiments aimed at investigating the effects of high-energy galactic cosmic rays on the animal central nervous system and behavior are being carried out using the Particle Accelerator in the town of Dubna. Biological (environmental) life support systems. In recent years, experiments have been performed on the ISS to upgrade technologies of plant cultivation in microgravity. Advanced greenhouse mockups have been built and are currentlyundergoing bioengineering tests. Technologies of waste utilization in space are being developed. Astrobiology experiments in orbital missions. In 2010, the Biorisk experiment on bacterial and fungal spores, seeds and dormant forms of organisms was completed. The payload containing the specimens was installed on the exterior wall of the ISS and was exposed to outer space for 31 months. In addition, Bion-M1 also carried seeds, bacterial spores and microbes that were exposed to outer space effects. The survival rate of bacterial spores incorporated into man-made meteorites, that were attached to the

Monitoring Biological Activity at Geothermal Power Plants

Energy Technology Data Exchange (ETDEWEB)

Peter Pryfogle

2005-09-01

The economic impact of microbial growth in geothermal power plants has been estimated to be as high as $500,000 annually for a 100 MWe plant. Many methods are available to monitor biological activity at these facilities; however, very few plants have any on-line monitoring program in place. Metal coupon, selective culturing (MPN), total organic carbon (TOC), adenosine triphosphate (ATP), respirometry, phospholipid fatty acid (PLFA), and denaturing gradient gel electrophoresis (DGGE) characterizations have been conducted using water samples collected from geothermal plants located in California and Utah. In addition, the on-line performance of a commercial electrochemical monitor, the BIoGEORGE?, has been evaluated during extended deployments at geothermal facilities. This report provides a review of these techniques, presents data on their application from laboratory and field studies, and discusses their value in characterizing and monitoring biological activities at geothermal power plants.

Biological and environmental reference materials in CENAM.

Science.gov (United States)

Arvizu-Torres, R; Perez-Castorena, A; Salas-Tellez, J A; Mitani-Nakanishi, Y

2001-06-01

Since 1994, when the NIST/NOAA Quality Assurance Program in Chemical Measurements was discussed in Queretaro, CENAM, the National Measurement Institute (NMI) of Mexico, has become involved in the development of reference materials. In the field of biological and environmental reference materials, in particular, the NORAMET collaboration program with NIST and NRC, and the North-American Environmental Cooperation signed among three free-trade treaty organizations, have greatly helped the development of the materials metrology program in the newly established CENAM. This paper describes some particularly significant efforts of CENAM in the development of biological and environmental reference materials, on the basis of inter-comparison studies organized with local and governmental environmental agencies of Mexico. In the field of water pollution CENAM has developed a practical proficiency testing (PT) scheme for field laboratories, as a part of registration by local government in the metropolitan area, according to the Mexican Ecological Regulation. The results from these eight PTs in the last 5 years have demonstrated that this scheme has helped ensure the reliability of analytical capability of more than 50 field laboratories in three states, Mexico, D.F., and the States of Mexico and Queretaro. Similar experience has been obtained for more than 70 service units of stack emission measurements in the three states in 1998 and 1999, as a result of the design of a PT scheme for reference gas mixtures. This PT scheme has been accomplished successfully by 30 analytical laboratories who provide monitoring services and perform research on toxic substances (Hg, methylmercury, PCB, etc.) in Mexico. To support these activities, reference samples have been produced through the NIST SRMs, and efforts have been made to increase CENAM's capability in the preparation of primary reference materials in spectrometric solutions and gas mixtures. Collaboration among NMIs has also

Radiation physics, biophysics, and radiation biology

International Nuclear Information System (INIS)

Hall, E.J.

1992-05-01

The following research programs from the Center for Radiological Research of Columbia University are described: Design and development of a new wall-less ultra miniature proportional counter for nanodosimetry; some recent measurements of ionization distributions for heavy ions at nanometer site sizes with a wall-less proportional counter; a calculation of exciton energies in periodic systems with helical symmetry: application to a hydrogen fluoride chain; electron energy-loss function in polynucleotide and the question of plasmon excitation; a non-parametric, microdosimetric-based approach to the evaluation of the biological effects of low doses of ionizing radiation; high-LET radiation risk assessment at medium doses; high-LET radiobiological effects: increased lesion severity or increased lesion proximity; photoneutrons generated by high energy medical linacs; the biological effectiveness of neutrons; implications for radiation protection; molecular characterization of oncogenes induced by neutrons; and the inverse dose-rate effect for oncogenic transformation by charged particles is LET dependent

A user-friendly robotic sample preparation program for fully automated biological sample pipetting and dilution to benefit the regulated bioanalysis.

Science.gov (United States)

Jiang, Hao; Ouyang, Zheng; Zeng, Jianing; Yuan, Long; Zheng, Naiyu; Jemal, Mohammed; Arnold, Mark E

2012-06-01

Biological sample dilution is a rate-limiting step in bioanalytical sample preparation when the concentrations of samples are beyond standard curve ranges, especially when multiple dilution factors are needed in an analytical run. We have developed and validated a Microsoft Excel-based robotic sample preparation program (RSPP) that automatically transforms Watson worklist sample information (identification, sequence and dilution factor) to comma-separated value (CSV) files. The Freedom EVO liquid handler software imports and transforms the CSV files to executable worklists (.gwl files), allowing the robot to perform sample dilutions at variable dilution factors. The dynamic dilution range is 1- to 1000-fold and divided into three dilution steps: 1- to 10-, 11- to 100-, and 101- to 1000-fold. The whole process, including pipetting samples, diluting samples, and adding internal standard(s), is accomplished within 1 h for two racks of samples (96 samples/rack). This platform also supports online sample extraction (liquid-liquid extraction, solid-phase extraction, protein precipitation, etc.) using 96 multichannel arms. This fully automated and validated sample dilution and preparation process has been applied to several drug development programs. The results demonstrate that application of the RSPP for fully automated sample processing is efficient and rugged. The RSPP not only saved more than 50% of the time in sample pipetting and dilution but also reduced human errors. The generated bioanalytical data are accurate and precise; therefore, this application can be used in regulated bioanalysis.