Analysis of DNA methylation in Arabidopsis thaliana based on methylation-sensitive AFLP markers.

Science.gov (United States)

Cervera, M T; Ruiz-García, L; Martínez-Zapater, J M

2002-12-01

AFLP analysis using restriction enzyme isoschizomers that differ in their sensitivity to methylation of their recognition sites has been used to analyse the methylation state of anonymous CCGG sequences in Arabidopsis thaliana. The technique was modified to improve the quality of fingerprints and to visualise larger numbers of scorable fragments. Sequencing of amplified fragments indicated that detection was generally associated with non-methylation of the cytosine to which the isoschizomer is sensitive. Comparison of EcoRI/ HpaII and EcoRI/ MspI patterns in different ecotypes revealed that 35-43% of CCGG sites were differentially digested by the isoschizomers. Interestingly, the pattern of digestion among different plants belonging to the same ecotype is highly conserved, with the rate of intra-ecotype methylation-sensitive polymorphisms being less than 1%. However, pairwise comparisons of methylation patterns between samples belonging to different ecotypes revealed differences in up to 34% of the methylation-sensitive polymorphisms. The lack of correlation between inter-ecotype similarity matrices based on methylation-insensitive or methylation-sensitive polymorphisms suggests that whatever the mechanisms regulating methylation may be, they are not related to nucleotide sequence variation.

New high-performance liquid chromatography assay for glycosyltransferases based on derivatization with anthranilic acid and fluorescence detection.

Science.gov (United States)

Anumula, Kalyan Rao

2012-07-01

Assays were developed using the unique labeling chemistry of 2-aminobenzoic acid (2AA; anthranilic acid, AA) for measuring activities of both β1-4 galactosyltransferase (GalT-1) and α2-6 sialyltransferase (ST-6) by high-performance liquid chromatography (HPLC) with fluorescence detection (Anumula KR. 2006. Advances in fluorescence derivatization methods for high-performance liquid chromatographic analysis of glycoprotein carbohydrates. Anal Biochem. 350:1-23). N-Acetylglucosamine (GlcNAc) and N-acetyllactosamine were used as acceptors and uridine diphosphate (UDP)-galactose and cytidine monophosphate (CMP)-N-acetylneuraminic acid (NANA) as donors for GalT-1 and ST-6, respectively. Enzymatic products were labeled in situ with AA and were separated from the substrates on TSKgel Amide 80 column using normal-phase conditions. Enzyme units were determined from the peak areas by comparison with the concomitantly derivatized standards Gal-β1-4GlcNAc and NANA-α2-6 Gal-β1-4GlcNAc. Linearity (time and enzyme concentration), precision (intra- and interassay) and reproducibility for the assays were established. The assays were found to be useful in monitoring the enzyme activities during isolation and purification. The assays were highly sensitive and performed equal to or better than the traditional radioactive sugar-based measurements. The assay format can also be used for measuring the activity of other transferases, provided that the carbohydrate acceptors contain a reducing end for labeling. An assay for glycoprotein acceptors was developed using IgG. A short HPLC profiling method was developed for the separation of IgG glycans (biantennary G0, G1, G2, mono- and disialylated), which facilitated the determination of GalT-1 and ST-6 activities in a rapid manner. Furthermore, this profiling method should prove useful for monitoring the changes in IgG glycans in clinical settings.

Methyl-Analyzer--whole genome DNA methylation profiling.

Science.gov (United States)

Xin, Yurong; Ge, Yongchao; Haghighi, Fatemeh G

2011-08-15

Methyl-Analyzer is a python package that analyzes genome-wide DNA methylation data produced by the Methyl-MAPS (methylation mapping analysis by paired-end sequencing) method. Methyl-MAPS is an enzymatic-based method that uses both methylation-sensitive and -dependent enzymes covering >80% of CpG dinucleotides within mammalian genomes. It combines enzymatic-based approaches with high-throughput next-generation sequencing technology to provide whole genome DNA methylation profiles. Methyl-Analyzer processes and integrates sequencing reads from methylated and unmethylated compartments and estimates CpG methylation probabilities at single base resolution. Methyl-Analyzer is available at http://github.com/epigenomics/methylmaps. Sample dataset is available for download at http://epigenomicspub.columbia.edu/methylanalyzer_data.html. fgh3@columbia.edu Supplementary data are available at Bioinformatics online.

Investigation of the luminescent properties of terbium-anthranilate complexes and application to the determination of anthranilic acid derivatives in aqueous solutions

Energy Technology Data Exchange (ETDEWEB)

Arnaud, N.; Georges, J

2003-01-10

The luminescent properties of terbium complexes with furosemide (FR), flufenamic (FF) acid, tolfenamic (TF) acid and mefenamic (MF) acid have been investigated in aqueous solutions. For all four compounds, complexation occurs when the carboxylic acid of the aminobenzoic group is dissociated and is greatly favoured in the presence of trioctylphosphine oxide as co-ligand and Triton X-100 as surfactant. Under optimum conditions, luminescence of the lanthanide ion is efficiently sensitised and the lifetime of the {sup 5}D{sub 4} resonance level of terbium in the complex is ranging between 1 and 1.9 ms, against 0.4 ms for the aqua ion. The sensitivity of the method for the determination of anthranilic acid derivatives is improved by one to two orders of magnitude with respect to that achieved using native fluorescence or terbium-sensitised luminescence in methanol. The limits of detection are 2x10{sup -10}, 5x10{sup -10} and 2x10{sup -9} mol l{sup -1} for flufenamic acid, furosemide and tolfenamic acid, and mefenamic acid, respectively, with within-run RSD values of less than 1%. The method has been applied to the determination of flufenamic acid in spiked calf sera with and without sample pretreatment. Depending on the method and the analyte concentration, the recovery was ranging between 83 and 113% and the lowest concentration attainable in serum samples was close to 1x10{sup -7} mol l{sup -1}.

Analysis of fluorescently labeled glycosphingolipid-derived oligosaccharides following ceramide glycanase digestion and anthranilic acid labeling.

Science.gov (United States)

Neville, David C A; Coquard, Virginie; Priestman, David A; te Vruchte, Danielle J M; Sillence, Daniel J; Dwek, Raymond A; Platt, Frances M; Butters, Terry D

2004-08-15

Interest in cellular glycosphingolipid (GSL) function has necessitated the development of a rapid and sensitive method to both analyze and characterize the full complement of structures present in various cells and tissues. An optimized method to characterize oligosaccharides released from glycosphingolipids following ceramide glycanase digestion has been developed. The procedure uses the fluorescent compound anthranilic acid (2-aminobenzoic acid; 2-AA) to label oligosaccharides prior to analysis using normal-phase high-performance liquid chromatography. The labeling procedure is rapid, selective, and easy to perform and is based on the published method of Anumula and Dhume [Glycobiology 8 (1998) 685], originally used to analyze N-linked oligosaccharides. It is less time consuming than a previously published 2-aminobenzamide labeling method [Anal. Biochem. 298 (2001) 207] for analyzing GSL-derived oligosaccharides, as the fluorescent labeling is performed on the enzyme reaction mixture. The purification of 2-AA-labeled products has been improved to ensure recovery of oligosaccharides containing one to four monosaccharide units, which was not previously possible using the Anumula and Dhume post-derivatization purification procedure. This new approach may also be used to analyze both N- and O-linked oligosaccharides.

Biological effects of methyl and ethyl mercury compounds used as disinfectants for seed-grain on domestic and wild life

Energy Technology Data Exchange (ETDEWEB)

Tejning, S

1971-01-01

A short survey of the harmful effects of methyl and ethyl mercury on wild and domestic life and on man since the introduction of these compounds in plant protection is given. The biological effects of methyl mercury in birds are illustrated by experiments in hens concerning its accumulation in their organs and plumage, its elimination in eggs and excrements and its influence on the health of the birds, their laying habits and egg production including the occurrence of embryonic damages and the hatchability. Attention is drawn to the ability of methyl mercury to cause genetical disorders. 14 references, 1 figure, 1 table.

Dianthosaponins G-I, triterpene saponins, an anthranilic acid amide glucoside and a flavonoid glycoside from the aerial parts of Dianthus japonicus and their cytotoxicity.

Science.gov (United States)

Kanehira, Yuka; Kawakami, Susumu; Sugimoto, Sachiko; Matsunami, Katsuyoshi; Otsuka, Hideaki

2016-10-01

Extensive isolation work on the 1-BuOH-soluble fraction of a MeOH extract of the aerial parts of Dianthus japonicus afforded three further triterpene glycosyl estsers, termed dianthosaponins G-I, an anthranilic acid amide glucoside and a C-glycosyl flavonoid along with one known triterpene saponin. Their structures were elucidated from spectroscopic evidence. The cytotoxicity of the isolated compounds toward A549 cells was evaluated.

Diagnostic markers of urothelial cancer based on DNA methylation analysis

International Nuclear Information System (INIS)

Chihara, Yoshitomo; Hirao, Yoshihiko; Kanai, Yae; Fujimoto, Hiroyuki; Sugano, Kokichi; Kawashima, Kiyotaka; Liang, Gangning; Jones, Peter A; Fujimoto, Kiyohide; Kuniyasu, Hiroki

2013-01-01

Early detection and risk assessment are crucial for treating urothelial cancer (UC), which is characterized by a high recurrence rate, and necessitates frequent and invasive monitoring. We aimed to establish diagnostic markers for UC based on DNA methylation. In this multi-center study, three independent sample sets were prepared. First, DNA methylation levels at CpG loci were measured in the training sets (tumor samples from 91 UC patients, corresponding normal-appearing tissue from these patients, and 12 normal tissues from age-matched bladder cancer-free patients) using the Illumina Golden Gate methylation assay to identify differentially methylated loci. Next, these methylated loci were validated by quantitative DNA methylation by pyrosequencing, using another cohort of tissue samples (Tissue validation set). Lastly, methylation of these markers was analyzed in the independent urine samples (Urine validation set). ROC analysis was performed to evaluate the diagnostic accuracy of these 12 selected markers. Of the 1303 CpG sites, 158 were hyper ethylated and 356 were hypo ethylated in tumor tissues compared to normal tissues. In the panel analysis, 12 loci showed remarkable alterations between tumor and normal samples, with 94.3% sensitivity and 97.8% specificity. Similarly, corresponding normal tissue could be distinguished from normal tissues with 76.0% sensitivity and 100% specificity. Furthermore, the diagnostic accuracy for UC of these markers determined in urine samples was high, with 100% sensitivity and 100% specificity. Based on these preliminary findings, diagnostic markers based on differential DNA methylation at specific loci can be useful for non-invasive and reliable detection of UC and epigenetic field defect

Automatic Parking Based on a Bird's Eye View Vision System

Directory of Open Access Journals (Sweden)

Chunxiang Wang

2014-03-01

Full Text Available This paper aims at realizing an automatic parking method through a bird's eye view vision system. With this method, vehicles can make robust and real-time detection and recognition of parking spaces. During parking process, the omnidirectional information of the environment can be obtained by using four on-board fisheye cameras around the vehicle, which are the main part of the bird's eye view vision system. In order to achieve this purpose, a polynomial fisheye distortion model is firstly used for camera calibration. An image mosaicking method based on the Levenberg-Marquardt algorithm is used to combine four individual images from fisheye cameras into one omnidirectional bird's eye view image. Secondly, features of the parking spaces are extracted with a Radon transform based method. Finally, double circular trajectory planning and a preview control strategy are utilized to realize autonomous parking. Through experimental analysis, we can see that the proposed method can get effective and robust real-time results in both parking space recognition and automatic parking.

Absolute quantification of DNA methylation using microfluidic chip-based digital PCR.

Science.gov (United States)

Wu, Zhenhua; Bai, Yanan; Cheng, Zule; Liu, Fangming; Wang, Ping; Yang, Dawei; Li, Gang; Jin, Qinghui; Mao, Hongju; Zhao, Jianlong

2017-10-15

Hypermethylation of CpG islands in the promoter region of many tumor suppressor genes downregulates their expression and in a result promotes tumorigenesis. Therefore, detection of DNA methylation status is a convenient diagnostic tool for cancer detection. Here, we reported a novel method for the integrative detection of methylation by the microfluidic chip-based digital PCR. This method relies on methylation-sensitive restriction enzyme HpaII, which cleaves the unmethylated DNA strands while keeping the methylated ones intact. After HpaII treatment, the DNA methylation level is determined quantitatively by the microfluidic chip-based digital PCR with the lower limit of detection equal to 0.52%. To validate the applicability of this method, promoter methylation of two tumor suppressor genes (PCDHGB6 and HOXA9) was tested in 10 samples of early stage lung adenocarcinoma and their adjacent non-tumorous tissues. The consistency was observed in the analysis of these samples using our method and a conventional bisulfite pyrosequencing. Combining high sensitivity and low cost, the microfluidic chip-based digital PCR method might provide a promising alternative for the detection of DNA methylation and early diagnosis of epigenetics-related diseases. Copyright © 2017 Elsevier B.V. All rights reserved.

A DNA methylation-based definition of biologically distinct breast cancer subtypes.

Science.gov (United States)

Stefansson, Olafur A; Moran, Sebastian; Gomez, Antonio; Sayols, Sergi; Arribas-Jorba, Carlos; Sandoval, Juan; Hilmarsdottir, Holmfridur; Olafsdottir, Elinborg; Tryggvadottir, Laufey; Jonasson, Jon G; Eyfjord, Jorunn; Esteller, Manel

2015-03-01

In cancer, epigenetic states are deregulated and thought to be of significance in cancer development and progression. We explored DNA methylation-based signatures in association with breast cancer subtypes to assess their impact on clinical presentation and patient prognosis. DNA methylation was analyzed using Infinium 450K arrays in 40 tumors and 17 normal breast samples, together with DNA copy number changes and subtype-specific markers by tissue microarrays. The identified methylation signatures were validated against a cohort of 212 tumors annotated for breast cancer subtypes by the PAM50 method (The Cancer Genome Atlas). Selected markers were pyrosequenced in an independent validation cohort of 310 tumors and analyzed with respect to survival, clinical stage and grade. The results demonstrate that DNA methylation patterns linked to the luminal-B subtype are characterized by CpG island promoter methylation events. In contrast, a large fraction of basal-like tumors are characterized by hypomethylation events occurring within the gene body. Based on these hallmark signatures, we defined two DNA methylation-based subtypes, Epi-LumB and Epi-Basal, and show that they are associated with unfavorable clinical parameters and reduced survival. Our data show that distinct mechanisms leading to changes in CpG methylation states are operative in different breast cancer subtypes. Importantly, we show that a few selected proxy markers can be used to detect the distinct DNA methylation-based subtypes thereby providing valuable information on disease prognosis. Copyright © 2014 The Authors. Published by Elsevier B.V. All rights reserved.

Literature based species occurrence data of birds of northeast India

Directory of Open Access Journals (Sweden)

Sujit Narwade

2011-11-01

Full Text Available The northeast region of India is one of the world’s most significant biodiversity hotspots. One of the richest bird areas in India, it is an important route for migratory birds and home to many endemic bird species. This paper describes a literature-based dataset of species occurrences of birds of northeast India. The occurrence records documented in the dataset are distributed across eleven provinces of India, viz.: Arunachal Pradesh, Assam, Bihar, Manipur, Meghalaya, Mizoram, Nagaland, Sikkim, Tripura, Uttar Pradesh and West Bengal. The geospatial scope of the dataset represents 24 to 29 degree North latitude and 78 to 94 degree East longitude, and it comprises over 2400 occurrence records. These records have been collated from scholarly literature published between1915 and 2008, especially from the Journal of the Bombay Natural History Society (JBNHS. The temporal scale of the dataset represents bird observations recorded between 1909 and 2007. The dataset has been developed by employing MS Excel. The key elements in the database are scientific name, taxonomic classification, temporal and geospatial details including geo-coordinate precision, data collector, basis of record and primary source of the data record. The temporal and geospatial quality of more than 50% of the data records has been enhanced retrospectively. Where possible, data records are annotated with geospatial coordinate precision to the nearest minute. This dataset is being constantly updated with the addition of new data records, and quality enhancement of documented occurrences. The dataset can be used in species distribution and niche modeling studies. It is planned to expand the scope of the dataset to collate bird species occurrences across the Indian peninsula.

Anthranilate phosphoribosyltransferase: Binding determinants for 5'-phospho-alpha-d-ribosyl-1'-pyrophosphate (PRPP) and the implications for inhibitor design.

Science.gov (United States)

Evans, Genevieve L; Furkert, Daniel P; Abermil, Nacim; Kundu, Preeti; de Lange, Katrina M; Parker, Emily J; Brimble, Margaret A; Baker, Edward N; Lott, J Shaun

2018-02-01

Phosphoribosyltransferases (PRTs) bind 5'-phospho-α-d-ribosyl-1'-pyrophosphate (PRPP) and transfer its phosphoribosyl group (PRib) to specific nucleophiles. Anthranilate PRT (AnPRT) is a promiscuous PRT that can phosphoribosylate both anthranilate and alternative substrates, and is the only example of a type III PRT. Comparison of the PRPP binding mode in type I, II and III PRTs indicates that AnPRT does not bind PRPP, or nearby metals, in the same conformation as other PRTs. A structure with a stereoisomer of PRPP bound to AnPRT from Mycobacterium tuberculosis (Mtb) suggests a catalytic or post-catalytic state that links PRib movement to metal movement. Crystal structures of Mtb-AnPRT in complex with PRPP and with varying occupancies of the two metal binding sites, complemented by activity assay data, indicate that this type III PRT binds a single metal-coordinated species of PRPP, while an adjacent second metal site can be occupied due to a separate binding event. A series of compounds were synthesized that included a phosphonate group to probe PRPP binding site. Compounds containing a "bianthranilate"-like moiety are inhibitors with IC 50 values of 10-60μM, and K i values of 1.3-15μM. Structures of Mtb-AnPRT in complex with these compounds indicate that their phosphonate moieties are unable to mimic the binding modes of the PRib or pyrophosphate moieties of PRPP. The AnPRT structures presented herein indicated that PRPP binds a surface cleft and becomes enclosed due to re-positioning of two mobile loops. Copyright © 2017 Elsevier B.V. All rights reserved.

9 CFR 93.104 - Certificate for pet birds, commercial birds, zoological birds, and research birds.

Science.gov (United States)

2010-01-01

... 9 Animals and Animal Products 1 2010-01-01 2010-01-01 false Certificate for pet birds, commercial birds, zoological birds, and research birds. 93.104 Section 93.104 Animals and Animal Products ANIMAL... (INCLUDING POULTRY) AND ANIMAL PRODUCTS IMPORTATION OF CERTAIN ANIMALS, BIRDS, FISH, AND POULTRY, AND CERTAIN...

Virginia ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, pelagic birds, passerine birds, and gulls...

Individual-based ecology of coastal birds.

Science.gov (United States)

Stillman, Richard A; Goss-Custard, John D

2010-08-01

Conservation objectives for non-breeding coastal birds (shorebirds and wildfowl) are determined from their population size at coastal sites. To advise coastal managers, models must predict quantitatively the effects of environmental change on population size or the demographic rates (mortality and reproduction) that determine it. As habitat association models and depletion models are not able to do this, we developed an approach that has produced such predictions thereby enabling policy makers to make evidence-based decisions. Our conceptual framework is individual-based ecology, in which populations are viewed as having properties (e.g. size) that arise from the traits (e.g. behaviour, physiology) and interactions of their constituent individuals. The link between individuals and populations is made through individual-based models (IBMs) that follow the fitness-maximising decisions of individuals and predict population-level consequences (e.g. mortality rate) from the fates of these individuals. Our first IBM was for oystercatchers Haematopus ostralegus and accurately predicted their density-dependent mortality. Subsequently, IBMs were developed for several shorebird and wildfowl species at several European sites, and were shown to predict accurately overwinter mortality, and the foraging behaviour from which predictions are derived. They have been used to predict the effect on survival in coastal birds of sea level rise, habitat loss, wind farm development, shellfishing and human disturbance. This review emphasises the wider applicability of the approach, and identifies other systems to which it could be applied. We view the IBM approach as a very useful contribution to the general problem of how to advance ecology to the point where we can routinely make meaningful predictions of how populations respond to environmental change.

Structural design principles of complex bird songs: a network-based approach.

Directory of Open Access Journals (Sweden)

Kazutoshi Sasahara

Full Text Available Bird songs are acoustic communication signals primarily used in male-male aggression and in male-female attraction. These are often monotonous patterns composed of a few phrases, yet some birds have extremely complex songs with a large phrase repertoire, organized in non-random fashion with discernible patterns. Since structure is typically associated with function, the structures of complex bird songs provide important clues to the evolution of animal communication systems. Here we propose an efficient network-based approach to explore structural design principles of complex bird songs, in which the song networks--transition relationships among different phrases and the related structural measures--are employed. We demonstrate how this approach works with an example using California Thrasher songs, which are sequences of highly varied phrases delivered in succession over several minutes. These songs display two distinct features: a large phrase repertoire with a 'small-world' architecture, in which subsets of phrases are highly grouped and linked with a short average path length; and a balanced transition diversity amongst phrases, in which deterministic and non-deterministic transition patterns are moderately mixed. We explore the robustness of this approach with variations in sample size and the amount of noise. Our approach enables a more quantitative study of global and local structural properties of complex bird songs than has been possible to date.

Methylation of ribonucleic acid by the carcinogens dimethyl sulphate, N-methyl-N-nitrosourea and N-methyl-N′-nitro-N-nitrosoguanidine. Comparisons of chemical analyses at the nucleoside and base levels

Science.gov (United States)

Lawley, P. D.; Shah, S. A.

1972-01-01

1. The following methods for hydrolysis of methyl-14C-labelled RNA, and for chromatographic isolation and determination of the products, were investigated: enzymic digestion to nucleosides at pH6 or 8; alkaline hydrolysis and conversion into nucleosides; hydrolysis by acid to pyrimidine nucleotides and purine bases, or completely to bases; chromatography on Dowex 50 (NH4+ form) at pH6 or 8.9, or on Dowex 50 (H+ form), or on Sephadex G-10. 2. The suitability of the various methods for determination of methylation products was assessed. The principal product, 7-methylguanosine, was unstable under the conditions used for determinations of nucleosides. 3- and 7-Methyladenine and 3- and 7-methylguanine are best determined as bases; 1-methyladenine and 3-methylcytosine can be isolated as either nucleosides or bases; O6-methylguanine is unstable under the acid hydrolysis conditions used and can be determined as the nucleoside; 3-methyluracil was detected, but may be derived from methylation of the ionized form of uracil. 3. Differences between the patterns of methylation of RNA and homopolyribonucleotides by the N-methyl-N-nitroso compounds and dimethyl sulphate were found: the nitroso compounds were able to methylate O-6 of guanine, were relatively more reactive at N-7 of adenine and probably at N-3 of guanine, but less reactive at N-1 of adenine, N-3 of cytosine and probably at N-3 of uridine. They probably reacted more with the ribose–phosphate chain, but no products from this were identified. 4. The possible influences of these differences on biological action of the methylating agents is discussed. Nitroso compounds may differ principally in their ability to induce miscoding in the Watson–Crick sense by reaction at O-6 of guanine. Both types of agent may induce miscoding to a lesser extent through methylation at N-3 of guanine; both can methylate N atoms, presumably preventing Watson–Crick hydrogen-bonding. N-Methyl-N-nitrosourea can degrade RNA, possibly

Kenya Bird Map: an internet-based system for monitoring bird ...

African Journals Online (AJOL)

Data collection for the first Kenya Bird Atlas started in the 1970s and continued until. 1984 ... butions received directly from observers, nest record cards submitted to the EANHS .... is poor, and an application for use in smart phones is planned.

WT-Bird. Bird collision recording for offshore wind farms

Energy Technology Data Exchange (ETDEWEB)

Wiggelinkhuizen, E.J.; Rademakers, L.W.M.M.; Barhorst, S.A.M. [ECN Wind Energy, Petten (Netherlands); Den Boon, H.J. [E-Connection Project, Bunnik (Netherlands); Dirksen, S. [Bureau Waardenburg, Culemborg (Netherlands); Schekkerman, H. [Alterra, Wageningen (Netherlands)

2006-03-15

A new method for registration of bird collisions has been developed using video cameras and microphones combined with event triggering by acoustic vibration measurement. Remote access to the recorded images and sounds makes it possible to count the number of collisions as well as to identify the species. Currently a prototype system is being tested on an offshore-scale land-based wind turbine using bird dummies. After these tests we planned to perform endurance tests on other land-based turbines under offshore-like conditions.

Alabama ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, seabirds, passerine birds, gulls, and terns...

Maryland ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, seabirds, passerine birds, and gulls and...

DNA methylation-based variation between human populations.

Science.gov (United States)

Kader, Farzeen; Ghai, Meenu

2017-02-01

Several studies have proved that DNA methylation affects regulation of gene expression and development. Epigenome-wide studies have reported variation in methylation patterns between populations, including Caucasians, non-Caucasians (Blacks), Hispanics, Arabs, and numerous populations of the African continent. Not only has DNA methylation differences shown to impact externally visible characteristics, but is also a potential biomarker for underlying racial health disparities between human populations. Ethnicity-related methylation differences set their mark during early embryonic development. Genetic variations, such as single-nucleotide polymorphisms and environmental factors, such as age, dietary folate, socioeconomic status, and smoking, impacts DNA methylation levels, which reciprocally impacts expression of phenotypes. Studies show that it is necessary to address these external influences when attempting to differentiate between populations since the relative impacts of these factors on the human methylome remain uncertain. The present review summarises several reported attempts to establish the contribution of differential DNA methylation to natural human variation, and shows that DNA methylation could represent new opportunities for risk stratification and prevention of several diseases amongst populations world-wide. Variation of methylation patterns between human populations is an exciting prospect which inspires further valuable research to apply the concept in routine medical and forensic casework. However, trans-generational inheritance needs to be quantified to decipher the proportion of variation contributed by DNA methylation. The future holds thorough evaluation of the epigenome to understand quantification, heritability, and the effect of DNA methylation on phenotypes. In addition, methylation profiling of the same ethnic groups across geographical locations will shed light on conserved methylation differences in populations.

Avian Information Systems: Developing Web-Based Bird Avoidance Models

Directory of Open Access Journals (Sweden)

Judy Shamoun-Baranes

2008-12-01

Full Text Available Collisions between aircraft and birds, so-called "bird strikes," can result in serious damage to aircraft and even in the loss of lives. Information about the distribution of birds in the air and on the ground can be used to reduce the risk of bird strikes and their impact on operations en route and in and around air fields. Although a wealth of bird distribution and density data is collected by numerous organizations, these data are not readily available nor interpretable by aviation. This paper presents two national efforts, one in the Netherlands and one in the United States, to develop bird avoidance nodels for aviation. These models integrate data and expert knowledge on bird distributions and migratory behavior to provide hazard maps in the form of GIS-enabled Web services. Both models are in operational use for flight planning and flight alteration and for airfield and airfield vicinity management. These models and their presentation on the Internet are examples of the type of service that would be very useful in other fields interested in species distribution and movement information, such as conservation, disease transmission and prevention, or assessment and mitigation of anthropogenic risks to nature. We expect that developments in cyber-technology, a transition toward an open source philosophy, and higher demand for accessible biological data will result in an increase in the number of biological information systems available on the Internet.

Protection against mosquito vectors Aedes aegypti, Anopheles stephensi and Culex quinquefasciatus using a novel insect repellent, ethyl anthranilate.

Science.gov (United States)

Islam, Johirul; Zaman, Kamaruz; Tyagi, Varun; Duarah, Sanjukta; Dhiman, Sunil; Chattopadhyay, Pronobesh

2017-10-01

Growing concern on the application of synthetic mosquito repellents in the recent years has instigated the identification and development of better alternatives to control different mosquito-borne diseases. In view of above, present investigation evaluates the repellent activity of ethyl anthranilate (EA), a non-toxic, FDA approved volatile food additive against three known mosquito vectors namely, Aedes aegypti, Anopheles stephensi and Culex quinquefasciatus under laboratory conditions following standard protocols. Three concentration levels (2%, 5% and 10% w/v) of EA were tested against all the three selected mosquito species employing K & D module and arm-in-cage method to determine the effective dose (ED 50 ) and complete protection time (CPT), respectively. The repellent activity of EA was further investigated by modified arm-in-cage method to determine the protection over extended spatial ranges against all mosquito species. All behavioural situations were compared with the well-documented repellent N,N-diethylphenyl acetamide (DEPA) as a positive control. The findings demonstrated that EA exhibited significant repellent activity against all the three mosquitoes species. The ED 50 values of EA, against Aedes aegypti, Anopheles stephensi and Culex quinquefasciatus were found to be 0.96%, 5.4% and 3.6% w/v, respectively. At the concentration of 10% w/v, it provided CPTs of 60, 60 and 30min, respectively, against Aedes aegypti, Anopheles stephensi and Culex quinquefasciatus mosquitoes. Again in spatial repellency evaluation, EA was found to be extremely effective in repelling all the three tested species of mosquitoes. Ethyl anthranilate provided comparable results to standard repellent DEPA during the study. Results have concluded that the currently evaluated chemical, EA has potential repellent activity against some well established mosquito vectors. The study emphasizes that repellent activity of EA could be exploited for developing effective, eco

The wings before the bird: an evaluation of flapping-based locomotory hypotheses in bird antecedents

Directory of Open Access Journals (Sweden)

T. Alexander Dececchi

2016-07-01

Full Text Available Background: Powered flight is implicated as a major driver for the success of birds. Here we examine the effectiveness of three hypothesized pathways for the evolution of the flight stroke, the forelimb motion that powers aerial locomotion, in a terrestrial setting across a range of stem and basal avians: flap running, Wing Assisted Incline Running (WAIR, and wing-assisted leaping. Methods: Using biomechanical mathematical models based on known aerodynamic principals and in vivo experiments and ground truthed using extant avians we seek to test if an incipient flight stroke may have contributed sufficient force to permit flap running, WAIR, or leaping takeoff along the phylogenetic lineage from Coelurosauria to birds. Results: None of these behaviours were found to meet the biomechanical threshold requirements before Paraves. Neither was there a continuous trend of refinement for any of these biomechanical performances across phylogeny nor a signal of universal applicability near the origin of birds. None of these flap-based locomotory models appear to have been a major influence on pre-flight character acquisition such as pennaceous feathers, suggesting non-locomotory behaviours, and less stringent locomotory behaviours such as balancing and braking, played a role in the evolution of the maniraptoran wing and nascent flight stroke. We find no support for widespread prevalence of WAIR in non-avian theropods, but can’t reject its presence in large winged, small-bodied taxa like Microraptor and Archaeopteryx. Discussion: Using our first principles approach we find that “near flight” locomotor behaviors are most sensitive to wing area, and that non-locomotory related selection regimes likely expanded wing area well before WAIR and other such behaviors were possible in derived avians. These results suggest that investigations of the drivers for wing expansion and feather elongation in theropods need not be intrinsically linked to locomotory

78 FR 25758 - Migratory Birds; Eagle Conservation Plan Guidance: Module 1-Land-Based Wind Energy, Version 2

Science.gov (United States)

2013-05-02

...-FXMB123209EAGL0L2] RIN 1018-AX53 Migratory Birds; Eagle Conservation Plan Guidance: Module 1-- Land-Based Wind... Migratory Bird Management, U.S. Fish and Wildlife Service, 4401 North Fairfax Drive, Arlington, Virginia... Act (BGEPA) (16 U.S.C. 668-668c), the Migratory Bird Treaty Act (MBTA) (16 U.S.C. 703-12), and the...

WT Bird. Bird collision recording for offshore wind farms

Energy Technology Data Exchange (ETDEWEB)

Wiggelinkhuizen, E.J.; Rademakers, L.W.M.M.; Barhorst, S.A.M. [ECN Wind Energy, Petten (Netherlands); Den Boon, H. [E-Connection Project, Bunnik (Netherlands); Dirksen, S. [Bureau Waardenburg, Culemborg (Netherlands); Schekkerman, H. [Alterra, Wageningen (Netherlands)

2004-11-01

A new method for monitoring of bird collisions has been developed using video and audio registrations that are triggered by sound and vibration measurements. Remote access to the recorded images and sounds makes it possible to count the number of collisions as well as to identify the species. After the successful proof of principle and evaluation on small land-based turbines the system is now being designed for offshore wind farms. Currently the triggering system and video and audio registration are being tested on large land-based wind turbines using bird dummies. Tests of three complete prototype systems are planned for 2005.

Acuity of a Cryptochrome and vision-based magnetoreception system in birds

DEFF Research Database (Denmark)

Solov'yov, Ilia; Mouritsen, Henrik; Schulten, Klaus

2010-01-01

The magnetic compass of birds is embedded in the visual system and it has been hypothesized that the primary sensory mechanism is based on a radical pair reaction. Previous models of magnetoreception have assumed that the radical pair-forming molecules are rigidly fixed in space, and this assumpt......The magnetic compass of birds is embedded in the visual system and it has been hypothesized that the primary sensory mechanism is based on a radical pair reaction. Previous models of magnetoreception have assumed that the radical pair-forming molecules are rigidly fixed in space...... of the radical pair-forming protein needs to be partially constrained, while the other two rotational degrees of freedom do not impact the magnetoreceptive properties of the protein. The result implies that any membrane-associated protein is sufficiently restricted in its motion to function as a radical pair...

Microarray-based DNA methylation study of Ewing's sarcoma of the bone.

Science.gov (United States)

Park, Hye-Rim; Jung, Woon-Won; Kim, Hyun-Sook; Park, Yong-Koo

2014-10-01

Alterations in DNA methylation patterns are a hallmark of malignancy. However, the majority of epigenetic studies of Ewing's sarcoma have focused on the analysis of only a few candidate genes. Comprehensive studies are thus lacking and are required. The aim of the present study was to identify novel methylation markers in Ewing's sarcoma using microarray analysis. The current study reports the microarray-based DNA methylation study of 1,505 CpG sites of 807 cancer-related genes from 69 Ewing's sarcoma samples. The Illumina GoldenGate Methylation Cancer Panel I microarray was used, and with the appropriate controls (n=14), a total of 92 hypermethylated genes were identified in the Ewing's sarcoma samples. The majority of the hypermethylated genes were associated with cell adhesion, cell regulation, development and signal transduction. The overall methylation mean values were compared between patients who survived and those that did not. The overall methylation mean was significantly higher in the patients who did not survive (0.25±0.03) than in those who did (0.22±0.05) (P=0.0322). However, the overall methylation mean was not found to significantly correlate with age, gender or tumor location. GDF10 , OSM , APC and HOXA11 were the most significant differentially-methylated genes, however, their methylation levels were not found to significantly correlate with the survival rate. The DNA methylation profile of Ewing's sarcoma was characterized and 92 genes that were significantly hypermethylated were detected. A trend towards a more aggressive behavior was identified in the methylated group. The results of this study indicated that methylation may be significant in the development of Ewing's sarcoma.

Columbia River ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, diving birds, seabirds, passerine birds, gulls, and terns in...

A GIS-based model of Serengeti grassland bird species | Gottschalk ...

African Journals Online (AJOL)

The study was conducted on the Serengeti Plains, Tanzania, combining (1) records from a bird survey, (2) local measurements of vegetation structure and precipitation, and (3) a habitat map derived from a Landsat satellite image classification. The question of whether ground-based or satellite data explained more of the ...

A nonparametric Bayesian approach for clustering bisulfate-based DNA methylation profiles.

Science.gov (United States)

Zhang, Lin; Meng, Jia; Liu, Hui; Huang, Yufei

2012-01-01

DNA methylation occurs in the context of a CpG dinucleotide. It is an important epigenetic modification, which can be inherited through cell division. The two major types of methylation include hypomethylation and hypermethylation. Unique methylation patterns have been shown to exist in diseases including various types of cancer. DNA methylation analysis promises to become a powerful tool in cancer diagnosis, treatment and prognostication. Large-scale methylation arrays are now available for studying methylation genome-wide. The Illumina methylation platform simultaneously measures cytosine methylation at more than 1500 CpG sites associated with over 800 cancer-related genes. Cluster analysis is often used to identify DNA methylation subgroups for prognosis and diagnosis. However, due to the unique non-Gaussian characteristics, traditional clustering methods may not be appropriate for DNA and methylation data, and the determination of optimal cluster number is still problematic. A Dirichlet process beta mixture model (DPBMM) is proposed that models the DNA methylation expressions as an infinite number of beta mixture distribution. The model allows automatic learning of the relevant parameters such as the cluster mixing proportion, the parameters of beta distribution for each cluster, and especially the number of potential clusters. Since the model is high dimensional and analytically intractable, we proposed a Gibbs sampling "no-gaps" solution for computing the posterior distributions, hence the estimates of the parameters. The proposed algorithm was tested on simulated data as well as methylation data from 55 Glioblastoma multiform (GBM) brain tissue samples. To reduce the computational burden due to the high data dimensionality, a dimension reduction method is adopted. The two GBM clusters yielded by DPBMM are based on data of different number of loci (P-value < 0.1), while hierarchical clustering cannot yield statistically significant clusters.

DNA methylation based biomarkers: Practical considerations and applications

DEFF Research Database (Denmark)

Nielsen, Helene Myrtue; How Kit, Alexandre; Tost, Jorg

2012-01-01

of biochemical molecules such as proteins, DNA, RNA or lipids, whereby protein biomarkers have been the most extensively studied and used, notably in blood-based protein quantification tests or immunohistochemistry. The rise of interest in epigenetic mechanisms has allowed the identification of a new type...... of biomarker, DNA methylation, which is of great potential for many applications. This stable and heritable covalent modification mostly affects cytosines in the context of a CpG dinucleotide in humans. It can be detected and quantified by a number of technologies including genome-wide screening methods...... as well as locus- or gene-specific high-resolution analysis in different types of samples such as frozen tissues and FFPE samples, but also in body fluids such as urine, plasma, and serum obtained through non-invasive procedures. In some cases, DNA methylation based biomarkers have proven to be more...

Pros and cons of methylation-based enrichment methods for ancient DNA

Science.gov (United States)

Seguin-Orlando, Andaine; Gamba, Cristina; Sarkissian, Clio Der; Ermini, Luca; Louvel, Guillaume; Boulygina, Eugenia; Sokolov, Alexey; Nedoluzhko, Artem; Lorenzen, Eline D.; Lopez, Patricio; McDonald, H. Gregory; Scott, Eric; Tikhonov, Alexei; Stafford,, Thomas W.; Alfarhan, Ahmed H.; Alquraishi, Saleh A.; Al-Rasheid, Khaled A. S.; Shapiro, Beth; Willerslev, Eske; Prokhortchouk, Egor; Orlando, Ludovic

2015-01-01

The recent discovery that DNA methylation survives in fossil material provides an opportunity for novel molecular approaches in palaeogenomics. Here, we apply to ancient DNA extracts the probe-independent Methylated Binding Domains (MBD)-based enrichment method, which targets DNA molecules containing methylated CpGs. Using remains of a Palaeo-Eskimo Saqqaq individual, woolly mammoths, polar bears and two equine species, we confirm that DNA methylation survives in a variety of tissues, environmental contexts and over a large temporal range (4,000 to over 45,000 years before present). MBD enrichment, however, appears principally biased towards the recovery of CpG-rich and long DNA templates and is limited by the fast post-mortem cytosine deamination rates of methylated epialleles. This method, thus, appears only appropriate for the analysis of ancient methylomes from very well preserved samples, where both DNA fragmentation and deamination have been limited. This work represents an essential step toward the characterization of ancient methylation signatures, which will help understanding the role of epigenetic changes in past environmental and cultural transitions. PMID:26134828

Birds as biodiversity surrogates

DEFF Research Database (Denmark)

Larsen, Frank Wugt; Bladt, Jesper Stentoft; Balmford, Andrew

2012-01-01

1. Most biodiversity is still unknown, and therefore, priority areas for conservation typically are identified based on the presence of surrogates, or indicator groups. Birds are commonly used as surrogates of biodiversity owing to the wide availability of relevant data and their broad popular...... and applications.?Good surrogates of biodiversity are necessary to help identify conservation areas that will be effective in preventing species extinctions. Birds perform fairly well as surrogates in cases where birds are relatively speciose, but overall effectiveness will be improved by adding additional data...... from other taxa, in particular from range-restricted species. Conservation solutions with focus on birds as biodiversity surrogate could therefore benefit from also incorporating species data from other taxa....

High resolution and high sensitivity methods for oligosaccharide mapping and characterization by normal phase high performance liquid chromatography following derivatization with highly fluorescent anthranilic acid.

Science.gov (United States)

Anumula, K R; Dhume, S T

1998-07-01

Facile labeling of oligosaccharides (acidic and neutral) in a nonselective manner was achieved with highly fluorescent anthranilic acid (AA, 2-aminobenzoic acid) (more than twice the intensity of 2-aminobenzamide, AB) for specific detection at very high sensitivity. Quantitative labeling in acetate-borate buffered methanol (approximately pH 5.0) at 80 degreesC for 60 min resulted in negligible or no desialylation of the oligosaccharides. A high resolution high performance liquid chromatographic method was developed for quantitative oligosaccharide mapping on a polymeric-NH2bonded (Astec) column operating under normal phase and anion exchange (NP-HPAEC) conditions. For isolation of oligosaccharides from the map by simple evaporation, the chromatographic conditions developed use volatile acetic acid-triethylamine buffer (approximately pH 4.0) systems. The mapping and characterization technology was developed using well characterized standard glycoproteins. The fluorescent oligosaccharide maps were similar to the maps obtained by the high pH anion-exchange chromatography with pulsed amperometric detection (HPAEC-PAD), except that the fluorescent maps contained more defined peaks. In the map, the oligosaccharides separated into groups based on charge, size, linkage, and overall structure in a manner similar to HPAEC-PAD with contribution of -COOH function from the label, anthranilic acid. However, selectivity of the column for sialic acid linkages was different. A second dimension normal phase HPLC (NP-HPLC) method was developed on an amide column (TSK Gel amide-80) for separation of the AA labeled neutral complex type and isomeric structures of high mannose type oligosaccharides. The oligosaccharides labeled with AA are compatible with biochemical and biophysical techniques, and use of matrix assisted laser desorption mass spectrometry for rapid determination of oligosaccharide mass map of glycoproteins is demonstrated. High resolution of NP-HPAEC and NP-HPLC methods

Identification of Differentially Methylated Sites with Weak Methylation Effects

Directory of Open Access Journals (Sweden)

Hong Tran

2018-02-01

Full Text Available Deoxyribonucleic acid (DNA methylation is an epigenetic alteration crucial for regulating stress responses. Identifying large-scale DNA methylation at single nucleotide resolution is made possible by whole genome bisulfite sequencing. An essential task following the generation of bisulfite sequencing data is to detect differentially methylated cytosines (DMCs among treatments. Most statistical methods for DMC detection do not consider the dependency of methylation patterns across the genome, thus possibly inflating type I error. Furthermore, small sample sizes and weak methylation effects among different phenotype categories make it difficult for these statistical methods to accurately detect DMCs. To address these issues, the wavelet-based functional mixed model (WFMM was introduced to detect DMCs. To further examine the performance of WFMM in detecting weak differential methylation events, we used both simulated and empirical data and compare WFMM performance to a popular DMC detection tool methylKit. Analyses of simulated data that replicated the effects of the herbicide glyphosate on DNA methylation in Arabidopsis thaliana show that WFMM results in higher sensitivity and specificity in detecting DMCs compared to methylKit, especially when the methylation differences among phenotype groups are small. Moreover, the performance of WFMM is robust with respect to small sample sizes, making it particularly attractive considering the current high costs of bisulfite sequencing. Analysis of empirical Arabidopsis thaliana data under varying glyphosate dosages, and the analysis of monozygotic (MZ twins who have different pain sensitivities—both datasets have weak methylation effects of <1%—show that WFMM can identify more relevant DMCs related to the phenotype of interest than methylKit. Differentially methylated regions (DMRs are genomic regions with different DNA methylation status across biological samples. DMRs and DMCs are essentially the same

Modeling birds on wires.

Science.gov (United States)

Aydoğdu, A; Frasca, P; D'Apice, C; Manzo, R; Thornton, J M; Gachomo, B; Wilson, T; Cheung, B; Tariq, U; Saidel, W; Piccoli, B

2017-02-21

In this paper we introduce a mathematical model to study the group dynamics of birds resting on wires. The model is agent-based and postulates attraction-repulsion forces between the interacting birds: the interactions are "topological", in the sense that they involve a given number of neighbors irrespective of their distance. The model is first mathematically analyzed and then simulated to study its main properties: we observe that the model predicts birds to be more widely spaced near the borders of each group. We compare the results from the model with experimental data, derived from the analysis of pictures of pigeons and starlings taken in New Jersey: two different image elaboration protocols allow us to establish a good agreement with the model and to quantify its main parameters. We also discuss the potential handedness of the birds, by analyzing the group organization features and the group dynamics at the arrival of new birds. Finally, we propose a more refined mathematical model that describes landing and departing birds by suitable stochastic processes. Copyright © 2016 Elsevier Ltd. All rights reserved.

A simple and sensitive fluorescent sensor for methyl parathion based on L-tyrosine methyl ester functionalized carbon dots.

Science.gov (United States)

Hou, Juying; Dong, Jing; Zhu, Haishuang; Teng, Xue; Ai, Shiyun; Mang, Minglin

2015-06-15

In this paper, a simple and sensitive fluorescent sensor for methyl parathion is developed based on L-tyrosine methyl ester functionalized carbon dots (Tyr-CDs) and tyrosinase system. The carbon dots are obtained by simple hydrothermal reaction using citric acid as carbon resource and L-tyrosine methyl ester as modification reagent. The carbon dots are characterized by transmission electron microscope, high resolution transmission electron microscopy, X-ray diffraction spectrum, Fourier transform infrared spectroscopy, and X-ray photoelectron spectroscopy. The carbon dots show strong and stable photoluminescence with a quantum yield of 3.8%. Tyrosinase can catalyze the oxidation of tyrosine methyl ester on the surface of carbon dots to corresponding quinone products, which can quench the fluorescence of carbon dots. When organophosphorus pesticides (OPs) are introduced in system, they can decrease the enzyme activity, thus decrease the fluorescence quenching rate. Methyl parathion, as a model of OPs, was detected. Experimental results show that the enzyme inhibition rate is proportional to the logarithm of the methyl parathion concentration in the range 1.0×10(-10)-1.0×10(-4) M with the detection limit (S/N=3) of 4.8×10(-11) M. This determination method shows a low detection limit, wide linear range, good selectivity and high reproducibility. This sensing system has been successfully used for the analysis of cabbage, milk and fruit juice samples. Copyright © 2014 Elsevier B.V. All rights reserved.

Position-specific prediction of methylation sites from sequence conservation based on information theory.

Science.gov (United States)

Shi, Yinan; Guo, Yanzhi; Hu, Yayun; Li, Menglong

2015-07-23

Protein methylation plays vital roles in many biological processes and has been implicated in various human diseases. To fully understand the mechanisms underlying methylation for use in drug design and work in methylation-related diseases, an initial but crucial step is to identify methylation sites. The use of high-throughput bioinformatics methods has become imperative to predict methylation sites. In this study, we developed a novel method that is based only on sequence conservation to predict protein methylation sites. Conservation difference profiles between methylated and non-methylated peptides were constructed by the information entropy (IE) in a wider neighbor interval around the methylation sites that fully incorporated all of the environmental information. Then, the distinctive neighbor residues were identified by the importance scores of information gain (IG). The most representative model was constructed by support vector machine (SVM) for Arginine and Lysine methylation, respectively. This model yielded a promising result on both the benchmark dataset and independent test set. The model was used to screen the entire human proteome, and many unknown substrates were identified. These results indicate that our method can serve as a useful supplement to elucidate the mechanism of protein methylation and facilitate hypothesis-driven experimental design and validation.

The Bird Community Resilience Index: a novel remote sensing-based biodiversity variable for quantifying ecological integrity

Science.gov (United States)

Michel, N. L.; Wilsey, C.; Burkhalter, C.; Trusty, B.; Langham, G.

2017-12-01

Scalable indicators of biodiversity change are critical to reporting overall progress towards national and global targets for biodiversity conservation (e.g. Aichi Targets) and sustainable development (SDGs). These essential biodiversity variables capitalize on new remote sensing technologies and growth of community science participation. Here we present a novel biodiversity metric quantifying resilience of bird communities and, by extension, of their associated ecological communities. This metric adds breadth to the community composition class of essential biodiversity variables that track trends in condition and vulnerability of ecological communities. We developed this index for use with North American grassland birds, a guild that has experienced stronger population declines than any other avian guild, in order to evaluate gains from the implementation of best management practices on private lands. The Bird Community Resilience Index was designed to incorporate the full suite of species-specific responses to management actions, and be flexible enough to work across broad climatic, land cover, and bird community gradients (i.e., grasslands from northern Mexico through Canada). The Bird Community Resilience Index consists of four components: density estimates of grassland and arid land birds; weighting based on conservation need; a functional diversity metric to incorporate resiliency of bird communities and their ecosystems; and a standardized scoring system to control for interannual variation caused by extrinsic factors (e.g., climate). We present an analysis of bird community resilience across ranches in the Northern Great Plains region of the United States. As predicted, Bird Community Resilience was higher in lands implementing best management practices than elsewhere. While developed for grassland birds, this metric holds great potential for use as an Essential Biodiversity Variable for community composition in a variety of habitat.

Protein methylation in pea chloroplasts

International Nuclear Information System (INIS)

Niemi, K.J.; Adler, J.; Selman, B.R.

1990-01-01

The methylation of chloroplast proteins has been investigated by incubating intact pea (Pisum sativum) chloroplasts with [ 3 H-methyl]-S-adenosylmethionine. Incubation in the light increases the amount of methylation in both the thylakoid and stromal fractions. Numerous thylakoid proteins serve as substrates for the methyltransfer reactions. Three of these thylakoid proteins are methylated to a significantly greater extent in the light than in the dark. The primary stromal polypeptide methylated is the large subunit of ribulose bisphosphate carboxylase/oxygenase. One other stromal polypeptide is also methylated much more in the light than in the dark. Two distinct types of protein methylation occur. One methylinkage is stable to basic conditions whereas a second type is base labile. The base-stable linkage is indicative of N-methylation of amino acid residues while base-lability is suggestive of carboxymethylation of amino acid residues. Labeling in the light increases the percentage of methylation that is base labile in the thylakoid fraction while no difference is observed in the amount of base-labile methylations in light-labeled and dark-labeled stromal proteins. Also suggestive of carboxymethylation is the detection of volatile [ 3 H]methyl radioactivity which increases during the labeling period and is greater in chloroplasts labeled in the light as opposed to being labeled in the dark; this implies in vivo turnover of the [ 3 H]methyl group

Evaluation of Methyl-Binding Domain Based Enrichment Approaches Revisited.

Directory of Open Access Journals (Sweden)

Karolina A Aberg

Full Text Available Methyl-binding domain (MBD enrichment followed by deep sequencing (MBD-seq, is a robust and cost efficient approach for methylome-wide association studies (MWAS. MBD-seq has been demonstrated to be capable of identifying differentially methylated regions, detecting previously reported robust associations and producing findings that replicate with other technologies such as targeted pyrosequencing of bisulfite converted DNA. There are several kits commercially available that can be used for MBD enrichment. Our previous work has involved MethylMiner (Life Technologies, Foster City, CA, USA that we chose after careful investigation of its properties. However, in a recent evaluation of five commercially available MBD-enrichment kits the performance of the MethylMiner was deemed poor. Given our positive experience with MethylMiner, we were surprised by this report. In an attempt to reproduce these findings we here have performed a direct comparison of MethylMiner with MethylCap (Diagenode Inc, Denville, NJ, USA, the best performing kit in that study. We find that both MethylMiner and MethylCap are two well performing MBD-enrichment kits. However, MethylMiner shows somewhat better enrichment efficiency and lower levels of background "noise". In addition, for the purpose of MWAS where we want to investigate the majority of CpGs, we find MethylMiner to be superior as it allows tailoring the enrichment to the regions where most CpGs are located. Using targeted bisulfite sequencing we confirmed that sites where methylation was detected by either MethylMiner or by MethylCap indeed were methylated.

The Bird.

Science.gov (United States)

Hannon, Jean

2001-01-01

Students use a dead bird to learn about bird life, anatomy, and death. Students examine a bird body and discuss what happened to the bird. Uses outdoor education as a resource for learning about animals. (SAH)

Statistical method evaluation for differentially methylated CpGs in base resolution next-generation DNA sequencing data.

Science.gov (United States)

Zhang, Yun; Baheti, Saurabh; Sun, Zhifu

2018-05-01

High-throughput bisulfite methylation sequencing such as reduced representation bisulfite sequencing (RRBS), Agilent SureSelect Human Methyl-Seq (Methyl-seq) or whole-genome bisulfite sequencing is commonly used for base resolution methylome research. These data are represented either by the ratio of methylated cytosine versus total coverage at a CpG site or numbers of methylated and unmethylated cytosines. Multiple statistical methods can be used to detect differentially methylated CpGs (DMCs) between conditions, and these methods are often the base for the next step of differentially methylated region identification. The ratio data have a flexibility of fitting to many linear models, but the raw count data take consideration of coverage information. There is an array of options in each datatype for DMC detection; however, it is not clear which is an optimal statistical method. In this study, we systematically evaluated four statistic methods on methylation ratio data and four methods on count-based data and compared their performances with regard to type I error control, sensitivity and specificity of DMC detection and computational resource demands using real RRBS data along with simulation. Our results show that the ratio-based tests are generally more conservative (less sensitive) than the count-based tests. However, some count-based methods have high false-positive rates and should be avoided. The beta-binomial model gives a good balance between sensitivity and specificity and is preferred method. Selection of methods in different settings, signal versus noise and sample size estimation are also discussed.

Model-based evaluation of highly and low pathogenic avian influenza dynamics in wild birds.

Directory of Open Access Journals (Sweden)

Viviane Hénaux

Full Text Available There is growing interest in avian influenza (AI epidemiology to predict disease risk in wild and domestic birds, and prevent transmission to humans. However, understanding the epidemic dynamics of highly pathogenic (HPAI viruses remains challenging because they have rarely been detected in wild birds. We used modeling to integrate available scientific information from laboratory and field studies, evaluate AI dynamics in individual hosts and waterfowl populations, and identify key areas for future research. We developed a Susceptible-Exposed-Infectious-Recovered (SEIR model and used published laboratory challenge studies to estimate epidemiological parameters (rate of infection, latency period, recovery and mortality rates, considering the importance of age classes, and virus pathogenicity. Infectious contact leads to infection and virus shedding within 1-2 days, followed by relatively slower period for recovery or mortality. We found a shorter infectious period for HPAI than low pathogenic (LP AI, which may explain that HPAI has been much harder to detect than LPAI during surveillance programs. Our model predicted a rapid LPAI epidemic curve, with a median duration of infection of 50-60 days and no fatalities. In contrast, HPAI dynamics had lower prevalence and higher mortality, especially in young birds. Based on field data from LPAI studies, our model suggests to increase surveillance for HPAI in post-breeding areas, because the presence of immunologically naïve young birds is predicted to cause higher HPAI prevalence and bird losses during this season. Our results indicate a better understanding of the transmission, infection, and immunity-related processes is required to refine predictions of AI risk and spread, improve surveillance for HPAI in wild birds, and develop disease control strategies to reduce potential transmission to domestic birds and/or humans.

Model-based evaluation of highly and low pathogenic avian influenza dynamics in wild birds

Science.gov (United States)

Hénaux, Viviane; Samuel, Michael D.; Bunck, Christine M.

2010-01-01

There is growing interest in avian influenza (AI) epidemiology to predict disease risk in wild and domestic birds, and prevent transmission to humans. However, understanding the epidemic dynamics of highly pathogenic (HPAI) viruses remains challenging because they have rarely been detected in wild birds. We used modeling to integrate available scientific information from laboratory and field studies, evaluate AI dynamics in individual hosts and waterfowl populations, and identify key areas for future research. We developed a Susceptible-Exposed-Infectious-Recovered (SEIR) model and used published laboratory challenge studies to estimate epidemiological parameters (rate of infection, latency period, recovery and mortality rates), considering the importance of age classes, and virus pathogenicity. Infectious contact leads to infection and virus shedding within 1–2 days, followed by relatively slower period for recovery or mortality. We found a shorter infectious period for HPAI than low pathogenic (LP) AI, which may explain that HPAI has been much harder to detect than LPAI during surveillance programs. Our model predicted a rapid LPAI epidemic curve, with a median duration of infection of 50–60 days and no fatalities. In contrast, HPAI dynamics had lower prevalence and higher mortality, especially in young birds. Based on field data from LPAI studies, our model suggests to increase surveillance for HPAI in post-breeding areas, because the presence of immunologically naïve young birds is predicted to cause higher HPAI prevalence and bird losses during this season. Our results indicate a better understanding of the transmission, infection, and immunity-related processes is required to refine predictions of AI risk and spread, improve surveillance for HPAI in wild birds, and develop disease control strategies to reduce potential transmission to domestic birds and/or humans.

Bird sexing by Fourier transform infrared spectroscopy

Science.gov (United States)

Steiner, Gerald; Bartels, Thomas; Krautwald-Junghanns, Maria-Elisabeth; Koch, Edmund

2010-02-01

Birds are traditionally classified as male or female based on their anatomy and plumage color as judged by the human eye. Knowledge of a bird's gender is important for the veterinary practitioner, the owner and the breeder. The accurate gender determination is essential for proper pairing of birds, and knowing the gender of a bird will allow the veterinarian to rule in or out gender-specific diseases. Several biochemical methods of gender determination have been developed for avian species where otherwise the gender of the birds cannot be determined by their physical appearances or characteristics. In this contribution, we demonstrate that FT-IR spectroscopy is a suitable tool for a quick and objective determination of the bird's gender. The method is based on differences in chromosome size. Male birds have two Z chromosomes and female birds have a W-chromosome and a Z-chromosome. Each Z-chromosome has approx. 75.000.000 bps whereas the W-chromosome has approx. 260.00 bps. This difference can be detected by FT-IR spectroscopy. Spectra were recorded from germ cells obtained from the feather pulp of chicks as well as from the germinal disk of fertilized but non-bred eggs. Significant changes between cells of male and female birds occur in the region of phosphate vibrations around 1080 and 1120 cm-1.

Global DNA methylation analysis using methyl-sensitive amplification polymorphism (MSAP).

Science.gov (United States)

Yaish, Mahmoud W; Peng, Mingsheng; Rothstein, Steven J

2014-01-01

DNA methylation is a crucial epigenetic process which helps control gene transcription activity in eukaryotes. Information regarding the methylation status of a regulatory sequence of a particular gene provides important knowledge of this transcriptional control. DNA methylation can be detected using several methods, including sodium bisulfite sequencing and restriction digestion using methylation-sensitive endonucleases. Methyl-Sensitive Amplification Polymorphism (MSAP) is a technique used to study the global DNA methylation status of an organism and hence to distinguish between two individuals based on the DNA methylation status determined by the differential digestion pattern. Therefore, this technique is a useful method for DNA methylation mapping and positional cloning of differentially methylated genes. In this technique, genomic DNA is first digested with a methylation-sensitive restriction enzyme such as HpaII, and then the DNA fragments are ligated to adaptors in order to facilitate their amplification. Digestion using a methylation-insensitive isoschizomer of HpaII, MspI is used in a parallel digestion reaction as a loading control in the experiment. Subsequently, these fragments are selectively amplified by fluorescently labeled primers. PCR products from different individuals are compared, and once an interesting polymorphic locus is recognized, the desired DNA fragment can be isolated from a denaturing polyacrylamide gel, sequenced and identified based on DNA sequence similarity to other sequences available in the database. We will use analysis of met1, ddm1, and atmbd9 mutants and wild-type plants treated with a cytidine analogue, 5-azaC, or zebularine to demonstrate how to assess the genetic modulation of DNA methylation in Arabidopsis. It should be noted that despite the fact that MSAP is a reliable technique used to fish for polymorphic methylated loci, its power is limited to the restriction recognition sites of the enzymes used in the genomic

A Bird Strike Handbook for Base-Level Managers

Science.gov (United States)

1984-09-01

areas, abundant at any airfield, can serve as a safe haven for birds to rest. When the grass is short, they feel safer because they can see predators ...Many atimals are found in these areas. When small aimals arse present, raptors (birds of prey) are likely to be found. Thus, if animals live in the...the area around them, at all times. But, if the grass is so tall that they are not able to see one another, or possible predators , while on the ground

The North Sea Bird Club

International Nuclear Information System (INIS)

Doyle, P.A.T.; Gorman, M.L.; Patterson, I.J.; Howe, S.

1991-01-01

This paper reports that the creation of a club for the purpose of encouraging oil and gas workers to watch birds may not at first seem a viable proposition. To the layperson, birds offshore conjures up an image of hundreds of seagulls following fishing boats, and very little else. Also, the act of birdwatching is not seen as a typical offshore worker's activity. Anyone who has worked on an installation offshore and who has any interest in wildlife will be aware of the occasional presence of land-birds. Two decades ago, prompted by some keen offshore workers, a single oil company set up a monitoring program, which quickly became popular with a number of its employees. Birds seem offshore were recorded on data forms and collected together. At this stage the club was purely another recreation facility; however, when the data were collated it was soon realized that installations offshore were being used as staging posts by birds on migration, and that the information being collected would be of great interest in the study of bird movements. All over Britain, at strategic points on the coastline, there are bird observatories which record the arrival and departure of migrating birds. The presence of several hundred solid structures up and down the North Sea, which are used by birds en route, represents a huge, unique bird observatory, capable of uncovering facts about bird migration which have long eluded land-based scientists. Eleven years ago, the North Sea Bird Club began, composed of eight member companies, a recorder from Aberdeen University and a representative from the Nature Conservancy Council. The club received data from 41 installations, and the recorder collated these on Aberdeen University's computer and produced an annual report of sightings

Coastal Resources Atlas: Long Island: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, seabirds, passerine birds, and gulls and...

A DNA methylation microarray-based study identifies ERG as a gene commonly methylated in prostate cancer.

Science.gov (United States)

Schwartzman, Jacob; Mongoue-Tchokote, Solange; Gibbs, Angela; Gao, Lina; Corless, Christopher L; Jin, Jennifer; Zarour, Luai; Higano, Celestia; True, Lawrence D; Vessella, Robert L; Wilmot, Beth; Bottomly, Daniel; McWeeney, Shannon K; Bova, G Steven; Partin, Alan W; Mori, Motomi; Alumkal, Joshi

2011-10-01

DNA methylation of promoter regions is a common event in prostate cancer, one of the most common cancers in men worldwide. Because prior reports demonstrating that DNA methylation is important in prostate cancer studied a limited number of genes, we systematically quantified the DNA methylation status of 1505 CpG dinucleotides for 807 genes in 78 paraffin-embedded prostate cancer samples and three normal prostate samples. The ERG gene, commonly repressed in prostate cells in the absence of an oncogenic fusion to the TMPRSS2 gene, was one of the most commonly methylated genes, occurring in 74% of prostate cancer specimens. In an independent group of patient samples, we confirmed that ERG DNA methylation was common, occurring in 57% of specimens, and cancer-specific. The ERG promoter is marked by repressive chromatin marks mediated by polycomb proteins in both normal prostate cells and prostate cancer cells, which may explain ERG's predisposition to DNA methylation and the fact that tumors with ERG DNA methylation were more methylated, in general. These results demonstrate that bead arrays offer a high-throughput method to discover novel genes with promoter DNA methylation such as ERG, whose measurement may improve our ability to more accurately detect prostate cancer.

Methylation-sensitive amplified polymorphism-based genome-wide analysis of cytosine methylation profiles in Nicotiana tabacum cultivars.

Science.gov (United States)

Jiao, J; Wu, J; Lv, Z; Sun, C; Gao, L; Yan, X; Cui, L; Tang, Z; Yan, B; Jia, Y

2015-11-26

This study aimed to investigate cytosine methylation profiles in different tobacco (Nicotiana tabacum) cultivars grown in China. Methylation-sensitive amplified polymorphism was used to analyze genome-wide global methylation profiles in four tobacco cultivars (Yunyan 85, NC89, K326, and Yunyan 87). Amplicons with methylated C motifs were cloned by reamplified polymerase chain reaction, sequenced, and analyzed. The results show that geographical location had a greater effect on methylation patterns in the tobacco genome than did sampling time. Analysis of the CG dinucleotide distribution in methylation-sensitive polymorphic restriction fragments suggested that a CpG dinucleotide cluster-enriched area is a possible site of cytosine methylation in the tobacco genome. The sequence alignments of the Nia1 gene (that encodes nitrate reductase) in Yunyan 87 in different regions indicate that a C-T transition might be responsible for the tobacco phenotype. T-C nucleotide replacement might also be responsible for the tobacco phenotype and may be influenced by geographical location.

Comparison of semiautomated bird song recognition with manual detection of recorded bird song samples

Directory of Open Access Journals (Sweden)

Lisa A. Venier

2017-12-01

Full Text Available Automated recording units are increasingly being used to sample wildlife populations. These devices can produce large amounts of data that are difficult to process manually. However, the information in the recordings can be summarized with semiautomated sound recognition software. Our objective was to assess the utility of the semiautomated bird song recognizers to produce data useful for conservation and sustainable forest management applications. We compared detection data generated from expert-interpreted recordings of bird songs collected with automated recording units and data derived from a semiautomated recognition process. We recorded bird songs at 109 sites in boreal forest in 2013 and 2014 using automated recording units. We developed bird-song recognizers for 10 species using Song Scope software (Wildlife Acoustics and each recognizer was used to scan a set of recordings that was also interpreted manually by an expert in birdsong identification. We used occupancy models to estimate the detection probability associated with each method. Based on these detection probability estimates we produced cumulative detection probability curves. In a second analysis we estimated detection probability of bird song recognizers using multiple 10-minute recordings for a single station and visit (35-63, 10-minute recordings in each of four one-week periods. Results show that the detection probability of most species from single 10-min recordings is substantially higher using expert-interpreted bird song recordings than using the song recognizer software. However, our results also indicate that detection probabilities for song recognizers can be significantly improved by using more than a single 10-minute recording, which can be easily done with little additional cost with the automate procedure. Based on these results we suggest that automated recording units and song recognizer software can be valuable tools to estimate detection probability and

A hybrid bird mating optimizer algorithm with teaching-learning-based optimization for global numerical optimization

Directory of Open Access Journals (Sweden)

Qingyang Zhang

2015-02-01

Full Text Available Bird Mating Optimizer (BMO is a novel meta-heuristic optimization algorithm inspired by intelligent mating behavior of birds. However, it is still insufficient in convergence of speed and quality of solution. To overcome these drawbacks, this paper proposes a hybrid algorithm (TLBMO, which is established by combining the advantages of Teaching-learning-based optimization (TLBO and Bird Mating Optimizer (BMO. The performance of TLBMO is evaluated on 23 benchmark functions, and compared with seven state-of-the-art approaches, namely BMO, TLBO, Artificial Bee Bolony (ABC, Particle Swarm Optimization (PSO, Fast Evolution Programming (FEP, Differential Evolution (DE, Group Search Optimization (GSO. Experimental results indicate that the proposed method performs better than other existing algorithms for global numerical optimization.

Use of bird carcass removals by urban scavengers to adjust bird-window collision estimates

Directory of Open Access Journals (Sweden)

Justine A. Kummer

2016-12-01

Full Text Available Carcass removal by scavengers has been identified as one of the largest biases in estimating bird mortality from anthropogenic sources. Only two studies have examined carcass removal by scavengers in an urban environment, and previous estimates of bird-window collision mortality at houses have relied on carcass removal rates from wind turbine studies. We placed a bird carcass and time-lapse camera at 44 houses in Edmonton, Alberta. In total, 166 7-day trials were conducted throughout 2015. Time-to-event (survival analysis was used to identify covariates that affected removal. The carcass removal rate was determined for use in estimating the number of birds killed from bird-window collisions at houses in Alberta. In total, 67.5% of carcasses were removed. The date the carcass was placed, the year the house was built, and the level of development within 50 m of the house were the covariates that had the largest effect on carcass removal. In calculating our removal rate, the number of detected carcasses in the first 24 hours was adjusted by 1.47 to account for removal by scavengers. Previously collected citizen science data were used to create an estimate of 957,440 bird deaths each year in Alberta as a result of bird-window collisions with houses. This number is based on the most detailed bird-window collision study at houses to date and a carcass removal study conducted in the same area. Similar localized studies across Canada will need to be completed to reduce the biases that exist with the previous bird-window collision mortality estimate for houses in Canada.

Status of birds of prey in Guinea-Bissau: first assessment based on ...

African Journals Online (AJOL)

... cover (based on the normalised difference vegetation index). Apart from Hooded Vultures and White-backed Vultures Gyps africanus, all other raptors in the IUCN Red List were found to be scarce, including other vultures and several medium-to-large eagles. Keywords: birds, Guinea-Bissau, raptors, transects, West Africa ...

Birds as predators in tropical agroforestry systems.

Science.gov (United States)

Van Bael, Sunshine A; Philpott, Stacy M; Greenberg, Russell; Bichier, Peter; Barber, Nicholas A; Mooney, Kailen A; Gruner, Daniel S

2008-04-01

Insectivorous birds reduce arthropod abundances and their damage to plants in some, but not all, studies where predation by birds has been assessed. The variation in bird effects may be due to characteristics such as plant productivity or quality, habitat complexity, and/or species diversity of predator and prey assemblages. Since agroforestry systems vary in such characteristics, these systems provide a good starting point for understanding when and where we can expect predation by birds to be important. We analyze data from bird exclosure studies in forests and agroforestry systems to ask whether birds consistently reduce their arthropod prey base and whether bird predation differs between forests and agroforestry systems. Further, we focus on agroforestry systems to ask whether the magnitude of bird predation (1) differs between canopy trees and understory plants, (2) differs when migratory birds are present or absent, and (3) correlates with bird abundance and diversity. We found that, across all studies, birds reduce all arthropods, herbivores, carnivores, and plant damage. We observed no difference in the magnitude of bird effects between agroforestry systems and forests despite simplified habitat structure and plant diversity in agroforests. Within agroforestry systems, bird reduction of arthropods was greater in the canopy than the crop layer. Top-down effects of bird predation were especially strong during censuses when migratory birds were present in agroforestry systems. Importantly, the diversity of the predator assemblage correlated with the magnitude of predator effects; where the diversity of birds, especially migratory birds, was greater, birds reduced arthropod densities to a greater extent. We outline potential mechanisms for relationships between bird predator, insect prey, and habitat characteristics, and we suggest future studies using tropical agroforests as a model system to further test these areas of ecological theory.

Experimental vapor pressures (from 1 Pa to 100 kPa) of six saturated Fatty Acid Methyl Esters (FAMEs): Methyl hexanoate, methyl octanoate, methyl decanoate, methyl dodecanoate, methyl tetradecanoate and methyl hexadecanoate

International Nuclear Information System (INIS)

Sahraoui, Lakhdar; Khimeche, Kamel; Dahmani, Abdallah; Mokbel, Ilham; Jose, Jacques

2016-01-01

Highlight: • Vapor-liquid equilibria, Enthalpy of Vaporization, saturated Fatty Acid Methyl Ester. - Abstract: Vapor pressures of six saturated Fatty Acid Methyl Esters (FAMEs), methyl hexanoate (or methyl caproate), methyl octanoate (or methyl caprylate), Methyl decanoate (or methyl caprate), methyl dodecanoate (or methyl laurate), methyl tetradecanoate (or methyl myristate), and methyl hexadecanoate (or methyl palmitate) were measured from 1 Pa to 100 kPa and at temperature range between 262 and 453 K using a static apparatus. The experimental data (P-T) were compared with the available literature data.

National Audubon society's technology initiatives for bird conservation: a summary of application development for the Christmas bird count

Science.gov (United States)

Kathy Dale

2005-01-01

Since 1998, Audubon's Christmas Bird Count (CBC) has been supported by an Internet-based data entry application that was initially designed to accommodate the traditional paper-based methods of this long-running bird monitoring program. The first efforts to computerize the data and the entry procedures have informed a planned strategy to revise the current...

Evaluating genome-wide DNA methylation changes in mice by Methylation Specific Digital Karyotyping

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Maruoka Shuichiro

2008-12-01

Full Text Available Abstract Background The study of genome-wide DNA methylation changes has become more accessible with the development of various array-based technologies though when studying species other than human the choice of applications are limited and not always within reach. In this study, we adapted and tested the applicability of Methylation Specific Digital Karyotyping (MSDK, a non-array based method, for the prospective analysis of epigenetic changes after perinatal nutritional modifications in a mouse model of allergic airway disease. MSDK is a sequenced based method that allows a comprehensive and unbiased methylation profiling. The method generates 21 base pairs long sequence tags derived from specific locations in the genome. The resulting tag frequencies determine in a quantitative manner the methylation level of the corresponding loci. Results Genomic DNA from whole lung was isolated and subjected to MSDK analysis using the methylation-sensitive enzyme Not I as the mapping enzyme and Nla III as the fragmenting enzyme. In a pair wise comparison of the generated mouse MSDK libraries we identified 158 loci that are significantly differentially methylated (P-value = 0.05 after perinatal dietary changes in our mouse model. Quantitative methylation specific PCR and sequence analysis of bisulfate modified genomic DNA confirmed changes in methylation at specific loci. Differences in genomic MSDK tag counts for a selected set of genes, correlated well with changes in transcription levels as measured by real-time PCR. Furthermore serial analysis of gene expression profiling demonstrated a dramatic difference in expressed transcripts in mice exposed to perinatal nutritional changes. Conclusion The genome-wide methylation survey applied in this study allowed for an unbiased methylation profiling revealing subtle changes in DNA methylation in mice maternally exposed to dietary changes in methyl-donor content. The MSDK method is applicable for mouse models

The natural infection of birds and ticks feeding on birds with Rickettsia spp. and Coxiella burnetii in Slovakia.

Science.gov (United States)

Berthová, Lenka; Slobodník, Vladimír; Slobodník, Roman; Olekšák, Milan; Sekeyová, Zuzana; Svitálková, Zuzana; Kazimírová, Mária; Špitalská, Eva

2016-03-01

Ixodid ticks (Acari: Ixodidae) are known as primary vectors of many pathogens causing diseases in humans and animals. Ixodes ricinus is a common ectoparasite in Europe and birds are often hosts of subadult stages of the tick. From 2012 to 2013, 347 birds belonging to 43 species were caught and examined for ticks in three sites of Slovakia. Ticks and blood samples from birds were analysed individually for the presence of Rickettsia spp. and Coxiella burnetii by PCR-based methods. Only I. ricinus was found to infest birds. In total 594 specimens of bird-attached ticks were collected (451 larvae, 142 nymphs, 1 female). Altogether 37.2% (16/43) of bird species were infested by ticks and some birds carried more than one tick. The great tit, Parus major (83.8%, 31/37) was the most infested species. In total, 6.6 and 2.7% of bird-attached ticks were infected with Rickettsia spp. and C. burnetii, respectively. Rickettsia helvetica predominated (5.9%), whereas R. monacensis (0.5%) was only sporadically detected. Coxiella burnetii was detected in 0.9%, Rickettsia spp. in 8.9% and R. helvetica in 4.2% of bird blood samples. The great tit was the bird species most infested with I. ricinus, carried R. helvetica and C. burnetti positive tick larvae and nymphs and was found to be rickettsaemic in its blood. Further studies are necessary to define the role of birds in the circulation of rickettsiae and C. burnetii in natural foci.

Deoxygenation of methyl laurate over Ni based catalysts: Influence of supports

Science.gov (United States)

Xia, Xiaoqiang; Chen, Hui; Bi, Yadong; Hu, Jianli

2017-10-01

The use of a series of nickel based catalysts supported over HZSM-5, Al2O3, C and ZrO2 in the deoxygenation of methyl laurate shows that the deoxygenation activity and deoxygenation pathway of nickel based catalysts can be affected by properties of catalysts. In the absence of H2, β-elimination of methyl laurate is the dominant reaction and a small amount of laurate acid is converted into undecane by direct decarboxylation. At the same time, the highly acidic support HZSM-5 gave higher conversion and C11 alkane selectivity. In the presence of H2, Ni/HZSM-5 catalyst showed a significantly high deoxygenation activity, producing 71% alkanes by methyl laurate conversion at 280 °C and 4MPa H2. While as on mildly acidic (Al2O3) and neutral (C) supports, a restricted hydrodeoxygenation activity was achieved but more oxygenate products were yielded. According to the analysis of intermediate product, the deoxygenation reaction of methyl laurate follows three distinct pathways: in the absence of H2, decarboxylation: C11H23COOCH3→C11H23COOH→C11H24; in the presence of H2, decarbonylation: C11H23COOCH3→C11H23COOH→C11H23CHO→C11H24; and hydrodeoxygenation: C11H23COOCH3 →C11H23COOH→C11H23CHO→C12H25OH→C12H26

A genome-wide methylation study on obesity: differential variability and differential methylation.

Science.gov (United States)

Xu, Xiaojing; Su, Shaoyong; Barnes, Vernon A; De Miguel, Carmen; Pollock, Jennifer; Ownby, Dennis; Shi, Hidong; Zhu, Haidong; Snieder, Harold; Wang, Xiaoling

2013-05-01

Besides differential methylation, DNA methylation variation has recently been proposed and demonstrated to be a potential contributing factor to cancer risk. Here we aim to examine whether differential variability in methylation is also an important feature of obesity, a typical non-malignant common complex disease. We analyzed genome-wide methylation profiles of over 470,000 CpGs in peripheral blood samples from 48 obese and 48 lean African-American youth aged 14-20 y old. A substantial number of differentially variable CpG sites (DVCs), using statistics based on variances, as well as a substantial number of differentially methylated CpG sites (DMCs), using statistics based on means, were identified. Similar to the findings in cancers, DVCs generally exhibited an outlier structure and were more variable in cases than in controls. By randomly splitting the current sample into a discovery and validation set, we observed that both the DVCs and DMCs identified from the first set could independently predict obesity status in the second set. Furthermore, both the genes harboring DMCs and the genes harboring DVCs showed significant enrichment of genes identified by genome-wide association studies on obesity and related diseases, such as hypertension, dyslipidemia, type 2 diabetes and certain types of cancers, supporting their roles in the etiology and pathogenesis of obesity. We generalized the recent finding on methylation variability in cancer research to obesity and demonstrated that differential variability is also an important feature of obesity-related methylation changes. Future studies on the epigenetics of obesity will benefit from both statistics based on means and statistics based on variances.

Jllumina - A comprehensive Java-based API for statistical Illumina Infinium HumanMethylation450 and Infinium MethylationEPIC BeadChip data processing

Directory of Open Access Journals (Sweden)

Almeida Diogo

2016-10-01

Full Text Available Measuring differential methylation of the DNA is the nowadays most common approach to linking epigenetic modifications to diseases (called epigenome-wide association studies, EWAS. For its low cost, its efficiency and easy handling, the Illumina HumanMethylation450 BeadChip and its successor, the Infinium MethylationEPIC BeadChip, is the by far most popular techniques for conduction EWAS in large patient cohorts. Despite the popularity of this chip technology, raw data processing and statistical analysis of the array data remains far from trivial and still lacks dedicated software libraries enabling high quality and statistically sound downstream analyses. As of yet, only R-based solutions are freely available for low-level processing of the Illumina chip data. However, the lack of alternative libraries poses a hurdle for the development of new bioinformatic tools, in particular when it comes to web services or applications where run time and memory consumption matter, or EWAS data analysis is an integrative part of a bigger framework or data analysis pipeline. We have therefore developed and implemented Jllumina, an open-source Java library for raw data manipulation of Illumina Infinium HumanMethylation450 and Infinium MethylationEPIC BeadChip data, supporting the developer with Java functions covering reading and preprocessing the raw data, down to statistical assessment, permutation tests, and identification of differentially methylated loci. Jllumina is fully parallelizable and publicly available at http://dimmer.compbio.sdu.dk/download.html

MethylMeter(®): bisulfite-free quantitative and sensitive DNA methylation profiling and mutation detection in FFPE samples.

Science.gov (United States)

McCarthy, David; Pulverer, Walter; Weinhaeusel, Andreas; Diago, Oscar R; Hogan, Daniel J; Ostertag, Derek; Hanna, Michelle M

2016-06-01

Development of a sensitive method for DNA methylation profiling and associated mutation detection in clinical samples. Formalin-fixed and paraffin-embedded tumors received by clinical laboratories often contain insufficient DNA for analysis with bisulfite or methylation sensitive restriction enzymes-based methods. To increase sensitivity, methyl-CpG DNA capture and Coupled Abscription PCR Signaling detection were combined in a new assay, MethylMeter(®). Gliomas were analyzed for MGMT methylation, glioma CpG island methylator phenotype and IDH1 R132H. MethylMeter had 100% assay success rate measuring all five biomarkers in formalin-fixed and paraffin-embedded tissue. MGMT methylation results were supported by survival and mRNA expression data. MethylMeter is a sensitive and quantitative method for multitarget DNA methylation profiling and associated mutation detection. The MethylMeter-based GliomaSTRAT assay measures methylation of four targets and one mutation to simultaneously grade gliomas and predict their response to temozolomide. This information is clinically valuable in management of gliomas.

Cryptococcosis outbreak in psittacine birds in Brazil.

Science.gov (United States)

Raso, T F; Werther, K; Miranda, E T; Mendes-Giannini, M J S

2004-08-01

An outbreak of cryptococcosis occurred in a breeding aviary in São Paulo, Brazil. Seven psittacine birds (of species Charmosyna papou, Lorius lory, Trichoglossus goldiei, Psittacula krameri and Psittacus erithacus) died of disseminated cryptococcosis. Incoordination, progressive paralysis and difficulty in flying were seen in five birds, whereas superficial lesions coincident with respiratory alterations were seen in two birds. Encapsulated yeasts suggestive of Cryptococcus sp. were seen in faecal smears stained with India ink in two cases. Histological examination of the birds showed cryptococcal cells in various tissues, including the beak, choana, sinus, lungs, air sacs, heart, liver, spleen, kidneys, intestines and central nervous system. High titres of cryptococcal antigen were observed in the serum of an affected bird. In this case, titres increased during treatment and the bird eventually died. Yeasts were isolated from the nasal mass, faeces and liver of one bird. Cryptococcus neoformans var. gattii serovar B was identified based on biochemical, physiological and serological tests. These strains were resistant (minimum inhibitory concentration 64 microg/ml) to fluconazole. This is the first report of C. neoformans var. gattii occurring in psittacine birds in Brazil.

MethLAB: a graphical user interface package for the analysis of array-based DNA methylation data.

Science.gov (United States)

Kilaru, Varun; Barfield, Richard T; Schroeder, James W; Smith, Alicia K; Conneely, Karen N

2012-03-01

Recent evidence suggests that DNA methylation changes may underlie numerous complex traits and diseases. The advent of commercial, array-based methods to interrogate DNA methylation has led to a profusion of epigenetic studies in the literature. Array-based methods, such as the popular Illumina GoldenGate and Infinium platforms, estimate the proportion of DNA methylated at single-base resolution for thousands of CpG sites across the genome. These arrays generate enormous amounts of data, but few software resources exist for efficient and flexible analysis of these data. We developed a software package called MethLAB (http://genetics.emory.edu/conneely/MethLAB) using R, an open source statistical language that can be edited to suit the needs of the user. MethLAB features a graphical user interface (GUI) with a menu-driven format designed to efficiently read in and manipulate array-based methylation data in a user-friendly manner. MethLAB tests for association between methylation and relevant phenotypes by fitting a separate linear model for each CpG site. These models can incorporate both continuous and categorical phenotypes and covariates, as well as fixed or random batch or chip effects. MethLAB accounts for multiple testing by controlling the false discovery rate (FDR) at a user-specified level. Standard output includes a spreadsheet-ready text file and an array of publication-quality figures. Considering the growing interest in and availability of DNA methylation data, there is a great need for user-friendly open source analytical tools. With MethLAB, we present a timely resource that will allow users with no programming experience to implement flexible and powerful analyses of DNA methylation data.

Guam and the Northern Mariana Islands ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for pelagic birds, shorebirds, wading birds, waterfowl, gulls, terns, and passerine birds in Guam and the...

Acute responses of American kestrels to methyl parathion and fenvalerate

Science.gov (United States)

Rattner, B.A.; Franson, J.C.

1984-01-01

Physiological and toxicological effects of p.o, methyl parathion (0.375-3.0 mg/kg) or fenvalerate (1000-4000 mg/kg) were examined over a 10 h period in American kestrels (Falco sparverius) maintained in thermoneutral (22?.C) and cold (-5?.C) environments. Methyl parathion was highly toxic (LD50=3.08 mg/kg, 95% confidence limits=2.29-4.l4 mg/kg, producing overt intoxication (abnormal posture, ataxia, paresis), dose-dependent inhibition (26-67%) of brain acetylcholinesterase activity, hyperglycemia, and elevated plasma corticosterone concentration. Transient but pronounced hypothermia was associated with plasma cholinesterase inhibition in excess of 50% (2 h after intubation), although this response was highly variable (plasma ChE inhibition vs. A cloacal temperature, r=-0.60). Fenvalerate, at doses far exceeding those encountered in the environment, caused mild intoxication (irregular head movement) and elevated plasma alanine aminotransferase activity, but did not alter cloacal temperature, plasma activities of CK, U-HBDH, and LDK, or concentrations of corticosterone, glucose, triiodothyronine, and uric acid. Cold exposure intensified methyl parathion toxicity, but did not affect that of fenvalerate. It would thus appear that the organophosphorus insecticide methyl parathion poses far greater hazard than the pyrethroid fenvalerate to raptorial birds.

Analytical application of aminohydroxamic acids

International Nuclear Information System (INIS)

Fadl Elmoula, Abd ELfatah Abdella

2000-11-01

Anthranilic hydroxamic acid was prepared by coupling of methylanthranilate (prepared by esterification of anthranilic acid with methyl alcohol using the fisher-speir method) with freshly prepared hydroxylamine. The lignad was characterized by the usual reaction of hydroxamic acid with acidic V(V) and Fe(III) solutions that gives blood-red colour in amyl alcohol and deep-violet colour in aqueous solution, respectively. The absorbance of Fe(III)-hydroxamic acids complexes increases with increase of pH. In this study, the effect of pH on the absorbance of Fe(III)-anthranilic hydroxamic acid was in accordance with this trend. The maximum absorbance was obtained at pH 5.0 at maximum wavelength of 482 nm. For Cu(II)-anthranilic hydroxamic acid complex, the use of acidic basic pH lead to precipitation of Cu(II)-ligand complex. But when using buffer pH (acetic acid/sodium acetate) a clear green colour of Cu(II)-ligand complex was obtained. The maximum wavelength of 390 nm. V(V)-anthranilic hydroxamic acid complex was extracted in acidic medium in amyl alcohol at pH 2.0 because in aqueous solution V(V)-anthranilic hydroxamic acid complex has not clear colour. It was observed the the maximum extraction in acidic medium decrease sharply with the increasing of pH value. The maximum wavelength for maximum absorbance was recorded at 472 nm. V(V) interfered with determination of Fe(III)) above concentration of 2 ppm, whereas Cu(II) interferes slightly with the determination of Fe(III) ions even at a high concentration of the Cu(II) ions. Both Cu(II) and Ni(II) do not interfere with the determination of V(V) ions even at high concentrations, Fe(III) ion produced slight interference, while Mo(VI) ions have a pronounced interference. Both V(V) and Fe(III) ions interfered markedly with the determination of Cu(II) ions, and made impractical under conditions. However, the calibration curves for the three metal ions produced a practical linear dynamic range.(Author)

Rhode Island, Connecticut, New York, and New Jersey ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, pelagic birds, passerine birds, gulls and...

Drug metabolism in birds

Science.gov (United States)

Pan, Huo Ping; Fouts, James R.

1979-01-01

Papers published over 100 years since the beginning of the scientific study of drug metabolism in birds were reviewed. Birds were found to be able to accomplish more than 20 general biotransformation reactions in both functionalization and conjugation. Chickens were the primary subject of study but over 30 species of birds were used. Large species differences in drug metabolism exist between birds and mammals as well as between various birds, these differences were mostly quantitative. Qualitative differences were rare. On the whole, drug metabolism studies in birds have been neglected as compared with similar studies on insects and mammals. The uniqueness of birds and the advantages of using birds in drug metabolism studies are discussed. Possible future studies of drug metabolism in birds are recommended.

Characterization of two trpE genes encoding anthranilate synthase α-subunit in Azospirillum brasilense

International Nuclear Information System (INIS)

Ge Shimei; Xie Baoen; Chen Sanfeng

2006-01-01

The previous report from our laboratory has recently identified a new trpE gene (termed trpE 2 ) which exists independently in Azospirillum brasilense Yu62. In this study, amplification of trpE(G) (termed trpE 1 (G) here) confirmed that there are two copies of trpE gene, one trpE being fused into trpG while the other trpE existed independently. This is First report to suggest that two copies of the trpE gene exist in this bacterium. Comparison of the nucleotide sequence demonstrated that putative leader peptide, terminator, and anti-terminator were found upstream of trpE 1 (G) while these sequence features did not exist in front of trpE 2 . The β-galactosidase activity of an A. brasilense strain carrying a trpE 2 -lacZ fusion remained constant at different tryptophan concentrations, but the β-galactosidase activity of the same strain carrying a trpE 1 (G)-lacZ fusion decreased as the tryptophan concentration increased. These data suggest that the expression of trpE 1 (G) is regulated at the transcriptional level by attenuation while trpE 2 is constantly expressed. The anthranilate synthase assays with trpE 1 (G) - and trpE 2 - mutants demonstrated that TrpE 1 (G) fusion protein is feedback inhibited by tryptophan while TrpE 2 protein is not. We also found that both trpE 1 (G) and trpE 2 gene products were involved in IAA synthesis

Unique anthranilic acid chemistry facilitates profiling and characterization of Ser/Thr-linked sugar chains following hydrazinolysis.

Science.gov (United States)

Anumula, Kalyan Rao

2008-02-01

A novel method for the analysis of Ser/Thr-linked sugar chains was made possible by the virtue of unique anthranilic acid (AA, 2-aminobenzoic acid [2AA]) chemistry for labeling carbohydrates in aqueous salt solutions (K. R. Anumula, Anal. Biochem. 350 (2006) 1-23). The protocol for profiling of Ser/Thr carbohydrates by hydrazinolysis was made simple by eliminating intermediary isolation steps involved in a sample preparation such as desalting and various chromatographic purification schemes. A 6-h hydrazinolysis was carried out at 60 degrees C for O-linked oligosaccharides and at 95 degrees C for total oligosaccharides (N-linked with some O-linked). Following evaporation of hydrazine (<10 min), the oligosaccharides were N-acetylated and derivatized with AA in the same reaction mixture containing salts. Presumably, the glycosyl-hydrazines/hydrazones present in the mixture did not interfere with AA labeling. Because AA is the most fluorescent and highly reactive tag for labeling carbohydrates, the procedures described are suitable for the analysis of a limited amount of samples ( approximately 5 microg) by the current high-resolution high-performance liquid chromatography (HPLC) methods. HPLC conditions developed for the separation of O-linked sugar chains based on size on an amide column were satisfactory for quantitative profiling and characterization. Common O-linked sugar chains found in fetuin, equine chorionic gonadotropin, and glycophorin can be analyzed in less than 50 min. In addition, these fast profiling methods were comparable to profiling by PNGase F (peptide N-glycosidase from Flavobacterium meningosepticum) digestion in terms of time, effort, and simplicity and also were highly reproducible for routine testing. The procedures for the release of sugar chains by hydrazinolysis at the microgram level, labeling with fluorescent tag AA, and profiling by HPLC should be useful in characterization of carbohydrates found in glycoproteins.

Species Diversity and Bird Feed in Residential Complex

Science.gov (United States)

Hadinoto; Suhesti, Eni

2017-12-01

Bird is one component of the ecosystem which has an important role in supporting the occurrence of an organism's life cycle. Therefore, the presence of birds in an area is important, because it can affect the existence and distribution of plant species. The purpose of this study is to calculate the diversity of bird species and identify the source of bird feed in the compound. This study was conducted by field surveys in the residential complex. In addition to the birds as a research object vegetation as habitat / foraging birds were also observed. Data were analyzed by using the bird diversity index, richenes index, bundance index, dominance analysis, analysis of bird distribution and analysis of the level of meeting types, while vegetation will be analyzed based on the type and part of what is eaten by birds. In Pandau Jaya housing complex, found as many as 12 species of birds which consists of seven families. Bird species often present is Cucak Kutilang (Pycnonotus aurigaster) of 20 individuals, Bondol Peking (Lonchura punctulata) 14 individuals and Perkutut Jawa (Geopelia striata) 10 individuals. Bird species diversity (H ‘) in Pandau Jaya housing complex is still relatively moderate with a value of 2.27, while the Evenness Index (E) of 0.91 and Richenes Index (R) of 2.45. Types of vegetation as a food source, among others: mango, guava, cherry, jackfruit, ketapang, coconut, areca, palm, banana, papaya, flowers and grasses.

Gender Patterns in Bird-related Recreation in the USA and UK

Directory of Open Access Journals (Sweden)

Caren B. Cooper

2010-12-01

Full Text Available Recent studies show inter-related trends in both adult and youth populations in developed nations: a shift away from nature-based recreation, an overall decline in physical activity, and increasing obesity. For this study we examined gender patterns in a nature-based activity, observing wild birds, popular in two developed nations, the USA and UK. We collated data from several organizations and categorized data sources as representing activities that involve varying degrees of competitiveness and acting authoritatively. Patterns were consistent with the hypotheses that gender differences in preferred types of bird-related recreation reflected well documented gender-specific differences in preferences for competition and propensity to act authoritatively. Observing birds encompassed both a recreational hobby, "bird watching," that was female biased in the USA, and a competitive sport, "birding," that was heavily male biased among adults, but not youth, in both the USA and UK. Because of differences in gender participation in bird-related activities, fostering both competitive and noncompetitive bird-related activities is necessary to increase the likelihood of bringing larger segments of the population into nature-based recreation.

The environmental neurotoxin β-N-methylamino-l-alanine (l-BMAA) is deposited into birds' eggs.

Science.gov (United States)

Andersson, Marie; Karlsson, Oskar; Brandt, Ingvar

2018-01-01

The neurotoxic amino acid β-N-methylamino-L-alanine (BMAA) has been implicated in the etiology of neurodegenerative disorders. BMAA is also a known developmental neurotoxin and research indicates that the sources of human and wildlife exposure may be more diverse than previously anticipated. The aim of the present study was therefore to examine whether BMAA can be transferred into birds' eggs. Egg laying quail were dosed with 14 C-labeled BMAA. The distribution of radioactivity in the birds and their laid eggs was then examined at different time points by autoradiography and phosphoimaging analysis. To evaluate the metabolic stability of the BMAA molecule, the distribution of 14 C-methyl- and 14 C-carboxyl-labeled BMAA were compared. The results revealed a pronounced incorporation of radioactivity in the eggs, predominantly in the yolk but also in the albumen. Imaging analysis showed that the concentrations of radioactivity in the liver decreased about seven times between the 24h and the 72h time points, while the concentrations in egg yolk remained largely unchanged. At 72h the egg yolk contained about five times the concentration of radioactivity in the liver. Both BMAA preparations gave rise to similar distribution pattern in the bird tissues and in the eggs, indicating metabolic stability of the labeled groups. The demonstrated deposition into eggs warrants studies of BMAAs effects on bird development. Moreover, birds' eggs may be a source of human BMAA exposure, provided that the laying birds are exposed to BMAA via their diet. Copyright © 2017 Elsevier Inc. All rights reserved.

Birds of Sabaki Birds of Sabaki

African Journals Online (AJOL)

CJ

2005-02-25

Feb 25, 2005 ... covers approximately 250ha.The area encompassed by this study extends from Mambrui to the north, the sea to the east, the opposite bank of the estuary to the south and the Sabaki bridge and Malindi-Garsen road to the west. The area is defined as an Important Bird Area(IBA) by BirdLife International in ...

Status for investigations of birds and proposals for further investigations of birds in 2002 and 2003 for Horns Rev offshore wind farm

International Nuclear Information System (INIS)

2001-09-01

The purpose of the investigations of birds is to establish a knowledge and data base that can make possible to enlighten the extent and character of potential influences the offshore wind farm might have on the birds. The potential influences the offshore wind farm might have on birds include: a) modification of the habitat, b) collision effects, and c) disturbances. (BA)

Bird Integumentary Melanins: Biosynthesis, Forms, Function and Evolution

Science.gov (United States)

Galván, Ismael; Solano, Francisco

2016-01-01

Melanins are the ubiquitous pigments distributed in nature. They are one of the main pigments responsible for colors in living cells. Birds are among the most diverse animals regarding melanin-based coloration, especially in the plumage, although they also pigment bare parts of the integument. This review is devoted to the main characteristics of bird melanins, including updated views of the formation and nature of melanin granules, whose interest has been raised in the last years for inferring the color of extinct birds and non-avian theropod dinosaurs using resistant fossil feathers. The molecular structure of the two main types of melanin, eumelanin and pheomelanin, and the environmental and genetic factors that regulate avian melanogenesis are also presented, establishing the main relationship between them. Finally, the special functions of melanin in bird feathers are also discussed, emphasizing the aspects more closely related to these animals, such as honest signaling, and the factors that may drive the evolution of pheomelanin and pheomelanin-based color traits, an issue for which birds have been pioneer study models. PMID:27070583

Bird Integumentary Melanins: Biosynthesis, Forms, Function and Evolution

Directory of Open Access Journals (Sweden)

Ismael Galván

2016-04-01

Full Text Available Melanins are the ubiquitous pigments distributed in nature. They are one of the main pigments responsible for colors in living cells. Birds are among the most diverse animals regarding melanin-based coloration, especially in the plumage, although they also pigment bare parts of the integument. This review is devoted to the main characteristics of bird melanins, including updated views of the formation and nature of melanin granules, whose interest has been raised in the last years for inferring the color of extinct birds and non-avian theropod dinosaurs using resistant fossil feathers. The molecular structure of the two main types of melanin, eumelanin and pheomelanin, and the environmental and genetic factors that regulate avian melanogenesis are also presented, establishing the main relationship between them. Finally, the special functions of melanin in bird feathers are also discussed, emphasizing the aspects more closely related to these animals, such as honest signaling, and the factors that may drive the evolution of pheomelanin and pheomelanin-based color traits, an issue for which birds have been pioneer study models.

Magnetic Orientation in Birds and Other Animals

Science.gov (United States)

Wiltschko, Wolfgang

The use of the geomagnetic field for compass orientation is widespread among animals, with two types of magnetic compass mechanisms described: an shape inclination compass in birds, turtles and salamanders and a shape polarity compass in arthropods, fishes and mammals. Additionally, some vertebrates appear to derive positional information from the total intensity and/or inclination of the geomagnetic field. For magnetoreception by animals, two models are currently discussed, the shape Radical Pair model assuming light-dependent processes by specialized photopigments, and the shape Magnetite hypothesis proposing magnetoreception by crystals of magnetite, Fe304. Behavioral experiments with migratory birds, testing them under monochromatic lights and subjecting them to a brief, strong pulse that could reverse the magnetization of magnetite particles, produced evidence for both mechanisms. However, monochromatic lights affect old, experienced and young birds alike, whereas the pulse affects only experienced birds, leaving young, inexperienced birds unaffected. These observations suggest that a radical pair mechanism provides birds with directional information for their innate magnetic compass and a magnetite-based mechanism possibly mediates information about total intensity for indicating position.

Base Flip in DNA Studied by Molecular Dynamics Simulationsof Differently-Oxidized Forms of Methyl-Cytosine

Directory of Open Access Journals (Sweden)

Mahdi Bagherpoor Helabad

2014-07-01

Full Text Available Distortions in the DNA sequence, such as damage or mispairs, are specifically recognized and processed by DNA repair enzymes. Many repair proteins and, in particular, glycosylases flip the target base out of the DNA helix into the enzyme’s active site. Our molecular dynamics simulations of DNA with intact and damaged (oxidized methyl-cytosine show that the probability of being flipped is similar for damaged and intact methyl-cytosine. However, the accessibility of the different 5-methyl groups allows direct discrimination of the oxidized forms. Hydrogen-bonded patterns that vary between methyl-cytosine forms carrying a carbonyl oxygen atom are likely to be detected by the repair enzymes and may thus help target site recognition.

Birds and music

Directory of Open Access Journals (Sweden)

L Amini

2009-03-01

Through research in old mythological narrations, and literary texts, one could assume an intrinsic relationship between music and such sweet-singing mythological birds as phoenix, sphinx, Song-song, holy birds like Kership-tah, and other birds including swan and ring dove.

Conservation Action Based on Threatened Species Capture Taxonomic and Phylogenetic Richness in Breeding and Wintering Populations of Central Asian Birds

Science.gov (United States)

Schweizer, Manuel; Ayé, Raffael; Kashkarov, Roman; Roth, Tobias

2014-01-01

Although phylogenetic diversity has been suggested to be relevant from a conservation point of view, its role is still limited in applied nature conservation. Recently, the practice of investing conservation resources based on threatened species was identified as a reason for the slow integration of phylogenetic diversity in nature conservation planning. One of the main arguments is based on the observation that threatened species are not evenly distributed over the phylogenetic tree. However this argument seems to dismiss the fact that conservation action is a spatially explicit process, and even if threatened species are not evenly distributed over the phylogenetic tree, the occurrence of threatened species could still indicate areas with above average phylogenetic diversity and consequently could protect phylogenetic diversity. Here we aim to study the selection of important bird areas in Central Asia, which were nominated largely based on the presence of threatened bird species. We show that although threatened species occurring in Central Asia do not capture phylogenetically more distinct species than expected by chance, the current spatially explicit conservation approach of selecting important bird areas covers above average taxonomic and phylogenetic diversity of breeding and wintering birds. We conclude that the spatially explicit processes of conservation actions need to be considered in the current discussion of whether new prioritization methods are needed to complement conservation action based on threatened species. PMID:25337861

Mass and performance optimization of an airplane wing leading edge structure against bird strike using Taguchi-based grey relational analysis

Directory of Open Access Journals (Sweden)

Hassan Pahange

2016-08-01

Full Text Available Collisions between birds and aircraft are one of the most dangerous threats to flight safety. In this study, smoothed particles hydrodynamics (SPH method is used for simulating the bird strike to an airplane wing leading edge structure. In order to verify the model, first, experiment of bird strike to a flat aluminum plate is simulated, and then bird impact on an airplane wing leading edge structure is investigated. After that, considering dimensions of wing internal structural components like ribs, skin and spar as design variables, we try to minimize structural mass and wing skin deformation simultaneously. To do this, bird strike simulations to 18 different wing structures are made based on Taguchi’s L18 factorial design of experiment. Then grey relational analysis is used to minimize structural mass and wing skin deformation due to the bird strike. The analysis of variance (ANOVA is also applied and it is concluded that the most significant parameter for the performance of wing structure against impact is the skin thickness. Finally, a validation simulation is conducted under the optimal condition to show the improvement of performance of the wing structure.

A novel method to quantify local CpG methylation density by regional methylation elongation assay on microarray

Directory of Open Access Journals (Sweden)

Qiao Yingjuan

2008-01-01

Full Text Available Abstract Background DNA methylation based techniques are important tools in both clinical diagnostics and therapeutics. But most of these methods only analyze a few CpG sites in a target region. Indeed, difference of site-specific methylation may also lead to a change of methylation density in many cases, and it has been found that the density of methylation is more important than methylation of single CpG site for gene silencing. Results We have developed a novel approach for quantitative analysis of CpG methylation density on the basis of microarray-based hybridization and incorporation of Cy5-dCTP into the Cy3 labeled target DNA by using Taq DNA Polymerase on microarray. The quantification is achieved by measuring Cy5/Cy3 signal ratio which is proportional to methylation density. This methylation-sensitive technique, termed RMEAM (regional methylation elongation assay on microarray, provides several advantages over existing methods used for methylation analysis. It can determine an exact methylation density of the given region, and has potential of high throughput. We demonstrate a use of this method in determining the methylation density of the promoter region of the tumor-related gene MLH1, TERT and MGMT in colorectal carcinoma patients. Conclusion This technique allows for quantitative analysis of regional methylation density, which is the representative of all allelic methylation patterns in the sample. The results show that this technique has the characteristics of simplicity, rapidness, specificity and high-throughput.

Selenium toxicity: cause and effects in aquatic birds

Science.gov (United States)

Spallholz, J.E.; Hoffman, D.J.

2002-01-01

There are several manners in which selenium may express its toxicity: (1) an important mechanism appears to involve the formation of CH3Se- which either enters a redox cycle and generates superoxide and oxidative stress, or forms free radicals that bind to and inhibit important enzymes and proteins. (2) Excess selenium as selenocysteine results in inhibition of selenium methylation metabolism. As a consequence, concentrations of hydrogen selenide, an intermediate metabolite, accumulate in animals and are hepatotoxic, possibly causing other selenium-related adverse effects. (3) It is also possible that the presence of excess selenium analogs of sulfur-containing enzymes and structural proteins play a role in avian teratogenesis. l-selenomethionine is the most likely major dietary form of selenium encountered by aquatic birds, with lesser amounts of l-selenocysteine ingested from aquatic animal foods. The literature is suggestive that l-selenomethionine is not any more toxic to adult birds than other animals. l-Selenomethionine accumulates in tissue protein of adult birds and in the protein of egg white as would be expected to occur in animals. There is no suggestion from the literature that the levels of l-selenomethionine that would be expected to accumulate in eggs in the absence of environmental concentration of selenium pose harm to the developing embryo. For several species of aquatic birds, levels of Se as selenomethionine in the egg above 3 ppm on a wet weight basis result in reduced hatchability and deformed embryos. The toxicity of l-selenomethionine injected directly into eggs is greater than that found from the entry of l-selenomethionine into the egg from the normal adult diet. This suggests that there is unusual if not abnormal metabolism of l-selenomethionine in the embryo not seen when l-selenomethionine is present in egg white protein where it likely serves as a source of selenium for glutathione peroxidase synthesis in the developing aquatic chick.

Trans-methylation reactions in plants: focus on the activated methyl cycle.

Science.gov (United States)

Rahikainen, Moona; Alegre, Sara; Trotta, Andrea; Pascual, Jesús; Kangasjärvi, Saijaliisa

2018-02-01

Trans-methylation reactions are vital in basic metabolism, epigenetic regulation, RNA metabolism, and posttranslational control of protein function and therefore fundamental in determining the physiological processes in all living organisms. The plant kingdom is additionally characterized by the production of secondary metabolites that undergo specific hydroxylation, oxidation and methylation reactions to obtain a wide array of different chemical structures. Increasing research efforts have started to reveal the enzymatic pathways underlying the biosynthesis of complex metabolites in plants. Further engineering of these enzymatic machineries offers significant possibilities in the development of bio-based technologies, but necessitates deep understanding of their potential metabolic and regulatory interactions. Trans-methylation reactions are tightly coupled with the so-called activated methyl cycle (AMC), an essential metabolic circuit that maintains the trans-methylation capacity in all living cells. Tight regulation of the AMC is crucial in ensuring accurate trans-methylation reactions in different subcellular compartments, cell types, developmental stages and environmental conditions. This review addresses the organization and posttranslational regulation of the AMC and elaborates its critical role in determining metabolic regulation through modulation of methyl utilization in stress-exposed plants. © 2017 Scandinavian Plant Physiology Society.

76 FR 32224 - Migratory Birds; Take of Migratory Birds by the Armed Forces

Science.gov (United States)

2011-06-03

... DEPARTMENT OF THE INTERIOR Fish and Wildlife Service Migratory Birds; Take of Migratory Birds by... Forces to incidentally take migratory birds during approved military readiness activities without violating the Migratory Bird Treaty Act (MBTA). The Authorization Act provided this interim authority to...

Feasibility study of molecular memory device based on DNA using methylation to store information

Energy Technology Data Exchange (ETDEWEB)

Jiang, Liming; Al-Dirini, Feras [Department of Electrical and Electronic Engineering, The University of Melbourne, Parkville 3010 (Australia); Center for Neural Engineering (CfNE), The University of Melbourne, Carlton 3053 (Australia); National ICT Australia, The University of Melbourne, Parkville 3010 (Australia); Qiu, Wanzhi; Skafidas, Efstratios, E-mail: sskaf@unimelb.edu.au [Department of Electrical and Electronic Engineering, The University of Melbourne, Parkville 3010 (Australia); Center for Neural Engineering (CfNE), The University of Melbourne, Carlton 3053 (Australia); Hossain, Faruque M. [Center for Neural Engineering (CfNE), The University of Melbourne, Carlton 3053 (Australia); Evans, Robin [Department of Electrical and Electronic Engineering, The University of Melbourne, Parkville 3010 (Australia)

2016-07-14

DNA, because of its robustness and dense information storage capability, has been proposed as a potential candidate for next-generation storage media. However, encoding information into the DNA sequence requires molecular synthesis technology, which to date is costly and prone to synthesis errors. Reading the DNA strand information is also complex. Ideally, DNA storage will provide methods for modifying stored information. Here, we conduct a feasibility study investigating the use of the DNA 5-methylcytosine (5mC) methylation state as a molecular memory to store information. We propose a new 1-bit memory device and study, based on the density functional theory and non-equilibrium Green's function method, the feasibility of electrically reading the information. Our results show that changes to methylation states lead to changes in the peak of negative differential resistance which can be used to interrogate memory state. Our work demonstrates a new memory concept based on methylation state which can be beneficial in the design of next generation DNA based molecular electronic memory devices.

Feasibility study of molecular memory device based on DNA using methylation to store information

International Nuclear Information System (INIS)

Jiang, Liming; Al-Dirini, Feras; Qiu, Wanzhi; Skafidas, Efstratios; Hossain, Faruque M.; Evans, Robin

2016-01-01

DNA, because of its robustness and dense information storage capability, has been proposed as a potential candidate for next-generation storage media. However, encoding information into the DNA sequence requires molecular synthesis technology, which to date is costly and prone to synthesis errors. Reading the DNA strand information is also complex. Ideally, DNA storage will provide methods for modifying stored information. Here, we conduct a feasibility study investigating the use of the DNA 5-methylcytosine (5mC) methylation state as a molecular memory to store information. We propose a new 1-bit memory device and study, based on the density functional theory and non-equilibrium Green's function method, the feasibility of electrically reading the information. Our results show that changes to methylation states lead to changes in the peak of negative differential resistance which can be used to interrogate memory state. Our work demonstrates a new memory concept based on methylation state which can be beneficial in the design of next generation DNA based molecular electronic memory devices.

Changepoint detection in base-resolution methylome data reveals a robust signature of methylated domain landscape.

Science.gov (United States)

Yokoyama, Takao; Miura, Fumihito; Araki, Hiromitsu; Okamura, Kohji; Ito, Takashi

2015-08-12

Base-resolution methylome data generated by whole-genome bisulfite sequencing (WGBS) is often used to segment the genome into domains with distinct methylation levels. However, most segmentation methods include many parameters to be carefully tuned and/or fail to exploit the unsurpassed resolution of the data. Furthermore, there is no simple method that displays the composition of the domains to grasp global trends in each methylome. We propose to use changepoint detection for domain demarcation based on base-resolution methylome data. While the proposed method segments the methylome in a largely comparable manner to conventional approaches, it has only a single parameter to be tuned. Furthermore, it fully exploits the base-resolution of the data to enable simultaneous detection of methylation changes in even contrasting size ranges, such as focal hypermethylation and global hypomethylation in cancer methylomes. We also propose a simple plot termed methylated domain landscape (MDL) that globally displays the size, the methylation level and the number of the domains thus defined, thereby enabling one to intuitively grasp trends in each methylome. Since the pattern of MDL often reflects cell lineages and is largely unaffected by data size, it can serve as a novel signature of methylome. Changepoint detection in base-resolution methylome data followed by MDL plotting provides a novel method for methylome characterization and will facilitate global comparison among various WGBS data differing in size and even species origin.

Isolation and Characterization of Methyl Parathion-degrading Bacteria Based on Microbial Sensor Construction

Directory of Open Access Journals (Sweden)

GENG Fang-fang

2014-12-01

Full Text Available Methyl parathion (MP, a kind of typical organophosphates pesticides (OPs, is widely used as agricultural insecticides. However, due to their neurotoxic effects on humans, the elimination of OPs has become increasingly important. Microbial sensors are consisted of biological components and transducers. Owing to their attractive advantages including low cost, easy of miniaturization and excellent selectivity, they have been widely used for environmental analysis. In this paper, four novel bacterial strains capable of utilizing methyl parathion as the sole carbon source were isolated from pesticide contaminated soils. These four isolates were identified based on morphological characteristics and 16S rRNA gene sequences analysis, and their capability of degrading methyl parathion were investigated by high performance liquid chromatography. The highest degrading efficiency strain was selected for further study of degrading mechanism. The results indicated that degradation rate of these four strains were all over 78% after incubation at 30 ℃, pH 7.0 for 7 d with the original concentration of methyl parathion 50 mg·L-1. The highest degradation rate was up to 100%. 16S rRNA gene sequences indicated that strain MP-6 was affiliated into the genus klebsiella. The LC-MS results indicated that methyl parathion was hydrolyzed to dimethyl thiophosphoric acid and p-nitrophenol by MP-6. A little of p-nitrophenol molecules could be further metabolized to 4-nitrocatechol and 1, 2, 4-benzenetrio. The results indicated that based on detecting the potential signal of intermediate product p-nitrophenol, the strain MP-6 could be used to construct microbial sensors for determination of organophosphorus pesticides in environment.

Defining the demands and meeting the challenges of integrated bird conservation

Science.gov (United States)

Charles K. Baxter

2005-01-01

Understanding the demands of integration bird conservation begins with a critical assessment of the North American Bird Conservation Initiative's (NABCI) goal."Regionally-based, biologically-driven, landscape oriented partnerships delivering the full spectrum of bird conservation across the entirety of North America."

The Netherlands Bird Avoidance Model, Final Report

NARCIS (Netherlands)

Shamoun-Baranes, J.; Bouten, W.; Sierdsema, H.; van Belle, J.; van Gasteren, J.R.; van Loon, E.E.

2006-01-01

The NL-BAM was developed as a web-based decision support tool to be used by the bird hazard avoidance experts in the ecology unit of the Royal Netherlands Air Force. The NL-BAM will be used together with the ROBIN 4 radar system to provide BirdTAMS, for real time warnings and flight planning and to

Quantification of bird-to-bird and bird-to-human infections during 2013 novel H7N9 avian influenza outbreak in China.

Science.gov (United States)

Hsieh, Ying-Hen; Wu, Jianhong; Fang, Jian; Yang, Yong; Lou, Jie

2014-01-01

From February to May, 2013, 132 human avian influenza H7N9 cases were identified in China resulting in 37 deaths. We developed a novel, simple and effective compartmental modeling framework for transmissions among (wild and domestic) birds as well as from birds to human, to infer important epidemiological quantifiers, such as basic reproduction number for bird epidemic, bird-to-human infection rate and turning points of the epidemics, for the epidemic via human H7N9 case onset data and to acquire useful information regarding the bird-to-human transmission dynamics. Estimated basic reproduction number for infections among birds is 4.10 and the mean daily number of human infections per infected bird is 3.16*10-5 [3.08*10-5, 3.23*10-5]. The turning point of 2013 H7N9 epidemic is pinpointed at April 16 for bird infections and at April 9 for bird-to-human transmissions. Our result reveals very low level of bird-to-human infections, thus indicating minimal risk of widespread bird-to-human infections of H7N9 virus during the outbreak. Moreover, the turning point of the human epidemic, pinpointed at shortly after the implementation of full-scale control and intervention measures initiated in early April, further highlights the impact of timely actions on ending the outbreak. This is the first study where both the bird and human components of an avian influenza epidemic can be quantified using only the human case data.

No fly zones : oilsands mines use wide variety of bird deterrents

Energy Technology Data Exchange (ETDEWEB)

Harrison, L.

2010-10-15

This article discussed the bird deterrent practices that several Canadian operators have in place at their tailings ponds. Regulations require that oilsands operators prevent birds from coming into contact with toxic tailings. Canadian Natural Resources Limited has a 2-man team constantly monitoring bird landings at its Horizon tailings pond. The team fires flares at birds or harasses them in boats to stop them from landing on the pond. Remote sensing technologies are used, including long-range acoustic devices, propane cannons, human effigies, balloons, and pyrotechnics. The vegetation around the pond is controlled to make the area inhospitable to birds, and highly desirable bird habitat was created as an alternative bird landing site. Following a high-mortality incident in 2008, Syncrude now deploys 190 shore-based sound canons at all tailings settling basins and open-water areas and uses scarecrows and effigies fitted with reflectors to deter waterfowl from landing. A radar-based migration monitoring system helps the company to optimize its deterrent system. At its Muskeg River Mine, Shell Canada Limited uses an on-demand radar-activated bird-deterrent program, which is what major airports use to deter birds. In the presence of a bird, the system launches a radio signal that sets off strobe lights, propane cannons, scarecrows, and mechanical models of falcons. 1 fig.

Sensitivity of Coastal Environments and Wildlife to Spilled Oil: South Florida: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for diving birds, gulls, terns, passerine birds, pelagic birds, raptors, shorebirds, wading birds, and...

Sensitivity of Coastal Environments and Wildlife to Spilled Oil: Central California: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for alcids, diving birds, gulls, terns, passerine birds, pelagic birds, raptors, shorebirds, wading birds,...

Scoping the evidence for EarlyBird and EarlyBird Plus, two United Kingdom-developed parent education training programmes for autism spectrum disorder.

Science.gov (United States)

Dawson-Squibb, John-Joe; Davids, Eugene Lee; de Vries, Petrus J

2018-03-01

EarlyBird and EarlyBird Plus are parent education and training programmes designed by the UK National Autistic Society in 1997 and 2003, having been delivered to more than 27,000 families in 14 countries. These group-based programmes aim to (1) support parents immediately after diagnosis of autism spectrum disorder, (2) empower parents, encouraging a positive perception of their child's autism spectrum disorder and (3) help parents establish good practice. In the absence of any previous comprehensive review, we performed a scoping review of all peer-reviewed publications on EarlyBird/EarlyBird Plus. A search was conducted between February and June 2016 using EbscoHost, Sabinet, SAGE Journals, Directory of Open Access Journals, BioMed Central, Scopus, ScienceDirect and grey literature. Two reviewers independently screened titles and abstracts for inclusion. In total, 18 articles were identified: 16 from the United Kingdom and 2 from New Zealand. We reviewed the context, study populations, design, outcome measures, whether focus was on parental perception, parental change or child changes and programme feasibility. Strong parental support for the acceptability but lower level evidence of efficacy of EarlyBird/EarlyBird Plus was found. Future research should consider randomised controlled trials. There is no research on EarlyBird/EarlyBird Plus in low-resource settings; therefore, we recommend broader feasibility evaluation of EarlyBird/EarlyBird Plus including accessibility, cultural appropriateness and scalability.

Adaptive threshold-based shadow masking for across-date settlement classification of panchromatic quickBird images

CSIR Research Space (South Africa)

Luus, FPS

2014-06-01

Full Text Available -1 IEEE GEOSCIENCE AND REMOTE SENSING LETTERS, VOL. 11, NO. 6, JUNE 2014 1153 Adaptive Threshold-Based Shadow Masking for Across- Date Settlement Classification of Panchromatic QuickBird Images F. P. S. Luus, F. van den Bergh, and B. T. J. Maharaj...

Dissociation dynamics of methylal

Energy Technology Data Exchange (ETDEWEB)

Beaud, P; Frey, H -M; Gerber, T; Mischler, B; Radi, P P; Tzannis, A -P [Paul Scherrer Inst. (PSI), Villigen (Switzerland)

1999-08-01

The dissociation of methylal is investigated using mass spectrometry, combined with a pyrolytic radical source and femtosecond pump probe experiments. Based on preliminary results two reaction paths of methylal dissociation are proposed and discussed. (author) 4 fig., 3 refs.

Screamy Bird

DEFF Research Database (Denmark)

Tarby, Sara; Cermak, Daniel

2016-01-01

Sara Tarby, Daniel Cermak-Sassenrath. Screamy Bird. Digital game. Kulturnatten 2016, Danish Science Ministry, Copenhagen, DK, Oct 14, 2016.......Sara Tarby, Daniel Cermak-Sassenrath. Screamy Bird. Digital game. Kulturnatten 2016, Danish Science Ministry, Copenhagen, DK, Oct 14, 2016....

Birds and Bird Habitat: What Are the Risks from Industrial Wind Turbine Exposure?

Science.gov (United States)

Sprague, Terry; Harrington, M. Elizabeth; Krogh, Carmen M. E.

2011-01-01

Bird kill rate and disruption of habitat has been reported when industrial wind turbines are introduced into migratory bird paths or other environments. While the literature could be more complete regarding the documentation of negative effects on birds and bird habitats during the planning, construction, and operation of wind power projects,…

Determinants of Mammal and Bird Species Richness in China Based on Habitat Groups.

Directory of Open Access Journals (Sweden)

Haigen Xu

Full Text Available Understanding the spatial patterns in species richness is a central issue in macroecology and biogeography. Analyses that have traditionally focused on overall species richness limit the generality and depth of inference. Spatial patterns of species richness and the mechanisms that underpin them in China remain poorly documented. We created a database of the distribution of 580 mammal species and 849 resident bird species from 2376 counties in China and established spatial linear models to identify the determinants of species richness and test the roles of five hypotheses for overall mammals and resident birds and the 11 habitat groups among the two taxa. Our result showed that elevation variability was the most important determinant of species richness of overall mammal and bird species. It is indicated that the most prominent predictors of species richness varied among different habitat groups: elevation variability for forest and shrub mammals and birds, temperature annual range for grassland and desert mammals and wetland birds, net primary productivity for farmland mammals, maximum temperature of the warmest month for cave mammals, and precipitation of the driest quarter for grassland and desert birds. Noteworthily, main land cover type was also found to obviously influence mammal and bird species richness in forests, shrubs and wetlands under the disturbance of intensified human activities. Our findings revealed a substantial divergence in the species richness patterns among different habitat groups and highlighted the group-specific and disparate environmental associations that underpin them. As we demonstrate, a focus on overall species richness alone might lead to incomplete or misguided understanding of spatial patterns. Conservation priorities that consider a broad spectrum of habitat groups will be more successful in safeguarding the multiple services of biodiversity.

International trade of CITES listed bird species in China.

Science.gov (United States)

Li, Linlin; Jiang, Zhigang

2014-01-01

Commercial trade of wild birds may devastate wild bird populations. Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES) controls the trade of wild species listed in its appendices to avoid these species being threatened by international trade. China used to be one of the major trading countries with significant bird trade with foreign countries; on the other hand, China is a country with unique avian fauna, many Important Bird Areas and critically endangered bird species. What is the role of the country in world wild bird trade? What kind of insights can we extract from trade records for improving future management of wild bird trade in the country? We retrieved and analyzed international trade records of the CITES listed bird species of China from 1981 to 2010 from the CITES Trade Database maintained by United Nations Environment Program and World Conservation Monitoring Centre (UNEP-WCMC). We found that: (1) International trade of live birds in China peaked during the late 1990s, then decreased to the level before the surge of trade in a few years, the trade dynamics of wild birds may be affected by governmental policy and the outbreak of avian influenza during the period. (2) Most frequently traded CITES Appendix listed birds in China were parrots, most of which were exotic species to the country. (3) Birds were mainly traded for commercial purpose. Exotic birds in trade were mainly captive-bred while the most Chinese birds traded internationally were captured from the wild. Since many bird species in international trade are threatened to extinction, China should take stricter measures on importing of wild-captured birds and should collaborate with the countries of original in the international bird trade to avoid unsustainable harvesting of wild birds. It is urgent for China to carry out population surveys on those domestic bird species once in significant international trade and to make better conservation decisions based on

International Trade of CITES Listed Bird Species in China

Science.gov (United States)

Li, Linlin; Jiang, Zhigang

2014-01-01

Commercial trade of wild birds may devastate wild bird populations. Convention on International Trade in Endangered Species of Wild Fauna and Flora (CITES) controls the trade of wild species listed in its appendices to avoid these species being threatened by international trade. China used to be one of the major trading countries with significant bird trade with foreign countries; on the other hand, China is a country with unique avian fauna, many Important Bird Areas and critically endangered bird species. What is the role of the country in world wild bird trade? What kind of insights can we extract from trade records for improving future management of wild bird trade in the country? We retrieved and analyzed international trade records of the CITES listed bird species of China from 1981 to 2010 from the CITES Trade Database maintained by United Nations Environment Program and World Conservation Monitoring Centre (UNEP-WCMC). We found that: (1) International trade of live birds in China peaked during the late 1990s, then decreased to the level before the surge of trade in a few years, the trade dynamics of wild birds may be affected by governmental policy and the outbreak of avian influenza during the period. (2) Most frequently traded CITES Appendix listed birds in China were parrots, most of which were exotic species to the country. (3) Birds were mainly traded for commercial purpose. Exotic birds in trade were mainly captive-bred while the most Chinese birds traded internationally were captured from the wild. Since many bird species in international trade are threatened to extinction, China should take stricter measures on importing of wild-captured birds and should collaborate with the countries of original in the international bird trade to avoid unsustainable harvesting of wild birds. It is urgent for China to carry out population surveys on those domestic bird species once in significant international trade and to make better conservation decisions based on

Analysis of DNA methylation of maize in response to osmotic and salt stress based on methylation-sensitive amplified polymorphism.

Science.gov (United States)

Tan, Ming-pu

2010-01-01

Water stress is known to alter cytosine methylation, which generally represses transcription. However, little is known about the role of methylation alteration in maize under osmotic stress. Here, methylation-sensitive amplified polymorphism (MSAP) was used to screen PEG- or NaCl-induced methylation alteration in maize seedlings. The sequences of 25 differentially amplified fragments relevant to stress were successfully obtained. Two stress-specific fragments from leaves, LP166 and LPS911, shown to be homologous to retrotransposon Gag-Pol protein genes, suggested that osmotic stress-induced methylation of retrotransposons. Three MSAP fragments, representing drought-induced or salt-induced methylation in leaves, were homologous to a maize aluminum-induced transporter. Besides these, heat shock protein HSP82, Poly [ADP-ribose] polymerase 2, Lipoxygenase, casein kinase (CK2), and dehydration-responsive element-binding (DREB) factor were also homologs of MSAP sequences from salt-treated roots. One MSAP fragment amplified from salt-treated roots, designated RS39, was homologous to the first intron of maize protein phosphatase 2C (zmPP2C), whereas - LS103, absent from salt-treated leaves, was homologous to maize glutathione S-transferases (zmGST). Expression analysis showed that salt-induced intron methylation of root zmPP2C significantly downregulated its expression, while salt-induced demethylation of leaf zmGST weakly upregulated its expression. The results suggested that salinity-induced methylation downregulated zmPP2C expression, a negative regulator of the stress response, while salinity-induced demethylation upregulated zmGST expression, a positive effecter of the stress response. Altered methylation, in response to stress, might also be involved in stress acclimation. Copyright 2009 Elsevier Masson SAS. All rights reserved.

Biosecurity and bird movement practices in upland game bird facilities in the United States.

Science.gov (United States)

Slota, Katharine E; Hill, Ashley E; Keefe, Thomas J; Bowen, Richard A; Pabilonia, Kristy L

2011-06-01

Since 1996, the emergence of Asian-origin highly pathogenic avian influenza subtype H5N1 has spurred great concern for the global poultry industry. In the United States, there is concern over the potential of a foreign avian disease incursion into the country. Noncommercial poultry operations, such as upland game bird facilities in the United States, may serve as a potential source of avian disease introduction to other bird populations including the commercial poultry industry, backyard flocks, or wildlife. In order to evaluate how to prevent disease transmission from these facilities to other populations, we examined biosecurity practices and bird movement within the upland game bird industry in the United States. Persons that held a current permit to keep, breed, or release upland game birds were surveyed for information on biosecurity practices, flock and release environments, and bird movement parameters. Biosecurity practices vary greatly among permit holders. Many facilities allow for interaction between wild birds and pen-reared birds, and there is regular long-distance movement of live adult birds among facilities. Results suggest that upland game bird facilities should be targeted for biosecurity education and disease surveillance efforts.

Genetic diversity analysis of Jatropha curcas L. (Euphorbiaceae) based on methylation-sensitive amplification polymorphism.

Science.gov (United States)

Kanchanaketu, T; Sangduen, N; Toojinda, T; Hongtrakul, V

2012-04-13

Genetic analysis of 56 samples of Jatropha curcas L. collected from Thailand and other countries was performed using the methylation-sensitive amplification polymorphism (MSAP) technique. Nine primer combinations were used to generate MSAP fingerprints. When the data were interpreted as amplified fragment length polymorphism (AFLP) markers, 471 markers were scored. All 56 samples were classified into three major groups: γ-irradiated, non-toxic and toxic accessions. Genetic similarity among the samples was extremely high, ranging from 0.95 to 1.00, which indicated very low genetic diversity in this species. The MSAP fingerprint was further analyzed for DNA methylation polymorphisms. The results revealed differences in the DNA methylation level among the samples. However, the samples collected from saline areas and some species hybrids showed specific DNA methylation patterns. AFLP data were used, together with methylation-sensitive AFLP (MS-AFLP) data, to construct a phylogenetic tree, resulting in higher efficiency to distinguish the samples. This combined analysis separated samples previously grouped in the AFLP analysis. This analysis also distinguished some hybrids. Principal component analysis was also performed; the results confirmed the separation in the phylogenetic tree. Some polymorphic bands, involving both nucleotide and DNA methylation polymorphism, that differed between toxic and non-toxic samples were identified, cloned and sequenced. BLAST analysis of these fragments revealed differences in DNA methylation in some known genes and nucleotide polymorphism in chloroplast DNA. We conclude that MSAP is a powerful technique for the study of genetic diversity for organisms that have a narrow genetic base.

Wind power and bird kills

International Nuclear Information System (INIS)

Raynolds, M.

1998-01-01

The accidental killing of birds by wind generators, and design improvements in the towers that support the turbines that might cut down on the bird killings were discussed. The first problem for the industry began in the late 1980s when the California Energy Commission reported as many as 160 birds (the majority being raptors, including the protected golden eagle) killed in one year in the vicinity of wind power plants. The key factor identified was the design of the towers as birds of prey are attracted to lattice towers as a place to hunt from. Tubular towers do not provide a place for the birds to perch, therefore they reduce the potential for bird strikes. Bird strikes also have been reported in Spain and the siting of the towers have been considered as the principal cause of the bird strikes. In view of these incidents, the wind power industry is developing standards for studying the potential of bird strikes and is continuing to study bird behaviour leading to collisions, the impact of topography, cumulative impacts and new techniques to reduce bird strikes. Despite the reported incidents, the risk of bird strikes by wind turbines, compared to other threats to birds such as pollution, oil spills, and other threats from fossil and nuclear fuels, is considered to be negligible. With continuing efforts to minimize incidents by proper design and siting, wind power can continue to grow as an environmentally sound and efficient source of energy

Wind power and bird kills

Energy Technology Data Exchange (ETDEWEB)

Raynolds, M.

1998-12-01

The accidental killing of birds by wind generators, and design improvements in the towers that support the turbines that might cut down on the bird killings were discussed. The first problem for the industry began in the late 1980s when the California Energy Commission reported as many as 160 birds (the majority being raptors, including the protected golden eagle) killed in one year in the vicinity of wind power plants. The key factor identified was the design of the towers as birds of prey are attracted to lattice towers as a place to hunt from. Tubular towers do not provide a place for the birds to perch, therefore they reduce the potential for bird strikes. Bird strikes also have been reported in Spain and the siting of the towers have been considered as the principal cause of the bird strikes. In view of these incidents, the wind power industry is developing standards for studying the potential of bird strikes and is continuing to study bird behaviour leading to collisions, the impact of topography, cumulative impacts and new techniques to reduce bird strikes. Despite the reported incidents, the risk of bird strikes by wind turbines, compared to other threats to birds such as pollution, oil spills, and other threats from fossil and nuclear fuels, is considered to be negligible. With continuing efforts to minimize incidents by proper design and siting, wind power can continue to grow as an environmentally sound and efficient source of energy.

76 FR 19875 - Migratory Bird Hunting; Proposed 2011-12 Migratory Game Bird Hunting Regulations (Preliminary...

Science.gov (United States)

2011-04-08

..., carriage, or export of any * * * bird, or any part, nest, or egg'' of migratory game birds can take place... 50 CFR Part 20 Migratory Bird Hunting; Proposed 2011-12 Migratory Game Bird Hunting Regulations (Preliminary) With Requests for Indian Tribal Proposals and Requests for 2013 Spring and Summer Migratory Bird...

Annotated Bibliography of Bird Hazards to Aircraft: Bird Strike Committee Citations 1967-1997

National Research Council Canada - National Science Library

Short, Jeffrey

1998-01-01

.... This annotated bibliography of bird hazards to aircraft, termed ABBHA, is a compilation of citations with abstracts on a wide range of related topics such as bird strike tolerance engineering, bird...

78 FR 53217 - Migratory Bird Hunting; Migratory Bird Hunting Regulations on Certain Federal Indian Reservations...

Science.gov (United States)

2013-08-28

..., and by what means such birds or any part, nest, or egg thereof may be taken, hunted, captured, killed... Service 50 CFR Part 20 Migratory Bird Hunting; Migratory Bird Hunting Regulations on Certain Federal...-FXMB1231099BPP0] RIN 1018-AY87 Migratory Bird Hunting; Migratory Bird Hunting Regulations on Certain Federal...

PHYSIOLOGICALLY BASED PHARMACOKINETIC MODEL FOR HUMAN EXPOSURES TO METHYL TERTIARY-BUTYL ETHER

Science.gov (United States)

Humans can be exposed by inhalation, ingestion, or dermal absorption to methyl tertiary-butyl ether (MTBE), an oxygenated fuel additive, from contaminated water sources. The purpose of this research was to develop a physiologically based pharmacokinetic model describing in human...

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

Directory of Open Access Journals (Sweden)

Li Xin

2012-07-01

Full Text Available Abstract Background DNA methylation plays important biological roles in plants and animals. To examine the rice genomic methylation landscape and assess its functional significance, we generated single-base resolution DNA methylome maps for Asian cultivated rice Oryza sativa ssp. japonica, indica and their wild relatives, Oryza rufipogon and Oryza nivara. Results The overall methylation level of rice genomes is four times higher than that of Arabidopsis. Consistent with the results reported for Arabidopsis, methylation in promoters represses gene expression while gene-body methylation generally appears to be positively associated with gene expression. Interestingly, we discovered that methylation in gene transcriptional termination regions (TTRs can significantly repress gene expression, and the effect is even stronger than that of promoter methylation. Through integrated analysis of genomic, DNA methylomic and transcriptomic differences between cultivated and wild rice, we found that primary DNA sequence divergence is the major determinant of methylational differences at the whole genome level, but DNA methylational difference alone can only account for limited gene expression variation between the cultivated and wild rice. Furthermore, we identified a number of genes with significant difference in methylation level between the wild and cultivated rice. Conclusions The single-base resolution methylomes of rice obtained in this study have not only broadened our understanding of the mechanism and function of DNA methylation in plant genomes, but also provided valuable data for future studies of rice epigenetics and the epigenetic differentiation between wild and cultivated rice.

Influence of Rice Seeding Rate on Efficacies of Neonicotinoid and Anthranilic Diamide Seed Treatments against Rice Water Weevil

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Jason Hamm

2014-12-01

Full Text Available Rice in the U.S. is frequently seeded at low rates and treated before sowing with neonicotinoid or anthranilic diamide insecticides to target the rice water weevil. A previous study of the influence of seeding rate on rice water weevil densities showed an inverse relationship between seeding rates and immature weevil densities. This study investigated interactive effects of seeding rate and seed treatment on weevil densities and rice yields; in particular, experiments were designed to determine whether seed treatments were less effective at low seeding rates. Four experiments were conducted over three years by varying seeding rates of rice treated at constant per seed rates of insecticide. Larval suppression by chlorantraniliprole was superior to thiamethoxam or clothianidin, and infestations at low seeding rates were up to 47% higher than at high seeding rates. Little evidence was found for the hypothesis that seed treatments are less effective at low seeding rates; in only one of four experiments was the reduction in weevil densities by thiamethoxam greater at high than at low seeding rates. However, suppression of larvae by neonicotinoid seed treatments in plots seeded at low rates was generally poor, and caution must be exercised when using the neonicotioids at low seeding rates.

Protein methylation reactions in intact pea chloroplasts

International Nuclear Information System (INIS)

Niemi, K.J.

1989-01-01

Post-translational protein methylation was investigated in Pisum sativum chloroplasts. Intact pea chloroplasts were incubated with ( 3 H-methyl)-S-adenosylmethionine under various conditions. The chloroplasts were then separated into stromal and thylakoid fractions and analyzed for radioactivity transferred to protein. Light enhanced the magnitude of labeling in both fractions. One thylakoid polypeptide with an apparent molecular mass of 43 kDa was labeled only in the light. Several other thylakoid and stromal proteins were labeled in both light and dark-labeling conditions. Both base-labile methylation, carboxy-methylesters and base-stable groups, N-methylations were found. Further characterization of the methyl-transfer reactions will be presented

Cook Inlet and Kenai Peninsula, Alaska ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains biological resource data for alcids, shorebirds, waterfowl, diving birds, pelagic birds, gulls and terns in Cook Inlet and Kenai Peninsula,...

Understanding the biological concept "bird": A kindergarten case study

Science.gov (United States)

Buchholz, Dilek

The purpose of this qualitative, multiple case study of 14 students in a metropolitan public school in the Deep South was to find out, during a period of three months, what these kindergarten-aged children knew about birds, whether this knowledge represented current scientific thought, if such science instruction meaningfully affected their prior knowledge, and if so, what the factors during instruction that seemed to influence their understanding of the concept of bird were. The research was conducted in three phases; preinstruction interviews, instruction, and postinstruction interviews. The theoretical framework for this research was based on the Human Constructivism theory of learning (Mintzes, Wandersee and Novak, 1997). Instructional materials consisted of carefully chosen books (both fiction and non-fiction), guest speakers, field trips, a live bird in the classroom, students' observation journals, teacher-made classification and sorting activities, and picture-based concept maps. The findings suggest that young children's knowledge of birds was limited chiefly to birds' anatomical and morphological characteristics, with repeated references being made by the children to human characteristics. There was a positive, significant difference in young children's pre- and postinstruction scientific knowledge of birds. Although performance varied from child to child after instruction, most children were able to identify some common birds by name. Just one child resisted conceptual change. Kindergarten children's basic knowledge of bird behavior was limited to flight and eating. Although the children had more conceptual knowledge at the end, understanding still appeared to be shallow. The children did develop their skill in observing markedly. It also became evident that these kindergarten children needed more (a) experience in asking questions, (b) practice in techniques of visual representation, and (c) language development in order to be able to explain what they

Analysis of DNA methylation related to rice adult plant resistance to bacterial blight based on methylation-sensitive AFLP (MSAP) analysis.

Science.gov (United States)

Sha, A H; Lin, X H; Huang, J B; Zhang, D P

2005-07-01

DNA methylation is known to play an important role in the regulation of gene expression in eukaryotes. The rice cultivar Wase Aikoku 3 becomes resistant to the blight pathogen Xanthomonas oryzae pv. oryzae at the adult stage. Using methylation-sensitive amplified polymorphism (MSAP) analysis, we compared the patterns of cytosine methylation in seedlings and adult plants of the rice cultivar Wase Aikoku 3 that had been inoculated with the pathogen Xanthomonas oryzae pv. oryzae, subjected to mock inoculation or left untreated. In all, 2000 DNA fragments, each representing a recognition site cleaved by either or both of two isoschizomers, were amplified using 60 pairs of selective primers. A total of 380 sites were found to be methylated. Of these, 45 showed differential cytosine methylation among the seedlings and adult plants subjected to different treatments, and overall levels of methylation were higher in adult plants than in seedlings. All polymorphic fragments were sequenced, and six showed homology to genes that code for products of known function. Northern analysis of three fragments indicated that their expression varied with methylation pattern, with hypermethylation being correlated with repression of transcription, as expected. The results suggest that significant differences in cytosine methylation exist between seedlings and adult plants, and that hypermethylation or hypomethylation of specific genes may be involved in the development of adult plant resistance (APR) in rice plants.

Waterbird flight initiation distances at Barberspan Bird Sanctuary, South Africa

Directory of Open Access Journals (Sweden)

Carina Coetzer

2017-05-01

Full Text Available With tourism in South Africa expanding, the number of avitourists increases. The increase in infrastructure and human activities in protected areas, if not managed properly, can be harmful to birds. Flight initiation distances (FID can be used as a method to monitor habituation to disturbances. This study was performed at the Barberspan Bird Sanctuary, North West province, South Africa, to determine the levels of habituation among waterbirds and make appropriate recommendations regarding the management of the reserve. Our results indicated a 0.29 m increase in FID per gram reported mean biomass. Compared with conspecific or congeneric birds from Australia, Europe and North America, South African birds have relatively larger FIDs to human disturbance, which may indicate lower habituation. We also calculated buffer zones based on the maximum FID of the waterbirds for three mass groups. These buffer zones were then matched with the spatial distribution of the birds along the shoreline. We recommend that the mean FID for the blacksmith lapwing, Vanellus armatus (62 m, can be used as approach distance outside the breeding season in areas where the birds are sparsely distributed and 104 m during the breeding season in breeding areas. A large buffer of 200 m is suggested for areas with threatened, sensitive and skittish species. However, it is still preferable for avitourists to use the bird hides along the shores. Conservation implications: This study provides information for conservation management at Barberspan, based on typical birder activity. Smaller birds would need smaller buffer zones, while larger birds need much greater distances from observers to minimise disturbance. Similar studies can be applied elsewhere.

Age-dependent change in the morphology of nucleoli and methylation of genes of the Nucleolar Organizer Region in Japanese quail Coturnix japonica) model (Temminck and Schlegel, 1849) (Galliformes: Aves).

Science.gov (United States)

Andraszek, Katarzyna; Gryzińska, Magdalena; Wójcik, Ewa; Knaga, Sebastian; Smalec, Elżbieta

2014-01-01

Nucleoli are the product of the activity of nucleolar organizer regions (NOR) in certain chromosomes. Their main functions are the formation of ribosomal subunits from ribosomal protein molecules and the transcription of genes encoding rRNA. The aim of the study was to determine the shape of nucleoli and analyse methylation in the gene RN28S in the spermatocytes of male Japanese quail (Coturnixjaponica) in two age groups. Nucleoli were analysed in cells of the first meiotic prophase. Their number and shape were determined and they were classified as regular, irregular or defragmented. In the cells of the young birds no defragmented nucleoli were observed, with regular and irregular nucleoli accounting for 97% and 3%, respectively. In the cells of older birds no regular nucleoli were observed, while irregular and defragmented nucleoli accounted for 37% and 67%, respectively. MSP (methylation-specific PCR) showed that the gene RN28S is methylated in both 15-week-old and 52-week-old quails. In recent years an association has been established between nucleolus morphology and cellular ageing processes.

14 CFR 33.76 - Bird ingestion.

Science.gov (United States)

2010-01-01

... single bird, the single largest medium bird which can enter the inlet, and the large flocking bird must...) (d) Large flocking bird. An engine test will be performed as follows: (1) Large flocking bird engine.... (4) Ingestion of a large flocking bird under the conditions prescribed in this paragraph must not...

Assessing allowable take of migratory birds

Science.gov (United States)

Runge, M.C.; Sauer, J.R.; Avery, M.L.; Blackwell, B.F.; Koneff, M.D.

2009-01-01

Legal removal of migratory birds from the wild occurs for several reasons, including subsistence, sport harvest, damage control, and the pet trade. We argue that harvest theory provides the basis for assessing the impact of authorized take, advance a simplified rendering of harvest theory known as potential biological removal as a useful starting point for assessing take, and demonstrate this approach with a case study of depredation control of black vultures (Coragyps atratus) in Virginia, USA. Based on data from the North American Breeding Bird Survey and other sources, we estimated that the black vulture population in Virginia was 91,190 (95% credible interval = 44,520?212,100) in 2006. Using a simple population model and available estimates of life-history parameters, we estimated the intrinsic rate of growth (rmax) to be in the range 7?14%, with 10.6% a plausible point estimate. For a take program to seek an equilibrium population size on the conservative side of the yield curve, the rate of take needs to be less than that which achieves a maximum sustained yield (0.5 x rmax). Based on the point estimate for rmax and using the lower 60% credible interval for population size to account for uncertainty, these conditions would be met if the take of black vultures in Virginia in 2006 was < 3,533 birds. Based on regular monitoring data, allowable harvest should be adjusted annually to reflect changes in population size. To initiate discussion about how this assessment framework could be related to the laws and regulations that govern authorization of such take, we suggest that the Migratory Bird Treaty Act requires only that take of native migratory birds be sustainable in the long-term, that is, sustained harvest rate should be < rmax. Further, the ratio of desired harvest rate to 0.5 x rmax may be a useful metric for ascertaining the applicability of specific requirements of the National Environmental Protection Act.

A mobile target-netting technique for canopy birds

Science.gov (United States)

Scott Stoleson; Linda Ordiway; Emily H. Thomas; Donald. Watts

2016-01-01

Mist-netting of birds is a well-established and much used method for capturing birds for banding, taking blood, feather, or tissue samples, attaching radio transmitters or light-sensitive geolocators, and other purposes (Karr 1981, Dunn and Ralph 2004). Mistnets are typically ground based, with individual nets stretched between poles and extending 2.6 m high. Captures...

Large-scale wind energy and birds in Friesland: A survey of the possible hindrance for birds of the project Windstreek: Environmental Effect Report Windstreek, Base report A

International Nuclear Information System (INIS)

Van den Bergh, L.M.J.; Spaans, A.L.

1994-01-01

For several alternative sites in the Dutch province Friesland, where it is planned to install 500 kW and 1 MW wind turbines on a large scale (the Windstreek project), the possible hindrance for breeding birds, stopping birds and migratory birds has been investigated. First an overview is given of basic data from the literature and experts in the field with regard to the possible hindrances for birds and the situation of the birds in the areas considered. Next, several criteria are used to determine which locations are the most suitable sites for placing the wind turbines. For the 500 kW wind turbines (worst case) the suitability differs strongly per site. The variation is the largest for the option of decentralized sites. Realization of 200 MW large-scale generated wind power is the least unfavourable option, regarding the effects on birds, by means of decentralized sites. The super-structure option Afsluitdijk-Waddenkust and the Project Memorandum alternative are for that matter the least favourable options. The combined alternative and the super-structure Middelzeetrechter take the in-between position. The 1MW variants of the alternatives score better than the similar 500 kW options. The hindrance for birds can be reduced further by applying two-bladed rotors instead of three-bladed rotors and to adjust the site. 20 figs., 9 tabs., 2 appendices, 42 refs

Light-induced bird strikes on vessels in Southwest Greenland

DEFF Research Database (Denmark)

Merkel, Flemming Ravn; Johansen, Kasper Lambert

2011-01-01

Light-induced bird strikes are known to occur when vessels navigate during darkness in icy waters using powerful searchlight. In Southwest Greenland, which is important internationally for wintering seabirds, we collected reports of incidents of bird strikes over 2–3 winters (2006–2009) from navy...... vessels, cargo vessels and trawlers (total n = 19). Forty-one incidents were reported: mainly close to land (birds were reported killed in a single incident. All occurred between 5 p.m. and 6 a.m. and significantly more birds were involved when...... visibility was poor (snow) rather than moderate or good. Among five seabird species reported, the common eider (Somateria mollissima) accounted for 95% of the bird casualties. Based on spatial analyses of data on vessel traffic intensity and common eider density we are able to predict areas with high risk...

DNA sequence explains seemingly disordered methylation levels in partially methylated domains of Mammalian genomes.

Directory of Open Access Journals (Sweden)

Dimos Gaidatzis

2014-02-01

Full Text Available For the most part metazoan genomes are highly methylated and harbor only small regions with low or absent methylation. In contrast, partially methylated domains (PMDs, recently discovered in a variety of cell lines and tissues, do not fit this paradigm as they show partial methylation for large portions (20%-40% of the genome. While in PMDs methylation levels are reduced on average, we found that at single CpG resolution, they show extensive variability along the genome outside of CpG islands and DNase I hypersensitive sites (DHS. Methylation levels range from 0% to 100% in a roughly uniform fashion with only little similarity between neighboring CpGs. A comparison of various PMD-containing methylomes showed that these seemingly disordered states of methylation are strongly conserved across cell types for virtually every PMD. Comparative sequence analysis suggests that DNA sequence is a major determinant of these methylation states. This is further substantiated by a purely sequence based model which can predict 31% (R(2 of the variation in methylation. The model revealed CpG density as the main driving feature promoting methylation, opposite to what has been shown for CpG islands, followed by various dinucleotides immediately flanking the CpG and a minor contribution from sequence preferences reflecting nucleosome positioning. Taken together we provide a reinterpretation for the nucleotide-specific methylation levels observed in PMDs, demonstrate their conservation across tissues and suggest that they are mainly determined by specific DNA sequence features.

On the magnetoreception mechanism in birds

DEFF Research Database (Denmark)

Solov'yov, Ilia; Greiner, Walter

2008-01-01

The present paper discusses a mechanism of avian magnetoreception, which is based on the interaction of magnetite and maghemite micro particles, recently found in subcellular compartments within the sensory dendrites of the upper beak of several bird species. The analysis of forces acting between...... the iron particles shows that the orientation of the external geomagnetic field can significantly change the probability of the mechanosensitive ion channels opening and closing inducing a primary receptor potential via strain-sensitive membrane channels leading to a certain bird orientation effect...

A DNA microarray-based methylation-sensitive (MS)-AFLP hybridization method for genetic and epigenetic analyses.

Science.gov (United States)

Yamamoto, F; Yamamoto, M

2004-07-01

We previously developed a PCR-based DNA fingerprinting technique named the Methylation Sensitive (MS)-AFLP method, which permits comparative genome-wide scanning of methylation status with a manageable number of fingerprinting experiments. The technique uses the methylation sensitive restriction enzyme NotI in the context of the existing Amplified Fragment Length Polymorphism (AFLP) method. Here we report the successful conversion of this gel electrophoresis-based DNA fingerprinting technique into a DNA microarray hybridization technique (DNA Microarray MS-AFLP). By performing a total of 30 (15 x 2 reciprocal labeling) DNA Microarray MS-AFLP hybridization experiments on genomic DNA from two breast and three prostate cancer cell lines in all pairwise combinations, and Southern hybridization experiments using more than 100 different probes, we have demonstrated that the DNA Microarray MS-AFLP is a reliable method for genetic and epigenetic analyses. No statistically significant differences were observed in the number of differences between the breast-prostate hybridization experiments and the breast-breast or prostate-prostate comparisons.

GEOMETRICAL PARAMETERS OF EGGS IN BIRD SYSTEMATICS

Directory of Open Access Journals (Sweden)

I. S. Mityay

2014-12-01

Full Text Available Our ideas are based on the following assumptions. Egg as a standalone system is formed within another system, which is the body of the female. Both systems are implemented on the basis of a common genetic code. In this regard, for example, the dendrogram constructed by morphological criteria eggs should be approximately equal to those constructed by other molecular or morphological criteria adult birds. It should be noted that the dendrogram show only the degree of genetic similarity of taxa, therefore, the identity of materials depends on the number of analyzed criteria and their quality, ie, they should be the backbone. The greater the number of system-features will be included in the analysis and in one other case, the like are dendrogram. In other cases, we will have a fragmentary similarity, which is also very important when dealing with controversial issues. The main message of our research was to figure out the eligibility of usage the morphological characteristics of eggs as additional information in taxonomy and phylogeny of birds. Our studies show that the shape parameters of bird eggs show a stable attachment to certain types of birds and complex traits are species-specific. Dendrogram and diagrams built by the quantitative value of these signs, exhibit significant similarity with the dendrogram constructed by morphological, comparative anatomy, paleontology and molecular criteria for adult birds. This suggests the possibility of using morphological parameters eggs as additional information in dealing with taxonomy and phylogeny of birds. Keywords: oology, geometrical parameters of eggs, bird systematics

Birds Kept as Pets

Science.gov (United States)

... your pet’s health Visit a veterinarian who has experience with pet birds for routine check-ups to keep your bird healthy and prevent infectious diseases. If your bird becomes sick or dies within a month after purchase or adoption: Contact your veterinarian. Inform the pet ...

Comparing aerodynamic efficiency in birds and bats suggests better flight performance in birds.

Directory of Open Access Journals (Sweden)

Florian T Muijres

Full Text Available Flight is one of the energetically most costly activities in the animal kingdom, suggesting that natural selection should work to optimize flight performance. The similar size and flight speed of birds and bats may therefore suggest convergent aerodynamic performance; alternatively, flight performance could be restricted by phylogenetic constraints. We test which of these scenarios fit to two measures of aerodynamic flight efficiency in two passerine bird species and two New World leaf-nosed bat species. Using time-resolved particle image velocimetry measurements of the wake of the animals flying in a wind tunnel, we derived the span efficiency, a metric for the efficiency of generating lift, and the lift-to-drag ratio, a metric for mechanical energetic flight efficiency. We show that the birds significantly outperform the bats in both metrics, which we ascribe to variation in aerodynamic function of body and wing upstroke: Bird bodies generated relatively more lift than bat bodies, resulting in a more uniform spanwise lift distribution and higher span efficiency. A likely explanation would be that the bat ears and nose leaf, associated with echolocation, disturb the flow over the body. During the upstroke, the birds retract their wings to make them aerodynamically inactive, while the membranous bat wings generate thrust and negative lift. Despite the differences in performance, the wake morphology of both birds and bats resemble the optimal wake for their respective lift-to-drag ratio regimes. This suggests that evolution has optimized performance relative to the respective conditions of birds and bats, but that maximum performance is possibly limited by phylogenetic constraints. Although ecological differences between birds and bats are subjected to many conspiring variables, the different aerodynamic flight efficiency for the bird and bat species studied here may help explain why birds typically fly faster, migrate more frequently and migrate

Comparing aerodynamic efficiency in birds and bats suggests better flight performance in birds.

Science.gov (United States)

Muijres, Florian T; Johansson, L Christoffer; Bowlin, Melissa S; Winter, York; Hedenström, Anders

2012-01-01

Flight is one of the energetically most costly activities in the animal kingdom, suggesting that natural selection should work to optimize flight performance. The similar size and flight speed of birds and bats may therefore suggest convergent aerodynamic performance; alternatively, flight performance could be restricted by phylogenetic constraints. We test which of these scenarios fit to two measures of aerodynamic flight efficiency in two passerine bird species and two New World leaf-nosed bat species. Using time-resolved particle image velocimetry measurements of the wake of the animals flying in a wind tunnel, we derived the span efficiency, a metric for the efficiency of generating lift, and the lift-to-drag ratio, a metric for mechanical energetic flight efficiency. We show that the birds significantly outperform the bats in both metrics, which we ascribe to variation in aerodynamic function of body and wing upstroke: Bird bodies generated relatively more lift than bat bodies, resulting in a more uniform spanwise lift distribution and higher span efficiency. A likely explanation would be that the bat ears and nose leaf, associated with echolocation, disturb the flow over the body. During the upstroke, the birds retract their wings to make them aerodynamically inactive, while the membranous bat wings generate thrust and negative lift. Despite the differences in performance, the wake morphology of both birds and bats resemble the optimal wake for their respective lift-to-drag ratio regimes. This suggests that evolution has optimized performance relative to the respective conditions of birds and bats, but that maximum performance is possibly limited by phylogenetic constraints. Although ecological differences between birds and bats are subjected to many conspiring variables, the different aerodynamic flight efficiency for the bird and bat species studied here may help explain why birds typically fly faster, migrate more frequently and migrate longer distances

Hypochlorous acid turn-on boron dipyrromethene probe based on oxidation of methyl phenyl sulfide

International Nuclear Information System (INIS)

Liu, Shi-Rong; Vedamalai, Mani; Wu, Shu-Pao

2013-01-01

Graphical abstract: -- Highlights: •A BODIPY-based green fluorescent probe for sensing HOCl was developed. •The probe utilizes HOCl-promoted oxidation of methyl phenyl sulfide to produce a proportional fluorescence response to the concentration of HOCl. •Confocal fluorescence microscopy imaging of RAW264.7 cells demonstrated that the HCS probe might have application in the investigation of HOCl roles in biological systems. -- Abstract: A boron dipyrromethene (BODIPY)-based fluorometric probe, HCS, has been successfully developed for the highly sensitive and selective detection of hypochlorous acid (HOCl). The probe is based on the specific HOCl-promoted oxidation of methyl phenyl sulfide. The reaction is accompanied by a 160-fold increase in the fluorescent quantum yield (from 0.003 to 0.480). The fluorescent turn-on mechanism is accomplished by suppression of photoinduced electron transfer (PET) from the methyl phenyl sulfide group to BODIPY. The fluorescence intensity of the reaction between HOCl and HCS shows a good linearity in the HOCl concentration range 1–10 μM. The detection limit is 23.7 nM (S/N = 3). In addition, confocal fluorescence microscopy imaging using RAW264.7 macrophages demonstrates that the HCS probe could be an efficient fluorescent detector for HOCl in living cells

Hypochlorous acid turn-on boron dipyrromethene probe based on oxidation of methyl phenyl sulfide

Energy Technology Data Exchange (ETDEWEB)

Liu, Shi-Rong; Vedamalai, Mani; Wu, Shu-Pao, E-mail: spwu@mail.nctu.edu.tw

2013-10-24

Graphical abstract: -- Highlights: •A BODIPY-based green fluorescent probe for sensing HOCl was developed. •The probe utilizes HOCl-promoted oxidation of methyl phenyl sulfide to produce a proportional fluorescence response to the concentration of HOCl. •Confocal fluorescence microscopy imaging of RAW264.7 cells demonstrated that the HCS probe might have application in the investigation of HOCl roles in biological systems. -- Abstract: A boron dipyrromethene (BODIPY)-based fluorometric probe, HCS, has been successfully developed for the highly sensitive and selective detection of hypochlorous acid (HOCl). The probe is based on the specific HOCl-promoted oxidation of methyl phenyl sulfide. The reaction is accompanied by a 160-fold increase in the fluorescent quantum yield (from 0.003 to 0.480). The fluorescent turn-on mechanism is accomplished by suppression of photoinduced electron transfer (PET) from the methyl phenyl sulfide group to BODIPY. The fluorescence intensity of the reaction between HOCl and HCS shows a good linearity in the HOCl concentration range 1–10 μM. The detection limit is 23.7 nM (S/N = 3). In addition, confocal fluorescence microscopy imaging using RAW264.7 macrophages demonstrates that the HCS probe could be an efficient fluorescent detector for HOCl in living cells.

77 FR 17496 - Fisheries and Habitat Conservation and Migratory Birds Programs; Final Land-Based Wind Energy...

Science.gov (United States)

2012-03-26

...] RIN 1018-AX45 Fisheries and Habitat Conservation and Migratory Birds Programs; Final Land-Based Wind...) established the Wind Turbine Guidelines Advisory Committee (Committee) under the Federal Advisory Committee... concern over certain issues such as the effects of wind turbine noise on wildlife, these issues have not...

Non-standard base pairing and stacked structures in methyl xanthine clusters

Czech Academy of Sciences Publication Activity Database

Callahan, M. P.; Gengeliczki, Z.; Svadlenak, N.; Valdes, Haydee; Hobza, Pavel; de Vries, M. S.

2008-01-01

Roč. 10, č. 19 (2008), s. 2819-2826 ISSN 1463-9076 R&D Projects: GA MŠk LC512 Grant - others:NSF(US) CHE-0615401 Institutional research plan: CEZ:AV0Z40550506 Keywords : non-standard base pairing * stacked structures * in methyl xanthine Subject RIV: CF - Physical ; Theoretical Chemistry Impact factor: 4.064, year: 2008

Sensitivity of Coastal Environments and Wildlife to Spilled Oil: Upper Coast of Texas: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for diving birds, gulls, terns, passerine birds, pelagic birds, raptors, shorebirds, wading birds,...

Sensitivity of Coastal Environments and Wildlife to Spilled Oil: Northern California: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for alcids, diving birds, gulls, terns, passerines, pelagic birds, raptors, shorebirds, wading birds, and...

Tick-borne pathogens in ticks collected from birds in Taiwan

Directory of Open Access Journals (Sweden)

Chi-Chien Kuo

2017-11-01

Full Text Available Abstract Background A variety of human diseases transmitted by arthropod vectors, including ticks, are emerging around the globe. Birds are known to be hosts of ticks and can disperse exotic ticks and tick-borne pathogens. In Taiwan, previous studies have focused predominantly on mammals, leaving the role of birds in the maintenance of ticks and dissemination of tick-borne pathogens undetermined. Methods Ticks were collected opportunistically when birds were studied from 1995 to 2013. Furthermore, to improve knowledge on the prevalence and mean load of tick infestation on birds in Taiwan, ticks were thoroughly searched for when birds were mist-netted at seven sites between September 2014 and April 2016 in eastern Taiwan. Ticks were identified based on both morphological and molecular information and were screened for potential tick-borne pathogens, including the genera Anaplasma, Babesia, Borrelia, Ehrlichia and Rickettsia. Finally, a list of hard tick species collected from birds in Taiwan was compiled based on past work and the current study. Results Nineteen ticks (all larvae were recovered from four of the 3096 unique mist-netted bird individuals, yielding a mean load of 0.006 ticks/individual and an overall prevalence of 0.13%. A total of 139 ticks from birds, comprising 48 larvae, 35 nymphs, 55 adults and one individual of unknown life stage, were collected from 1995 to 2016, and 11 species of four genera were identified, including three newly recorded species (Haemaphysalis wellingtoni, Ixodes columnae and Ixodes turdus. A total of eight tick-borne pathogens were detected, with five species (Borrelia turdi, Anaplasma sp. clone BJ01, Ehrlichia sp. BL157-9, Rickettsia helvetica and Rickettsia monacensis not previously isolated in Taiwan. Overall, 16 tick species of five genera have been recorded feeding on birds, including nine species first discovered in this study. Conclusion Our study demonstrates the paucity of information on ticks of

Bird guard

Science.gov (United States)

Fairchild, Dana M [Armour, SD

2010-03-02

The bird guard provides a device to protect electrical insulators comprising a central shaft; a clamp attached to an end of the shaft to secure the device to a transmission tower; a top and bottom cover to shield transmission tower insulators; and bearings to allow the guard to rotate in order to frighten birds away from the insulators.

Kinetics and mechanism of carbon-8 methylation of purine bases and nucleosides by methyl radical

International Nuclear Information System (INIS)

Zady, M.F.; Wong, J.L.

1977-01-01

The kinetics of homolytic methylation of the model purine compound caffeine at carbon-8 were determined as a function of several reaction variables. The methyl radical was generated from tert-butyl peracetate (BPA) either thermally (65 to 95 0 C) or photochemically (greater than 300 nm, 25 0 C). The thermal reaction k (25 0 C) was found to be 3.09 x 10 -8 s -1 from the linear log k (pseudo-first-order) vs. l/T plot. The light reactions using the 450- and 1200-W mercury lamps proceeded with k (25 0 C) 450- and 2160-fold greater, respectively. The derived activation energies are consistent with an S/sub E/Ar reaction. Increasing the concentration of caffeine from 0.25 M to 1.67 M in the presence of 3 molar equiv of BPA did not cause any side reaction. The pH-rate profile can be predicted by rate equations, which are derived on the basis of an electrophilic substitution occurring on the free base and conjugate acid of a heteroaromatic system. A competition study using tetrahydrofuran reveals the presence of a radical sigma complex IIIa and a charge transfer complex IIIb as intermediates for methylation under neutral and acidic conditions, respectively. Their rate-determining nature was indicated by the small positive kinetic isotope effect and the inverse solvent isotope effects: k/sub H 3 O + //k/sub D 3 O + / = 0.87 and k/sub H 2 O//k/sub D 2 O/ = 0.32. Thus, in acidic medium, a preequilibrium proton transfer to form the caffeine conjugate acid precedes the rate-controlling formation of IIIb. In neutral solution, the rate-determining step appears to be the protonation of the radical nitrogen in IIIa converting it to III. The acid-catalyzed caffeine-BPA reaction was shown to be general for other purines such as adenine, adenosine, guanine, guanosine, hypoxanthine, and inosine

Preliminary individualized chemotherapy for malignant astrocytomas based on O6-methylguanine-deoxyribonucleic acid methyltransferase methylation analysis.

Science.gov (United States)

Watanabe, Takao; Katayama, Yoichi; Ogino, Akiyoshi; Ohta, Takashi; Yoshino, Atsuo; Fukushima, Takao

2006-08-01

O(6)-methylguanine-deoxyribonucleic acid methyltransferase gene (MGMT) methylation is apparently correlated with responsiveness to nitrosourea chemotherapy, suggesting this alkylating agent should be effective against MGMT-methylated tumors. MGMT appears not to be linked to platinum resistance, so platinum chemotherapy should be used for MGMT-unmethylated tumors. This study was a preliminary trial of individualized chemotherapy based on MGMT methylation status in a total of 20 patients with newly diagnosed malignant astrocytomas (9 anaplastic astrocytomas and 11 glioblastomas multiforme). The procarbazine, 1-(4-amino-2-methyl-5-pyrimidinyl)methyl-3-2(2-chloroethyl)-3-nitrosourea, and vincristine (PAV) regimen was administered to seven patients with MGMT-methylated tumors, and the carboplatin and etoposide (CE) regimen was administered to 13 patients with MGMT-unmethylated tumors. Objective response to the PAV therapy was noted in all three patients with measurable residual tumor (2 complete responses and 1 partial response). Five of the seven patients continued to be disease-free after initiation of the PAV therapy. Objective response to the CE therapy was seen in only one of seven patients with measurable residual tumor (1 partial response). Three of the 13 patients were free from progression, whereas the remaining 10 patients showed early progression. The PAV regimen is effective against MGMT-methylated malignant astrocytomas, but the CE regimen is not useful at the given dose and schedule in MGMT-unmethylated tumors.

Data Mining Approaches for Habitats and Stopovers Discovery of Migratory Birds

Directory of Open Access Journals (Sweden)

Qiang Xu

2013-03-01

Full Text Available This paper focuses on using data mining technology to efficiently and accurately discover habitats and stopovers of migratory birds. The three methods we used are as follows: 1. a density-based clustering method, detecting stopovers of birds during their migration through density-based clustering of location points; 2. A location histories parser method, detecting areas that have been overstayed by migratory birds during a set time period by setting time and distance thresholds; and 3. A time-parameterized line segment clustering method, clustering directed line segments to analyze shared segments of migratory pathways of different migratory birds and discover the habitats and stopovers of these birds. Finally, we analyzed the migration data of the bar-headed goose in the Qinghai Lake Area through the three above methods and verified the effectiveness of the three methods and, by comparison, identified the scope and context of the use of these three methods respectively.

Techno-economic and carbon footprint assessment of methyl crotonate and methyl acrylate production from wastewater-based polyhydroxybutyrate (PHB)

NARCIS (Netherlands)

Fernandez Dacosta, C.; Posada, John A.; Ramirez, C.A.

2016-01-01

This paper assesses whether a cleaner and more sustainable production of the chemical building blocks methyl crotonate (MC) and methyl acrylate (MA) can be obtained in an innovative process in which resource consumption, waste generation and environmental impacts are minimized by using

Evidence for non-CpG methylation in mammals

DEFF Research Database (Denmark)

Yan, Jie; Zierath, Juleen R; Barres, Romain

2011-01-01

In mammals, the existence of cytosine methylation on non-CpG sequences is controversial. Here, we adapted a LuminoMetric-based Assay (LUMA) to determine global non-CpG methylation levels in rodent and human tissues. We observed that......In mammals, the existence of cytosine methylation on non-CpG sequences is controversial. Here, we adapted a LuminoMetric-based Assay (LUMA) to determine global non-CpG methylation levels in rodent and human tissues. We observed that...

76 FR 11506 - Fisheries and Habitat Conservation and Migratory Birds Programs; Draft Land-Based Wind Energy...

Science.gov (United States)

2011-03-02

...] RIN 1018-AX45 Fisheries and Habitat Conservation and Migratory Birds Programs; Draft Land-Based Wind... Impacts from Wind Turbines (Interim Guidance). As stated in the notice, the comment period on the draft... Minimizing Wildlife Impacts from Wind Turbines. We expect to issue final Guidelines for public use after...

76 FR 59298 - Migratory Bird Hunting; Migratory Bird Hunting Regulations on Certain Federal Indian Reservations...

Science.gov (United States)

2011-09-26

... such birds or any part, nest, or egg thereof may be taken, hunted, captured, killed, possessed, sold...-0014; 91200-1231-9BPP-L2] RIN 1018-AX34 Migratory Bird Hunting; Migratory Bird Hunting Regulations on... Service, Interior. ACTION: Final rule. SUMMARY: This rule prescribes special late-season migratory bird...

Hawaii ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for endangered waterbirds and passerine birds, migratory shorebirds and waterfowl, gulls and terns,...

QNB: differential RNA methylation analysis for count-based small-sample sequencing data with a quad-negative binomial model.

Science.gov (United States)

Liu, Lian; Zhang, Shao-Wu; Huang, Yufei; Meng, Jia

2017-08-31

As a newly emerged research area, RNA epigenetics has drawn increasing attention recently for the participation of RNA methylation and other modifications in a number of crucial biological processes. Thanks to high throughput sequencing techniques, such as, MeRIP-Seq, transcriptome-wide RNA methylation profile is now available in the form of count-based data, with which it is often of interests to study the dynamics at epitranscriptomic layer. However, the sample size of RNA methylation experiment is usually very small due to its costs; and additionally, there usually exist a large number of genes whose methylation level cannot be accurately estimated due to their low expression level, making differential RNA methylation analysis a difficult task. We present QNB, a statistical approach for differential RNA methylation analysis with count-based small-sample sequencing data. Compared with previous approaches such as DRME model based on a statistical test covering the IP samples only with 2 negative binomial distributions, QNB is based on 4 independent negative binomial distributions with their variances and means linked by local regressions, and in the way, the input control samples are also properly taken care of. In addition, different from DRME approach, which relies only the input control sample only for estimating the background, QNB uses a more robust estimator for gene expression by combining information from both input and IP samples, which could largely improve the testing performance for very lowly expressed genes. QNB showed improved performance on both simulated and real MeRIP-Seq datasets when compared with competing algorithms. And the QNB model is also applicable to other datasets related RNA modifications, including but not limited to RNA bisulfite sequencing, m 1 A-Seq, Par-CLIP, RIP-Seq, etc.

78 FR 65578 - Migratory Bird Permits; Depredation Order for Migratory Birds in California

Science.gov (United States)

2013-11-01

...-0037; FF09M21200-134-FXMB1231099BPP0] RIN 1018-AY65 Migratory Bird Permits; Depredation Order for Migratory Birds in California AGENCY: Fish and Wildlife Service, Interior. ACTION: Final rule. SUMMARY: We revise the regulations that allow control of depredating birds in California. We specify the counties in...

Total- and methyl-mercury concentrations and methylation rates across the freshwater to hypersaline continuum of the Great Salt Lake, Utah, USA

Science.gov (United States)

Johnson, William P.; Swanson, Neil; Black, Brooks; Rudd, Abigail; Carling, Gregory; Fernandez, Diego P.; Luft, John; Van Leeuwen, Jim; Marvin-DiPasquale, Mark C.

2015-01-01

We examined mercury (Hg) speciation in water and sediment of the Great Salt Lake and surrounding wetlands, a locale spanning fresh to hypersaline and oxic to anoxic conditions, in order to test the hypothesis that spatial and temporal variations in Hg concentration and methylation rates correspond to observed spatial and temporal trends in Hg burdens previously reported in biota. Water column, sediment, and pore water concentrations of methylmercury (MeHg) and total mercury (THg), as well as related aquatic chemical parameters were examined. Inorganic Hg(II)-methylation rates were determined in selected water column and sediment subsamples spiked with inorganic divalent mercury (204Hg(II)). Net production of Me204Hg was expressed as apparent first-order rate constants for methylation (kmeth), which were also expanded to MeHg production potential (MPP) rates via combination with tin reducible ‘reactive’ Hg(II) (Hg(II)R) as a proxy for bioavailable Hg(II). Notable findings include: 1) elevated Hg concentrations previously reported in birds and brine flies were spatially proximal to the measured highest MeHg concentrations, the latter occurring in the anoxic deep brine layer (DBL) of the Great Salt Lake; 2) timing of reduced Hg(II)-methylation rates in the DBL (according to both kmeth and MPP) coincides with reduced Hg burdens among aquatic invertebrates (brine shrimp and brine flies) that act as potential vectors of Hg propagation to the terrestrial ecosystem; 3) values ofkmeth were found to fall within the range reported by other studies; and 4) MPP rates were on the lower end of the range reported in methodologically comparable studies, suggesting the possibility that elevated MeHg in the anoxic deep brine layer results from its accumulation and persistence in this quasi-isolated environment, due to the absence of light (restricting abiotic photo demethylation) and/or minimal microbiological demethylation.

CpG island methylator phenotype-low (CIMP-low) colorectal cancer shows not only few methylated CIMP-high-specific CpG islands, but also low-level methylation at individual loci.

Science.gov (United States)

Kawasaki, Takako; Ohnishi, Mutsuko; Nosho, Katsuhiko; Suemoto, Yuko; Kirkner, Gregory J; Meyerhardt, Jeffrey A; Fuchs, Charles S; Ogino, Shuji

2008-03-01

The CpG island methylator phenotype (CIMP or CIMP-high) with widespread promoter methylation is a distinct phenotype in colorectal cancer. However, the concept of CIMP-low with less extensive CpG island methylation is still evolving. Our aim is to examine whether density of methylation in individual CpG islands was different between CIMP-low and CIMP-high tumors. Utilizing MethyLight technology and 889 population-based colorectal cancers, we quantified DNA methylation (methylation index, percentage of methylated reference) at 14 CpG islands, including 8 CIMP-high-specific loci (CACNA1G, CDKN2A (p16), CRABP1, IGF2, MLH1, NEUROG1, RUNX3 and SOCS1). Methylation positivity in each locus was defined as methylation index>4. Low-level methylation (methylation index>0, CIMP-high-specific locus was significantly more common in 340 CIMP-low tumors (1/8-5/8 methylation-positive loci) than 133 CIMP-high tumors (> or =6/8 methylation-positive loci) and 416 CIMP-0 tumors (0/8 methylation-positive loci) (PCIMP-high, low-level methylation, was not persistently more prevalent in CIMP-low tumors. In conclusion, compared to CIMP-high and CIMP-0 tumors, CIMP-low colorectal cancers show not only few methylated CIMP-high-specific CpG islands, but also more frequent low-level methylation at individual loci. Our data may provide supporting evidence for a difference in pathogenesis of DNA methylation between CIMP-low and CIMP-high tumors.

GEOMETRICAL PARAMETERS OF EGGS IN BIRD SYSTEMATICS

Directory of Open Access Journals (Sweden)

Mityay I.S.

2014-12-01

Full Text Available Our ideas are based on the following assumptions. Egg as a standalone system is formed within another system, which is the body of the female. Both systems are implemented on the basis of a common genetic code. In this regard, for example, the dendrogram constructed by morphological criteria eggs should be approximately equal to those constructed by other molecular or morphological criteria adult birds. It should be noted that the dendrogram show only the degree of genetic similarity of taxa, therefore, the identity of materials depends on the number of analyzed criteria and their quality, ie, they should be the backbone. The greater the number of system-features will be included in the analysis and in one other case, the like are dendrogram. In other cases, we will have a fragmentary similarity, which is also very important when dealing with controversial issues. The main message of our research was to figure out the eligibility of usage the morphological characteristics of eggs as additional information in taxonomy and phylogeny of birds. Our studies show that the shape parameters of bird eggs show a stable attachment to certain types of birds and complex traits are species-specific. Dendrogram and diagrams built by the quantitative value of these signs, exhibit significant similarity with the dendrogram constructed by morphological, comparative anatomy, paleontology and molecular criteria for adult birds. This suggests the possibility of using morphological parameters eggs as additional information in dealing with taxonomy and phylogeny of birds.

CMS: a web-based system for visualization and analysis of genome-wide methylation data of human cancers.

Science.gov (United States)

Gu, Fei; Doderer, Mark S; Huang, Yi-Wen; Roa, Juan C; Goodfellow, Paul J; Kizer, E Lynette; Huang, Tim H M; Chen, Yidong

2013-01-01

DNA methylation of promoter CpG islands is associated with gene suppression, and its unique genome-wide profiles have been linked to tumor progression. Coupled with high-throughput sequencing technologies, it can now efficiently determine genome-wide methylation profiles in cancer cells. Also, experimental and computational technologies make it possible to find the functional relationship between cancer-specific methylation patterns and their clinicopathological parameters. Cancer methylome system (CMS) is a web-based database application designed for the visualization, comparison and statistical analysis of human cancer-specific DNA methylation. Methylation intensities were obtained from MBDCap-sequencing, pre-processed and stored in the database. 191 patient samples (169 tumor and 22 normal specimen) and 41 breast cancer cell-lines are deposited in the database, comprising about 6.6 billion uniquely mapped sequence reads. This provides comprehensive and genome-wide epigenetic portraits of human breast cancer and endometrial cancer to date. Two views are proposed for users to better understand methylation structure at the genomic level or systemic methylation alteration at the gene level. In addition, a variety of annotation tracks are provided to cover genomic information. CMS includes important analytic functions for interpretation of methylation data, such as the detection of differentially methylated regions, statistical calculation of global methylation intensities, multiple gene sets of biologically significant categories, interactivity with UCSC via custom-track data. We also present examples of discoveries utilizing the framework. CMS provides visualization and analytic functions for cancer methylome datasets. A comprehensive collection of datasets, a variety of embedded analytic functions and extensive applications with biological and translational significance make this system powerful and unique in cancer methylation research. CMS is freely accessible

Variation in clutch size in relation to nest size in birds.

Science.gov (United States)

Møller, Anders P; Adriaensen, Frank; Artemyev, Alexandr; Bańbura, Jerzy; Barba, Emilio; Biard, Clotilde; Blondel, Jacques; Bouslama, Zihad; Bouvier, Jean-Charles; Camprodon, Jordi; Cecere, Francesco; Charmantier, Anne; Charter, Motti; Cichoń, Mariusz; Cusimano, Camillo; Czeszczewik, Dorota; Demeyrier, Virginie; Doligez, Blandine; Doutrelant, Claire; Dubiec, Anna; Eens, Marcel; Eeva, Tapio; Faivre, Bruno; Ferns, Peter N; Forsman, Jukka T; García-Del-Rey, Eduardo; Goldshtein, Aya; Goodenough, Anne E; Gosler, Andrew G; Góźdź, Iga; Grégoire, Arnaud; Gustafsson, Lars; Hartley, Ian R; Heeb, Philipp; Hinsley, Shelley A; Isenmann, Paul; Jacob, Staffan; Järvinen, Antero; Juškaitis, Rimvydas; Korpimäki, Erkki; Krams, Indrikis; Laaksonen, Toni; Leclercq, Bernard; Lehikoinen, Esa; Loukola, Olli; Lundberg, Arne; Mainwaring, Mark C; Mänd, Raivo; Massa, Bruno; Mazgajski, Tomasz D; Merino, Santiago; Mitrus, Cezary; Mönkkönen, Mikko; Morales-Fernaz, Judith; Morin, Xavier; Nager, Ruedi G; Nilsson, Jan-Åke; Nilsson, Sven G; Norte, Ana C; Orell, Markku; Perret, Philippe; Pimentel, Carla S; Pinxten, Rianne; Priedniece, Ilze; Quidoz, Marie-Claude; Remeš, Vladimir; Richner, Heinz; Robles, Hugo; Rytkönen, Seppo; Senar, Juan Carlos; Seppänen, Janne T; da Silva, Luís P; Slagsvold, Tore; Solonen, Tapio; Sorace, Alberto; Stenning, Martyn J; Török, János; Tryjanowski, Piotr; van Noordwijk, Arie J; von Numers, Mikael; Walankiewicz, Wiesław; Lambrechts, Marcel M

2014-09-01

Nests are structures built to support and protect eggs and/or offspring from predators, parasites, and adverse weather conditions. Nests are mainly constructed prior to egg laying, meaning that parent birds must make decisions about nest site choice and nest building behavior before the start of egg-laying. Parent birds should be selected to choose nest sites and to build optimally sized nests, yet our current understanding of clutch size-nest size relationships is limited to small-scale studies performed over short time periods. Here, we quantified the relationship between clutch size and nest size, using an exhaustive database of 116 slope estimates based on 17,472 nests of 21 species of hole and non-hole-nesting birds. There was a significant, positive relationship between clutch size and the base area of the nest box or the nest, and this relationship did not differ significantly between open nesting and hole-nesting species. The slope of the relationship showed significant intraspecific and interspecific heterogeneity among four species of secondary hole-nesting species, but also among all 116 slope estimates. The estimated relationship between clutch size and nest box base area in study sites with more than a single size of nest box was not significantly different from the relationship using studies with only a single size of nest box. The slope of the relationship between clutch size and nest base area in different species of birds was significantly negatively related to minimum base area, and less so to maximum base area in a given study. These findings are consistent with the hypothesis that bird species have a general reaction norm reflecting the relationship between nest size and clutch size. Further, they suggest that scientists may influence the clutch size decisions of hole-nesting birds through the provisioning of nest boxes of varying sizes.

Synthesis and oxidation of CpIrIII compounds: functionalization of a Cp methyl group.

Science.gov (United States)

Park-Gehrke, Lisa S; Freudenthal, John; Kaminsky, Werner; Dipasquale, Antonio G; Mayer, James M

2009-03-21

[CpIrCl(2)](2) () and new CpIr(III)(L-L)X complexes (L-L = N-O or C-N chelating ligands; X = Cl, I, Me) have been prepared and their reactivity with two-electron chemical oxidants explored. Reaction of with PhI(OAc)(2) in wet solvents yields a new chloro-bridged dimer in which each of the Cp ligands has been singly acetoxylated to form [Cp(OAc)Ir(III)Cl(2)](2) () (Cp(OAc) = eta(5)-C(5)Me(4)CH(2)OAc). Complex and related carboxy- and alkoxy-functionalized Cp(OR) complexes can also be prepared from plus (PhIO)(n) and ROH. [Cp(OAc)Ir(III)Cl(2)](2) () and the methoxy analogue [Cp(OMe)Ir(III)Cl(2)](2) () have been structurally characterized. Treatment of [CpIrCl(2)](2) () with 2-phenylpyridine yields CpIr(III)(ppy)Cl () (ppy = cyclometallated 2-phenylpyridyl) which is readily converted to its iodide and methyl analogues CpIr(III)(ppy)I and CpIr(III)(ppy)Me (). CpIr(III) complexes were also prepared with N-O chelating ligands derived from anthranilic acid (2-aminobenzoic acid) and alpha-aminoisobutyric acid (H(2)NCMe(2)COOH), ligands chosen to be relatively oxidation resistant. These complexes and were reacted with potential two-electron oxidants including PhI(OAc)(2), hexachlorocyclohexadienone (C(6)Cl(6)O), N-fluoro-2,4,6-trimethylpyridinium (Me(3)pyF(+)), [Me(3)O]BF(4) and MeOTf (OTf = triflate, CF(3)SO(3)). Iridium(V) complexes were not observed or implicated in these reactions, despite the similarity of the potential products to known CpIr(V) species. The carbon electrophiles [Me(3)O]BF(4) and MeOTf appear to react preferentially at the N-O ligands, to give methyl esters in some cases. Overall, the results indicate that Cp is not inert under oxidizing conditions and is therefore not a good supporting ligand for oxidizing organometallic complexes.

Audubon Bird Study Program.

Science.gov (United States)

National Audubon Society, New York, NY.

Included are a student reader, "The Story of Birds," a leaders' guide, a large colored Audubon bird chart, and a separate guide for the chart. The student reader is divided into eleven sections which relate to the various physical and behavioral features of birds such as feathers, feeding habits as related to the shape of bills and feet, nests,…

Physical cognition: birds learn the structural efficacy of nest material.

Science.gov (United States)

Bailey, Ida E; Morgan, Kate V; Bertin, Marion; Meddle, Simone L; Healy, Susan D

2014-06-07

It is generally assumed that birds' choice of structurally suitable materials for nest building is genetically predetermined. Here, we tested that assumption by investigating whether experience affected male zebra finches' (Taeniopygia guttata) choice of nest material. After a short period of building with relatively flexible string, birds preferred to build with stiffer string while those that had experienced a stiffer string were indifferent to string type. After building a complete nest with either string type, however, all birds increased their preference for stiff string. The stiffer string appeared to be the more effective building material as birds required fewer pieces of stiffer than flexible string to build a roofed nest. For birds that raised chicks successfully, there was no association between the material they used to build their nest and the type they subsequently preferred. Birds' material preference reflected neither the preference of their father nor of their siblings but juvenile experience of either string type increased their preference for stiffer string. Our results represent two important advances: (i) birds choose nest material based on the structural properties of the material; (ii) nest material preference is not entirely genetically predetermined as both the type and amount of experience influences birds' choices.

Usability of human Infinium MethylationEPIC BeadChip for mouse DNA methylation studies.

Science.gov (United States)

Needhamsen, Maria; Ewing, Ewoud; Lund, Harald; Gomez-Cabrero, David; Harris, Robert Adam; Kular, Lara; Jagodic, Maja

2017-11-15

The advent of array-based genome-wide DNA methylation methods has enabled quantitative measurement of single CpG methylation status at relatively low cost and sample input. Whereas the use of Infinium Human Methylation BeadChips has shown great utility in clinical studies, no equivalent tool is available for rodent animal samples. We examined the feasibility of using the new Infinium MethylationEPIC BeadChip for studying DNA methylation in mouse. In silico, we identified 19,420 EPIC probes (referred as mEPIC probes), which align with a unique best alignment score to the bisulfite converted reference mouse genome mm10. Further annotation revealed that 85% of mEPIC probes overlapped with mm10.refSeq genes at different genomic features including promoters (TSS1500 and TSS200), 1st exons, 5'UTRs, 3'UTRs, CpG islands, shores, shelves, open seas and FANTOM5 enhancers. Hybridization of mouse samples to Infinium Human MethylationEPIC BeadChips showed successful measurement of mEPIC probes and reproducibility between inter-array biological replicates. Finally, we demonstrated the utility of mEPIC probes for data exploration such as hierarchical clustering. Given the absence of cost and labor convenient genome-wide technologies in the murine system, our findings show that the Infinium MethylationEPIC BeadChip platform is suitable for investigation of the mouse methylome. Furthermore, we provide the "mEPICmanifest" with genomic features, available to users of Infinium Human MethylationEPIC arrays for mouse samples.

Odour-based discrimination of similarity at the major histocompatibility complex in birds.

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Leclaire, Sarah; Strandh, Maria; Mardon, Jérôme; Westerdahl, Helena; Bonadonna, Francesco

2017-01-11

Many animals are known to preferentially mate with partners that are dissimilar at the major histocompatibility complex (MHC) in order to maximize the antigen binding repertoire (or disease resistance) in their offspring. Although several mammals, fish or lizards use odour cues to assess MHC similarity with potential partners, the ability of birds to assess MHC similarity using olfactory cues has not yet been explored. Here we used a behavioural binary choice test and high-throughput-sequencing of MHC class IIB to determine whether blue petrels can discriminate MHC similarity based on odour cues alone. Blue petrels are seabirds with particularly good sense of smell, they have a reciprocal mate choice and are known to preferentially mate with MHC-dissimilar partners. Incubating males preferentially approached the odour of the more MHC-dissimilar female, whereas incubating females showed opposite preferences. Given their mating pattern, females were, however, expected to show preference for the odour of the more MHC-dissimilar male. Further studies are needed to determine whether, as in women and female mice, the preference varies with the reproductive cycle in blue petrel females. Our results provide the first evidence that birds can use odour cues only to assess MHC dissimilarity. © 2017 The Author(s).

Transgenerational epigenetics: Inheritance of global cytosine methylation and methylation-related epigenetic markers in the shrub Lavandula latifolia.

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Herrera, Carlos M; Alonso, Conchita; Medrano, Mónica; Pérez, Ricardo; Bazaga, Pilar

2018-04-01

The ecological and evolutionary significance of natural epigenetic variation (i.e., not based on DNA sequence variants) variation will depend critically on whether epigenetic states are transmitted from parents to offspring, but little is known on epigenetic inheritance in nonmodel plants. We present a quantitative analysis of transgenerational transmission of global DNA cytosine methylation (= proportion of all genomic cytosines that are methylated) and individual epigenetic markers (= methylation status of anonymous MSAP markers) in the shrub Lavandula latifolia. Methods based on parent-offspring correlations and parental variance component estimation were applied to epigenetic features of field-growing plants ('maternal parents') and greenhouse-grown progenies. Transmission of genetic markers (AFLP) was also assessed for reference. Maternal parents differed significantly in global DNA cytosine methylation (range = 21.7-36.7%). Greenhouse-grown maternal families differed significantly in global methylation, and their differences were significantly related to maternal origin. Methylation-sensitive amplified polymorphism (MSAP) markers exhibited significant transgenerational transmission, as denoted by significant maternal variance component of marker scores in greenhouse families and significant mother-offspring correlations of marker scores. Although transmission-related measurements for global methylation and MSAP markers were quantitatively lower than those for AFLP markers taken as reference, this study has revealed extensive transgenerational transmission of genome-wide global cytosine methylation and anonymous epigenetic markers in L. latifolia. Similarity of results for global cytosine methylation and epigenetic markers lends robustness to this conclusion, and stresses the value of considering both types of information in epigenetic studies of nonmodel plants. © 2018 Botanical Society of America.

Sensitivity of Coastal Environments and Wildlife to Spilled Oil: Northwest Arctic, Alaska: BIRDS (Bird Polygons)

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National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for wading birds, shorebirds, waterfowl, raptors, diving birds, pelagic birds, and gulls/terns in Northwest...

LMethyR-SVM: Predict Human Enhancers Using Low Methylated Regions based on Weighted Support Vector Machines.

Science.gov (United States)

Xu, Jingting; Hu, Hong; Dai, Yang

The identification of enhancers is a challenging task. Various types of epigenetic information including histone modification have been utilized in the construction of enhancer prediction models based on a diverse panel of machine learning schemes. However, DNA methylation profiles generated from the whole genome bisulfite sequencing (WGBS) have not been fully explored for their potential in enhancer prediction despite the fact that low methylated regions (LMRs) have been implied to be distal active regulatory regions. In this work, we propose a prediction framework, LMethyR-SVM, using LMRs identified from cell-type-specific WGBS DNA methylation profiles and a weighted support vector machine learning framework. In LMethyR-SVM, the set of cell-type-specific LMRs is further divided into three sets: reliable positive, like positive and likely negative, according to their resemblance to a small set of experimentally validated enhancers in the VISTA database based on an estimated non-parametric density distribution. Then, the prediction model is obtained by solving a weighted support vector machine. We demonstrate the performance of LMethyR-SVM by using the WGBS DNA methylation profiles derived from the human embryonic stem cell type (H1) and the fetal lung fibroblast cell type (IMR90). The predicted enhancers are highly conserved with a reasonable validation rate based on a set of commonly used positive markers including transcription factors, p300 binding and DNase-I hypersensitive sites. In addition, we show evidence that the large fraction of the LMethyR-SVM predicted enhancers are not predicted by ChromHMM in H1 cell type and they are more enriched for the FANTOM5 enhancers. Our work suggests that low methylated regions detected from the WGBS data are useful as complementary resources to histone modification marks in developing models for the prediction of cell-type-specific enhancers.

Detect to Avoid: Supporting Aviation Safety with Bird Movement Information

NARCIS (Netherlands)

Metz, I.C.; Muhlhausen, Thorsten; Ellerbroek, J.; Hoekstra, J.M.; Kügler, D.

2017-01-01

The presented research evaluates the concept of providing an airport’s Air Traffic Control with a bird strike advisory system. Such a system informs the controller about current and predicted bird movements in the arrival and departure corridors. Based on this information, the controller can decide

Granivorous birds and sorghum crop in the province of Villa Clara,Cuba

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Orlando Miguel Saucedo Castillo

2017-07-01

Full Text Available In order to reduce the damages granivorous birds cause to sorghum (Sorghum bicolor L. Moench in the province of Villa Clara, Cuba, research based on the determination of the major endemic, migratory birds and their relationship with the distribution were made space of historical meteorological variables in the province in the seasonal behavior of birds in different climatic regions. Population to sorghum producers grouped in different forms surveys were conducted, which yielded a large database, such as the determination of the main grain-eating birds percentage damage incurred, varieties, grain color, growth stage and other indicators. Nine main species affecting sorghum grain-eating birds in our province were recorded; Passer domesticus, Lonchura malacca, Lonchura punctulata, Dives atroviolaceus, Passerina cyanea, Zonotrichia leucophrys, Columbina passerine, Zenaida macroura y Zenaida asiatica. The spatial distribution of meteorological variables and their relation to the seasonal behavior of birds in different climatic regions of the province was determined, based on record four preferential habitat areas. The results allowed us to provide companies and different forms of production in Villa Clara, the possibility of a varietal structure planting of sorghum on the basis of different preferential areas granivorous birds, together with the morphological and physiological characteristics of different genotypes introduced in agricultural production of the province and nationally.

The impact of nature-based tourism on bird communities: a case study in Pallas-Yllästunturi National Park.

Science.gov (United States)

Huhta, Esa; Sulkava, Pekka

2014-05-01

Nature-based tourism and recreation within and close to protected areas may have negative environmental impacts on biodiversity due to urban development, landscape fragmentation, and increased disturbance. We conducted a 3-year study of disturbances of birds induced by nature-based tourism over a recreational gradient in the Pallas-Yllästunturi National Park and its surroundings in northern Finland. Bird assemblages were studied in highly disturbed areas close to the park (a ski resort, villages, and accommodation areas) and in campfire sites, along hiking routes (recreational areas) and in a forest (control area) within the park. Compared with the forest, the disturbed urbanized areas had higher abundances of human-associated species, corvid species, cavity and building nesters, and edge species. The abundances of managed forest species were higher in campfire sites than in the forest. Hiking trails and campfire sites did not have a negative impact on open-nesting bird species. The most likely reason for this outcome is that most campfire sites were situated at forest edges; this species group prefers managed forests and forest edge as a breeding habitat. The abundances of virgin forest species did not differ among the areas studied. The results of the study suggest that the current recreation pressure has not caused substantial changes in the forest bird communities within the National Park. We suggest that the abundances of urban exploiter species could be used as indicators to monitor the level and changes of urbanization and recreational pressure at tourist destinations.

The Impact of Nature-Based Tourism on Bird Communities: A Case Study in Pallas-Yllästunturi National Park

Science.gov (United States)

Huhta, Esa; Sulkava, Pekka

2014-05-01

Nature-based tourism and recreation within and close to protected areas may have negative environmental impacts on biodiversity due to urban development, landscape fragmentation, and increased disturbance. We conducted a 3-year study of disturbances of birds induced by nature-based tourism over a recreational gradient in the Pallas-Yllästunturi National Park and its surroundings in northern Finland. Bird assemblages were studied in highly disturbed areas close to the park (a ski resort, villages, and accommodation areas) and in campfire sites, along hiking routes (recreational areas) and in a forest (control area) within the park. Compared with the forest, the disturbed urbanized areas had higher abundances of human-associated species, corvid species, cavity and building nesters, and edge species. The abundances of managed forest species were higher in campfire sites than in the forest. Hiking trails and campfire sites did not have a negative impact on open-nesting bird species. The most likely reason for this outcome is that most campfire sites were situated at forest edges; this species group prefers managed forests and forest edge as a breeding habitat. The abundances of virgin forest species did not differ among the areas studied. The results of the study suggest that the current recreation pressure has not caused substantial changes in the forest bird communities within the National Park. We suggest that the abundances of urban exploiter species could be used as indicators to monitor the level and changes of urbanization and recreational pressure at tourist destinations.

Comparing the response of birds and butterflies to vegetation-based mountain ecotones using boundary detection approaches.

Science.gov (United States)

Kent, Rafi; Levanoni, Oded; Banker, Eran; Pe'er, Guy; Kark, Salit

2013-01-01

Mountains provide an opportunity to examine changes in biodiversity across environmental gradients and areas of transition (ecotones). Mountain ecotones separate vegetation belts. Here, we aimed to examine whether transition areas for birds and butterflies spatially correspond with ecotones between three previously described altitudinal vegetation belts on Mt. Hermon, northern Israel. These include the Mediterranean Maquis, xero-montane open forest and Tragacanthic mountain steppe vegetation belts. We sampled the abundance of bird and butterfly species in 34 sampling locations along an elevational gradient between 500 and 2200 m. We applied wombling, a boundary-detection technique, which detects rapid changes in a continuous variable, in order to locate the transition areas for bird and butterfly communities and compare the location of these areas with the location of vegetation belts as described in earlier studies of Mt. Hermon. We found some correspondence between the areas of transition of both bird and butterfly communities and the ecotones between vegetation belts. For birds and butterflies, important transitions occurred at the lower vegetation ecotone between Mediterranean maquis and the xero-montane open forest vegetation belts, and between the xero-montane open forest and the mountain steppe Tragacanthic belts. While patterns of species turnover with elevation were similar for birds and butterflies, the change in species richness and diversity with elevation differed substantially between the two taxa. Birds and butterflies responded quite similarly to the elevational gradient and to the shift between vegetation belts in terms of species turnover rates. While the mechanisms generating these patterns may differ, the resulting areas of peak turnover in species show correspondence among three different taxa (plants, birds and butterflies).

Regionalizing land use impacts on farmland birds.

Science.gov (United States)

Glemnitz, Michael; Zander, Peter; Stachow, Ulrich

2015-06-01

The environmental impacts of land use vary regionally. Differences in geomorphology, climate, landscape structure, and biotope inventories are regarded as the main causes of this variation. We present a methodological approach for identifying regional responses in land use type to large-scale changes and the implications for the provision of habitat for farmland birds. The methodological innovations of this approach are (i) the coupling of impact assessments with economic models, (ii) the linking of cropping techniques at the plot scale with the regional distribution of land use, and (iii) the integration of statistical or monitoring data on recent states. This approach allows for the regional differentiation of farmers' responses to changing external conditions and for matching the ecological impacts of land use changes with regional environmental sensitivities. An exemplary scenario analysis was applied for a case study of an area in Germany, assessing the impacts of increased irrigation and the promotion of energy cropping on farmland birds, evaluated as a core indicator for farmland biodiversity. The potential effects on farmland birds were analyzed based on the intrinsic habitat values of the crops and cropping techniques. The results revealed that the strongest decrease in habitat availability for farmland birds occurred in regions with medium-to-low agricultural yields. As a result of the limited cropping alternatives, the increase in maize production was highest in marginal regions for both examined scenarios. Maize production replaced many crops with good-to-medium habitat suitability for birds. The declines in habitat quality were strongest in regions that are not in focus for conservation efforts for farmland birds.

Epidemiologic characterization of Colorado backyard bird flocks.

Science.gov (United States)

Smith, Emily I; Reif, John S; Hill, Ashley E; Slota, Katharine E; Miller, Ryan S; Bjork, Kathe E; Pabilonia, Kristy L

2012-06-01

Backyard gallinaceous bird flocks may play an important role in the spread of infectious diseases within poultry populations as well as the transmission of zoonotic diseases to humans. An epidemiologic characterization was conducted of Colorado backyard flocks to gather information on general flock characteristics, human movement of birds, human-bird interaction, biosecurity practices, and flock health. Our results suggest that backyard poultry flocks in Colorado are small-sized flocks (68.6% of flocks had meat or egg) production for the family (86.44%) or as pet or hobby birds (42.27%). The backyard flock environment may promote bird-to-bird transmission as well as bird-to-human transmission of infectious disease. Birds are primarily housed with free access to the outside (96.85%), and many are moved from the home premises (46.06% within 1 yr). Human contact with backyard flocks is high, biosecurity practices are minimal, and bird health is negatively impacted by increased movement events. Increased knowledge of backyard bird characteristics and associated management practices can provide guidelines for the development of measures to decrease disease transmission between bird populations, decrease disease transmission from birds to humans, and increase the overall health of backyard birds.

Detailed description of the Ócsa Bird Ringing Station, Hungary

Directory of Open Access Journals (Sweden)

Csörgő Tibor

2016-12-01

Full Text Available The present paper acts as an introduction to a series that will describe the exploratory analyses of migration phenology and morphometrics of the most common passerine species at the Ócsa Bird Ringing Station. This station is situated in the Ócsa Landscape Protection Area that belongs to the Duna–Ipoly National Park, Hungary. The area is somewhat cooler and more humid than the surrounding agricultural fields and tree plantations, covered by a mosaic of diverse hygrophilous vegetation patches. Bird trapping is mostly based on Japanese mist-net lines crossing different plant communities. During the period of 1984–2015, a total of 422,862 birds were trapped and ringed here, while 202,739 local, 1,235 within country, and 443 foreign recaptures were also recorded. Each bird is characterized by the following data: location and time of capture, species, age, sex, scores of fat, pectoral muscle, wing tip abrasion, and moult, length of wing, 3rd primary, and tail, and body mass. After subjected to a rigorous quality check, digital data are deposited in the archive of the Hungarian Bird Ringing Centre, and the EURING data base. From time to time, other research projects also utilized the accessibility of wild birds captured here, thus collection of blood samples, ecto- and endoparasites was carried out at the station. The relatively long time span, large number of species and individuals, and the readily available environmental (weather, vegetation, etc. data makes the avian data collected here a suitable base for studies of various disciplines like capture methodology, habitat preferences, breeding, migration, and wintering, effects of weather and climate change, and epidemiology of viruses and parasites.

Dioxouranium (VI) nitrate complexes of some schiff bases derived from furfural and 2-acetylfuran with certain amino compounds

International Nuclear Information System (INIS)

Sobhanadevi, G.; Indrasenan, P.

1989-01-01

Dioxouranium(VI) nitrate complexes with 10 schiff bases obtained by the condensation of furfural and 2-acetylfuran with isonicotinoylhydrazine, benzoylhydrazine, salicyloylhydrazine, anthranilic acid, and 4-aminoantipyrine have been synthesized and characterized on the basis of IR spectra, conductance, magnetic, elemental analyses and molecular weight data. (author). 1 tab., 10 refs

Music for the birds: effects of auditory enrichment on captive bird species.

Science.gov (United States)

Robbins, Lindsey; Margulis, Susan W

2016-01-01

With the increase of mixed species exhibits in zoos, targeting enrichment for individual species may be problematic. Often, mammals may be the primary targets of enrichment, yet other species that share their environment (such as birds) will unavoidably be exposed to the enrichment as well. The purpose of this study was to determine if (1) auditory stimuli designed for enrichment of primates influenced the behavior of captive birds in the zoo setting, and (2) if the specific type of auditory enrichment impacted bird behavior. Three different African bird species were observed at the Buffalo Zoo during exposure to natural sounds, classical music and rock music. The results revealed that the average frequency of flying in all three bird species increased with naturalistic sounds and decreased with rock music (F = 7.63, df = 3,6, P = 0.018); vocalizations for two of the three species (Superb Starlings and Mousebirds) increased (F = 18.61, df = 2,6, P = 0.0027) in response to all auditory stimuli, however one species (Lady Ross's Turacos) increased frequency of duetting only in response to rock music (X(2) = 18.5, df = 2, P < 0.0001). Auditory enrichment implemented for large mammals may influence behavior in non-target species as well, in this case leading to increased activity by birds. © 2016 Wiley Periodicals, Inc.

DISTANT HYBRIDS IN F4 (VITIS VINIFERA L. X MUSCADINIA ROTUNDIFOLIA MICHX. AND OF CULTIVARS OF VITIS VINIFERA L. AND OF CONCERNING THE CONTENT OF SOME BIOCHEMICAL COMPOUNDS

Directory of Open Access Journals (Sweden)

Eugeniu ALEXANDROV

2015-04-01

Full Text Available The process of obtaining distant hybrids, as well as any crossing of cultivars of Vitis vinifera L. with representatives of species possessing the necessary qualities (resistance to diseases and pests, low temperature, etc. may change the spectrum of chemical and biochemical compounds responsible for flavour, colour and taste of grapes, obtained juice and wine. Botanical description of distant hybrids was performed during all phases of the vegetative stages; the organs of the plants were studied from spring, at bud unfolding, until early autumn, at the fall of the leaves. For the determination of diglucoside-3,5-malvidin, the fluorimetric method, for determining the methyl anthranilate, the gas chromatographic method was applied. Based on the analyzes of biochemical constituents of grapes of the distant hybrids: DRX-M4-578; -502; -571; -660; -609; -580; etc., compared to the traditional cultivars „Feteasca albă” and „Rară neagră”, it has been found that these varieties are similar. So, the distant hybrids of grapevine haven’t inherited unwanted characters for vines, some of them are strictly limited (diglucoside-3,5-malvidol. These hybrids don’t have the specific characteristics of direct production hybrids, characterised by the foxat taste of the grape berries, caused by the presence of the methyl anthranilate. The distant hybrids studied according to the classical uvologic and technological principles can be classified as follows: 5 distant hybrids are attributed to the table vine species and 2 distant hybrids have mixed properties. According to the physical and biochemical indices of the grapes of the studied distant hybrids, their characteristics are similar to European vine species.

Calcium metabolism in birds.

Science.gov (United States)

de Matos, Ricardo

2008-01-01

Calcium is one of the most important plasma constituents in mammals and birds. It provides structural strength and support (bones and eggshell) and plays vital roles in many of the biochemical reactions in the body. The control of calcium metabolism in birds is highly efficient and closely regulated in a number of tissues, primarily parathyroid gland, intestine, kidney, and bone. The hormones with the greatest involvement in calcium regulation in birds are parathyroid hormone, 1,25-dihydroxyvitamin D(3) (calcitriol), and estrogen, with calcitonin playing a minor and uncertain role. The special characteristics of calcium metabolism in birds, mainly associated with egg production, are discussed, along with common clinical disorders secondary to derangements in calcium homeostasis.

Robird : a robotic bird of prey

NARCIS (Netherlands)

Folkertsma, Gerrit Adriaan; Straatman, Wessel; Nijenhuis, Nico; Venner, Cornelis H.; Stramigioli, Stefano

2017-01-01

Ever since the start of aviation, birds and airplanes have posed a mutual risk: Birds are killed when struck by aircraft, but, in return, bird strikes cause billions in damage to the aviation industry. Airports employ bird-control methods such as audiovisual deterrents (like scarecrows, lasers, and

How does methylation suppress the electron-induced decomposition of 1-methyl-nitroimidazoles?

Science.gov (United States)

Kossoski, F.; Varella, M. T. do N.

2017-10-01

The efficient decomposition of nitroimidazoles (NIs) by low energy electrons is believed to underlie their radiosensitizing properties. Recent dissociative electron attachment (DEA) measurements showed that methylation at the N1 site unexpectedly suppresses the electron-induced reactions in 4(5)-NI. We report theoretical results that provide a clear interpretation of that astounding finding. Around 1.5 eV, DEA reactions into several fragments are initiated by a π* resonance, not considered in previous studies. The autoionization lifetime of this anion state, which limits the predissociation dynamics, is considerably shorter in the methylated species, thereby suppressing the DEA signals. On the other hand, the lifetime of the π* resonance located around 3 eV is less affected by methylation, which explains why DEA is still observed at these energies. Our results demonstrate how even a simple methylation can significantly modify the probabilities for DEA reactions, which may be significant for NI-based cancer therapy.

[Hemoparasites in wild birds in Madagascar].

Science.gov (United States)

Raharimanga, V; Soula, F; Raherilalao, M J; Goodman, S M; Sadonès, H; Tall, A; Randrianarivelojosia, M; Raharimalala, L; Duchemin, J B; Ariey, F; Robert, V

2002-01-01

This study aims to evaluate the prevalence and density of haemoparasites in native Malagasy birds. Among the 387 birds, belonging to 43 species sampled at six localities in different bio-climatic zones of the island, 139 (35.9%) showed at least 1 hemoparasite with, by order of frequency, Plasmodium and/or Haemoproteus (19.9%), microfilariae (13.7% of 387 birds), Leucocytozoon (11.1%) and Trypanosoma (1.0%). An analysis to further elucidate these observations took into account the interaction of different environmental variables (altitude, season, site of collection) or aspects of the birds (age, weight, sex). There is evidence that some parasites preferentially infect some bird species or families. The largest male birds harboured the highest prevalences and densities of haemoparasite, regardless of species. These findings extend knowledge of bird/blood parasite relationships of Malagasy birds and provide interesting insights, especially concerning the pathogenicity of this type of parasitism and the parasite transmission by insect vectors.

Electronic transport in methylated fragments of DNA

Energy Technology Data Exchange (ETDEWEB)

Almeida, M. L. de; Oliveira, J. I. N.; Lima Neto, J. X.; Gomes, C. E. M.; Fulco, U. L., E-mail: umbertofulco@gmail.com; Albuquerque, E. L. [Departamento de Biofísica e Farmacologia, Universidade Federal do Rio Grande do Norte, 59072-970 Natal-RN (Brazil); Freire, V. N. [Departamento de Física, Universidade Federal do Ceará, 60455-760 Fortaleza, CE (Brazil); Caetano, E. W. S. [Instituto Federal de Educação, Ciência e Tecnologia do Ceará, 60040-531 Fortaleza, CE (Brazil); Moura, F. A. B. F. de; Lyra, M. L. [Instituto de Física, Universidade Federal de Alagoas, 57072-900 Maceió-AL (Brazil)

2015-11-16

We investigate the electronic transport properties of methylated deoxyribonucleic-acid (DNA) strands, a biological system in which methyl groups are added to DNA (a major epigenetic modification in gene expression), sandwiched between two metallic platinum electrodes. Our theoretical simulations apply an effective Hamiltonian based on a tight-binding model to obtain current-voltage curves related to the non-methylated/methylated DNA strands. The results suggest potential applications in the development of novel biosensors for molecular diagnostics.

Electronic transport in methylated fragments of DNA

International Nuclear Information System (INIS)

Almeida, M. L. de; Oliveira, J. I. N.; Lima Neto, J. X.; Gomes, C. E. M.; Fulco, U. L.; Albuquerque, E. L.; Freire, V. N.; Caetano, E. W. S.; Moura, F. A. B. F. de; Lyra, M. L.

2015-01-01

We investigate the electronic transport properties of methylated deoxyribonucleic-acid (DNA) strands, a biological system in which methyl groups are added to DNA (a major epigenetic modification in gene expression), sandwiched between two metallic platinum electrodes. Our theoretical simulations apply an effective Hamiltonian based on a tight-binding model to obtain current-voltage curves related to the non-methylated/methylated DNA strands. The results suggest potential applications in the development of novel biosensors for molecular diagnostics

Birds Communities at Mangrove of Batu Ampar, Kubu Raya District, West Kalimantan Province

Directory of Open Access Journals (Sweden)

Jarwadi Budi Hernowo

2016-08-01

Full Text Available Batu Ampar mangrove is an important bird habitat especially for birds which have relation to mangrove ecosystem in West Kalimantan. The research was conducted in February to March 2007, at mangrove Batu Ampar demo site. Sampling was done to get representative area for bird survey. The 19 transects were chosen as sampling site to collect bird data such as species and number of individual. Bird surveys were carried out using Reconnaissance method and index point of abundance (IPA count method. The length of each transect was approximately 500 m. The results showed that the bird community's structure dominated by insectivorous birds represented approximately 60 % of total bird's species at mangrove Batu Ampar demo site. The abundance numbers of the individual with the bird's species has relation pattern like J opposite. Percentage of dominant bird species was approximately 11%, those are such as stork billed kingfisher, white-collared kingfisher, common iora, chestnuts-rumped babbler, Strip-Tit Babbler, magpie robin, ashy tailorbird, mangrove blue flycatcher, pied fantail, mangrove whistler, Brown-throated Sunbird and Cooper-Throated Sunbird. Vertical structure of mangrove vegetation was used by birds at mangrove Batu Ampar demo site is mainly B stratum, and it used around 60% birds species. Based on dendrogram analysis there were 5 cluster birds species. The mangrove bird specialists found at sampling area were mangrove blue flycatcher and Cooper throated sunbird.

Breeding Ecology of Birds -22 ...

Indian Academy of Sciences (India)

or drive the birds away. However, the droppings of the birds provide a rich source of fertilizer and this ... birds of India are under severe threat and require urgent protection. he~ries'(Box 1), can ... there will be no fish and then suddenly a school.

21 CFR 1240.65 - Psittacine birds.

Science.gov (United States)

2010-04-01

... 21 Food and Drugs 8 2010-04-01 2010-04-01 false Psittacine birds. 1240.65 Section 1240.65 Food and... DISEASES Specific Administrative Decisions Regarding Interstate Shipments § 1240.65 Psittacine birds. (a) The term psittacine birds shall include all birds commonly known as parrots, Amazons, Mexican double...

Diseases Transmitted by Birds.

Science.gov (United States)

Levison, Matthew E

2015-08-01

Although many people these days actually work very hard at leisure time activities, diseases are most commonly acquired from birds during the course of work in the usual sense of the term, not leisure. However, travel for pleasure to areas where the diseases are highly endemic puts people at risk of acquiring some of these bird-related diseases (for example, histoplasmosis and arbovirus infections), as does ownership of birds as pets (psittacosis).

REINTERPRETATION OF THE LATE PLEISTOCENE INGARANO CAVE DEPOSIT BASED ON THE FOSSIL BIRD ASSOCIATION (APULIA, SOUTH-EASTERN ITALY

Directory of Open Access Journals (Sweden)

CLAUDIA BEDETTI

2007-11-01

Full Text Available We present a study of Late Pleistocene fossil bird remains from Ingarano (Apulia, SE Italy, based on the revision of previously published material and the study of unpublished fossils bones. New field observations make it possible to simplify the stratigraphy of the deposit compared to previous work. The systematic study of the fossil bird bones revealed the presence of 15 taxa, including two hypothetical ones: Circus aeruginosus, Buteo rufinus, Aquila chrysaëtos, Falco columbarius, Falco cherrug, Alectoris graeca, Perdix perdix, Columba livia, Otus scops, Nyctea scandiaca, Nyctea scandiaca vel Bubo bubo, Athene noctua, Pyrrhocorax graculus, Pyrrhocorax pyrrhocorax, Corvus corone, Corvus corone vel Corvus frugilegus, Corvus corax. Our detailed study also helps improve the taphonomical interpretation of the deposit: the remains from the lower layers were accumulated after mammalian predator activity and were transported over short distances, while the ones from the upper layers show sings of intense transport, such as fractures and surface abrasion. Two different bird assemblages were recognized, respectively from the lowermost and the upper layers of the clastic succession exposed in the Ingarano deposit; this difference is also confirmed by the fossil mammal remains. The systematic study makes it possible to make palaeoenvironmental and palaeoclimatic reconstructions: both assemblages indicate open environments, and the taxa of the lower layers indicate the presence of woods and wetlands with colder characteristics, while birds of the upper layers indicate drier and warmer conditions. This analysis, and the dating established through geochemical analyses and study of lithic artefacts, lead us to date the formation of the Ingarano deposit to the Late Pleistocene, in particular to the MIS 3. The presence of a layer dated to the MIS 2 at the base of the succession indicated in previous works cannot be confirmed. 

DNA methylation levels analysis in four tissues of sea cucumber Apostichopus japonicus based on fluorescence-labeled methylation-sensitive amplified polymorphism (F-MSAP) during aestivation.

Science.gov (United States)

Zhao, Ye; Chen, Muyan; Storey, Kenneth B; Sun, Lina; Yang, Hongsheng

2015-03-01

DNA methylation plays an important role in regulating transcriptional change in response to environmental stimuli. In the present study, DNA methylation levels of tissues of the sea cucumber Apostichopus japonicus were analyzed by the fluorescence-labeled methylation-sensitive amplified polymorphism (F-MSAP) technique over three stages of the aestivation cycle. Overall, a total of 26,963 fragments were amplified including 9112 methylated fragments among four sea cucumber tissues using 18 pairs of selective primers. Results indicated an average DNA methylation level of 33.79% for A. japonicus. The incidence of DNA methylation was different across tissue types in the non-aestivation stage: intestine (30.16%), respiratory tree (27.61%), muscle (27.94%) and body wall (56.25%). Our results show that hypermethylation accompanied deep-aestivation in A. japonicus, which suggests that DNA methylation may have an important role in regulating global transcriptional suppression during aestivation. Further analysis indicated that the main DNA modification sites were focused on intestine and respiratory tree tissues and that full-methylation but not hemi-methylation levels exhibited significant increases in the deep-aestivation stage. Copyright © 2014 Elsevier Inc. All rights reserved.

DNA Methylation Biomarkers: Cancer and Beyond

Directory of Open Access Journals (Sweden)

Thomas Mikeska

2014-09-01

Full Text Available Biomarkers are naturally-occurring characteristics by which a particular pathological process or disease can be identified or monitored. They can reflect past environmental exposures, predict disease onset or course, or determine a patient’s response to therapy. Epigenetic changes are such characteristics, with most epigenetic biomarkers discovered to date based on the epigenetic mark of DNA methylation. Many tissue types are suitable for the discovery of DNA methylation biomarkers including cell-based samples such as blood and tumor material and cell-free DNA samples such as plasma. DNA methylation biomarkers with diagnostic, prognostic and predictive power are already in clinical trials or in a clinical setting for cancer. Outside cancer, strong evidence that complex disease originates in early life is opening up exciting new avenues for the detection of DNA methylation biomarkers for adverse early life environment and for estimation of future disease risk. However, there are a number of limitations to overcome before such biomarkers reach the clinic. Nevertheless, DNA methylation biomarkers have great potential to contribute to personalized medicine throughout life. We review the current state of play for DNA methylation biomarkers, discuss the barriers that must be crossed on the way to implementation in a clinical setting, and predict their future use for human disease.

Methylation profiling identified novel differentially methylated markers including OPCML and FLRT2 in prostate cancer.

Science.gov (United States)

Wu, Yu; Davison, Jerry; Qu, Xiaoyu; Morrissey, Colm; Storer, Barry; Brown, Lisha; Vessella, Robert; Nelson, Peter; Fang, Min

2016-04-02

To develop new methods to distinguish indolent from aggressive prostate cancers (PCa), we utilized comprehensive high-throughput array-based relative methylation (CHARM) assay to identify differentially methylated regions (DMRs) throughout the genome, including both CpG island (CGI) and non-CGI regions in PCa patients based on Gleason grade. Initially, 26 samples, including 8 each of low [Gleason score (GS) 6] and high (GS ≥7) grade PCa samples and 10 matched normal prostate tissues, were analyzed as a discovery cohort. We identified 3,567 DMRs between normal and cancer tissues, and 913 DMRs distinguishing low from high-grade cancers. Most of these DMRs were located at CGI shores. The top 5 candidate DMRs from the low vs. high Gleason comparison, including OPCML, ELAVL2, EXT1, IRX5, and FLRT2, were validated by pyrosequencing using the discovery cohort. OPCML and FLRT2 were further validated in an independent cohort consisting of 20 low-Gleason and 33 high-Gleason tissues. We then compared patients with biochemical recurrence (n=70) vs. those without (n=86) in a third cohort, and they showed no difference in methylation at these DMR loci. When GS 3+4 cases and GS 4+3 cases were compared, OPCML-DMR methylation showed a trend of lower methylation in the recurrence group (n=30) than in the no-recurrence (n=52) group. We conclude that whole-genome methylation profiling with CHARM revealed distinct patterns of differential DNA methylation between normal prostate and PCa tissues, as well as between different risk groups of PCa as defined by Gleason scores. A panel of selected DMRs may serve as novel surrogate biomarkers for Gleason score in PCa.

Base-line investigations of birds in relation to an offshore wind farm at Horns Rev, and results from the year of construction

Energy Technology Data Exchange (ETDEWEB)

Kjaer Christensen, T.; Clausager, I.; Krag Petersen, I.

2003-04-15

The present report presents the base-line investigations of birds conducted during August 1999-April 2001 in relation to construction of an offshore wind farm at Horns Rev, 14 km west-south-west of Blaevandshuk, in the Danish North Sea. The report also presents data collected during the period September 2001-April 2002, when construction of the wind farm was in progress. The wind farm will consist of 80 wind turbines, each of 2 MW, and cover an area of c. 20 km{sup 2}. The eastern part of the North Sea constitutes major staging and wintering grounds for huge numbers of water- and seabirds. The area is also known to be an important site for migrating birds, which especially in autumn pass in large numbers. As Denmark has obligations to protect and maintain the bird populations it was laid down in the approval for erection of the wind farm that the impact on birds should be investigated. According to the 1% criteria defined in the Ramsar Convention, the eastern part of the North Sea including the wind farm area is of international importance to divers, Common Tern, and Sandwich Tern. A number of other species, e.g. Common Eider, Common Scoter, Guillemot and Razorbill, are present in the area in significant numbers as well, though these numbers do not make up 1% of the populations. Detailed distributions of birds in the area around and at Horns Rev were virtually unknown until initiation of this project. Previous bird counts in this area have been carried out almost exclusively from the coast and detailed knowledge exists concerning the numbers of roosting at and migrating birds from the westernmost point of Jutland, Blaevandshuk. To describe the numbers and distributions of birds staging and wintering in the Horns Rev area, bird investigations were initiated in 1999 by using standardised transect counts from aircraft. Up to April 2002, 18 aerial counts have been carried out over an area of c. 1,700 km{sup 2} centred on the Horns Rev project area. (au)

Base-line investigations of birds in relation to an offshore wind farm at Horns Rev, and results from the year of construction

International Nuclear Information System (INIS)

Kjaer Christensen, T.; Clausager, I.; Krag Petersen, I.

2003-01-01

The present report presents the base-line investigations of birds conducted during August 1999-April 2001 in relation to construction of an offshore wind farm at Horns Rev, 14 km west-south-west of Blaevandshuk, in the Danish North Sea. The report also presents data collected during the period September 2001-April 2002, when construction of the wind farm was in progress. The wind farm will consist of 80 wind turbines, each of 2 MW, and cover an area of c. 20 km 2 . The eastern part of the North Sea constitutes major staging and wintering grounds for huge numbers of water- and seabirds. The area is also known to be an important site for migrating birds, which especially in autumn pass in large numbers. As Denmark has obligations to protect and maintain the bird populations it was laid down in the approval for erection of the wind farm that the impact on birds should be investigated. According to the 1% criteria defined in the Ramsar Convention, the eastern part of the North Sea including the wind farm area is of international importance to divers, Common Tern, and Sandwich Tern. A number of other species, e.g. Common Eider, Common Scoter, Guillemot and Razorbill, are present in the area in significant numbers as well, though these numbers do not make up 1% of the populations. Detailed distributions of birds in the area around and at Horns Rev were virtually unknown until initiation of this project. Previous bird counts in this area have been carried out almost exclusively from the coast and detailed knowledge exists concerning the numbers of roosting at and migrating birds from the westernmost point of Jutland, Blaevandshuk. To describe the numbers and distributions of birds staging and wintering in the Horns Rev area, bird investigations were initiated in 1999 by using standardised transect counts from aircraft. Up to April 2002, 18 aerial counts have been carried out over an area of c. 1,700 km 2 centred on the Horns Rev project area. (au)

WT-BIRD. Bird collision monitoring system for multi-megawatt wind turbines

Energy Technology Data Exchange (ETDEWEB)

Wiggelinkhuizen, E.J.; Rademakers, L.W.M.M.; Barhorst, S.A.M. [ECN Wind Energy, Petten (Netherlands); Den Boon, H.J. [E-Connection Project, Bunnik (Netherlands); Dirksen, S. [Bureau Waardenburg, Culemborg (Netherlands)

2007-05-15

A new method for detection and registration of bird collisions has been developed that is suitable for continuous remote operation in both onshore and offshore wind farms. The characteristic sound of a collision is detected by sensors in the blades, which triggers the storage of video registrations and sends an alert message to the operator. A prototype has been tested successfully on a Nordex N80/2.5MW turbine at ECN's Wind turbine Test park Wieringermeer. Compared to other methods employed so far this monitoring system will reduce the uncertainty in the number of birds killed by collisions with wind turbines. Further, the system enables the operator to identify species and to study the collision mechanisms. It has been found that this system can also be used for monitoring of other events in order to save costs for inspection and repair after incidents. For offshore wind farms, the WT-Bird system is currently the only alternative to count the number of bird collisions. Functional tests with tennis balls that were shot against rotating blades showed that the majority of the impacts were detected. The flight track of these dummies and the collision events were clearly visible on the video registrations. During the monitoring period of about one year two bird collisions were detected. The video recordings confirmed that a collision took place and showed that the location of both collisions was near the blade root, which resulted that in both cases the bird was not (immediately) killed. Therefore no corpses could be found beneath the turbine after these events. Also during the rest of the monitoring period no corpses were found beneath the turbine.

Tissue radionuclide concentrations in water birds and upland birds on the Hanford Site (USA) from 1971-2009

International Nuclear Information System (INIS)

Delistraty, Damon; Van Verst, Scott

2011-01-01

Historical operations at the Hanford Site (Washington State, USA) have released a wide array of non-radionuclide and radionuclide contaminants into the environment. As a result, there is a need to characterize contaminant effects on site biota. Within this framework, the main purpose of our study was to evaluate radionuclide concentrations in bird tissue, obtained from the Hanford Environmental Information System (HEIS). The database was sorted by avian group (water bird vs. upland bird), radionuclide (over 20 analytes), tissue (muscle, bone, liver), location (onsite vs. offsite), and time period (1971-1990 vs. 1991-2009). Onsite median concentrations in water birds were significantly higher (Bonferroni P < 0.05) than those in onsite upland birds for Cs-137 in muscle (1971-1990) and Sr-90 in bone (1991-2009), perhaps due to behavioral, habitat, or trophic species differences. Onsite median concentrations in water birds were higher (borderline significance with Bonferroni P = 0.05) than those in offsite birds for Cs-137 in muscle (1971-1990). Onsite median concentrations in the earlier time period were significantly higher (Bonferroni P < 0.05) than those in the later time period for Co-60, Cs-137, Eu-152, and Sr-90 in water bird muscle and for Cs-137 in upland bird muscle tissue. Median concentrations of Sr-90 in bone were significantly higher (Bonferroni P < 0.05) than those in muscle for both avian groups and both locations. Over the time period, 1971-2009, onsite median internal dose was estimated for each radionuclide in water bird and upland bird tissues. However, a meaningful dose comparison between bird groups was not possible, due to a dissimilar radionuclide inventory, mismatch of time periods for input radionuclides, and lack of an external dose estimate. Despite these limitations, our results contribute toward ongoing efforts to characterize ecological risk at the Hanford Site. - Highlights: → Radionuclides evaluated in bird tissues on the Hanford Site

Tissue radionuclide concentrations in water birds and upland birds on the Hanford Site (USA) from 1971-2009

Energy Technology Data Exchange (ETDEWEB)

Delistraty, Damon, E-mail: DDEL461@ecy.wa.gov [Washington State Department of Ecology, N. 4601 Monroe Street, Spokane, WA 99205-1295 (United States); Van Verst, Scott [Washington State Department of Health, Olympia, WA (United States)

2011-08-15

Historical operations at the Hanford Site (Washington State, USA) have released a wide array of non-radionuclide and radionuclide contaminants into the environment. As a result, there is a need to characterize contaminant effects on site biota. Within this framework, the main purpose of our study was to evaluate radionuclide concentrations in bird tissue, obtained from the Hanford Environmental Information System (HEIS). The database was sorted by avian group (water bird vs. upland bird), radionuclide (over 20 analytes), tissue (muscle, bone, liver), location (onsite vs. offsite), and time period (1971-1990 vs. 1991-2009). Onsite median concentrations in water birds were significantly higher (Bonferroni P < 0.05) than those in onsite upland birds for Cs-137 in muscle (1971-1990) and Sr-90 in bone (1991-2009), perhaps due to behavioral, habitat, or trophic species differences. Onsite median concentrations in water birds were higher (borderline significance with Bonferroni P = 0.05) than those in offsite birds for Cs-137 in muscle (1971-1990). Onsite median concentrations in the earlier time period were significantly higher (Bonferroni P < 0.05) than those in the later time period for Co-60, Cs-137, Eu-152, and Sr-90 in water bird muscle and for Cs-137 in upland bird muscle tissue. Median concentrations of Sr-90 in bone were significantly higher (Bonferroni P < 0.05) than those in muscle for both avian groups and both locations. Over the time period, 1971-2009, onsite median internal dose was estimated for each radionuclide in water bird and upland bird tissues. However, a meaningful dose comparison between bird groups was not possible, due to a dissimilar radionuclide inventory, mismatch of time periods for input radionuclides, and lack of an external dose estimate. Despite these limitations, our results contribute toward ongoing efforts to characterize ecological risk at the Hanford Site. - Highlights: > Radionuclides evaluated in bird tissues on the Hanford Site

Survival rates of birds of tropical and temperate forests: will the dogma survive?

Science.gov (United States)

Karr, J.R.; Nichols, J.D.; Klimkiewicz, M.K.; Brawn, J.D.

1990-01-01

Survival rates of tropical forest birds are widely assumed to be high relative to the survival rates of temperate forest birds. Much life-history theory is based on this assumption despite the lack of empirical data to support it. We provide the first detailed comparison of survival rates of tropical and temperate forest birds based on extensive data bases and modern capture-recapture models. We find no support for the conventional wisdom. Because clutch size is only one component of reproductive rate, the frequently assumed, simple association between clutch size and adult survival rates should not necessarily be expected. Our results emphasize the need to consider components of fecundity in addition to clutch size when comparing the life histories of tropical and temperate birds and suggest similar considerations in the development of vertebrate life-history theory.

Microarray-Based Analysis of Methylation of 1st Trimester Trisomic Placentas from Down Syndrome, Edwards Syndrome and Patau Syndrome

DEFF Research Database (Denmark)

Hatt, Lotte; Aagaard, Mads M; Bach, Cathrine

2016-01-01

Methylation-based non-invasive prenatal testing of fetal aneuploidies is an alternative method that could possibly improve fetal aneuploidy diagnosis, especially for trisomy 13 (T13) and trisomy 18(T18). Our aim was to study the methylation landscape in placenta DNA from trisomy 13, 18 and 21 pre...

Base-line investigations of birds in relation to an offshore wind farm at Horns Rev: results and conclusions 2000/2001

Energy Technology Data Exchange (ETDEWEB)

Kjaer Christensen, T.; Clausager, I.; Krag Petersen, I. [NERI, Dept. of Coastal Zone Ecology, Roskilde (Denmark)

2001-07-01

This report presents the combined results of two years of base-line investigations of birds performed during August 1999 - April 2001 in relation to the proposed construction of an offshore wind farm at Horns Rev in the Danish part of the North Sea ca 14 km southwest of Blaevandshuk. Based on the distribution of the most abundant bird species recorded during 13 aerial surveys, there were no indications that the wind farm area was of any particular importance to the birds' exploitation of the Horns Rev area. Fish-eating species like divers, gannet, terns, auks and gulls generally showed scattered and variable distributions, occurring in the areas north and south of Horns Rev, and with low numbers occurring on the reef proper and within the planned wind farm area. The distribution of benthic foraging species, eider and common scoter, showed that they mainly exploited the coastal parts of the area off Blaevandshuk and Skallingen, although the common scoter was found in relatively high numbers on the southeast slopes of Horns Rev and within the wind farm area in the April 2001 survey. Preference analyses of bird exploitation of the Horns Rev area showed that if the birds completely avoid the wind farm area after erection of the wind turbines, this will affects less than 1% of the different species, except divers of which 1.65% will be affected. If the birds avoid the wind farm area and an adjacent 4 km zone (worst case scenario), it is estimated to affect 11% of the common scoter, 10% of the gannet, 7-9% of the divers, alcids and velvet scoter and 0-6% of the remaining species. The seasonal occurrence of the recorded species was fully comparable to the seasonal occurrence of these species recorded at Blaevandshuk since 1963. Year-to-year variation in abundance between the seasons August 1999 - April 2000 and August 2000 - April 2001 was mainly found in species that migrate through the Horns Rev area (terns, gannet, kittiwake), and with less pronounced variation in

Base-line investigations of birds in relation to an offshore wind farm at Horns Rev: results and conclusions 2000/2001

International Nuclear Information System (INIS)

Kjaer Christensen, T.; Clausager, I.; Krag Petersen, I.

2001-01-01

This report presents the combined results of two years of base-line investigations of birds performed during August 1999 - April 2001 in relation to the proposed construction of an offshore wind farm at Horns Rev in the Danish part of the North Sea ca 14 km southwest of Blaevandshuk. Based on the distribution of the most abundant bird species recorded during 13 aerial surveys, there were no indications that the wind farm area was of any particular importance to the birds' exploitation of the Horns Rev area. Fish-eating species like divers, gannet, terns, auks and gulls generally showed scattered and variable distributions, occurring in the areas north and south of Horns Rev, and with low numbers occurring on the reef proper and within the planned wind farm area. The distribution of benthic foraging species, eider and common scoter, showed that they mainly exploited the coastal parts of the area off Blaevandshuk and Skallingen, although the common scoter was found in relatively high numbers on the southeast slopes of Horns Rev and within the wind farm area in the April 2001 survey. Preference analyses of bird exploitation of the Horns Rev area showed that if the birds completely avoid the wind farm area after erection of the wind turbines, this will affects less than 1% of the different species, except divers of which 1.65% will be affected. If the birds avoid the wind farm area and an adjacent 4 km zone (worst case scenario), it is estimated to affect 11% of the common scoter, 10% of the gannet, 7-9% of the divers, alcids and velvet scoter and 0-6% of the remaining species. The seasonal occurrence of the recorded species was fully comparable to the seasonal occurrence of these species recorded at Blaevandshuk since 1963. Year-to-year variation in abundance between the seasons August 1999 - April 2000 and August 2000 - April 2001 was mainly found in species that migrate through the Horns Rev area (terns, gannet, kittiwake), and with less pronounced variation in

Coordinated bird monitoring: Technical recommendations for military lands

Science.gov (United States)

Bart, Jonathan; Manning, Ann; Fischer, Richard; Eberly, Chris

2012-01-01

following these procedures, DoD will minimize the possibility for a proposed action to unintentionally take migratory birds at a level that would violate any of the migratory bird treaties and potentially impact mission activities. In addition, implementing conservation and monitoring programs for migratory birds supports the ecosystem integrity necessary to sustain DoD's natural resources for the military mission.Non-compliance with the procedural requirements of the MBTA could result in a private party lawsuit under the Administrative Procedures Act (APA). A lawsuit filed under APA involving a Navy bombing range is the basis for a court ruling that unintentional take of migratory birds applies to federal actions. Ensuring the necessary data is available to adequately assess impacts of a proposed action will help avoid lawsuits or help ensure such lawsuits have no grounds. The data gathered in a bird monitoring program will provide the best scientific data available to assess the expected impacts of a proposed action on migratory bird species through the NEPA process. This report presents recommendations developed by the U.S. Geological Survey (USGS) for the Department of Defense (DoD) on establishing a "Coordinated Bird Monitoring (CBM) Plan." The CBM Plan is intended to ensure that DoD meets its conservation and regulatory responsibilities for monitoring birds (Chapter 1). The report relies heavily on recommendations in the report, "Opportunities for improving avian monitoring" (http://www.nabci-us.org/aboutnabci/monitoringreportfinal0307.pdf), by the U.S. North American Bird Conservation Initiative (U.S. NABCI Monitoring Subcommittee, 2007) and on a review of 358 current DoD bird monitoring programs carried out as part of this project (Chapter 2). This report contains 12 recommendations which, if followed, would result in a comprehensive, efficient, and useful approach to bird monitoring. The recommendations are based on the entire report but are presented together at

Whole-genome methylation caller designed for methyl- DNA ...

African Journals Online (AJOL)

etchie

2013-02-20

Feb 20, 2013 ... Our method uses a single-CpG-resolution, whole-genome methylation ... Key words: Methyl-DNA immunoprecipitation, next-generation sequencing, ...... methylation is prevalent in embryonic stem cells andmaybe mediated.

75 FR 27143 - Migratory Bird Hunting; Proposed 2010-11 Migratory Game Bird Hunting Regulations (Preliminary...

Science.gov (United States)

2010-05-13

... Convention and the subsequent 1936 Mexico Convention for the Protection of Migratory Birds and Game Mammals... Part III Department of the Interior Fish and Wildlife Service 50 CFR Part 20 Migratory Bird Hunting; Proposed 2010-11 Migratory Game Bird Hunting Regulations (Preliminary) With Requests for Indian...

MIRA: An R package for DNA methylation-based inference of regulatory activity.

Science.gov (United States)

Lawson, John T; Tomazou, Eleni M; Bock, Christoph; Sheffield, Nathan C

2018-03-01

DNA methylation contains information about the regulatory state of the cell. MIRA aggregates genome-scale DNA methylation data into a DNA methylation profile for independent region sets with shared biological annotation. Using this profile, MIRA infers and scores the collective regulatory activity for each region set. MIRA facilitates regulatory analysis in situations where classical regulatory assays would be difficult and allows public sources of open chromatin and protein binding regions to be leveraged for novel insight into the regulatory state of DNA methylation datasets. R package available on Bioconductor: http://bioconductor.org/packages/release/bioc/html/MIRA.html. nsheffield@virginia.edu.

Aerodynamics of bird flight

Directory of Open Access Journals (Sweden)

Dvořák Rudolf

2016-01-01

Full Text Available Unlike airplanes birds must have either flapping or oscillating wings (the hummingbird. Only such wings can produce both lift and thrust – two sine qua non attributes of flying.The bird wings have several possibilities how to obtain the same functions as airplane wings. All are realized by the system of flight feathers. Birds have also the capabilities of adjusting the shape of the wing according to what the immediate flight situation demands, as well as of responding almost immediately to conditions the flow environment dictates, such as wind gusts, object avoidance, target tracking, etc. In bird aerodynamics also the tail plays an important role. To fly, wings impart downward momentum to the surrounding air and obtain lift by reaction. How this is achieved under various flight situations (cruise flight, hovering, landing, etc., and what the role is of the wing-generated vortices in producing lift and thrust is discussed.The issue of studying bird flight experimentally from in vivo or in vitro experiments is also briefly discussed.

Avocado and olive oil methyl esters

International Nuclear Information System (INIS)

Knothe, Gerhard

2013-01-01

Biodiesel, the mono-alkyl esters of vegetable oils, animal fats or other triacylglycerol-containing materials and an alternative to conventional petroleum-based diesel fuel, has been derived from a variety of feedstocks. Numerous feedstocks have been investigated as potential biodiesel sources, including commodity oils, however, the methyl esters of avocado and olive oil would likely be suitable as biodiesel fuel. In order to expand the database and comprehensive evaluation of the properties of vegetable oil esters, in this work the fuel-related properties of avocado and olive oil methyl esters, which exhibit similar fatty acid profiles including high oleic acid content, are determined. The cetane numbers of avocado oil methyl esters and olive oil methyl esters are relatively high, determined as 59.2 and 62.5, respectively, due to their elevated content of methyl oleate. Other properties are well within the ranges specified in biodiesel standards. The cloud points of both esters are slightly above 0 °C due to their content of saturated esters, especially methyl palmitate. Overall, avocado and olive oil yield methyl esters with fuel properties comparable to methyl esters from other commodity vegetable oils. The 1 H and 13 C NMR spectra of avocado and olive oil methyl esters are reported. -- Highlights: • Methyl esters of avocado and olive oil meet biodiesel fuel standards. • Provides comparison for methyl esters of other vegetable oils with high oleic content. • Discusses and compares present results with prior literature

Methylation-Sensitive High Resolution Melting (MS-HRM).

Science.gov (United States)

Hussmann, Dianna; Hansen, Lise Lotte

2018-01-01

Methylation-Sensitive High Resolution Melting (MS-HRM) is an in-tube, PCR-based method to detect methylation levels at specific loci of interest. A unique primer design facilitates a high sensitivity of the assays enabling detection of down to 0.1-1% methylated alleles in an unmethylated background.Primers for MS-HRM assays are designed to be complementary to the methylated allele, and a specific annealing temperature enables these primers to anneal both to the methylated and the unmethylated alleles thereby increasing the sensitivity of the assays. Bisulfite treatment of the DNA prior to performing MS-HRM ensures a different base composition between methylated and unmethylated DNA, which is used to separate the resulting amplicons by high resolution melting.The high sensitivity of MS-HRM has proven useful for detecting cancer biomarkers in a noninvasive manner in urine from bladder cancer patients, in stool from colorectal cancer patients, and in buccal mucosa from breast cancer patients. MS-HRM is a fast method to diagnose imprinted diseases and to clinically validate results from whole-epigenome studies. The ability to detect few copies of methylated DNA makes MS-HRM a key player in the quest for establishing links between environmental exposure, epigenetic changes, and disease.

Studying wind energy/bird interactions: a guidance document. Metrics and methods for determining or monitoring potential impacts on birds at existing and proposed wind energy sites

Science.gov (United States)

Anderson, R.; Morrison, M.; Sinclair, K.; Strickland, D.; Davis, H.; Kendall, W.

1999-01-01

In the 1980s little was known about the potential environmental effects associated with large scale wind energy development. Although wind turbines have been used in farming and remote location applications throughout this country for centuries, impacts on birds resulting from these dispersed turbines had not been reported. Thus early wind energy developments were planned, permitted, constructed, and operated with little consideration for the potential effects on birds. In the ensuing years wind plant impacts on birds became a source of concern among a number of stakeholder groups. Based on the studies that have been done to date, significant levels of bird fatalities have been identified at only one major commercial wind energy development in the United States. Research on wind energy/bird interactions has spanned such a wide variety of protocols and vastly different levels of study effort that it is difficult to make comparisons among study findings. As a result there continues to be interest, confusion, and concern over wind energy development's potential impacts on birds. Some hypothesize that technology changes, such as less dense wind farms with larger, slower-moving turbines, will decrease the number of bird fatalities from wind turbines. Others hypothesize that, because the tip speed may be the same or faster, new turbines will not result in decreased bird fatalities but may actually increase bird impacts. Statistically significant data sets from scientifically rigorous studies will be required before either hypothesis can be tested.

Relationship between bird-of-prey decals and bird-window collisions on a Brazilian university campus

Directory of Open Access Journals (Sweden)

Thaís Brisque

2017-10-01

Full Text Available ABSTRACT Bird-window collisions are a dramatic cause of bird mortality globally. In Latin America, statistics are generally very scarce and/or inaccessible so the frequency of such incidents is still poorly understood. Nevertheless, civilians have applied preventive methods (e.g. adhesive bird-of-prey decals sparsely but, to our knowledge, no study has evaluated their effectiveness in Brazil. Here, we estimated the mortality rate of bird-window collisions and tested the effectiveness of bird-of-prey decals at preventing such accidents. We undertook daily searches for bird carcasses, presumably resulting from window collisions, near all buildings on a university campus over seven months. Adhesive bird-of-prey decals were then applied to the two buildings with the highest mortality rates and surveys continued for over 12 more months. The mortality rates before and after the application of decals and between seasons were then compared using Friedman test. We recorded 36 collisions, 29 around the two buildings with the highest collision rates 19 prior and 10 after our intervention with associated collision rates of 0.08 and 0.04 collisions/day. Although mortality was reduced by almost half, this difference was not statistically significant. The Blue-black grassquit, Volatinia jacarina (Linnaeus, 1766, and Ruddy ground dove, Columbina talpacoti (Temminck, 1810 suffered the highest number of collisions, followed by the Rufous-collared sparrow, Zonotrichia capensis (P. L. Statius Müller, 1776. Our bird-of-prey decals and efforts were insufficient to prevent or dramatically reduce the number of bird-window collisions. Therefore, we recommend that different interventions be used and additional long-term studies undertaken on their efficacy.

Windmills and birds

Energy Technology Data Exchange (ETDEWEB)

Moeller, N W; Poulsen, E

1984-07-01

The objective of this study is an investigation of potential conflicts between windmills and birds. Emphasis is on frightening, collision risk and biotopic changes due to windmill systems. The study is based on the environment of Koldby and Nibe windmills (South Jutland). Biotopic changes were not observed around the existing windmills. Drainage of mill grounds at Nibe had probably no effect on water level in the area around; a longer observation is necessary to draw any decisive conclusions.(EG).

Hatching synchrony in birds

OpenAIRE

Tippeltová, Zuzana

2011-01-01

This bachelor thesis is about hatching synchrony in birds. Generally, among birds there are two types of hatching - asynchronous and synchronous- and the type of hatching is primarily determined by the time of the onset of incubation. In many bird species, including most precocial ones, incubation does not begin until the last egg has been laid, which results in hatching of all the eggs within a few hours. In synchronously-hatched broods, all the chicks are about the same age. Thus no single ...

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

DEFF Research Database (Denmark)

Li, Xin; Zhu, Jingde; Hu, Fengyi

2012-01-01

DNA methylation plays important biological roles in plants and animals. To examine the rice genomic methylation landscape and assess its functional significance, we generated single-base resolution DNA methylome maps for Asian cultivated rice Oryza sativa ssp. japonica, indica and their wild rela...

Identification of endometrial cancer methylation features using combined methylation analysis methods.

Directory of Open Access Journals (Sweden)

Michael P Trimarchi

Full Text Available DNA methylation is a stable epigenetic mark that is frequently altered in tumors. DNA methylation features are attractive biomarkers for disease states given the stability of DNA methylation in living cells and in biologic specimens typically available for analysis. Widespread accumulation of methylation in regulatory elements in some cancers (specifically the CpG island methylator phenotype, CIMP can play an important role in tumorigenesis. High resolution assessment of CIMP for the entire genome, however, remains cost prohibitive and requires quantities of DNA not available for many tissue samples of interest. Genome-wide scans of methylation have been undertaken for large numbers of tumors, and higher resolution analyses for a limited number of cancer specimens. Methods for analyzing such large datasets and integrating findings from different studies continue to evolve. An approach for comparison of findings from a genome-wide assessment of the methylated component of tumor DNA and more widely applied methylation scans was developed.Methylomes for 76 primary endometrial cancer and 12 normal endometrial samples were generated using methylated fragment capture and second generation sequencing, MethylCap-seq. Publically available Infinium HumanMethylation 450 data from The Cancer Genome Atlas (TCGA were compared to MethylCap-seq data.Analysis of methylation in promoter CpG islands (CGIs identified a subset of tumors with a methylator phenotype. We used a two-stage approach to develop a 13-region methylation signature associated with a "hypermethylator state." High level methylation for the 13-region methylation signatures was associated with mismatch repair deficiency, high mutation rate, and low somatic copy number alteration in the TCGA test set. In addition, the signature devised showed good agreement with previously described methylation clusters devised by TCGA.We identified a methylation signature for a "hypermethylator phenotype" in

Synthesis of DL-adrenaline (methyl C{sup 14}) (1961); Synthese de la DL-adrenaline (methyle {sup 14}C) (1961)

Energy Technology Data Exchange (ETDEWEB)

Pichat, L; Audinot, M [Commissariat a l' Energie Atomique, Saclay (France). Centre d' Etudes Nucleaires

1961-07-01

The sodium derivative of 5-3-4 dibenzyl oxyphenyl 2-oxazolidinone reacted with methyl iodide {sup 14}C, in stoichiometric quantity, gives rise to the corresponding N-methyl {sup 14}C derivative. The oxazolidinone ring is opened by concentrated hydrochloric acid and the benzyl groups removed by catalytic hydrogenolysis. Adrenaline methyl {sup 14}C is then purified on Dowex 50 X-12 exchange resin. Overall-yield is 45 per cent based upon methyl iodide {sup 14}C. (author) [French] Le derive sode de la (dibenzyloxy-3-4-phenyl)-5 oxazolidinone-2 traite par l'iodure de methyle {sup 14}C, en proportion stoechiometrique, fournit le derive N-methyle {sup 14}C correspondant. Apres ouverture du cycle oxazolidinone par HCL concentre et debenzylation par hydrogenation catalytique, on purifie l'adrenaline (methyle {sup 14}C) par chromatographie sur resine echangeuse Dowex 50 X-12. Le rendement est de 45 pour cent par rapport a l'iodure de methyle {sup 14}C. (auteurs)

Synthesis of DL-adrenaline (methyl C{sup 14}) (1961); Synthese de la DL-adrenaline (methyle {sup 14}C) (1961)

Energy Technology Data Exchange (ETDEWEB)

Pichat, L.; Audinot, M. [Commissariat a l' Energie Atomique, Saclay (France). Centre d' Etudes Nucleaires

1961-07-01

The sodium derivative of 5-3-4 dibenzyl oxyphenyl 2-oxazolidinone reacted with methyl iodide {sup 14}C, in stoichiometric quantity, gives rise to the corresponding N-methyl {sup 14}C derivative. The oxazolidinone ring is opened by concentrated hydrochloric acid and the benzyl groups removed by catalytic hydrogenolysis. Adrenaline methyl {sup 14}C is then purified on Dowex 50 X-12 exchange resin. Overall-yield is 45 per cent based upon methyl iodide {sup 14}C. (author) [French] Le derive sode de la (dibenzyloxy-3-4-phenyl)-5 oxazolidinone-2 traite par l'iodure de methyle {sup 14}C, en proportion stoechiometrique, fournit le derive N-methyle {sup 14}C correspondant. Apres ouverture du cycle oxazolidinone par HCL concentre et debenzylation par hydrogenation catalytique, on purifie l'adrenaline (methyle {sup 14}C) par chromatographie sur resine echangeuse Dowex 50 X-12. Le rendement est de 45 pour cent par rapport a l'iodure de methyle {sup 14}C. (auteurs)

Capillary electrophoresis determination of glucosamine in nutraceutical formulations after labeling with anthranilic acid and UV detection.

Science.gov (United States)

Volpi, Nicola

2009-04-05

A new robust CE method for the determination of the glucosamine (GlcN) content in nutraceutical formulations is described after its derivatization with anthranilic acid (2-aminobenzoic acid, AA). The CE separation of derivatized GlcN with AA was performed on an uncoated fused-silica capillary tube (50 microm I.D.) using an operating pH 7.0 buffer of 150 mM boric acid/50 mM NaH2PO4 and UV detection at 214 nm. The method was validated for specificity, linearity, accuracy, precision, limit of detection (LOD), and limit of quantitation (LOQ). The detector response for GlcN was linear over the selected concentration range from 240 to 2400 pg (40-400 microg/mL) with a correlation coefficient greater than 0.980. The intra- and inter-day variations (CV%) were between 0.5 and 0.9 for migration time, and between 2.8 and 4.3 for peak area, respectively. The LOD and the LOQ of the method were approximately 200 and 500 pg, respectively. The intra- and inter-day accuracy was estimated to range from 2.8% to 5.1%, while the percent recoveries of GlcN in formulations were calculated to be about 100% after simple centrifugation for 10 min, lyophilization and derivatization with AA. The CE method was applied to the determination of GlcN content, in the form of GlcN-hydrochloride or GlcN-sulfate, of several nutraceutical preparations in the presence of other ingredients, i.e. chondroitin sulfate, vitamin C and/or methylsulfonylmethane (MSM) as well as salts and other agents. The quantitative results obtained were in total conformity with the label claims.

Capacity for absorption of water-soluble secondary metabolites greater in birds than in rodents.

Science.gov (United States)

Karasov, William H; Caviedes-Vidal, Enrique; Bakken, Bradley Hartman; Izhaki, Ido; Samuni-Blank, Michal; Arad, Zeev

2012-01-01

Plant secondary metabolites (SMs) are pervasive in animal foods and potentially influence feeding behavior, interspecies interactions, and the distribution and abundance of animals. Some of the major classes of naturally occurring SMs in plants include many water-soluble compounds in the molecular size range that could cross the intestinal epithelium via the paracellular space by diffusion or solvent drag. There are differences among species in paracellular permeability. Using Middle Eastern rodent and avian consumers of fruits containing SMs, we tested the hypothesis that avian species would have significantly higher paracellular permeability than rodent species. Permeability in intact animals was assessed using standard pharmacological methodology to measure absorption of two radiolabeled, inert, neutral water-soluble probes that do not interact with intestinal nutrient transporters, L-arabinose (M(r) = 150.1 Da) and lactulose (M(r) = 342.3 Da). We also measured absorption of labeled 3-O-methyl-D-glucose (3OMD-glucose; M(r) = 194.2 Da), which is a nonmetabolized analogue of D-glucose that is passively absorbed through the paracellular space but also transported across the enterocyte membranes. Most glucose was absorbed by all species, but arabinose fractional absorption (f) was nearly three times higher in birds (1.03±0.17, n = 15 in two species) compared to rodents (0.37±0.06, n = 10 in two species) (Pbirds of arabinose exceeded those of 3OMD-glucose. Our findings are in agreement with previous work showing that the paracellular pathway is more prominent in birds relative to nonflying mammals, and suggests that birds may be challenged by greater absorption of water-soluble, dietary SMs. The increased expression of the paracellular pathway in birds hints at a tradeoff: the free energy birds gain by absorbing water-soluble nutrients passively may be offset by the metabolic demands placed on them to eliminate concomitantly absorbed SMs.

Evaluation of markers for CpG island methylator phenotype (CIMP) in colorectal cancer by a large population-based sample.

Science.gov (United States)

Ogino, Shuji; Kawasaki, Takako; Kirkner, Gregory J; Kraft, Peter; Loda, Massimo; Fuchs, Charles S

2007-07-01

The CpG island methylator phenotype (CIMP or CIMP-high) with extensive promoter methylation is a distinct phenotype in colorectal cancer. However, a choice of markers for CIMP has been controversial. A recent extensive investigation has selected five methylation markers (CACNA1G, IGF2, NEUROG1, RUNX3, and SOCS1) as surrogate markers for epigenomic aberrations in tumor. The use of these markers as a CIMP-specific panel needs to be validated by an independent, large dataset. Using MethyLight assays on 920 colorectal cancers from two large prospective cohort studies, we quantified DNA methylation in eight CIMP-specific markers [the above five plus CDKN2A (p16), CRABP1, and MLH1]. A CIMP-high cutoff was set at > or = 6/8 or > or = 5/8 methylated promoters, based on tumor distribution and BRAF/KRAS mutation frequencies. All but two very specific markers [MLH1 (98% specific) and SOCS1 (93% specific)] demonstrated > or = 85% sensitivity and > or = 80% specificity, indicating overall good concordance in methylation patterns and good performance of these markers. Based on sensitivity, specificity, and false positives and negatives, the eight markers were ranked in order as: RUNX3, CACNA1G, IGF2, MLH1, NEUROG1, CRABP1, SOCS1, and CDKN2A. In conclusion, a panel of markers including at least RUNX3, CACNA1G, IGF2, and MLH1 can serve as a sensitive and specific marker panel for CIMP-high.

Green Light for Nocturnally Migrating Birds

Directory of Open Access Journals (Sweden)

Hanneke Poot

2008-12-01

Laboratory experiments have shown the magnetic compass to be wavelength dependent: migratory birds require light from the blue-green part of the spectrum for magnetic compass orientation, whereas red light (visible long-wavelength disrupts magnetic orientation. We designed a field study to test if and how changing light color influenced migrating birds under field conditions. We found that nocturnally migrating birds were disoriented and attracted by red and white light (containing visible long-wavelength radiation, whereas they were clearly less disoriented by blue and green light (containing less or no visible long-wavelength radiation. This was especially the case on overcast nights. Our results clearly open perspective for the development of bird-friendly artificial lighting by manipulating wavelength characteristics. Preliminary results with an experimentally developed bird-friendly light source on an offshore platform are promising. What needs to be investigated is the impact of bird-friendly light on other organisms than birds.

First report of birds infection by intestinal parasites in Khorramabad, west Iran.

Science.gov (United States)

Badparva, Ebrahim; Ezatpour, Behrouz; Azami, Mehdi; Badparva, Masoud

2015-12-01

Parasitic infections in birds are omnipresent, even when they occur in low amounts, may result in subclinical diseases. There aren't any studies, based on Iranian data, investigating the prevalence of intestinal parasitic infections in some birds' species. We conducted a cross-sectional study between December 2011 and December 2012. The fecal samples were taken from 451 birds including hen, turkey, sparrow, pigeon and decorative birds. The samples screened for intestinal parasitic infections using direct smear, formalin-ether concentration technique, modified Ziehl-Neelsen staining, Culture in RPMI 1640 medium, sporulation with potassium dichromate and Trichrome and Giemsa staining. Out of 451 birds' species, 157 (34.8 %), were infected with one or more type of intestinal parasites. We identified two nematode, two cestoda species and five protozoan parasites species. No trematodes were found in the samples studied. The parasites identified among birds involved Raillietina spp. (4.2 %) and Eimeria spp. (7.1 %) were the most common helminthes and protozoa respectively. From total of birds study, 12 (2.7 %) and 6 (1.3 %) have two and three mixed infections respectively. Intestinal parasitic infections are common in birds in west Iran. The future studies are needed in order to determine to which extent the infections influence mortality and performance of the birds.

MethPrimer: designing primers for methylation PCRs.

Science.gov (United States)

Li, Long-Cheng; Dahiya, Rajvir

2002-11-01

DNA methylation is an epigenetic mechanism of gene regulation. Bisulfite- conversion-based PCR methods, such as bisulfite sequencing PCR (BSP) and methylation specific PCR (MSP), remain the most commonly used techniques for methylation mapping. Existing primer design programs developed for standard PCR cannot handle primer design for bisulfite-conversion-based PCRs due to changes in DNA sequence context caused by bisulfite treatment and many special constraints both on the primers and the region to be amplified for such experiments. Therefore, the present study was designed to develop a program for such applications. MethPrimer, based on Primer 3, is a program for designing PCR primers for methylation mapping. It first takes a DNA sequence as its input and searches the sequence for potential CpG islands. Primers are then picked around the predicted CpG islands or around regions specified by users. MethPrimer can design primers for BSP and MSP. Results of primer selection are delivered through a web browser in text and in graphic view.

DNA methylation induced changes in chromatin conformation of the promoter of the vitellogenin II gene of Japanese quail during aging.

Science.gov (United States)

Gupta, Sanjay; Pathak, Rashmi U; Kanungo, Madhu S

2006-08-01

One approach to the understanding of the molecular basis of aging in higher organisms may be to use genes whose timing and rate of expression during the life span run parallel with specific functions that can be monitored. The genes for egg proteins, such as vitellogenin (VTG), which is expressed in the liver, and ovalbumin, lysozyme etc. that are expressed in the oviduct of birds, meet these requirements. Egg laying function is dependent on the production of these proteins, which, in turn, depends on the expression of their genes. In this communication we present the age-related studies on the VTG II gene of the bird, Japanese quail. The gene is expressed only in the liver and its expression is considerably lower in old birds that do not lay eggs. Comparison of the promoter region of the gene carrying the two important cis-acting elements, estrogen responsive element (ERE) and progesterone responsive element (PRE), shows it to be 100% homologous to the corresponding region of the chicken VTG II gene. Methylation of DNA and conformation of chromatin of this region were studied, as they are known to be important for regulation of expression of genes. Our studies show that in the liver of adult female quails which lay eggs, a -CCGG- sequence located in this region is hypomethylated, and the chromatin encompassing this region of the gene is relaxed. In the old, the -CCGG- sequence is hypermethylated and the chromatin is compact. This is correlated with a decrease in the expression of the gene and decrease in egg production. Further, electrophoretic mobility shift assay (EMSA) shows that the levels/affinity of specific trans-acting factors that bind to ERE and PRE present in the region, are not different in adult and old birds. Hence the methylation status of the -CCGG- sequence that is located in-between the ERE and the PRE may be crucial for the conformation of chromatin and availability of these two important cis-acting elements for the binding of the trans

Differential pulse voltammetric determination of methyl parathion based on multiwalled carbon nanotubes–poly(acrylamide) nanocomposite film modified electrode

International Nuclear Information System (INIS)

Zeng, Yanbo; Yu, Dajun; Yu, Yanyan; Zhou, Tianshu; Shi, Guoyue

2012-01-01

Highlights: ► A sensitive electrochemical sensor for detecting methyl parathion in environmental samples. ► The preparation, characterization and application of this novel MWCNTs–PAAM nanocomposite. ► The MWCNTs–PAAM/GCE exhibited a high adsorption and strong affinity toward methyl parathion. ► Wide linear range and low detection limit of the proposed method for detecting methyl parathion. - Abstract: A sensitive electrochemical differential pulse voltammetry method was developed for detecting methyl parathion based on multiwalled carbon nanotubes–poly(acrylamide) (MWCNTs–PAAM) nanocomposite film modified glassy carbon electrode. The novel MWCNTs–PAAM nanocomposite, containing high content of amide groups, was synthesized by PAAM polymerizing at the vinyl group functionalized MWCNTs surface using free radical polymerization. The MWCNTs–PAAM nanocomposite was characterized by Fourier transform infrared spectroscopy, thermal gravimetric analysis and scanning electron microscopy. Electrochemical behavior and interference studies of MWCNTs–PAAM/GCE for methyl parathion were investigated. The experimental results demonstrated that the MWCNTs–PAAM/GCE exhibited a high adsorption and strong affinity toward methyl parathion compared with some metal ions and nitroaromatic compounds, which exist in environmental samples. The adsorbed amount of methyl parathion on the MWCNTs–PAAM/GCE approached the equilibrium value upon 5 min adsorption time. A linear calibration curve for methyl parathion was obtained in the concentration range from 5.0 × 10 −9 to 1.0 × 10 −5 mol L −1 , with a detection limit of 2.0 × 10 −9 mol L −1 . The MWCNTs–PAAM/GCE was proved to be a suitable sensing tool for the fast, sensitive and selective determination of methyl parathion in environmental water samples.

Synthesis and luminescence properties of novel 4-(N-carbazole methyl) benzoyl hydrazone Schiff bases

International Nuclear Information System (INIS)

Guo Dongcai; Wu Panliang; Tan Hui; Xia Long; Zhou Wenhui

2011-01-01

4-(N-carbazole methyl) benzoyl hydrazine was synthesized on the basis of carbazole, and then nine novel carbazolyl acylhydrazone Schiff bases were synthesized by the condensation reaction between 4-(N-carbazole methyl) benzoyl hydrazine and the substituted benzaldehydes. The relationships between the substituted group types and the UV fluorescence spectral properties, as well as the fluorescence quantum yields of the title Schiff bases were also investigated. The results show that the introduction of both the donating and accepting electron groups causes various grade redshifts of the fluorescence characteristic emission peak of the title Schiff bases to occur.The fluorescence quantum yields of the title Schiff bases with the donating group are increased, and the highest fluorescence quantum yield is up to 0.703. - Highlights: → Nine novel Schiff bases have been designed and synthesized. → Introduction of the donating electron groups causes various grade red shifts of the fluorescence characteristic emission peak and the UV characteristic absorption peak of the synthesized Schiff bases. → Introduction of the donating electron groups causes the fluorescence quantum yields to be increased considerably. →Introduction of the accepting electron groups causes the fluorescence intensity and quantum yield of the synthesized Schiff bases to be reduced. → Fluorescence quantum yield of o-hydroxyl-substituted Schiff base is up to 0.703; this Schiff base is expected to be used as hole transport optical material.

The perception of self in birds.

Science.gov (United States)

Derégnaucourt, Sébastien; Bovet, Dalila

2016-10-01

The perception of self is an important topic in several disciplines such as ethology, behavioral ecology, psychology, developmental and cognitive neuroscience. Self-perception is investigated by experimentally exposing different species of animals to self-stimuli such as their own image, smell or vocalizations. Here we review more than one hundred studies using these methods in birds, a taxonomic group that exhibits a rich diversity regarding ecology and behavior. Exposure to self-image is the main method for studying self-recognition, while exposing birds to their own smell is generally used for the investigation of homing or odor-based kin discrimination. Self-produced vocalizations - especially in oscine songbirds - are used as stimuli for understanding the mechanisms of vocal coding/decoding both at the neural and at the behavioral levels. With this review, we highlight the necessity to study the perception of self in animals cross-modally and to consider the role of experience and development, aspects that can be easily monitored in captive populations of birds. Copyright © 2016 Elsevier Ltd. All rights reserved.

Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq)-A Method for High-Throughput Analysis of Differentially Methylated CCGG Sites in Plants with Large Genomes.

Science.gov (United States)

Chwialkowska, Karolina; Korotko, Urszula; Kosinska, Joanna; Szarejko, Iwona; Kwasniewski, Miroslaw

2017-01-01

Epigenetic mechanisms, including histone modifications and DNA methylation, mutually regulate chromatin structure, maintain genome integrity, and affect gene expression and transposon mobility. Variations in DNA methylation within plant populations, as well as methylation in response to internal and external factors, are of increasing interest, especially in the crop research field. Methylation Sensitive Amplification Polymorphism (MSAP) is one of the most commonly used methods for assessing DNA methylation changes in plants. This method involves gel-based visualization of PCR fragments from selectively amplified DNA that are cleaved using methylation-sensitive restriction enzymes. In this study, we developed and validated a new method based on the conventional MSAP approach called Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq). We improved the MSAP-based approach by replacing the conventional separation of amplicons on polyacrylamide gels with direct, high-throughput sequencing using Next Generation Sequencing (NGS) and automated data analysis. MSAP-Seq allows for global sequence-based identification of changes in DNA methylation. This technique was validated in Hordeum vulgare . However, MSAP-Seq can be straightforwardly implemented in different plant species, including crops with large, complex and highly repetitive genomes. The incorporation of high-throughput sequencing into MSAP-Seq enables parallel and direct analysis of DNA methylation in hundreds of thousands of sites across the genome. MSAP-Seq provides direct genomic localization of changes and enables quantitative evaluation. We have shown that the MSAP-Seq method specifically targets gene-containing regions and that a single analysis can cover three-quarters of all genes in large genomes. Moreover, MSAP-Seq's simplicity, cost effectiveness, and high-multiplexing capability make this method highly affordable. Therefore, MSAP-Seq can be used for DNA methylation analysis in crop

Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq—A Method for High-Throughput Analysis of Differentially Methylated CCGG Sites in Plants with Large Genomes

Directory of Open Access Journals (Sweden)

Karolina Chwialkowska

2017-11-01

Full Text Available Epigenetic mechanisms, including histone modifications and DNA methylation, mutually regulate chromatin structure, maintain genome integrity, and affect gene expression and transposon mobility. Variations in DNA methylation within plant populations, as well as methylation in response to internal and external factors, are of increasing interest, especially in the crop research field. Methylation Sensitive Amplification Polymorphism (MSAP is one of the most commonly used methods for assessing DNA methylation changes in plants. This method involves gel-based visualization of PCR fragments from selectively amplified DNA that are cleaved using methylation-sensitive restriction enzymes. In this study, we developed and validated a new method based on the conventional MSAP approach called Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq. We improved the MSAP-based approach by replacing the conventional separation of amplicons on polyacrylamide gels with direct, high-throughput sequencing using Next Generation Sequencing (NGS and automated data analysis. MSAP-Seq allows for global sequence-based identification of changes in DNA methylation. This technique was validated in Hordeum vulgare. However, MSAP-Seq can be straightforwardly implemented in different plant species, including crops with large, complex and highly repetitive genomes. The incorporation of high-throughput sequencing into MSAP-Seq enables parallel and direct analysis of DNA methylation in hundreds of thousands of sites across the genome. MSAP-Seq provides direct genomic localization of changes and enables quantitative evaluation. We have shown that the MSAP-Seq method specifically targets gene-containing regions and that a single analysis can cover three-quarters of all genes in large genomes. Moreover, MSAP-Seq's simplicity, cost effectiveness, and high-multiplexing capability make this method highly affordable. Therefore, MSAP-Seq can be used for DNA methylation

Calcium, snails, and birds: a case study

Directory of Open Access Journals (Sweden)

R. Mänd

2000-10-01

Full Text Available Recent studies have shown that wild birds breeding in acidified areas have difficulties with obtaining sufficient calcium for their eggshells, and that the cause of it is the shortage of land snails. Many birds have to search for Ca-rich snail shells on a daily basis during egg production. Molluscs depend on litter calcium, which has decreased due to acidification of the environment. Calcium limitation may be a widespread phenomenon also in non-acidified, naturally Ca-poor areas. The problem is that while in the latter areas the time for development of specific adaptations may have been sufficient, then in acidified areas, on the contrary, calcium shortage is a recent phenomenon. Therefore, since the extent of calcium limitation in non-acidified areas is hard to derive from observational data, experimental approach is needed. We provide experimental evidence that specific calcium deficit does affect reproductive traits also in the birds breeding in naturally base-poor habitats. Our study was conducted in a heterogeneous woodland area in Estonia containing deciduous forest patches as well as base-poor pine forest with low snail abundance. Ca supplementation, using snail shell and chicken eggshell fragments, was carried out for pied flycatchers and great tits. Extra calcium affected positively several reproductive traits like egg volume and eggshell thickness, start of breeding, and fledglings’ parameters. The negative relationship between calcium availability and lay-date suggests that birds adjust their breeding tactics to conditions of Ca deficiency, for example, by postponing laying.

First report of birds infection by intestinal parasites in Khorramabad, west Iran

OpenAIRE

Badparva, Ebrahim; Ezatpour, Behrouz; Azami, Mehdi; Badparva, Masoud

2014-01-01

Parasitic infections in birds are omnipresent, even when they occur in low amounts, may result in subclinical diseases. There aren’t any studies, based on Iranian data, investigating the prevalence of intestinal parasitic infections in some birds’ species. We conducted a cross-sectional study between December 2011 and December 2012. The fecal samples were taken from 451 birds including hen, turkey, sparrow, pigeon and decorative birds. The samples screened for intestinal parasitic infections ...

Resumes of the Bird mission

Science.gov (United States)

Lorenz, E.; Borwald, W.; Briess, K.; Kayal, H.; Schneller, M.; Wuensten, Herbert

2004-11-01

The DLR micro satellite BIRD (Bi-spectral Infra Red Detection) was piggy- back launched with the Indian Polar Satellite Launch Vehicle PSLV-C3 into a 570 km circular sun-synchronous orbit on 22 October 2001. The BIRD mission, fully funded by the DLR, answers topical technological and scientific questions related to the operation of a compact infra- red push-broom sensor system on board of a micro satellite and demonstrates new spacecraft bus technologies. BIRD mission control is conducted by DLR / GSOC in Oberpfaffenhofen. Commanding, data reception and data processing is performed via ground stations in Weilheim and Neustrelitz (Germany). The BIRD mission is a demonstrator for small satellite projects dedicated to the hazard detection and monitoring. In the year 2003 BIRD has been used in the ESA project FUEGOSAT to demonstrate the utilisation of innovative space technologies for fire risk management.

Induced release of a plant-defense volatile 'deceptively' attracts insect vectors to plants infected with a bacterial pathogen.

Directory of Open Access Journals (Sweden)

Rajinder S Mann

Full Text Available Transmission of plant pathogens by insect vectors is a complex biological process involving interactions between the plant, insect, and pathogen. Pathogen-induced plant responses can include changes in volatile and nonvolatile secondary metabolites as well as major plant nutrients. Experiments were conducted to understand how a plant pathogenic bacterium, Candidatus Liberibacter asiaticus (Las, affects host preference behavior of its psyllid (Diaphorina citri Kuwayama vector. D. citri were attracted to volatiles from pathogen-infected plants more than to those from non-infected counterparts. Las-infected plants were more attractive to D. citri adults than non-infected plants initially; however after feeding, psyllids subsequently dispersed to non-infected rather than infected plants as their preferred settling point. Experiments with Las-infected and non-infected plants under complete darkness yielded similar results to those recorded under light. The behavior of psyllids in response to infected versus non-infected plants was not influenced by whether or not they were carriers of the pathogen. Quantification of volatile release from non-infected and infected plants supported the hypothesis that odorants mediate psyllid preference. Significantly more methyl salicylate, yet less methyl anthranilate and D-limonene, was released by infected than non-infected plants. Methyl salicylate was attractive to psyllids, while methyl anthranilate did not affect their behavior. Feeding on citrus by D. citri adults also induced release of methyl salicylate, suggesting that it may be a cue revealing location of conspecifics on host plants. Infected plants were characterized by lower levels of nitrogen, phosphorus, sulfur, zinc, and iron, as well as, higher levels of potassium and boron than non-infected plants. Collectively, our results suggest that host selection behavior of D. citri may be modified by bacterial infection of plants, which alters release of

Induced Release of a Plant-Defense Volatile ‘Deceptively’ Attracts Insect Vectors to Plants Infected with a Bacterial Pathogen

Science.gov (United States)

Mann, Rajinder S.; Ali, Jared G.; Hermann, Sara L.; Tiwari, Siddharth; Pelz-Stelinski, Kirsten S.; Alborn, Hans T.; Stelinski, Lukasz L.

2012-01-01

Transmission of plant pathogens by insect vectors is a complex biological process involving interactions between the plant, insect, and pathogen. Pathogen-induced plant responses can include changes in volatile and nonvolatile secondary metabolites as well as major plant nutrients. Experiments were conducted to understand how a plant pathogenic bacterium, Candidatus Liberibacter asiaticus (Las), affects host preference behavior of its psyllid (Diaphorina citri Kuwayama) vector. D. citri were attracted to volatiles from pathogen-infected plants more than to those from non-infected counterparts. Las-infected plants were more attractive to D. citri adults than non-infected plants initially; however after feeding, psyllids subsequently dispersed to non-infected rather than infected plants as their preferred settling point. Experiments with Las-infected and non-infected plants under complete darkness yielded similar results to those recorded under light. The behavior of psyllids in response to infected versus non-infected plants was not influenced by whether or not they were carriers of the pathogen. Quantification of volatile release from non-infected and infected plants supported the hypothesis that odorants mediate psyllid preference. Significantly more methyl salicylate, yet less methyl anthranilate and D-limonene, was released by infected than non-infected plants. Methyl salicylate was attractive to psyllids, while methyl anthranilate did not affect their behavior. Feeding on citrus by D. citri adults also induced release of methyl salicylate, suggesting that it may be a cue revealing location of conspecifics on host plants. Infected plants were characterized by lower levels of nitrogen, phosphorus, sulfur, zinc, and iron, as well as, higher levels of potassium and boron than non-infected plants. Collectively, our results suggest that host selection behavior of D. citri may be modified by bacterial infection of plants, which alters release of specific headspace

Methylation of food commodities during fumigation with methyl bromide

International Nuclear Information System (INIS)

Starratt, A.N.; Bond, E.J.

1990-01-01

Sites of methylation in several commodities (wheat, oatmeal, peanuts, almonds, apples, oranges, maize, alfalfa and potatoes) during fumigation with 14 C-methyl bromide were studied. Differences were observed in levels of the major volatiles: methanol, dimethyl sulphide and methyl mercaptan, products of O- and S-methylation, resulting from treatment of the fumigated materials with 1N sodium hydroxide. In studies of maize and wheat, histidine was the amino acid which underwent the highest level of N-methylation. (author). 24 refs, 3 tabs

The Hungry Worm Feeds the Bird

NARCIS (Netherlands)

Onrust, J.; Piersma, T.

2017-01-01

Earthworms (Lumbricidae) are important prey for many birds. Based on theirown feeding ecology, earthworms can be separated into two ecotypes: the detritivoresthat feed on organic material and the geophages that feed on soil particlesand organic matter. Detritivores collect their food on the surface

Allele-Specific DNA Methylation Detection by Pyrosequencing®

DEFF Research Database (Denmark)

Kristensen, Lasse Sommer; Johansen, Jens Vilstrup; Grønbæk, Kirsten

2015-01-01

DNA methylation is an epigenetic modification that plays important roles in healthy as well as diseased cells, by influencing the transcription of genes. In spite the fact that human somatic cells are diploid, most of the currently available methods for the study of DNA methylation do not provide......-effective protocol for allele-specific DNA methylation detection based on Pyrosequencing(®) of methylation-specific PCR (MSP) products including a single nucleotide polymorphism (SNP) within the amplicon....

Aging in Birds.

Science.gov (United States)

Travin, D Y; Feniouk, B A

2016-12-01

Rodents are the most commonly used model organisms in studies of aging in vertebrates. However, there are species that may suit this role much better. Most birds (Aves), having higher rate of metabolism, live two-to-three times longer than mammals of the same size. This mini-review briefly covers several evolutionary, ecological, and physiological aspects that may contribute to the phenomenon of birds' longevity. The role of different molecular mechanisms known to take part in the process of aging according to various existing theories, e.g. telomere shortening, protection against reactive oxygen species, and formation of advanced glycation end-products is discussed. We also address some features of birds' aging that make this group unique and perspective model organisms in longevity studies.

Priority setting for bird conservation in Mexico: the role of the Important Bird Areas program

Science.gov (United States)

Ma. del Coro Arizmendi; Laura Marquez Valdelamar; Humberto Berlanga

2005-01-01

Many species in Mexico are threatened and in need of protection. At least seventy species are considered to be globally threatened, yet conservation actions have been scarce and not coordinated. In 1996 BirdLife International’s Important Bird Areas Program was initiated in Mexico to identify a network of the most important places in Mexico for birds, with the...

Effects of Patagonian pine forestry on native breeding birds

Directory of Open Access Journals (Sweden)

Moises Pescador

2014-12-01

Full Text Available Aim of the study: The objective is to assess the influences of the tree stand age and other forestry management practices on species richness, composition, and distribution of the Patagonian pine plantation bird assemblages. Area of Study: The work was carried out in forested plots of Ponderosa pine located at the Lanín National Park (Patagonia, Argentina.Material and Methods: Birds were sampled using 25 m fixed radius point counts, at four plots varying in age, management, and forest structure. Main Results: A total of 2090 individuals belonging to 34 bird species were observed, their numbers vary significantly depending on the different modes of plantation management. The population density of the 14 most abundant bird species was compared among the four plantation plots and ten species don’t show statistically significant differences in their population density among the different forest plots. The California Quail, the White-Crested Elaenia and the Southern House Wren showed higher densities in pine plantations with lower tree densities and fewer cutting treatments. The Diuca Finch had high densities in the younger plantations not subjected to any treatment. Research highlights: Most of these bird species are opportunistic and a few are found more regularly in these non-native woods than in other native forested or afforested areas. Our data suggest that a mixed scenario based on a mosaic of plantation with patches of native deciduous forest may help maximize the bird diversity in the management of northwestern Patagonian plantation landscapes.Keywords: Bird population; diversity; exotic plantations; Patagonia; tree-age.

Transcriptional analysis of liver from chickens with fast (meat bird), moderate (F1 layer x meat bird cross) and low (layer bird) growth potential.

Science.gov (United States)

Willson, Nicky-Lee; Forder, Rebecca E A; Tearle, Rick; Williams, John L; Hughes, Robert J; Nattrass, Greg S; Hynd, Philip I

2018-05-02

Divergent selection for meat and egg production in poultry has resulted in strains of birds differing widely in traits related to these products. Modern strains of meat birds can reach live weights of 2 kg in 35 d, while layer strains are now capable of producing more than 300 eggs per annum but grow slowly. In this study, RNA-Seq was used to investigate hepatic gene expression between three groups of birds with large differences in growth potential; meat bird, layer strain as well as an F1 layer x meat bird. The objective was to identify differentially expressed (DE) genes between all three strains to elucidate biological factors underpinning variations in growth performance. RNA-Seq analysis was carried out on total RNA extracted from the liver of meat bird (n = 6), F1 layer x meat bird cross (n = 6) and layer strain (n = 6), males. Differential expression of genes were considered significant at P layers (19%), 2935 DE between meat birds and the cross (9.6%) and 493 DE between the cross and layers (1.6%). Comparisons between the three groups identified 155 significant DE genes. Gene ontology (GO) enrichment and Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway analysis of the 155 DE genes showed the FoxO signalling pathway was most enriched (P = 0.001), including genes related to cell cycle regulation and insulin signalling. Significant GO terms included 'positive regulation of glucose import' and 'cellular response to oxidative stress', which is also consistent with FoxOs regulation of glucose metabolism. There were high correlations between FoxO pathway genes and bodyweight, as well as genes related to glycolysis and bodyweight. This study revealed large transcriptome differences between meat and layer birds. There was significant evidence implicating the FoxO signalling pathway (via cell cycle regulation and altered metabolism) as an active driver of growth variations in chicken. Functional analysis of the FoxO genes is required to

Bird interactions with offshore oil and gas platforms: review of impacts and monitoring techniques.

Science.gov (United States)

Ronconi, Robert A; Allard, Karel A; Taylor, Philip D

2015-01-01

Thousands of oil and gas platforms are currently operating in offshore waters globally, and this industry is expected to expand in coming decades. Although the potential environmental impacts of offshore oil and gas activities are widely recognized, there is limited understanding of their impacts on migratory and resident birds. A literature review identified 24 studies and reports of bird-platform interactions, most being qualitative and half having been peer-reviewed. The most frequently observed effect, for seabirds and landbirds, is attraction and sometimes collisions associated with lights and flares; episodic events have caused the deaths of hundreds or even thousands of birds. Though typically unpredictable, anecdotally, it is known that poor weather, such as fog, precipitation and low cloud cover, can exacerbate the effect of nocturnal attraction to lights, especially when coincidental with bird migrations. Other effects include provision of foraging and roosting opportunities, increased exposure to oil and hazardous environments, increased exposure to predators, or repulsion from feeding sites. Current approaches to monitoring birds at offshore platforms have focused on observer-based methods which can offer species-level bird identification, quantify seasonal patterns of relative abundance and distribution, and document avian mortality events and underlying factors. Observer-based monitoring is time-intensive, limited in spatial and temporal coverage, and suffers without clear protocols and when not conducted by trained, independent observers. These difficulties are exacerbated because deleterious bird-platform interaction is episodic and likely requires the coincidence of multiple factors (e.g., darkness, cloud, fog, rain conditions, occurrence of birds in vicinity). Collectively, these considerations suggest a need to implement supplemental systems for monitoring bird activities around offshore platforms. Instrument-based approaches, such as radar

Methylated site display (MSD)-AFLP, a sensitive and affordable method for analysis of CpG methylation profiles.

Science.gov (United States)

Aiba, Toshiki; Saito, Toshiyuki; Hayashi, Akiko; Sato, Shinji; Yunokawa, Harunobu; Maruyama, Toru; Fujibuchi, Wataru; Kurita, Hisaka; Tohyama, Chiharu; Ohsako, Seiichiroh

2017-03-09

It has been pointed out that environmental factors or chemicals can cause diseases that are developmental in origin. To detect abnormal epigenetic alterations in DNA methylation, convenient and cost-effective methods are required for such research, in which multiple samples are processed simultaneously. We here present methylated site display (MSD), a unique technique for the preparation of DNA libraries. By combining it with amplified fragment length polymorphism (AFLP) analysis, we developed a new method, MSD-AFLP. Methylated site display libraries consist of only DNAs derived from DNA fragments that are CpG methylated at the 5' end in the original genomic DNA sample. To test the effectiveness of this method, CpG methylation levels in liver, kidney, and hippocampal tissues of mice were compared to examine if MSD-AFLP can detect subtle differences in the levels of tissue-specific differentially methylated CpGs. As a result, many CpG sites suspected to be tissue-specific differentially methylated were detected. Nucleotide sequences adjacent to these methyl-CpG sites were identified and we determined the methylation level by methylation-sensitive restriction endonuclease (MSRE)-PCR analysis to confirm the accuracy of AFLP analysis. The differences of the methylation level among tissues were almost identical among these methods. By MSD-AFLP analysis, we detected many CpGs showing less than 5% statistically significant tissue-specific difference and less than 10% degree of variability. Additionally, MSD-AFLP analysis could be used to identify CpG methylation sites in other organisms including humans. MSD-AFLP analysis can potentially be used to measure slight changes in CpG methylation level. Regarding the remarkable precision, sensitivity, and throughput of MSD-AFLP analysis studies, this method will be advantageous in a variety of epigenetics-based research.

Prediction of disease-related genes based on weighted tissue-specific networks by using DNA methylation.

Science.gov (United States)

Li, Min; Zhang, Jiayi; Liu, Qing; Wang, Jianxin; Wu, Fang-Xiang

2014-01-01

Predicting disease-related genes is one of the most important tasks in bioinformatics and systems biology. With the advances in high-throughput techniques, a large number of protein-protein interactions are available, which make it possible to identify disease-related genes at the network level. However, network-based identification of disease-related genes is still a challenge as the considerable false-positives are still existed in the current available protein interaction networks (PIN). Considering the fact that the majority of genetic disorders tend to manifest only in a single or a few tissues, we constructed tissue-specific networks (TSN) by integrating PIN and tissue-specific data. We further weighed the constructed tissue-specific network (WTSN) by using DNA methylation as it plays an irreplaceable role in the development of complex diseases. A PageRank-based method was developed to identify disease-related genes from the constructed networks. To validate the effectiveness of the proposed method, we constructed PIN, weighted PIN (WPIN), TSN, WTSN for colon cancer and leukemia, respectively. The experimental results on colon cancer and leukemia show that the combination of tissue-specific data and DNA methylation can help to identify disease-related genes more accurately. Moreover, the PageRank-based method was effective to predict disease-related genes on the case studies of colon cancer and leukemia. Tissue-specific data and DNA methylation are two important factors to the study of human diseases. The same method implemented on the WTSN can achieve better results compared to those being implemented on original PIN, WPIN, or TSN. The PageRank-based method outperforms degree centrality-based method for identifying disease-related genes from WTSN.

CEPF Western Ghats Special Series: Birds of Meghamalai Landscape, southern Western Ghats, India

Directory of Open Access Journals (Sweden)

S. Babu

2013-11-01

Full Text Available Species composition of birds in the Meghamalai landscape with respect to threat status, foraging guild and biome-restricted assemblage were assessed based on data collected opportunistically during two research projects: first one spanned 36 months (2006-2009 the other for 18 months (June 2011-December 2012 and from literature published during mid 1940s. A total of 254 species belonging to 55 families and 18 orders were recorded, which include 11% (18 of 159 species of globally threatened birds reported from India, 88% (14 of 16 species of endemic birds of the Western Ghats and a higher proportion of biome-restricted species (56% of Indo-Malayan tropical dry zone and 80% of Indian Peninsula inhabited by tropical moist forest birds. Among the foraging guilds, insectivorous birds (51% dominated the bird composition followed by frugivores and carnivores. The present data shows that Meghamalai deserves to be recognized as an Important Bird Area of International Bird Conservation Network. This would enhance the conservation prospects of the landscape in a long run. The present study also highlights the importance of the area for conserving the birds of the Western Ghats.

Understanding how birds navigate

DEFF Research Database (Denmark)

Solov'yov, Ilia; Schulten, Klaus

2009-01-01

A proposed model for migrating birds' magnetic sense can withstand moderate orientational disorder of a key protein in the eye.......A proposed model for migrating birds' magnetic sense can withstand moderate orientational disorder of a key protein in the eye....

75 FR 18764 - Migratory Bird Subsistence Harvest in Alaska; Harvest Regulations for Migratory Birds in Alaska...

Science.gov (United States)

2010-04-13

... rulemaking, accomplishments since the Migratory Bird Treaties with Canada and Mexico were amended, and a... the spring and summer months. The Canada and Mexico migratory bird treaties were recently amended for... rural Alaska. The amendments to the Migratory Bird Treaties with Canada and Mexico recognize the...

High resolution melt curve analysis based on methylation status for human semen identification.

Science.gov (United States)

Fachet, Caitlyn; Quarino, Lawrence; Karnas, K Joy

2017-03-01

A high resolution melt curve assay to differentiate semen from blood, saliva, urine, and vaginal fluid based on methylation status at the Dapper Isoform 1 (DACT1) gene was developed. Stains made from blood, saliva, urine, semen, and vaginal fluid were obtained from volunteers and DNA was isolated using either organic extraction (saliva, urine, and vaginal fluid) or Chelex ® 100 extraction (blood and semen). Extracts were then subjected to bisulfite modification in order to convert unmethylated cytosines to uracil, consequently creating sequences whose amplicons have melt curves that vary depending on their initial methylation status. When primers designed to amplify the promoter region of the DACT1 gene were used, DNA from semen samples was distinguishable from other fluids by a having a statistically significant lower melting temperature. The assay was found to be sperm-significant since semen from a vasectomized man produced a melting temperature similar to the non-semen body fluids. Blood and semen stains stored up to 5 months and tested at various intervals showed little variation in melt temperature indicating the methylation status was stable during the course of the study. The assay is a more viable method for forensic science practice than most molecular-based methods for body fluid stain identification since it is time efficient and utilizes instrumentation common to forensic biology laboratories. In addition, the assay is advantageous over traditional presumptive chemical methods for body fluid identification since results are confirmatory and the assay offers the possibility of multiplexing which may test for multiple body fluids simultaneously.

Methylation screening of the TGFBI promoter in human lung and prostate cancer by methylation-specific PCR

International Nuclear Information System (INIS)

Shah, Jinesh N; Shao, Genze; Hei, Tom K; Zhao, Yongliang

2008-01-01

Hypermethylation of the TGFBI promoter has been shown to correlate with decreased expression of this gene in human tumor cell lines. In this study, we optimized a methylation-specific polymerase chain reaction (MSP) method and investigated the methylation status of the TGFBI promoter in human lung and prostate cancer specimens. Methylation-specific primers were designed based on the methylation profiles of the TGFBI promoter in human tumor cell lines, and MSP conditions were optimized for accurate and efficient amplification. Genomic DNA was isolated from lung tumors and prostatectomy tissues of prostate cancer patients, bisulfite-converted, and analyzed by MSP. Among 50 lung cancer samples, 44.0% (22/50) harbored methylated CpG sites in the TGFBI promoter. An analysis correlating gene methylation status with clinicopathological cancer features revealed that dense methylation of the TGFBI promoter was associated with a metastatic phenotype, with 42.9% (6/14) of metastatic lung cancer samples demonstrating dense methylation vs. only 5.6% (2/36) of primary lung cancer samples (p < 0.05). Similar to these lung cancer results, 82.0% (41/50) of prostate cancer samples harbored methylated CpG sites in the TGFBI promoter, and dense methylation of the promoter was present in 38.9% (7/18) of prostate cancer samples with the feature of locoregional invasiveness vs. only 19.4% (6/31) of prostate cancer samples without locoregional invasiveness (p < 0.05). Furthermore, promoter hypermethylation correlated with highly reduced expression of the TGFBI gene in human lung and prostate tumor cell lines. We successfully optimized a MSP method for the precise and efficient screening of TGFBI promoter methylation status. Dense methylation of the TGFBI promoter correlated with the extent of TGFBI gene silencing in tumor cell lines and was related to invasiveness of prostate tumors and metastatic status of lung cancer tumors. Thus, TGFBI promoter methylation can be used as a potential

The ornithologist Alfred Russel Wallace and the controversy surrounding the dinosaurian origin of birds.

Science.gov (United States)

Ibrahim, Nizar; Kutschera, Ulrich

2013-12-01

Over many years of his life, the British naturalist Alfred Russel Wallace (1823-1913) explored the tropical forests of Malaysia, collecting numerous specimens, including hundreds of birds, many of them new to science. Subsequently, Wallace published a series of papers on systematic ornithology, and discovered a new species on top of a volcano on Ternate, where he wrote, in 1858, his famous essay on natural selection. Based on this hands-on experience, and an analysis of an Archaeopteryx fossil, Wallace suggested that birds may have descended from dinosaurian ancestors. Here, we describe the "dinosaur-bird hypothesis" that originated with the work of Thomas H. Huxley (1825-1895). We present the strong evidence linking theropod dinosaurs to birds, and briefly outline the long and ongoing controversy around this concept. Dinosaurs preserving plumage, nesting sites and trace fossils provide overwhelming evidence for the dinosaurian origin of birds. Based on these recent findings of paleontological research, we conclude that extant birds indeed descended, with some modifications, from small, Mesozoic theropod dinosaurs. In the light of Wallace's view of bird origins, we critically evaluate recent opposing views to this idea, including Ernst Mayr's (1904-2005) arguments against the "dinosaur-bird hypothesis", and document that this famous ornithologist was not correct in his assessment of this important aspect of vertebrate evolution.

Unsteady Aerodynamics of Flapping Wing of a Bird

Directory of Open Access Journals (Sweden)

M. Agoes Moelyadi

2013-04-01

Full Text Available The unsteady flow behavior and time-dependent aerodynamic characteristics of the flapping motion of a bird’s wing were investigated using a computational method. During flapping, aerodynamic interactions between bird wing surfaces and surrounding flow may occur, generating local time-dependent flow changes in the flow field and aerodynamic load of birds. To study the effect of flapping speed on unsteady aerodynamic load, two kinds of computational simulations were carried out, namely a quasi-steady and an unsteady simulation. To mimic the movement of the down-stroke and the upstroke of a bird, the flapping path accorded to a sinus function, with the wing attitude changing in dihedral angle and time. The computations of time-dependent viscous flow were based on the solution of the Reynolds Averaged Navier-Stokes equations by applying the k-e turbulence model. In addition, the discretization for the computational domain around the model used multi-block structured grid to provide more accuracy in capturing viscous flow, especially in the vicinity of the wing and body surfaces, to obtain a proper wing-body geometry model. For this research, the seagull bird was chosen, which has high aspect ratio wings with pointed wing-tips and a high camber wing section. The results include mesh movement, velocity contours as well as aerodynamic coefficients of the flapping motion of the bird at various flapping frequencies.

AT base pair anions versus (9-methyl-A)(1-methyl-T) base pair anions.

Science.gov (United States)

Radisic, Dunja; Bowen, Kit H; Dabkowska, Iwona; Storoniak, Piotr; Rak, Janusz; Gutowski, Maciej

2005-05-04

The anionic base pairs of adenine and thymine, (AT)(-), and 9-methyladenine and 1-methylthymine, (MAMT)(-), have been investigated both theoretically and experimentally in a complementary, synergistic study. Calculations on (AT)(-) found that it had undergone a barrier-free proton transfer (BFPT) similar to that seen in other dimer anion systems and that its structural configuration was neither Watson-Crick (WC) nor Hoogsteen (HS). The vertical detachment energy (VDE) of (AT)(-) was determined by anion photoelectron spectroscopy and found to be in agreement with the VDE value predicted by theory for the BFPT mechanism. An AT pair in DNA is structurally immobilized into the WC configuration, in part, by being bonded to the sugars of the double helix. This circumstance was mimicked by methylating the sites on both A and T where these sugars would have been tied, viz., 9-methyladenine and 1-methylthymine. Calculations found no BFPT in (MAMT)(-) and a resulting (MAMT)(-) configuration that was either HS or WC, with the configurations differing in stability by ca. 2 kcal/mol. The photoelectron spectrum of (MAMT)(-) occurred at a completely different electron binding energy than had (AT)(-). Moreover, the VDE value of (MAMT)(-) was in agreement with that predicted by theory. The configuration of (MAMT)(-) and its lack of electron-induced proton transfer are inter-related. While there may be other pathways for electron-induced DNA alterations, BFPT in the WC/HS configurations of (AT)(-) is not feasible.

AT Base Pair Anions vs. (9-methyl-A)(1-methyl-T) Base Pair Anions

International Nuclear Information System (INIS)

Radisic, Dunja; Bowen, Kit H.; Dabkowska, Iwona; Storoniak, Piotr; Rak, Janusz; Gutowski, Maciej S.

2005-01-01

The anionic base pairs of adenine and thymine, (AT)-, and 9-methyladenine and 1-methylthymine, (MAMT)-, have been investigated both theoretically and experimentally in a complementary, synergistic study. Calculations on (AT)- found that it had undergone a barrier-free proton transfer (BFPT) similar to that seen in other dimer anion systems and that its structural configuration that was neither Watson-Crick (WC) nor Hoogsteen (HS). The vertical detachment energy (VDE) of (AT)- was determined by anion photoelectron spectroscopy and found to be in agreement with the VDE value predicted by theory for the BFPT mechanism. An AT pair in DNA is structurally immobilized into the WC configuration, in part, by being bonded to the sugars of the double helix. This circumstance was mimicked by methylating the sites on both A and T where these sugars would have been tied, viz., 9-methyladenine and 1-methylthymine. Calculations found no BFPT in (MAMT)- and a resulting (MAMT)- configuration that wa s either HS or WC, with the configurations differing in stability by ca. 2 kcal/mol. The photoelectron spectrum of (MAMT)- occurred at a completely different electron binding energy than had (AT)-. Moreover, the VDE value of (MAMT)- was in agreement with that predicted by theory. The configuration of (MAMT)- and its lack of electron-induced proton transfer are inter-related. While there may be other pathways for electron-induced damage, BFPT in the WC/HS configurations of (AT)- is not feasible

75 FR 3888 - Migratory Bird Subsistence Harvest in Alaska; Harvest Regulations for Migratory Birds in Alaska...

Science.gov (United States)

2010-01-25

...-0082; 91200-1231-9BPP-L2] RIN 1018-AW67 Migratory Bird Subsistence Harvest in Alaska; Harvest Regulations for Migratory Birds in Alaska During the 2010 Season AGENCY: Fish and Wildlife Service, Interior... Service, are reopening the public comment period on our proposed rule to establish migratory bird...

Differential pulse voltammetric determination of methyl parathion based on multiwalled carbon nanotubes-poly(acrylamide) nanocomposite film modified electrode

Energy Technology Data Exchange (ETDEWEB)

Zeng, Yanbo [Department of Chemistry and Shanghai Key Laboratory of Green Chemistry and Chemical Process, East China Normal University, 3663 Zhongshan Road(N), Shanghai, 200062 (China); College of Biological, Chemical Sciences and Engineering, Jiaxing University, Jiaxing 314001 (China); Yu, Dajun; Yu, Yanyan [Department of Chemistry and Shanghai Key Laboratory of Green Chemistry and Chemical Process, East China Normal University, 3663 Zhongshan Road(N), Shanghai, 200062 (China); Zhou, Tianshu [Department of Environmental Science, East China Normal University, 3663 Zhongshan Road(N), Shanghai, 200062 (China); Shi, Guoyue, E-mail: gyshi@chem.ecnu.edu.cn [Department of Chemistry and Shanghai Key Laboratory of Green Chemistry and Chemical Process, East China Normal University, 3663 Zhongshan Road(N), Shanghai, 200062 (China)

2012-05-30

Highlights: Black-Right-Pointing-Pointer A sensitive electrochemical sensor for detecting methyl parathion in environmental samples. Black-Right-Pointing-Pointer The preparation, characterization and application of this novel MWCNTs-PAAM nanocomposite. Black-Right-Pointing-Pointer The MWCNTs-PAAM/GCE exhibited a high adsorption and strong affinity toward methyl parathion. Black-Right-Pointing-Pointer Wide linear range and low detection limit of the proposed method for detecting methyl parathion. - Abstract: A sensitive electrochemical differential pulse voltammetry method was developed for detecting methyl parathion based on multiwalled carbon nanotubes-poly(acrylamide) (MWCNTs-PAAM) nanocomposite film modified glassy carbon electrode. The novel MWCNTs-PAAM nanocomposite, containing high content of amide groups, was synthesized by PAAM polymerizing at the vinyl group functionalized MWCNTs surface using free radical polymerization. The MWCNTs-PAAM nanocomposite was characterized by Fourier transform infrared spectroscopy, thermal gravimetric analysis and scanning electron microscopy. Electrochemical behavior and interference studies of MWCNTs-PAAM/GCE for methyl parathion were investigated. The experimental results demonstrated that the MWCNTs-PAAM/GCE exhibited a high adsorption and strong affinity toward methyl parathion compared with some metal ions and nitroaromatic compounds, which exist in environmental samples. The adsorbed amount of methyl parathion on the MWCNTs-PAAM/GCE approached the equilibrium value upon 5 min adsorption time. A linear calibration curve for methyl parathion was obtained in the concentration range from 5.0 Multiplication-Sign 10{sup -9} to 1.0 Multiplication-Sign 10{sup -5} mol L{sup -1}, with a detection limit of 2.0 Multiplication-Sign 10{sup -9} mol L{sup -1}. The MWCNTs-PAAM/GCE was proved to be a suitable sensing tool for the fast, sensitive and selective determination of methyl parathion in environmental water samples.

Bird on a (live) wire

Energy Technology Data Exchange (ETDEWEB)

Farr, M.

2003-09-30

Bird mortality as a result of contact with power lines is discussed. U. S. statistics are cited, according to which 174 million birds annually die as a result of contact with power lines, specifically when birds touch two phases of current at the same time. Raptors are particularly vulnerable to power-line electrocution due to their habit of perching on the highest vantage point available as they survey the ground for prey. Hydro lines located in agricultural areas, with bodies of water on one side and fields on the other, also obstruct flight of waterfowl as dusk and dawn when visibility is low. Various solutions designed to minimize the danger to birds are discussed. Among these are: changing the configuration of wires and cross arms to make them more visible to birds in flight and less tempting as perches, and adding simple wire markers such as flags, balloons, and coloured luminescent clips that flap and twirl in the wind. There is no evidence of any coordinated effort to deal with this problem in Ontario. However, a report is being prepared for submission to Environment Canada outlining risks to birds associated with the growing number of wind turbine power generators (negligible compared with power lines and communications towers), and offering suggestions on remedial measures. The Fatal Light Awareness Program (FLAP) also plans to lobby the Canadian Wildlife Service to discuss the possibility of coordinating efforts to monitor, educate about and ultimately reduce this form of bird mortality.

Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq)—A Method for High-Throughput Analysis of Differentially Methylated CCGG Sites in Plants with Large Genomes

Science.gov (United States)

Chwialkowska, Karolina; Korotko, Urszula; Kosinska, Joanna; Szarejko, Iwona; Kwasniewski, Miroslaw

2017-01-01

Epigenetic mechanisms, including histone modifications and DNA methylation, mutually regulate chromatin structure, maintain genome integrity, and affect gene expression and transposon mobility. Variations in DNA methylation within plant populations, as well as methylation in response to internal and external factors, are of increasing interest, especially in the crop research field. Methylation Sensitive Amplification Polymorphism (MSAP) is one of the most commonly used methods for assessing DNA methylation changes in plants. This method involves gel-based visualization of PCR fragments from selectively amplified DNA that are cleaved using methylation-sensitive restriction enzymes. In this study, we developed and validated a new method based on the conventional MSAP approach called Methylation Sensitive Amplification Polymorphism Sequencing (MSAP-Seq). We improved the MSAP-based approach by replacing the conventional separation of amplicons on polyacrylamide gels with direct, high-throughput sequencing using Next Generation Sequencing (NGS) and automated data analysis. MSAP-Seq allows for global sequence-based identification of changes in DNA methylation. This technique was validated in Hordeum vulgare. However, MSAP-Seq can be straightforwardly implemented in different plant species, including crops with large, complex and highly repetitive genomes. The incorporation of high-throughput sequencing into MSAP-Seq enables parallel and direct analysis of DNA methylation in hundreds of thousands of sites across the genome. MSAP-Seq provides direct genomic localization of changes and enables quantitative evaluation. We have shown that the MSAP-Seq method specifically targets gene-containing regions and that a single analysis can cover three-quarters of all genes in large genomes. Moreover, MSAP-Seq's simplicity, cost effectiveness, and high-multiplexing capability make this method highly affordable. Therefore, MSAP-Seq can be used for DNA methylation analysis in crop

Nepal’s National Red List of Birds

Directory of Open Access Journals (Sweden)

Carol Inskipp

2017-01-01

Full Text Available The main objectives of the Nepal National Bird Red Data Book were to provide comprehensive and up-to-date accounts of all the bird species found in Nepal, assess their status applying the IUCN Guidelines at Regional Levels, identify threats to all bird species and recommend the most practical measures for their conservation.  It is hoped that the Bird RDB will help Nepal achieve the Convention on Biological Diversity target of preventing the extinction of known threatened species and improving their conservation status.  As population changes of Nepal’s birds have been studied for only a few species, assessments of species’ national status were mainly made by assessing changes in distribution.  Species distribution maps were produced for all of Nepal’s bird species except vagrants and compared to maps that were produced in 1991 using the same mapping system.  Of the 878 bird species recorded, 168 species (19% were assessed as nationally threatened. These comprise 68 (40% Critically Endangered species, 38 (23% Endangered species and 62 (37% Vulnerable species.  A total of 62 species was considered Near Threatened and 22 species Data Deficient.  Over 55% of the threatened birds are lowland grassland specialists, 25% are wetland birds and 24% tropical and sub-tropical broadleaved forest birds.  Larger birds appear to be more threatened than smaller birds with 98 (25% non-passerine species threatened and 67 (14% passerine species.  Habitat loss, degradation and fragmentation are the most important threats.  Other threats include chemical poisoning, over-exploitation, climate change, hydropower, invasive species, intensification of agriculture, disturbance, and limited conservation measures and research.  Measures to address these threats are described.  It was also concluded that re-assessments of the status of certain bird groups carried out every five years and the setting up of a national online system for storing and reporting

Bird Flu (Avian Influenza)

Science.gov (United States)

Bird flu (avian influenza) Overview Bird flu is caused by a type of influenza virus that rarely infects humans. More than a ... for Disease Control and Prevention estimates that seasonal influenza is responsible for ... heat destroys avian viruses, cooked poultry isn't a health threat. ...

Nanoscale magnetoreceptors in birds

DEFF Research Database (Denmark)

Solov'yov, Ilia; Greiner, Walter

2012-01-01

The Earth's magnetic field provides an important source of directional information for many living organisms, especially birds, but the sensory receptor responsible for magnetic field detection still has to be identified. Recently, magnetic iron oxide particles were detected in dendritic endings...... field, by a bird....

Bird populations as sentinels of endocrine disrupting chemicals.

Science.gov (United States)

Carere, Claudio; Costantini, David; Sorace, Alberto; Santucci, Daniela; Alleva, Enrico

2010-01-01

Exposure to endocrine disrupting chemicals (EDCs) is a widespread phenomenon in nature. Although the mechanisms of action of EDCs are actively studied, the consequences of endocrine disruption (ED) at the population level and the adaptations evolved to cope with chronic EDC exposure have been overlooked. Birds probably represent the animal taxon most successfully adapted to synanthropic life. Hence, birds share with humans a similar pattern of exposure to xenobiotics. In this article, we review case studies on patterns of behaviour that deviate from the expectation in bird species exposed to EDCs. We provide behavioural and ecological parameters to be used as endpoints of ED; methodological requirements and caveats based on species-specific life-history traits, behavioural repertoires, developmental styles, and possibility of captive breeding; a list of species that could be used as sentinels to assess the quality of man-made environment.

LINKING THE COMMUNITY IN THE MIGRATORY RAPTOR BIRDS COUNTS (BIRDS: FALCONIFORM IN EASTERN CUBA

Directory of Open Access Journals (Sweden)

Naylien Barreda-Leyva

2010-09-01

Full Text Available Through interviews, workshops, conferences and sociocultural meeting, is carried out the linking of three communities from the high area of Gran Piedra to the studies and counts of migratory raptors birds developed in the east of Cuba. These small communities are near to one of the two points of count of migratory raptors of the region. During the interviews we could verify that some residents possessed basic knowledge on the raptors birds, but didn't know about the migration of these birds. 100 % of the interviewees coincided in that the main local problematic is the loss of birds of pen due to the attack of raptors, specifically the endemic Cuban threatened Accipitter gundlachi. The workshops were able to create spaces of exchange and reflection about the importance of the raptor’s conservation in the region. This linkage of cooperation and increasing awareness, allow an approaching between the communitarians and the researchers and volunteers that work in the counts of raptor birds in Cuba and the feedback of the scientific knowledge with the popular knowledge.

Opportunistic nectar-feeding birds are effective pollinators of bird-flowers from Canary Islands: experimental evidence from Isoplexis canariensis (Scrophulariaceae).

Science.gov (United States)

Rodríguez-Rodríguez, María C; Valido, Alfredo

2008-11-01

Insular floras, characterized by simple pollination networks, sometimes include novel mutualistic agents such as nonspecialist nectarivores. In this study we confirmed the effective pollination of Isoplexis canariensis by opportunistic nectar-feeding birds in Tenerife, Canary Islands, Spain. This plant is among the ornithophilous species of the Canarian flora that lack past and present specialist nectarivorous birds. Experimental hand pollinations revealed self-compatibility, but cross-pollinated flowers produced a greater percentage of viable seeds than self-pollinated ones. Flowers were visited by five species of birds (Phylloscopus canariensis, Parus caeruleus, Sylvia melanocephala, Serinus canarius, and Fringilla coelebs) and by the endemic lizard (Gallotia galloti, Lacertidae). Insect pollination was absent, and the few insect visitors acted as nectar thieves or secondary nectar robbers. Birds represented 93.1% of total visits, with the Canarian Chiffchaff, Ph. canariensis, being the most frequent visitor. Flowers visited by birds set more, larger, and heavier fruit than flowers from which birds were excluded. Bird visitation also enhanced seed viability. These results demonstrate the active role of these opportunistic birds as effective pollinators of this Canarian bird-flower species. Further, the results reveal the need to consider the effect of these birds on the evolution of ornithophilous floral traits in absence of specialist nectarivores.

Sex Reversal in Birds.

Science.gov (United States)

Major, Andrew T; Smith, Craig A

2016-01-01

Sexual differentiation in birds is controlled genetically as in mammals, although the sex chromosomes are different. Males have a ZZ sex chromosome constitution, while females are ZW. Gene(s) on the sex chromosomes must initiate gonadal sex differentiation during embryonic life, inducing paired testes in ZZ individuals and unilateral ovaries in ZW individuals. The traditional view of avian sexual differentiation aligns with that expounded for other vertebrates; upon sexual differentiation, the gonads secrete sex steroid hormones that masculinise or feminise the rest of the body. However, recent studies on naturally occurring or experimentally induced avian sex reversal suggest a significant role for direct genetic factors, in addition to sex hormones, in regulating sexual differentiation of the soma in birds. This review will provide an overview of sex determination in birds and both naturally and experimentally induced sex reversal, with emphasis on the key role of oestrogen. We then consider how recent studies on sex reversal and gynandromorphic birds (half male:half female) are shaping our understanding of sexual differentiation in avians and in vertebrates more broadly. Current evidence shows that sexual differentiation in birds is a mix of direct genetic and hormonal mechanisms. Perturbation of either of these components may lead to sex reversal. © 2016 S. Karger AG, Basel.

Birds and polycyclic aromatic hydrocarbons

Science.gov (United States)

Albers, P.H.

2006-01-01

Polycyclic aromatic hydrocarbons (PAH) are present throughout the global environment and are produced naturally and by activities of humans. Effects of PAH on birds have been determined by studies employing egg injection, egg immersion, egg shell application, single and multiple oral doses, subcutaneous injection, and chemical analysis of field-collected eggs and tissue. The four-to six-ring aromatic compounds are the most toxic to embryos, young birds, and adult birds. For embryos, effects include death, developmental abnormalities, and a variety of cellular and biochemical responses. For adult and young birds, effects include reduced egg production and hatching, increased clutch or brood abandonment, reduced growth, increased organweights, and a variety of biochemical responses. Trophic level accumulation is unlikely. Environmental exposure to PAH in areas of high human population or habitats affected by recent petroleum spills might be sufficient to adversely affect reproduction. Evidence of long-term effects of elevated concentrations of environmental PAH on bird populations is very limited and the mechanisms of effect are unclear.

MethylMix 2.0: an R package for identifying DNA methylation genes.

Science.gov (United States)

Cedoz, Pierre-Louis; Prunello, Marcos; Brennan, Kevin; Gevaert, Olivier

2018-04-14

DNA methylation is an important mechanism regulating gene transcription, and its role in carcinogenesis has been extensively studied. Hyper and hypomethylation of genes is a major mechanism of gene expression deregulation in a wide range of diseases. At the same time, high-throughput DNA methylation assays have been developed generating vast amounts of genome wide DNA methylation measurements. We developed MethylMix, an algorithm implemented in R to identify disease specific hyper and hypomethylated genes. Here we present a new version of MethylMix that automates the construction of DNA-methylation and gene expression datasets from The Cancer Genome Atlas (TCGA). More precisely, MethylMix 2.0 incorporates two major updates: the automated downloading of DNA methylation and gene expression datasets from TCGA and the automated preprocessing of such datasets: value imputation, batch correction and CpG sites clustering within each gene. The resulting datasets can subsequently be analyzed with MethylMix to identify transcriptionally predictive methylation states. We show that the Differential Methylation Values created by MethylMix can be used for cancer subtyping. olivier.gevaert@stanford.edu. https://bioconductor.org/packages/release/bioc/manuals/MethylMix/man/MethylMix.pdf. MethylMix 2.0 was implemented as an R package and is available in bioconductor.

A low false negative filter for detecting rare bird species from short video segments using a probable observation data set-based EKF method.

Science.gov (United States)

Song, Dezhen; Xu, Yiliang

2010-09-01

We report a new filter to assist the search for rare bird species. Since a rare bird only appears in front of a camera with very low occurrence (e.g., less than ten times per year) for very short duration (e.g., less than a fraction of a second), our algorithm must have a very low false negative rate. We verify the bird body axis information with the known bird flying dynamics from the short video segment. Since a regular extended Kalman filter (EKF) cannot converge due to high measurement error and limited data, we develop a novel probable observation data set (PODS)-based EKF method. The new PODS-EKF searches the measurement error range for all probable observation data that ensures the convergence of the corresponding EKF in short time frame. The algorithm has been extensively tested using both simulated inputs and real video data of four representative bird species. In the physical experiments, our algorithm has been tested on rock pigeons and red-tailed hawks with 119 motion sequences. The area under the ROC curve is 95.0%. During the one-year search of ivory-billed woodpeckers, the system reduces the raw video data of 29.41 TB to only 146.7 MB (reduction rate 99.9995%).

[Leukosis in captive wild birds].

Science.gov (United States)

Loupal, G

1984-10-01

Among 2589 captive wild birds, examined between 1974 and 1983, we found leukosis in 26 birds belonging to 13 different species and five orders. We diagnosed lymphoid leukosis in 11 birds (two Melopsittacus undulatus, two Psittacus erithacus one Platycerus eximius, one Columba livia, one Streptopelia decaocto, one Polyplectron bicalcaratum, one Pavo cristatus, one Aptenodytes patachonia and one finch, species unknown), myeloid leukosis in 14 (nine Melopsittacus undulatus, two Agapomis personata fischeri, two Urgeainthus bengalus and one Neophemia pulchella) and stem cell leukosis in one bird (Serinus canaria). Among the cases with lymphoid leukosis we distinguished between lymphoblastic (four cases) and prolymphocytic forms (seven). Myeloid leukosis was subdivided into poorly differentiated (12 cases) and well differentiated myeloblastosis (two).

Nesting bird "host funnel" increases mosquito-bird contact rate.

Science.gov (United States)

Caillouët, Kevin A; Riggan, Anna E; Bulluck, Lesley P; Carlson, John C; Sabo, Roy T

2013-03-01

Increases in vector-host contact rates can enhance arbovirus transmission intensity. We investigated weekly fluctuations in contact rates between mosquitoes and nesting birds using the recently described Nest Mosquito Trap (NMT). The number of mosquitoes per nestling increased from nesting season. Our evidence suggests the coincidence of the end of the avian nesting season and increasing mosquito abundances may have caused a "host funnel," concentrating host-seeking mosquitoes to the few remaining nestlings. The relative abundance of mosquitoes collected by the NMT suggests that significantly more Aedes albopictus (Skuse) and Culex pipiens (L.) /restuans (Theobald) sought nesting bird bloodmeals than were predicted by their relative abundances in CO2-baited Centers for Disease Control and Prevention light and gravid traps. Culex salinarius (Coquillett) and Culex erraticus Dyar and Knab were collected in NMTs in proportion to their relative abundances in the generic traps. Temporal host funnels and nesting bird host specificity may enhance arbovirus amplification and explain observed West Nile virus and St. Louis encephalitis virus amplification periods.

78 FR 45375 - Migratory Bird Hunting; Proposed Frameworks for Early-Season Migratory Bird Hunting Regulations...

Science.gov (United States)

2013-07-26

... heard per route from the Mourning Dove Call-count Survey (CCS), doves seen per route from the CCS, birds... recovery and harvest data. Harvest and hunter participation are estimated from the HIP. The CCS-heard data... management units. Over the long term, trends based on CCS-heard and CCS-seen data were consistent in the CMU...

Indole-3-butyric acid promotes adventitious rooting in Arabidopsis thaliana thin cell layers by conversion into indole-3-acetic acid and stimulation of anthranilate synthase activity.

Science.gov (United States)

Fattorini, L; Veloccia, A; Della Rovere, F; D'Angeli, S; Falasca, G; Altamura, M M

2017-07-11

Indole-3-acetic acid (IAA), and its precursor indole-3-butyric acid (IBA), control adventitious root (AR) formation in planta. Adventitious roots are also crucial for propagation via cuttings. However, IBA role(s) is/are still far to be elucidated. In Arabidopsis thaliana stem cuttings, 10 μM IBA is more AR-inductive than 10 μM IAA, and, in thin cell layers (TCLs), IBA induces ARs when combined with 0.1 μM kinetin (Kin). It is unknown whether arabidopsis TCLs produce ARs under IBA alone (10 μM) or IAA alone (10 μM), and whether they contain endogenous IAA/IBA at culture onset, possibly interfering with the exogenous IBA/IAA input. Moreover, it is unknown whether an IBA-to-IAA conversion is active in TCLs, and positively affects AR formation, possibly through the activity of the nitric oxide (NO) deriving from the conversion process. Revealed undetectable levels of both auxins at culture onset, showing that arabidopsis TCLs were optimal for investigating AR-formation under the total control of exogenous auxins. The AR-response of TCLs from various ecotypes, transgenic lines and knockout mutants was analyzed under different treatments. It was shown that ARs are better induced by IBA than IAA and IBA + Kin. IBA induced IAA-efflux (PIN1) and IAA-influx (AUX1/LAX3) genes, IAA-influx carriers activities, and expression of ANTHRANILATE SYNTHASE -alpha1 (ASA1), a gene involved in IAA-biosynthesis. ASA1 and ANTHRANILATE SYNTHASE -beta1 (ASB1), the other subunit of the same enzyme, positively affected AR-formation in the presence of exogenous IBA, because the AR-response in the TCLs of their mutant wei2wei7 was highly reduced. The AR-response of IBA-treated TCLs from ech2ibr10 mutant, blocked into IBA-to-IAA-conversion, was also strongly reduced. Nitric oxide, an IAA downstream signal and a by-product of IBA-to-IAA conversion, was early detected in IAA- and IBA-treated TCLs, but at higher levels in the latter explants. Altogether, results showed that IBA induced

Effect of Dimethyl Carbonate Plasticizer on Ionic Conductivity of Methyl Cellulose-Based Polymer Electrolytes

International Nuclear Information System (INIS)

Mustafa, M.F.; Ridwan, N.I.M.; Hatta, F.F.; Yahya, M.Z.A.

2012-01-01

Influences of dimethyl carbonate (DMC) plasticizer on ionic conductivity, dielectric permittivity and electrical modulus formalism of methyl cellulose (MC)-based polymer electrolytes have been studied. The room temperature electrical conductivity as measured by impedance spectroscopy shows that a methyl cellulose film has a conductivity of ∼10 -10 S cm -1 . In this study, other than KOH ionic dopant, DMC plasticizer is also added to the polymer with the aim of enhancing the electrical conductivity of the polymer. The highest room temperature conductivity of the plasticised sample is ∼10 -5 S cm -1 . The plot of log σ versus 10 3 / T for the highest conducting sample obeys Arrhenius rule indicating that the conductivity occurs by thermally activated mechanism. (author)

Pet birds II. Complementary diagnostic procedures

International Nuclear Information System (INIS)

Beregi, A.; Molnar, V.; Felkai, F.; Biro, F.

1997-01-01

Microscopical examinations are useful in detecting bacteria from droppings and body fluids. Antimicrobial susceptibility tests are also used to perform antimicrobial therapy. Parasitological examinations can also be done on pet birds. Hematological examinations are not very common because of the difficulties in determining the normal serum values that might vary by species and sexes. The vena cutanea ulnaris is the best vein for drawing blood from a pet bird but nail clipping for this purpose is also widely used. The most common and basic complementary examination method is radiology. Birds can be radiographed without anesthesia. Ventrodorsal and latero-lateral pictures are required. The right positioning and setting the adequate values is the most important. Contrast radiographs can also be made on birds. Endoscopy is widely used for sex determination but also can be used for the examination of abdominal organs. Ultrasound examination of pet birds is not a common method because of the difficulties provided by the air sacs. ECG is not a widely used method either because of the high heart beat frequency of birds. Other methods such as necropsy, cytological, histological and toxicological examinations can also be performed on pet birds

North Slope, Alaska ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for diving birds, gulls and terns, seabirds, shorebirds, and waterfowl for the North Slope of Alaska....

Benthic Habitat-Based Framework for Ecological Production Functions: Case Study for Utilization by Estuarine Birds in a Northeast Pacific Estuary

Science.gov (United States)

Habitat-based frameworks have been proposed for developing Ecological Production Functions (EPFs) to describe the spatial distribution of ecosystem services. As proof of concept, we generated EPFs that compared bird use patterns among intertidal benthic habitats for Yaquina estu...

78 FR 11988 - Migratory Bird Subsistence Harvest in Alaska; Harvest Regulations for Migratory Birds in Alaska...

Science.gov (United States)

2013-02-21

..., accomplishments since the Migratory Bird Treaties with Canada and Mexico were amended, and a history, was... purposes during the spring and summer months. The Canada and Mexico migratory bird treaties were amended...-0066; FF09M21200-123-FXMB1231099BPP0L2] RIN 1018-AY70 Migratory Bird Subsistence Harvest in Alaska...

[Object-oriented segmentation and classification of forest gap based on QuickBird remote sensing image.

Science.gov (United States)

Mao, Xue Gang; Du, Zi Han; Liu, Jia Qian; Chen, Shu Xin; Hou, Ji Yu

2018-01-01

Traditional field investigation and artificial interpretation could not satisfy the need of forest gaps extraction at regional scale. High spatial resolution remote sensing image provides the possibility for regional forest gaps extraction. In this study, we used object-oriented classification method to segment and classify forest gaps based on QuickBird high resolution optical remote sensing image in Jiangle National Forestry Farm of Fujian Province. In the process of object-oriented classification, 10 scales (10-100, with a step length of 10) were adopted to segment QuickBird remote sensing image; and the intersection area of reference object (RA or ) and intersection area of segmented object (RA os ) were adopted to evaluate the segmentation result at each scale. For segmentation result at each scale, 16 spectral characteristics and support vector machine classifier (SVM) were further used to classify forest gaps, non-forest gaps and others. The results showed that the optimal segmentation scale was 40 when RA or was equal to RA os . The accuracy difference between the maximum and minimum at different segmentation scales was 22%. At optimal scale, the overall classification accuracy was 88% (Kappa=0.82) based on SVM classifier. Combining high resolution remote sensing image data with object-oriented classification method could replace the traditional field investigation and artificial interpretation method to identify and classify forest gaps at regional scale.

Passive unmanned sky spectroscopy for remote bird classification

Science.gov (United States)

Lundin, Patrik; Brydegaard, Mikkel; Cocola, Lorenzo; Runemark, Anna; Åkesson, Susanne; Svanberg, Sune

2011-11-01

We present a method based on passive spectroscopy with aim to remotely study flying birds. A compact spectrometer is continuously recording spectra of a small section of the sky, waiting for birds to obscure part of the field-of-view when they pass the field in flight. In such situations the total light intensity received through the telescope, looking straight up, will change very rapidly as compared to the otherwise slowly varying sky light. On passage of a bird, both the total intensity and the spectral shape of the captured light changes notably. A camera aimed in the same direction as the telescope, although with a wider field-of-view, is triggered by the sudden intensity changes in the spectrometer to record additional information, which may be used for studies of migration and orientation. Example results from a trial are presented and discussed. The study is meant to explore the information that could be gathered and extracted with the help of a spectrometer connected to a telescope. Information regarding the color, size and height of flying birds is discussed. Specifically, an application for passive distance determination utilizing the atmospheric oxygen A-band absorption at around 760 nm is discussed.

Collision effects of wind-power generators and other obstacles on birds.

Science.gov (United States)

Drewitt, Allan L; Langston, Rowena H W

2008-01-01

There is extensive literature on avian mortality due to collision with man-made structures, including wind turbines, communication masts, tall buildings and windows, power lines, and fences. Many studies describe the consequences of bird-strike rather than address the causes, and there is little data based on long-term, standardized, and systematic assessments. Despite these limitations, it is apparent that bird-strike is a significant cause of mortality. It is therefore important to understand the effects of this mortality on bird populations. The factors which determine avian collision risk are described, including location, structural attributes, such as height and the use of lighting, weather conditions, and bird morphology and behavior. The results of incidental and more systematic observations of bird-strike due to a range of structures are presented and the implications of collision mortality for bird populations, particularly those of scarce and threatened species susceptible to collisions, are discussed. Existing measures for reducing collision mortality are described, both generally and specifically for each type of structure. It is concluded that, in some circumstances, collision mortality can adversely affect bird populations, and that greater effort is needed to derive accurate estimates of mortality levels locally, regionally, and nationally to better assess impacts on avian populations. Priority areas for future work are suggested, including further development of remote technology to monitor collisions, research into the causes of bird-strike, and the design of new, effective mitigation measures.

Electrochemical impedance and spectroscopy study of the EDC/NHS activation of the carboxyl groups on poly(ε-caprolactone/poly(m-anthranilic acid nanofibers

Directory of Open Access Journals (Sweden)

Z. Guler

2016-02-01

Full Text Available Electrochemical impedance spectroscopy (EIS and spectroscopy was applied to investigate the surface activation of carboxyl group (–COOH containing nanofibers by the reaction of 1-ethyl-3-(dimethyl-aminopropyl carbodiimide hydrochloride (EDC/N-hydroxyl succinimide (NHS in different concentrations. Poly(!-caprolactone/poly(m-anthranilic acid (PCL/P3ANA nanofibers were fabricated by electrospinning and were activated with 5/0.5, 0.5/5, 5/5 and 50/50 mM of EDC/NHS. The surface activation was investigated by Attenuated Total Reflectance Fourier transform infrared spectroscopy (FTIR-ATR and activation yield was estimated. Albumin was immobilized after surface activation and the amount of covalently immobilized protein was determined by bicinchoninic acid (BCA assay. Morphology and composition of albumin immobilized nanofibers were characterized by Scanning Electron Microscopy/Energy-Dispersive X-ray Spectroscopy (SEM/EDX and Atomic force microscope (AFM. EIS measurements indicated that nanofibers become resistant after albumin immobilization. The obtained data revealed that the highest amount of albumin bound to nanofibers activated with 50/50 mM of EDC/NHS which was found to be the optimum concentration for the activation of PCL/P3ANA nanofibers.

Urban and rural habitats differ in number and type of bird feeders and in bird species consuming supplementary food.

Science.gov (United States)

Tryjanowski, Piotr; Skórka, Piotr; Sparks, Tim H; Biaduń, Waldemar; Brauze, Tomasz; Hetmański, Tomasz; Martyka, Rafał; Indykiewicz, Piotr; Myczko, Łukasz; Kunysz, Przemysław; Kawa, Piotr; Czyż, Stanisław; Czechowski, Paweł; Polakowski, Michał; Zduniak, Piotr; Jerzak, Leszek; Janiszewski, Tomasz; Goławski, Artur; Duduś, Leszek; Nowakowski, Jacek J; Wuczyński, Andrzej; Wysocki, Dariusz

2015-10-01

Bird feeding is one of the most widespread direct interactions between man and nature, and this has important social and environmental consequences. However, this activity can differ between rural and urban habitats, due to inter alia habitat structure, human behaviour and the composition of wintering bird communities. We counted birds in 156 squares (0.25 km(2) each) in December 2012 and again in January 2013 in locations in and around 26 towns and cities across Poland (in each urban area, we surveyed 3 squares and also 3 squares in nearby rural areas). At each count, we noted the number of bird feeders, the number of bird feeders with food, the type of feeders, additional food supplies potentially available for birds (bread offered by people, bins) and finally the birds themselves. In winter, urban and rural areas differ in the availability of food offered intentionally and unintentionally to birds by humans. Both types of food availability are higher in urban areas. Our findings suggest that different types of bird feeder support only those species specialized for that particular food type and this relationship is similar in urban and rural areas.

Urban Bird Feeding: Connecting People with Nature.

Directory of Open Access Journals (Sweden)

Daniel T C Cox

Full Text Available At a time of unprecedented biodiversity loss, researchers are increasingly recognizing the broad range of benefits provided to humankind by nature. However, as people live more urbanized lifestyles there is a progressive disengagement with the natural world that diminishes these benefits and discourages positive environmental behaviour. The provision of food for garden birds is an increasing global phenomenon, and provides a readily accessible way for people to counter this trend. Yet despite its popularity, quite why people feed birds remains poorly understood. We explore three loosely defined motivations behind bird feeding: that it provides psychological benefits, is due to a concern about bird welfare, and/or is due to a more general orientation towards nature. We quantitatively surveyed households from urban towns in southern England to explore attitudes and actions towards garden bird feeding. Each household scored three Likert statements relating to each of the three motivations. We found that people who fed birds regularly felt more relaxed and connected to nature when they watched garden birds, and perceived that bird feeding is beneficial for bird welfare while investing time in minimising associated risks. Finally, feeding birds may be an expression of a wider orientation towards nature. Overall, we found that the feelings of being relaxed and connected to nature were the strongest drivers. As urban expansion continues both to threaten species conservation and to change peoples' relationship with the natural world, feeding birds may provide an important tool for engaging people with nature to the benefit of both people and conservation.

Mapping global diversity patterns for migratory birds.

Directory of Open Access Journals (Sweden)

Marius Somveille

Full Text Available Nearly one in five bird species has separate breeding and overwintering distributions, and the regular migrations of these species cause a substantial seasonal redistribution of avian diversity across the world. However, despite its ecological importance, bird migration has been largely ignored in studies of global avian biodiversity, with few studies having addressed it from a macroecological perspective. Here, we analyse a dataset on the global distribution of the world's birds in order to examine global spatial patterns in the diversity of migratory species, including: the seasonal variation in overall species diversity due to migration; the contribution of migratory birds to local bird diversity; and the distribution of narrow-range and threatened migratory birds. Our analyses reveal a striking asymmetry between the Northern and Southern hemispheres, evident in all of the patterns investigated. The highest migratory bird diversity was found in the Northern Hemisphere, with high inter-continental turnover in species composition between breeding and non-breeding seasons, and extensive regions (at high latitudes where migratory birds constitute the majority of the local avifauna. Threatened migratory birds are concentrated mainly in Central and Southern Asia, whereas narrow-range migratory species are mainly found in Central America, the Himalayas and Patagonia. Overall, global patterns in the diversity of migratory birds indicate that bird migration is mainly a Northern Hemisphere phenomenon. The asymmetry between the Northern and Southern hemispheres could not have easily been predicted from the combined results of regional scale studies, highlighting the importance of a global perspective.

Impact of wind turbines on birds

International Nuclear Information System (INIS)

Clausager, I.; Nohr, H.

1996-01-01

The paper is a review of the present knowledge on impacts of wind turbines on birds, requested by the Danish Ministry of the Environment and Energy. The main conclusions of the review are, that in nearly all the studies so far the numbers of birds recorded colliding with wind turbines have been limited. Some studies indicate that stationary (breeding) birds inside the wind turbine area in the short run habituate to wind turbines, especially the noise and visual impacts, and that the risk for collision becomes low. However, some of the few more long term studies indicate that a negative impact may occur in later generations of breeding birds. In some studies a disturbance effect on bird species, which temporarily stay inside a wind turbine area in order to forage or rest, is observed. The degree of impact is species-specific. An effect is typically recorded inside a zone of up to 250-800 m, with geese and waders as the most sensitive groups of birds. (author)

Constituintes químicos voláteis das flores e folhas do pau-brasil (Caesalpinia echinata, Lam.

Directory of Open Access Journals (Sweden)

Rezende Claudia M.

2004-01-01

Full Text Available The volatile constituents obtained from a static cryogenic headspace of Caesalpinia echinata Lam. (Leguminosae showed E-beta-ocimene as the major compound (57.2%, beside other monoterpenes, C6 derivatives like n-hexanal and (E-2-hexenal and nitrogen compounds such as indole and methyl anthranilate. From the essential oil of the leaves obtained by hydrodistillation in a Clevenger apparatus, (E-3-hexen-1-ol was identified as the major constituent while phenolic compounds were the most representative class of secondary metabolites.

Birds as potential pollinators of the Spathodea nilotica (Bignoniaceae in the urban environment

Directory of Open Access Journals (Sweden)

DM. Previatto

Full Text Available Birds play crucial role on the pollination of many plants. However, little is known about the interactions between nectarivorous neotropical birds and exotic Angiosperms. S. nilotica is an exotic African plant widely used in Brazilian urban landscaping. However, it has been poorly studied in relation to its interactions with Neotropical birds. In this way, we studied the feeding nectar strategies and the interspecific antagonistic behaviours among nectarivorous Neotropical birds to verify the bird contributions to the S. nilotica pollination. The study was conducted from May 2008 to April 2011, but only in months of S. nilotica flowering (April to May. From 148 hours of sampling we identified 16 species feeding nectar on S. nilotica: 13 hummingbirds (Trochilidae, Aratinga aurea (Psittacidae, Tangara palmarum (Thraupidae and Coereba flaveola (Coerebidae. Eupetomena macroura was the most frequent (96.88%, followed by Chlorostilbon lucidus (78.13% and Coereba flaveola (59.38%. Most birds obtained nectar by punching at the base of the corolla, except for A. aurea that obtained the nectar by the upper opening of the petals in 100% of its visits, Heliomaster furcifer (95.65%, F. fusca (95% and A. nigricollis (70.27%. Despite E. macroura also obtains nectar only by punching at the base of the corolla, it showed the highest level of legitimate visits. Antagonistic events were more frequent in E. macroura (58.65%, Florisuga fusca (11.04% and Amazilia fimbriata (10.87%, being E. macroura dominant in all events. These results showed E. macroura plays an important role on this plant being the most important bird as a potential pollinator. Moreover, other birds contribute partially to the S. nilotica pollination. Most probably it is a result of recent Neotropical bird interactions with this African plant.

Transcription factors as readers and effectors of DNA methylation.

Science.gov (United States)

Zhu, Heng; Wang, Guohua; Qian, Jiang

2016-08-01

Recent technological advances have made it possible to decode DNA methylomes at single-base-pair resolution under various physiological conditions. Many aberrant or differentially methylated sites have been discovered, but the mechanisms by which changes in DNA methylation lead to observed phenotypes, such as cancer, remain elusive. The classical view of methylation-mediated protein-DNA interactions is that only proteins with a methyl-CpG binding domain (MBD) can interact with methylated DNA. However, evidence is emerging to suggest that transcription factors lacking a MBD can also interact with methylated DNA. The identification of these proteins and the elucidation of their characteristics and the biological consequences of methylation-dependent transcription factor-DNA interactions are important stepping stones towards a mechanistic understanding of methylation-mediated biological processes, which have crucial implications for human development and disease.

9 CFR 95.30 - Restrictions on entry of products and byproducts of poultry, game birds, or other birds from...

Science.gov (United States)

2010-01-01

... byproducts of poultry, game birds, or other birds from regions where highly pathogenic avian influenza (HPAI... THE UNITED STATES § 95.30 Restrictions on entry of products and byproducts of poultry, game birds, or other birds from regions where highly pathogenic avian influenza (HPAI) subtype H5N1 exists. (a...

Minimal methylation classifier (MIMIC): A novel method for derivation and rapid diagnostic detection of disease-associated DNA methylation signatures.

Science.gov (United States)

Schwalbe, E C; Hicks, D; Rafiee, G; Bashton, M; Gohlke, H; Enshaei, A; Potluri, S; Matthiesen, J; Mather, M; Taleongpong, P; Chaston, R; Silmon, A; Curtis, A; Lindsey, J C; Crosier, S; Smith, A J; Goschzik, T; Doz, F; Rutkowski, S; Lannering, B; Pietsch, T; Bailey, S; Williamson, D; Clifford, S C

2017-10-18

Rapid and reliable detection of disease-associated DNA methylation patterns has major potential to advance molecular diagnostics and underpin research investigations. We describe the development and validation of minimal methylation classifier (MIMIC), combining CpG signature design from genome-wide datasets, multiplex-PCR and detection by single-base extension and MALDI-TOF mass spectrometry, in a novel method to assess multi-locus DNA methylation profiles within routine clinically-applicable assays. We illustrate the application of MIMIC to successfully identify the methylation-dependent diagnostic molecular subgroups of medulloblastoma (the most common malignant childhood brain tumour), using scant/low-quality samples remaining from the most recently completed pan-European medulloblastoma clinical trial, refractory to analysis by conventional genome-wide DNA methylation analysis. Using this approach, we identify critical DNA methylation patterns from previously inaccessible cohorts, and reveal novel survival differences between the medulloblastoma disease subgroups with significant potential for clinical exploitation.

Functionally specialised birds respond flexibly to seasonal changes in fruit availability.

Science.gov (United States)

Bender, Irene M A; Kissling, W Daniel; Böhning-Gaese, Katrin; Hensen, Isabell; Kühn, Ingolf; Wiegand, Thorsten; Dehling, D Matthias; Schleuning, Matthias

2017-07-01

Interactions between resource and consumer species result in complex ecological networks. The overall structure of these networks is often stable in space and time, but little is known about the temporal stability of the functional roles of consumer species in these networks. We used a trait-based approach to investigate whether consumers (frugivorous birds) show similar degrees of functional specialisation on resources (plants) in ecological networks across seasons. We additionally tested whether closely related bird species have similar degrees of functional specialisation and whether birds that are functionally specialised on specific resource types within a season are flexible in switching to other resource types in other seasons. We analysed four seasonal replicates of two species-rich plant-frugivore networks from the tropical Andes. To quantify fruit preferences of frugivorous birds, we projected their interactions with plants into a multidimensional plant trait space. To measure functional specialisation of birds, we calculated a species' functional niche breadth (the extent of seasonal plant trait space utilised by a particular bird) and functional originality (the extent to which a bird species' fruit preference functionally differs from those of other species in a seasonal network). We additionally calculated functional flexibility, i.e. the ability of bird species to change their fruit preference across seasons in response to variation in plant resources. Functional specialisation of bird species varied more among species than across seasons, and phylogenetically similar bird species showed similar degrees of functional niche breadth (phylogenetic signal λ = 0·81) and functional originality (λ = 0·89). Additionally, we found that birds with high functional flexibility across seasons had narrow functional niche breadth and high functional originality per season, suggesting that birds that are seasonally specialised on particular resources are

Pelvis morphology suggests that early Mesozoic birds were too heavy to contact incubate their eggs.

Science.gov (United States)

Charles Deeming, D; Mayr, Gerald

2018-02-27

Numerous new fossils have driven an interest in reproduction of early birds, but direct evidence remains elusive. No Mesozoic avian eggs can be unambiguously assigned to a species, which hampers our understanding of the evolution of contact incubation, which is a defining feature of extant birds. Compared to living species, eggs of Mesozoic birds are relatively small, but whether the eggs of Mesozoic birds could actually have borne the weight of a breeding adult has not yet been investigated. We estimated maximal egg breadth for a range of Mesozoic avian taxa from the width of the pelvic canal defined by the pubic symphysis. Known elongation ratios of Mesozoic bird eggs allowed us to predict egg mass and hence the load mass an egg could endure before cracking. These values were compared to the predicted body masses of the adult birds based on skeletal remains. Based on 21 fossil species, we show that for nonornithothoracine birds body mass was 187% of the load mass of the eggs. For Enantiornithes, body mass was 127% greater than the egg load mass, but some early Cretaceous ornithuromorphs were 179% heavier than their eggs could support. Our indirect approach provides the best evidence yet that early birds could not have sat on their eggs without running the risk of causing damage. We suggest that contact incubation evolved comparatively late in birds. © 2018 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2018 European Society For Evolutionary Biology.

Regulation and function of DNA methylation in plants and animals

KAUST Repository

He, Xinjian

2011-02-15

DNA methylation is an important epigenetic mark involved in diverse biological processes. In plants, DNA methylation can be established through the RNA-directed DNA methylation pathway, an RNA interference pathway for transcriptional gene silencing (TGS), which requires 24-nt small interfering RNAs. In mammals, de novo DNA methylation occurs primarily at two developmental stages: during early embryogenesis and during gametogenesis. While it is not clear whether establishment of DNA methylation patterns in mammals involves RNA interference in general, de novo DNA methylation and suppression of transposons in germ cells require 24-32-nt piwi-interacting small RNAs. DNA methylation status is dynamically regulated by DNA methylation and demethylation reactions. In plants, active DNA demethylation relies on the repressor of silencing 1 family of bifunctional DNA glycosylases, which remove the 5-methylcytosine base and then cleave the DNA backbone at the abasic site, initiating a base excision repair (BER) pathway. In animals, multiple mechanisms of active DNA demethylation have been proposed, including a deaminase- and DNA glycosylase-initiated BER pathway. New information concerning the effects of various histone modifications on the establishment and maintenance of DNA methylation has broadened our understanding of the regulation of DNA methylation. The function of DNA methylation in plants and animals is also discussed in this review. © 2011 IBCB, SIBS, CAS All rights reserved.

Systemic effects of chronically administered methyl prednisolonate and methyl 17-deoxyprednisolonate.

Science.gov (United States)

Olejniczak, E; Lee, H J

1984-06-01

The systemic activities of methyl prednisolonate and methyl 17-deoxyprednisolonate (1) were studied in rats. Methyl 17-deoxyprednisolonate produced significant changes in the amount of sodium ion (decreased) and potassium ion (increased) in urine; however, methyl prednisolonate had no effect on electrolyte balance. Both methyl prednisolonate and methyl 17-deoxyprednisolonate had no effect on liver glycogen content, plasma corticosterone level and relative adrenal weight. In contrast, the parent compound prednisolone caused a significant decrease in liver glycogen content, plasma corticosterone level and relative adrenal weight.

Bird populations as sentinels of endocrine disrupting chemicals

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Claudio Carere

2010-03-01

Full Text Available Exposure to endocrine disrupting chemicals (EDCs is a widespread phenomenon in nature. Although the mechanisms of action of EDCs are actively studied, the consequences of endocrine disruption (ED at the population level and the adaptations evolved to cope with chronic EDC exposure have been overlooked. Birds probably represent the animal taxon most successfully adapted to synanthropic life. Hence, birds share with humans a similar pattern of exposure to xenobiotics. In this article, we review case studies on patterns of behaviour that deviate from the expectation in bird species exposed to EDCs. We provide behavioural and ecological parameters to be used as endpoints of ED; methodological requirements and caveats based on species-specific life-history traits, behavioural repertoires, developmental styles, and possibility of captive breeding; a list of species that could be used as sentinels to assess the quality of man-made environment.

DNA methylation in obesity

Directory of Open Access Journals (Sweden)

Małgorzata Pokrywka

2014-11-01

Full Text Available The number of overweight and obese people is increasing at an alarming rate, especially in the developed and developing countries. Obesity is a major risk factor for diabetes, cardiovascular disease, and cancer, and in consequence for premature death. The development of obesity results from the interplay of both genetic and environmental factors, which include sedentary life style and abnormal eating habits. In the past few years a number of events accompanying obesity, affecting expression of genes which are not directly connected with the DNA base sequence (e.g. epigenetic changes, have been described. Epigenetic processes include DNA methylation, histone modifications such as acetylation, methylation, phosphorylation, ubiquitination, and sumoylation, as well as non-coding micro-RNA (miRNA synthesis. In this review, the known changes in the profile of DNA methylation as a factor affecting obesity and its complications are described.

Methyl Iodide Decomposition at BWR Conditions

International Nuclear Information System (INIS)

Pop, Mike; Bell, Merl

2012-09-01

Based on favourable results from short-term testing of methanol addition to an operating BWR plant, AREVA has performed numerous studies in support of necessary Engineering and Plant Safety Evaluations prior to extended injection of methanol. The current paper presents data from a study intended to provide further understanding of the decomposition of methyl iodide as it affects the assessment of methyl iodide formation with the application of methanol at BWR Plants. This paper describes the results of the decomposition testing under UV-C light at laboratory conditions and its effect on the subject methyl iodide production evaluation. The study as to the formation and decomposition of methyl iodide as it is effected by methanol addition is one phase of a larger AREVA effort to provide a generic plant Safety Evaluation prior to long-term methanol injection to an operating BWR. Other testing phases have investigated the compatibility of methanol with fuel construction materials, plant structural materials, plant consumable materials (i.e. elastomers and coatings), and ion exchange resins. Methyl iodide is known to be very unstable, typically preserved with copper metal or other stabilizing materials when produced and stored. It is even more unstable when exposed to light, heat, radiation, and water. Additionally, it is known that methyl iodide will decompose radiolytically, and that this effect may be simulated using ultra-violet radiation (UV-C) [2]. In the tests described in this paper, the use of a UV-C light source provides activation energy for the formation of methyl iodide. Thus is similar to the effect expected from Cherenkov radiation present in a reactor core after shutdown. Based on the testing described in this paper, it is concluded that injection of methanol at concentrations below 2.5 ppm in BWR applications to mitigate IGSCC of internals is inconsequential to the accident conditions postulated in the FSAR as they are related to methyl iodide formation

Overseas seed dispersal by migratory birds.

Science.gov (United States)

Viana, Duarte S; Gangoso, Laura; Bouten, Willem; Figuerola, Jordi

2016-01-13

Long-distance dispersal (LDD) promotes the colonization of isolated and remote habitats, and thus it has been proposed as a mechanism for explaining the distributions of many species. Birds are key LDD vectors for many sessile organisms such as plants, yet LDD beyond local and regional scales has never been directly observed nor quantified. By sampling birds caught while in migratory flight by GPS-tracked wild falcons, we show that migratory birds transport seeds over hundreds of kilometres and mediate dispersal from mainland to oceanic islands. Up to 1.2% of birds that reached a small island of the Canary Archipelago (Alegranza) during their migration from Europe to Sub-Saharan Africa carried seeds in their guts. The billions of birds making seasonal migrations each year may then transport millions of seeds. None of the plant species transported by the birds occurs in Alegranza and most do not occur on nearby Canary Islands, providing a direct example of the importance of environmental filters in hampering successful colonization by immigrant species. The constant propagule pressure generated by these LDD events might, nevertheless, explain the colonization of some islands. Hence, migratory birds can mediate rapid range expansion or shifts of many plant taxa and determine their distribution. © 2016 The Author(s).

Impact of estuarine pollution on birds

Science.gov (United States)

Blus, L.J.; Wiemeyer, Stanley N.; Kerwin, J.A.; Stendell, R.C.; Ohlendorf, H.M.; Stickel, L.F.

1977-01-01

Pollution of estuaries affects bird populations indirectly through changes in habitat and food supply. The multi-factor pollution of Chesapeake Bay has resulted in diminution of submerged aquatic plants and consequent change in food habits of the canvasback duck. Although dredge-spoil operations can improve wildlife habitat, they often result in its demise. Pollution of estuaries also affects birds directly, through chemical toxication, which may result in outright mortality or in reproductive impairment. Lead from industrial sources and roadways enters the estuaries and is accumulated in tissues of birds. Lead pellets deposited in estuaries as a result of hunting are consumed by ducks with sufficient frequency .to result m large annual die-offs from lead poisoning. Fish in certain areas, usually near industrial sources, may contain levels of mercury high enough to be hazardous to birds that consume them. Other heavy metals are present in estuarine birds, but their significance is poorly known. Oil exerts lethal or sublethal effects on birds by oiling their feathers, oiling eggs and young by contaminated parents, and by ingestion of oil-contaminated food. Organochlorine chemicals, of both agricultural and industrial origin, travel through the food chains and reach harmful levels in susceptible species of birds in certain estuarine ecosystems. Both outright mortality and reproductive impairment have occurred.

Diagnosis of Constitutional Mismatch Repair-Deficiency Syndrome Based on Microsatellite Instability and Lymphocyte Tolerance to Methylating Agents.

Science.gov (United States)

Bodo, Sahra; Colas, Chrystelle; Buhard, Olivier; Collura, Ada; Tinat, Julie; Lavoine, Noémie; Guilloux, Agathe; Chalastanis, Alexandra; Lafitte, Philippe; Coulet, Florence; Buisine, Marie-Pierre; Ilencikova, Denisa; Ruiz-Ponte, Clara; Kinzel, Miriam; Grandjouan, Sophie; Brems, Hilde; Lejeune, Sophie; Blanché, Hélène; Wang, Qing; Caron, Olivier; Cabaret, Odile; Svrcek, Magali; Vidaud, Dominique; Parfait, Béatrice; Verloes, Alain; Knappe, Ulrich J; Soubrier, Florent; Mortemousque, Isabelle; Leis, Alexander; Auclair-Perrossier, Jessie; Frébourg, Thierry; Fléjou, Jean-François; Entz-Werle, Natacha; Leclerc, Julie; Malka, David; Cohen-Haguenauer, Odile; Goldberg, Yael; Gerdes, Anne-Marie; Fedhila, Faten; Mathieu-Dramard, Michèle; Hamelin, Richard; Wafaa, Badre; Gauthier-Villars, Marion; Bourdeaut, Franck; Sheridan, Eamonn; Vasen, Hans; Brugières, Laurence; Wimmer, Katharina; Muleris, Martine; Duval, Alex

2015-10-01

Patients with bi-allelic germline mutations in mismatch repair (MMR) genes (MLH1, MSH2, MSH6, or PMS2) develop a rare but severe variant of Lynch syndrome called constitutional MMR deficiency (CMMRD). This syndrome is characterized by early-onset colorectal cancers, lymphomas or leukemias, and brain tumors. There is no satisfactory method for diagnosis of CMMRD because screens for mutations in MMR genes are noninformative for 30% of patients. MMR-deficient cancer cells are resistant to genotoxic agents and have microsatellite instability (MSI), due to accumulation of errors in repetitive DNA sequences. We investigated whether these features could be used to identify patients with CMMRD. We examined MSI by PCR analysis and tolerance to methylating or thiopurine agents (functional characteristics of MMR-deficient tumor cells) in lymphoblastoid cells (LCs) from 3 patients with CMMRD and 5 individuals with MMR-proficient LCs (controls). Using these assays, we defined experimental parameters that allowed discrimination of a series of 14 patients with CMMRD from 52 controls (training set). We then used the same parameters to assess 23 patients with clinical but not genetic features of CMMRD. In the training set, we identified parameters, based on MSI and LC tolerance to methylation, that detected patients with CMMRD vs controls with 100% sensitivity and 100% specificity. Among 23 patients suspected of having CMMRD, 6 had MSI and LC tolerance to methylation (CMMRD highly probable), 15 had neither MSI nor LC tolerance to methylation (unlikely to have CMMRD), and 2 were considered doubtful for CMMRD based on having only 1 of the 2 features. The presence of MSI and tolerance to methylation in LCs identified patients with CMMRD with 100% sensitivity and specificity. These features could be used in diagnosis of patients. Copyright © 2015 AGA Institute. Published by Elsevier Inc. All rights reserved.

Effects on wildlife of ethyl and methyl parathion applied to California rice fields

Science.gov (United States)

Custer, T.W.; Hill, E.F.; Ohlendorf, H.M.

1985-01-01

Selected rice fields on the Sacramento National Wildlife Refuge Complex were aerially sprayed one time during May or June 1982 with either ethyl (0.11 kg Al/ha) or methyl (0.84 kg AI/ha) parathion for control of tadpole shrimp, Triops longicaudatus. No sick or dead vertebrate wildlife were found or adjacent to the treated rice fields after spraying. Specimens of the following birds and mammals were assayed for brain cholinesterase (ChE) activity to determine exposure to either form of parathion; house mouse, Mus musculus; black-tailed jackrabbit, Lepus californicus; mallard, Anas platyrhynchos; ring-necked pheasant, Phasianus colchicus; American coot, Fulica americana; and red-winged blackbird, Agelaius phoeniceus. Both mice and pheasants from methyl parathion-treated fields had overall mean ChE activities that were significantly (P < 0.05) inhibited compared with controls, and 7, 40, 54 and 57% of individual blackbirds, pheasant, mice, and coots, respectively, had inhibited brain ChE activities (i.e., less than -2 SD of control mean). Although no overall species effect was detected for ethyl parathoid treatment, pheasants (43%), coots (33%), and mice (37%) had significantly inhibited brain ChE activities. Neither of the parathion treatment appeared acutely hazardous to wildlife in or adjacent to rice fields, but sufficient information on potential hazards was obtained to warrant caution in use of these chemicals, especially methyl parathion, in rice fields.

DNA methylation-based classification of central nervous system tumours.

Science.gov (United States)

Capper, David; Jones, David T W; Sill, Martin; Hovestadt, Volker; Schrimpf, Daniel; Sturm, Dominik; Koelsche, Christian; Sahm, Felix; Chavez, Lukas; Reuss, David E; Kratz, Annekathrin; Wefers, Annika K; Huang, Kristin; Pajtler, Kristian W; Schweizer, Leonille; Stichel, Damian; Olar, Adriana; Engel, Nils W; Lindenberg, Kerstin; Harter, Patrick N; Braczynski, Anne K; Plate, Karl H; Dohmen, Hildegard; Garvalov, Boyan K; Coras, Roland; Hölsken, Annett; Hewer, Ekkehard; Bewerunge-Hudler, Melanie; Schick, Matthias; Fischer, Roger; Beschorner, Rudi; Schittenhelm, Jens; Staszewski, Ori; Wani, Khalida; Varlet, Pascale; Pages, Melanie; Temming, Petra; Lohmann, Dietmar; Selt, Florian; Witt, Hendrik; Milde, Till; Witt, Olaf; Aronica, Eleonora; Giangaspero, Felice; Rushing, Elisabeth; Scheurlen, Wolfram; Geisenberger, Christoph; Rodriguez, Fausto J; Becker, Albert; Preusser, Matthias; Haberler, Christine; Bjerkvig, Rolf; Cryan, Jane; Farrell, Michael; Deckert, Martina; Hench, Jürgen; Frank, Stephan; Serrano, Jonathan; Kannan, Kasthuri; Tsirigos, Aristotelis; Brück, Wolfgang; Hofer, Silvia; Brehmer, Stefanie; Seiz-Rosenhagen, Marcel; Hänggi, Daniel; Hans, Volkmar; Rozsnoki, Stephanie; Hansford, Jordan R; Kohlhof, Patricia; Kristensen, Bjarne W; Lechner, Matt; Lopes, Beatriz; Mawrin, Christian; Ketter, Ralf; Kulozik, Andreas; Khatib, Ziad; Heppner, Frank; Koch, Arend; Jouvet, Anne; Keohane, Catherine; Mühleisen, Helmut; Mueller, Wolf; Pohl, Ute; Prinz, Marco; Benner, Axel; Zapatka, Marc; Gottardo, Nicholas G; Driever, Pablo Hernáiz; Kramm, Christof M; Müller, Hermann L; Rutkowski, Stefan; von Hoff, Katja; Frühwald, Michael C; Gnekow, Astrid; Fleischhack, Gudrun; Tippelt, Stephan; Calaminus, Gabriele; Monoranu, Camelia-Maria; Perry, Arie; Jones, Chris; Jacques, Thomas S; Radlwimmer, Bernhard; Gessi, Marco; Pietsch, Torsten; Schramm, Johannes; Schackert, Gabriele; Westphal, Manfred; Reifenberger, Guido; Wesseling, Pieter; Weller, Michael; Collins, Vincent Peter; Blümcke, Ingmar; Bendszus, Martin; Debus, Jürgen; Huang, Annie; Jabado, Nada; Northcott, Paul A; Paulus, Werner; Gajjar, Amar; Robinson, Giles W; Taylor, Michael D; Jaunmuktane, Zane; Ryzhova, Marina; Platten, Michael; Unterberg, Andreas; Wick, Wolfgang; Karajannis, Matthias A; Mittelbronn, Michel; Acker, Till; Hartmann, Christian; Aldape, Kenneth; Schüller, Ulrich; Buslei, Rolf; Lichter, Peter; Kool, Marcel; Herold-Mende, Christel; Ellison, David W; Hasselblatt, Martin; Snuderl, Matija; Brandner, Sebastian; Korshunov, Andrey; von Deimling, Andreas; Pfister, Stefan M

2018-03-22

Accurate pathological diagnosis is crucial for optimal management of patients with cancer. For the approximately 100 known tumour types of the central nervous system, standardization of the diagnostic process has been shown to be particularly challenging-with substantial inter-observer variability in the histopathological diagnosis of many tumour types. Here we present a comprehensive approach for the DNA methylation-based classification of central nervous system tumours across all entities and age groups, and demonstrate its application in a routine diagnostic setting. We show that the availability of this method may have a substantial impact on diagnostic precision compared to standard methods, resulting in a change of diagnosis in up to 12% of prospective cases. For broader accessibility, we have designed a free online classifier tool, the use of which does not require any additional onsite data processing. Our results provide a blueprint for the generation of machine-learning-based tumour classifiers across other cancer entities, with the potential to fundamentally transform tumour pathology.

Clinical Utility of promoter methylation of the tumor suppressor ...

African Journals Online (AJOL)

Aim: Aim is to examine the potential usefulness of blood based methylation specific polymerase chain reaction (MSP) of methylated DKK3 and RASSF1A genes in early detection of breast cancer. Method: Methylation status of DKK3 and RASSF1 was investigated in forty breast cancer patients, twenty fibroadenoma patients ...

A resource-based modelling framework to assess habitat suitability for steppe birds in semiarid Mediterranean agricultural systems.

Directory of Open Access Journals (Sweden)

Laura Cardador

Full Text Available European agriculture is undergoing widespread changes that are likely to have profound impacts on farmland biodiversity. The development of tools that allow an assessment of the potential biodiversity effects of different land-use alternatives before changes occur is fundamental to guiding management decisions. In this study, we develop a resource-based model framework to estimate habitat suitability for target species, according to simple information on species' key resource requirements (diet, foraging habitat and nesting site, and examine whether it can be used to link land-use and local species' distribution. We take as a study case four steppe bird species in a lowland area of the north-eastern Iberian Peninsula. We also compare the performance of our resource-based approach to that obtained through habitat-based models relating species' occurrence and land-cover variables. Further, we use our resource-based approach to predict the effects that change in farming systems can have on farmland bird habitat suitability and compare these predictions with those obtained using the habitat-based models. Habitat suitability estimates generated by our resource-based models performed similarly (and better for one study species than habitat based-models when predicting current species distribution. Moderate prediction success was achieved for three out of four species considered by resource-based models and for two of four by habitat-based models. Although, there is potential for improving the performance of resource-based models, they provide a structure for using available knowledge of the functional links between agricultural practices, provision of key resources and the response of organisms to predict potential effects of changing land-uses in a variety of context or the impacts of changes such as altered management practices that are not easily incorporated into habitat-based models.

DNA methylation-based classification of central nervous system tumours

DEFF Research Database (Denmark)

Capper, David; Jones, David T.W.; Sill, Martin

2018-01-01

Accurate pathological diagnosis is crucial for optimal management of patients with cancer. For the approximately 100 known tumour types of the central nervous system, standardization of the diagnostic process has been shown to be particularly challenging - with substantial inter-observer variabil......Accurate pathological diagnosis is crucial for optimal management of patients with cancer. For the approximately 100 known tumour types of the central nervous system, standardization of the diagnostic process has been shown to be particularly challenging - with substantial inter......-observer variability in the histopathological diagnosis of many tumour types. Here we present a comprehensive approach for the DNA methylation-based classification of central nervous system tumours across all entities and age groups, and demonstrate its application in a routine diagnostic setting. We show...

SHOX2 DNA Methylation is a Biomarker for the diagnosis of lung cancer based on bronchial aspirates

International Nuclear Information System (INIS)

Schmidt, Bernd; Lewin, Jörn; Tetzner, Reimo; Weickmann, Sabine; Wille, Ulrike; Liloglou, Triantafillos; Raji, Olaide; Walshaw, Martin; Fleischhacker, Michael; Witt, Christian; Field, John K; Liebenberg, Volker; Dietrich, Dimo; Schlegel, Thomas; Kneip, Christoph; Seegebarth, Anke; Flemming, Nadja; Seemann, Stefanie; Distler, Jürgen

2010-01-01

This study aimed to show that SHOX2 DNA methylation is a tumor marker in patients with suspected lung cancer by using bronchial fluid aspirated during bronchoscopy. Such a biomarker would be clinically valuable, especially when, following the first bronchoscopy, a final diagnosis cannot be established by histology or cytology. A test with a low false positive rate can reduce the need for further invasive and costly procedures and ensure early treatment. Marker discovery was carried out by differential methylation hybridization (DMH) and real-time PCR. The real-time PCR based HeavyMethyl technology was used for quantitative analysis of DNA methylation of SHOX2 using bronchial aspirates from two clinical centres in a case-control study. Fresh-frozen and Saccomanno-fixed samples were used to show the tumor marker performance in different sample types of clinical relevance. Valid measurements were obtained from a total of 523 patient samples (242 controls, 281 cases). DNA methylation of SHOX2 allowed to distinguish between malignant and benign lung disease, i.e. abscesses, infections, obstructive lung diseases, sarcoidosis, scleroderma, stenoses, at high specificity (68% sensitivity [95% CI 62-73%], 95% specificity [95% CI 91-97%]). Hypermethylation of SHOX2 in bronchial aspirates appears to be a clinically useful tumor marker for identifying subjects with lung carcinoma, especially if histological and cytological findings after bronchoscopy are ambiguous

Status, Distribution, and Diversity of Birds in Mining Environment of Kachchh, Gujarat

Directory of Open Access Journals (Sweden)

Nikunj B. Gajera

2013-01-01

Full Text Available Opencast mining is one of the major reasons for the destruction of natural habitats for many wildlife including birds. The Kachchh region belongs to the arid part of India and is one of the rich areas of mineral resources in the country. In the recent time and after the 2001 earthquake, mining and other developmental activities are increased, and as a result, the natural habitats of birds are disturbed and fragmented. So, this study was conducted to assess the impact of mining and associated activities on the diversity and distribution of birds. Birds were studied by surveying 180 transects along 9 zones around three selected major mines, and each zone is made in every 2 km radius from the mine. Based on the record, it was found that the density and diversity of birds are highest in zone 5 and lowest in zone 1 and zone 2, respectively. The result indicates that the diversity and abundance of birds were less in zones which are located close to the mines in comparison to the zones far from the mines. In conclusion, mining and its associated activities have some impacts on the diversity and distribution of birds in Kachchh region in India.

Neospora caninum in birds: A review.

Science.gov (United States)

de Barros, Luiz Daniel; Miura, Ana Carolina; Minutti, Ana Flávia; Vidotto, Odilon; Garcia, João Luis

2018-08-01

Neospora caninum is an obligate intracellular protozoan parasite that infects domestic and wild animals. Canids are considered to be definitive hosts since they may shed oocysts into the environment through their feces. The disease is recognized as one of the major causes of bovine abortion worldwide, leading to important economic losses in the dairy and beef cattle industries. Previous studies have reported N. caninum infection in different species of birds; infection in birds has been associated with increased seroprevalence and reproductive problems in dairy cattle. Although the role of birds in the epidemiological cycle of neosporosis is unknown, birds are exposed to infection because they feed on the ground and could thus contribute to parasite dissemination. This review is focused on the current state of knowledge of neosporosis in birds. Copyright © 2018 Elsevier B.V. All rights reserved.

The New York State Bird Conservation Area (BCA) Program: A Model for the United States

Science.gov (United States)

M. F. Burger; D. J. Adams; T. Post; L. Sommers; B. Swift

2005-01-01

The New York State Bird Conservation Area (BCA) Program, modeled after the National Audubon Society?s Important Bird Areas Program, is based on legislation signed by Governor Pataki in 1997. New York is the first state in the nation to enact such a program. The BCA Program seeks to provide a comprehensive, ecosystem approach to conserving birds and their habitats on...

AmBird: Mediating Intimacy for Long Distance Relationships through an Ambient Awareness System

DEFF Research Database (Denmark)

Jespersen, Sine; Stounbjerg, Rasmus Balthasar Kloth; Verdezoto, Nervo

2015-01-01

This paper introduces the AmBird concept that explores how to provide alternatives for mediating intimacy for people that are living apart. The initial design and implementation of the AmBird concept is described as well as a preliminary concept validation. Based on the lessons learned, we...

A CpG-methylation-based assay to predict survival in clear cell renal cell carcinoma

Science.gov (United States)

Wei, Jin-Huan; Haddad, Ahmed; Wu, Kai-Jie; Zhao, Hong-Wei; Kapur, Payal; Zhang, Zhi-Ling; Zhao, Liang-Yun; Chen, Zhen-Hua; Zhou, Yun-Yun; Zhou, Jian-Cheng; Wang, Bin; Yu, Yan-Hong; Cai, Mu-Yan; Xie, Dan; Liao, Bing; Li, Cai-Xia; Li, Pei-Xing; Wang, Zong-Ren; Zhou, Fang-Jian; Shi, Lei; Liu, Qing-Zuo; Gao, Zhen-Li; He, Da-Lin; Chen, Wei; Hsieh, Jer-Tsong; Li, Quan-Zhen; Margulis, Vitaly; Luo, Jun-Hang

2015-01-01

Clear cell renal cell carcinomas (ccRCCs) display divergent clinical behaviours. Molecular markers might improve risk stratification of ccRCC. Here we use, based on genome-wide CpG methylation profiling, a LASSO model to develop a five-CpG-based assay for ccRCC prognosis that can be used with formalin-fixed paraffin-embedded specimens. The five-CpG-based classifier was validated in three independent sets from China, United States and the Cancer Genome Atlas data set. The classifier predicts the overall survival of ccRCC patients (hazard ratio=2.96−4.82; P=3.9 × 10−6−2.2 × 10−9), independent of standard clinical prognostic factors. The five-CpG-based classifier successfully categorizes patients into high-risk and low-risk groups, with significant differences of clinical outcome in respective clinical stages and individual ‘stage, size, grade and necrosis' scores. Moreover, methylation at the five CpGs correlates with expression of five genes: PITX1, FOXE3, TWF2, EHBP1L1 and RIN1. Our five-CpG-based classifier is a practical and reliable prognostic tool for ccRCC that can add prognostic value to the staging system. PMID:26515236

DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia

DEFF Research Database (Denmark)

Nordlund, Jessica; Bäcklin, Christofer L; Zachariadis, Vasilios

2015-01-01

BACKGROUND: We present a method that utilizes DNA methylation profiling for prediction of the cytogenetic subtypes of acute lymphoblastic leukemia (ALL) cells from pediatric ALL patients. The primary aim of our study was to improve risk stratification of ALL patients into treatment groups using DNA...... in cytogenetically undefined ALL patient groups and could be implemented as a complementary method for diagnosis of ALL. The results of our study provide clues to the origin and development of leukemic transformation. The methylation status of the CpG sites constituting the classifiers also highlight relevant...

Resource base influences genome-wide DNA methylation levels in wild baboons (Papio cynocephalus)

Science.gov (United States)

Lea, Amanda J.; Altmann, Jeanne; Alberts, Susan C.; Tung, Jenny

2015-01-01

Variation in resource availability commonly exerts strong effects on fitness-related traits in wild animals. However, we know little about the molecular mechanisms that mediate these effects, or about their persistence over time. To address these questions, we profiled genome-wide whole blood DNA methylation levels in two sets of wild baboons: (i) ‘wild-feeding’ baboons that foraged naturally in a savanna environment and (ii) ‘Lodge’ baboons that had ready access to spatially concentrated human food scraps, resulting in high feeding efficiency and low daily travel distances. We identified 1,014 sites (0.20% of sites tested) that were differentially methylated between wild-feeding and Lodge baboons, providing the first evidence that resource availability shapes the epigenome in a wild mammal. Differentially methylated sites tended to occur in contiguous stretches (i.e., in differentially methylated regions or DMRs), in promoters and enhancers, and near metabolism-related genes, supporting their functional importance in gene regulation. In agreement, reporter assay experiments confirmed that methylation at the largest identified DMR, located in the promoter of a key glycolysis-related gene, was sufficient to causally drive changes in gene expression. Intriguingly, all dispersing males carried a consistent epigenetic signature of their membership in a wild-feeding group, regardless of whether males dispersed into or out of this group as adults. Together, our findings support a role for DNA methylation in mediating ecological effects on phenotypic traits in the wild, and emphasize the dynamic environmental sensitivity of DNA methylation levels across the life course. PMID:26508127

Studies on Synthesis and Dyeing Preformance of Acid Dyes Based on 4,7-Dihydroxy-1,10-Phenanthroline-2,9-Dione

Directory of Open Access Journals (Sweden)

B. V. Patel

2008-01-01

Full Text Available Some new azo acid dyes were prepared by coupling various diazotized acid components such as anthranilic acid, sulphanilic acid, laurent acid, peri acid, tobias acid, H-acid, J-acid, gamma acid, sulphotobias acid, 4-aminotoluiene-3-sulphonic acid, 5-sulpho- anthranilic acid, 2-naphthylamine-3,6,8-trisulphonic acid, bronner acid, metanilic acid and cleve acid with 4,7-dihydroxy-1,10-phenanthroline-2,9-dione. The dyes were characterized by elemental, IR and TLC analyses. Their dyeing performance as acid dyes has been assessed on viscose rayon, wool and cotton fibres.

Bristol Bay, Alaska Subarea ESI: BIRDS (Bird Polygons)

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — This data set contains sensitive biological resource data for shorebirds, waterfowl, raptors, diving birds, and seabirds in the Bristol Bay Subarea. The Subarea...

Ecological Sustainability of Birds in Boreal Forests

Directory of Open Access Journals (Sweden)

Gerald Niemi

1998-12-01

Full Text Available We review characteristics of birds in boreal forests in the context of their ecological sustainability under both natural and anthropogenic disturbances. We identify the underlying ecological factors associated with boreal bird populations and their variability, review the interactions between boreal bird populations and disturbance, and describe some tools on how boreal bird populations may be conserved in the future. The boreal system has historically been an area with extensive disturbance such as fire, insect outbreaks, and wind. In addition, the boreal system is vulnerable to global climate change as well as increasing pressure on forest and water resources. Current knowledge indicates that birds play an important role in boreal forests, and sustaining these populations affords many benefits to the health of boreal forests. Many issues must be approached with caution, including the lack of knowledge on our ability to mimic natural disturbance regimes with management, our lack of understanding on fragmentation due to logging activity, which is different from permanent conversion to other land uses such as agriculture or residential area, and our lack of knowledge on what controls variability in boreal bird populations or the linkage between bird population fluctuations and productivity. The essential role that birds can provide is to clarify important ecological concerns and variables that not only will help to sustain bird populations, but also will contribute to the long-term health of the boreal forest for all species, including humans.

Fossilized skin reveals coevolution with feathers and metabolism in feathered dinosaurs and early birds.

Science.gov (United States)

McNamara, Maria E; Zhang, Fucheng; Kearns, Stuart L; Orr, Patrick J; Toulouse, André; Foley, Tara; Hone, David W E; Rogers, Chris S; Benton, Michael J; Johnson, Diane; Xu, Xing; Zhou, Zhonghe

2018-05-25

Feathers are remarkable evolutionary innovations that are associated with complex adaptations of the skin in modern birds. Fossilised feathers in non-avian dinosaurs and basal birds provide insights into feather evolution, but how associated integumentary adaptations evolved is unclear. Here we report the discovery of fossil skin, preserved with remarkable nanoscale fidelity, in three non-avian maniraptoran dinosaurs and a basal bird from the Cretaceous Jehol biota (China). The skin comprises patches of desquamating epidermal corneocytes that preserve a cytoskeletal array of helically coiled α-keratin tonofibrils. This structure confirms that basal birds and non-avian dinosaurs shed small epidermal flakes as in modern mammals and birds, but structural differences imply that these Cretaceous taxa had lower body heat production than modern birds. Feathered epidermis acquired many, but not all, anatomically modern attributes close to the base of the Maniraptora by the Middle Jurassic.

Birds of a high-altitude cloud forest in Alta Verapaz, Guatemala.

Science.gov (United States)

Eisermann, Knut; Schulz, Ulrich

2005-01-01

The Northern Central American Highlands have been recognized as endemic bird area, but little is known about bird communities in Guatemalan cloud forests. From 1997 to 2001 a total of 142 bird species were recorded between 2000 and 2400 masl in cloud forest and agricultural clearings on Montaña Caquipec (Alta Verapaz, Guatemala). The bird community is described based on line transect counts within the forest. Pooling census data from undisturbed and disturbed forest, the Gray-breasted Wood-Wren (Henicorhina leucophrys) was found to be the most abundant species, followed in descending order by the Common Bush-Tanager (Chlorospingus ophthalmicus), the Paltry Tyrannulet (Zimmerius vilissimus), the Yellowish Flycatcher (Empidonax flavescens), the Ruddy-capped Nightingale-Thrush (Catharus frantzi), and the Amethyst-throated Hummingbird (Lampornis amethystinus). Bird communities in undisturbed and disturbed forest were found to be similar (Serensen similarity index 0.85), indicating low human impact. Of all recorded species, approximately 27% were Nearctic-Neotropical migratory birds. The most abundant one was the Wilson's Warbler (Wilsonia pusilla). The Montaña Caquipec is an important area for bird conservation, which is indicated by the presence of four species listed in the IUCN Red List (Highland Guan Penelopina nigra, Resplendent Quetzal Pharomachrus mocinno, Pink-headed Warbler Ergaticus versicolor, Golden-cheeked Warbler Dendroica chrysoparia), and 42 Mesoamerican endemics, of which 14 species are endemic to the Central American Highlands. The results presented here will be useful as baseline data for a long-term monitoring.

Investigations of migratory birds during operation of Horns Rev offshore wind farm. Annual status report 2004

Energy Technology Data Exchange (ETDEWEB)

Kjaer Christensen, T.; Hounisen, J.P. [NERI, Dept. of Wildlife Ecology and Biodiversity, Roskilde (Denmark)

2005-07-01

The aim of the project is to assess the collision risk between birds and wind turbines at the Horns Rev wind farm. The study focused on describing bird movements in relation to the wind farm and to identify the species-specific behavioural responses towards the wind turbines shown by migrating and staging bird species. The study was based on data from spring 2004. The Horns Rev area lies in a region known to be of importance for substantial water bird migration as well as holding internationally important numbers of several wintering and staging water bird species. (au)

Investigations of migratory birds during operation of Horns Rev offshore wind farm. Annual status report 2004

International Nuclear Information System (INIS)

Kjaer Christensen, T.; Hounisen, J.P.

2005-01-01

The aim of the project is to assess the collision risk between birds and wind turbines at the Horns Rev wind farm. The study focused on describing bird movements in relation to the wind farm and to identify the species-specific behavioural responses towards the wind turbines shown by migrating and staging bird species. The study was based on data from spring 2004. The Horns Rev area lies in a region known to be of importance for substantial water bird migration as well as holding internationally important numbers of several wintering and staging water bird species. (au)

LIF excitation spectra for S 0 → S 1 transition of deuterated anthranilic acid COOD, ND 2 in supersonic-jet expansion

Science.gov (United States)

Kolek, Przemysław; Leśniewski, Sebastian; Andrzejak, Marcin; Góra, Maciej; Cias, Pawel; Weģrzynowicz, Adam; Najbar, Jan

2010-12-01

Laser induced fluorescence (LIF) excitation spectrum for the S 0 → S 1 transition of anthranilic acid molecules deuterated in the substituent groups (COOD, ND 2) was investigated. Analysis of the LIF spectrum allowed for the assignment of the six most prominent fundamental in-plane modes of frequencies up to ca. 850 cm. The experimental results show good correlation with the frequency changes upon deuteration computed with CIS (CI-Singles) and TD-DFT for the S 1 state. Deuteration induced red-shifts of the identified fundamental bands are used for examination of the alternative assignments proposed in earlier studies. Potential energy distributions (PED) and overlaps of the in-plane normal modes with frequencies below 850 cm indicate that the correspondence of the respective vibrations of the deuterated and non-deuterated molecule is very good. A blue-shift of the 00 transition due to the isotopic substitution, is equal to 47 cm. This relatively large value is caused primarily by a significant decrease of the N-H stretching frequency associated with the increase of strength of the intramolecular hydrogen bond upon the electronic excitation. The deuteration shift of the 00 band was interpreted in terms of the differences of the zero point energy (ZPE) between the S 0 and S 1 electronic states, computed with DFT and TD-DFT methods, respectively.

Experimental and chemical kinetic modeling study of small methyl esters oxidation: Methyl (E)-2-butenoate and methyl butanoate

Energy Technology Data Exchange (ETDEWEB)

Gail, S.; Sarathy, S.M.; Thomson, M.J. [Department of Mechanical and Industrial Engineering, University of Toronto, Toronto, ON M5S 3G8 (Canada); Dievart, P.; Dagaut, P. [CNRS, 1C, Ave de la Recherche Scientifique, 45071 Orleans Cedex 2 (France)

2008-12-15

This study examines the effect of unsaturation on the combustion of fatty acid methyl esters (FAME). New experimental results were obtained for the oxidation of methyl (E)-2-butenoate (MC, unsaturated C{sub 4} FAME) and methyl butanoate (MB, saturated C{sub 4} FAME) in a jet-stirred reactor (JSR) at atmospheric pressure under dilute conditions over the temperature range 850-1400 K, and two equivalence ratios ({phi}=0.375,0.75) with a residence time of 0.07 s. The results consist of concentration profiles of the reactants, stable intermediates, and final products, measured by probe sampling followed by on-line and off-line gas chromatography analyses. The oxidation of MC and MB in the JSR and under counterflow diffusion flame conditions was modeled using a new detailed chemical kinetic reaction mechanism (301 species and 1516 reactions) derived from previous schemes proposed in the literature. The laminar counterflow flame and JSR (for {phi}=1.13) experimental results used were from a previous study on the comparison of the combustion of both compounds. Sensitivity analyses and reaction path analyses, based on rates of reaction, were used to interpret the results. The data and the model show that MC has reaction pathways analogous to that of MB under the present conditions. The model of MC oxidation provides a better understanding of the effect of the ester function on combustion, and the effect of unsaturation on the combustion of fatty acid methyl ester compounds typically found in biodiesel. (author)

Phosphatidylcholine synthesis in the rat: The substrate for methylation and regulation by choline

International Nuclear Information System (INIS)

Datko, A.H.; Aksamit, R.R.; Mudd, S.H.

1990-01-01

Two lines of evidence led us to reexamine the possibility that methylation of phosphoethanolamine and its partially methylated derivatives, in addition to methylation of the corresponding phosphatidyl derivatives, plays a role in mammalian phosphatidylcholine biosynthesis: (a) Results obtained by Salerno and Beeler with rat appear to strongly support such a role for methylation of phosphobases; (b) Such reactions have recently been shown to play major roles in phosphatidylcholine synthesis by higher plants. We found that, following continuous labeling of rat liver with L-[methyl-3H]methionine for 10.4 min (intraperitoneal administration) or for 0.75 min (intraportal administration), virtually no 3H was detected in methylated derivatives of phosphoethanolamine, but readily detectable amounts of 3H were present in the base moiety of each methylated derivative of phosphatidylethanolamine. Thus, there was no indication that phospho-base methylation makes a significant contribution. Studies of cultured rat hepatoma cells showed definitively for the first time in a mammalian system that choline deprivation up-regulates the rate of flow of methyl groups originating in methionine into phosphatidylethanolamine and derivatives. Even under these conditions, methylation of phosphoethanolamine bases appeared to play a negligible role

Genomic DNA Methylation Changes in Response to Folic Acid Supplementation in a Population-Based Intervention Study among Women of Reproductive Age

Science.gov (United States)

Berry, Robert J.; Hao, Ling; Li, Zhu; Maneval, David; Yang, Thomas P.; Rasmussen, Sonja A.; Yang, Quanhe; Zhu, Jiang-Hui; Hu, Dale J.; Bailey, Lynn B.

2011-01-01

Folate is a source of one-carbons necessary for DNA methylation, a critical epigenetic modification necessary for genomic structure and function. The use of supplemental folic acid is widespread however; the potential influence on DNA methylation is unclear. We measured global DNA methylation using DNA extracted from samples from a population-based, double-blind randomized trial of folic acid supplementation (100, 400, 4000 µg per day) taken for 6 months; including a 3 month post-supplementation sample. We observed no changes in global DNA methylation in response to up to 4,000 µg/day for 6 months supplementation in DNA extracted from uncoagulated blood (approximates circulating blood). However, when DNA methylation was determined in coagulated samples from the same individuals at the same time, significant time, dose, and MTHFR genotype-dependent changes were observed. The baseline level of DNA methylation was the same for uncoagulated and coagulated samples; marked differences between sample types were observed only after intervention. In DNA from coagulated blood, DNA methylation decreased (−14%; Pmethylation decreased an additional 23% (Pmethylation of ≥25% (vs. methylation between DNA extracted from coagulated and uncoagulated samples in response to folic acid supplementation is an important finding for evaluating use of folic acid and investigating the potential effects of folic acid supplementation on coagulation. PMID:22163281

Analysis of Bird Diversity for Supporting Ecotourism Development in Rajegwesi, Meru Betiri National Park

Directory of Open Access Journals (Sweden)

Hafid Zain Muttaqien

2015-09-01

Full Text Available Potential ecotourism attraction in Rajegwesi Village, Meru Betiri National Park is high due to its high biodiversity, especially bird diversity, in the form of bird watching activity. This study was aimed to determine the species, level of abundance, and diversity of birds found in the Rajegwesi area. Further, this basic information is important to develop the bird watching track at Rajegwesi. We used Quantum-GIS to create the land classification and observation mapping. Bird observation used point count method in the morning and evening with three periods of hour and three repetitions. The study confirmed about 76 species of 39 bird families was found in Rajegwesi. The highest abundance was Pygnonotus goiavier (E:Yellow-vented Bulbul, at the meadows, village, and rehabilitation land. The diversity index showed that the highest diversity was found at the heterogeneous forest (H’ index 3.745, followed by homogenous forest (H’ index 3.150, rehabilitation land (H’ index 2.845, village (H’ index 2.693, paddy fields (H’ index 2.529, and savanna (H’ index 1.880. The observation track was divided into 3 lines based on the bird’s distribution, the Village – Rehabilitation Land track (6.5 Km, Village track (2.3 Km, and Village – Rafflessia Park track (7.5 Km. Total of 25 bird species were found at the Village – Rehabilitation Land track, 22 species were found at the Village track, and 29 bird species were found at the Village – Rafflessia Park track. For the future of ecotourism development through birding development program, there are several issues that should be promoted: promoting birds conservation in the community through bird watching and birds observation competition (Bird race, training on conservation and ecotourism for the community, and strengthening the capacity and capability of Rajegwesi Ecotourism Society (RES on the ecotourism program management. Keywords: bird watching, conservation, ecotourism development, RES

Film dosimeters based on methylene blue and methyl orange in polyvinyl alcohol

DEFF Research Database (Denmark)

Chung, W.H.; Miller, A.

1994-01-01

Polyvinyl alcohol (PVA) films containing methylene blue and methyl orange are useful as gamma and electron radiation dosimeters. Absorbed doses should not exceed 40 kGy for methylene blue and 500 kGy for methyl orange. Because PVA is water-soluble, the films may be made without toxic solvents...

76 FR 59271 - Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds

Science.gov (United States)

2011-09-26

...-0014; 91200-1231-9BPP-L2] RIN 1018-AX34 Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds AGENCY: Fish and Wildlife Service, Interior. ACTION: Final rule... of migratory birds is prohibited unless specifically provided for by annual regulations. This rule...

The Origin and Diversification of Birds.

Science.gov (United States)

Brusatte, Stephen L; O'Connor, Jingmai K; Jarvis, Erich D

2015-10-05

Birds are one of the most recognizable and diverse groups of modern vertebrates. Over the past two decades, a wealth of new fossil discoveries and phylogenetic and macroevolutionary studies has transformed our understanding of how birds originated and became so successful. Birds evolved from theropod dinosaurs during the Jurassic (around 165-150 million years ago) and their classic small, lightweight, feathered, and winged body plan was pieced together gradually over tens of millions of years of evolution rather than in one burst of innovation. Early birds diversified throughout the Jurassic and Cretaceous, becoming capable fliers with supercharged growth rates, but were decimated at the end-Cretaceous extinction alongside their close dinosaurian relatives. After the mass extinction, modern birds (members of the avian crown group) explosively diversified, culminating in more than 10,000 species distributed worldwide today. Copyright © 2015 Elsevier Ltd. All rights reserved.

45 CFR 670.20 - Designation of native birds.

Science.gov (United States)

2010-10-01

... 45 Public Welfare 3 2010-10-01 2010-10-01 false Designation of native birds. 670.20 Section 670.20... CONSERVATION OF ANTARCTIC ANIMALS AND PLANTS Native Mammals, Birds, Plants, and Invertebrates § 670.20 Designation of native birds. The following are designated native birds: Albatross Black-browed—Diomedea...

Palaearctic-African Bird Migration

DEFF Research Database (Denmark)

Iwajomo, Soladoye Babatola

Bird migration has attracted a lot of interests over past centuries and the methods used for studying this phenomenon has greatly improved in terms of availability, dimension, scale and precision. In spite of the advancements, relatively more is known about the spring migration of trans-Saharan m......Bird migration has attracted a lot of interests over past centuries and the methods used for studying this phenomenon has greatly improved in terms of availability, dimension, scale and precision. In spite of the advancements, relatively more is known about the spring migration of trans...... of birds from Europe to Africa and opens up the possibility of studying intra-African migration. I have used long-term, standardized autumn ringing data from southeast Sweden to investigate patterns in biometrics, phenology and population trends as inferred from annual trapping totals. In addition, I...... in the population of the species. The papers show that adult and juvenile birds can use different migration strategies depending on time of season and prevailing conditions. Also, the fuel loads of some individuals were theoretically sufficient for a direct flight to important goal area, but whether they do so...

Oak Ridge Reservation Bird Records and Population Trends

Energy Technology Data Exchange (ETDEWEB)

Roy, W. K. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Giffen, N. R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Wade, M. C. [CDM Smith (United States); Haines, A. M. [Xcel Engineering, Inc.(United States); Evans, J. W. [Tennessee WIldlife Resources Agency (WRA), Nashville, TN (United States); Jett, R. T. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

2014-09-01

Bird data have been collected through surveys, environmental assessments, and other observations for decades in the Oak Ridge National Environmental Research Park, located on the US Department of Energy’s Oak Ridge Reservation (ORR) in East Tennessee. Birds were recorded in a variety of habitats, including wetlands, interior forests, grasslands, ponds, corridors, forest edges, and more. Most of the information was gathered from waterfowl surveys conducted from 1990 to 2008, from Partners in Flight (PIF) breeding bird surveys conducted from 1995 to 2013, and from past publications and research on Reservation birds. We have also included our own observations and, in a few instances, credible observations of ORR birds of which we have been made aware through eBird or discussions with area ornithologists and bird watchers. For the period 1950-2014, we were able to document 228 species of birds on the ORR. Several of these species are known from historic records only, while others were not known to have ever occurred on the Reservation until recently. This report does not include PIF breeding bird data from the 2014 season or any records after July 2014. Twenty-two species--approximately 10% of the total number of species observed--have state-listed status in Tennessee as endangered, threatened, or in need of management. Of the 228 species we documented, 120 are believed to be breeding birds on the ORR.

Oak Ridge Reservation Bird Records and Population Trends

Energy Technology Data Exchange (ETDEWEB)

Roy, W. Kelly [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Giffen, Neil R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Wade, Murray [CDM Smith, Inc., Knoxville, TN (United States); Haines, Angelina [Xcel Engineering, Inc., Oak Ridge, TN (United States); Evans, James W. [Tennessee Wildlife Resources Agency, Nashville, TN (United States); Jett, Robert Trent [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

2014-11-01

Bird data have been collected through surveys, environmental assessments, and other observations for decades in the Oak Ridge National Environmental Research Park, located on the US Department of Energy s Oak Ridge Reservation (ORR) in East Tennessee. Birds were recorded in a variety of habitats, including wetlands, interior forests, grasslands, ponds, corridors, forest edges, and more. Most of the information was gathered from waterfowl surveys conducted from 1990 to 2008, from Partners in Flight (PIF) breeding bird surveys conducted from 1995 to 2013, and from past publications and research on Reservation birds. We have also included our own observations and, in a few instances, credible observations of ORR birds of which we have been made aware through eBird or discussions with area ornithologists and bird watchers. For the period 1950 2014, we were able to document 228 species of birds on the ORR. Several of these species are known from historic records only, while others were not known to have ever occurred on the Reservation until recently. This report does not include PIF breeding bird data from the 2014 season or any records after July 2014. Twenty-two species approximately 10% of the total number of species observed have state-listed status in Tennessee as endangered, threatened, or in need of management. Of the 228 species we documented, 120 are believed to be breeding birds on the ORR.

Ionizing radiation and wild birds: a review

International Nuclear Information System (INIS)

Mellinger, P.J.; Schultz, V.

1975-01-01

Since the first atomic explosion, 16 July 1945 at the Trinity Site in south-central New Mexico, the impact of ionizing radiation on bird populations has been of concern to a few individuals. The proliferation of nuclear power plants has increased public concern as to possible deleterious effects of nuclear power plant operation on resident and migratory bird populations. Literature involving wild birds and ionizing radiation is not readily available, and only a few studies have been anywhere near comprehensive, with most effort directed towards monitoring radionuclide concentration in birds. The objective of the paper is to document the literature on wild birds and ionizing radiation including a brief description of pertinent papers

Actogram analysis of free-flying migratory birds

DEFF Research Database (Denmark)

Bäckman, Johan; Andersson, Arne; Pedersen, Lykke

2017-01-01

The use of accelerometers has become an important part of biologging techniques for large-sized birds with accelerometer data providing information about flight mode, wing-beat pattern, behaviour and energy expenditure. Such data show that birds using much energy-saving soaring/gliding flight like...... frigatebirds and swifts can stay airborne without landing for several months. Successful accelerometer studies have recently been conducted also for free-flying small songbirds during their entire annual cycle. Here we review the principles and possibilities for accelerometer studies in bird migration. We use...... of the life cycle. Accelerometer recording of the annual activity patterns of individual birds will open up a new dimension in bird migration research....

Effects of wildlife of ethyl and methyl parathion applied to California USA rice fields

Science.gov (United States)

Custer, T.W.; Hill, E.F.; Ohlendorf, H.M.

1985-01-01

Selected rice fields on the Sacramento National Wildlife Refuge Complex were aerially sprayed one time during May or June 1982 with either ethyl (0.11 kg Al/ha) or methyl (0.84 kg AI/ha) parathion for control of tadpole shrimp, Triops longicaudatus. No sick or dead vertebrate wildlife were found or adjacent to the treated rice fields after spraying. Specimens of the following birds and mammals were assayed for brain cholinesterase (ChE) activity to determine exposure to either form of parathion; house mouse, Mus musculus; black-tailed jackrabbit, Lepus californicus; mallard, Anas platyrhynchos; ring-necked pheasant, Phasianus colchicus; American coot, Fulica americana; and red-winged blackbird, Agelaius phoeniceus. Both mice and pheasants from methyl parathion-treated fields had overall mean ChE activities that were significantly (P < 0.05) inhibited compared with controls, and 7, 40, 54 and 57% of individual blackbirds, pheasant, mice, and coots, respectively, had inhibited brain ChE activities (i.e., less than -2 SD of control mean). Although no overall species effect was detected for ethyl parathoid treatment, pheasants (43%), coots (33%), and mice (37%) had significantly inhibited brain ChE activities. Neither of the parathion treatment appeared acutely hazardous to wildlife in or adjacent to rice fields, but sufficient information on potential hazards was obtained to warrant caution in use of these chemicals, especially methyl parathion, in rice fields.

Large-scale genomic 2D visualization reveals extensive CG-AT skew correlation in bird genomes

Directory of Open Access Journals (Sweden)

Deng Xuemei

2007-11-01

Full Text Available Abstract Background Bird genomes have very different compositional structure compared with other warm-blooded animals. The variation in the base skew rules in the vertebrate genomes remains puzzling, but it must relate somehow to large-scale genome evolution. Current research is inclined to relate base skew with mutations and their fixation. Here we wish to explore base skew correlations in bird genomes, to develop methods for displaying and quantifying such correlations at different scales, and to discuss possible explanations for the peculiarities of the bird genomes in skew correlation. Results We have developed a method called Base Skew Double Triangle (BSDT for exhibiting the genome-scale change of AT/CG skew as a two-dimensional square picture, showing base skews at many scales simultaneously in a single image. By this method we found that most chicken chromosomes have high AT/CG skew correlation (symmetry in 2D picture, except for some microchromosomes. No other organisms studied (18 species show such high skew correlations. This visualized high correlation was validated by three kinds of quantitative calculations with overlapping and non-overlapping windows, all indicating that chicken and birds in general have a special genome structure. Similar features were also found in some of the mammal genomes, but clearly much weaker than in chickens. We presume that the skew correlation feature evolved near the time that birds separated from other vertebrate lineages. When we eliminated the repeat sequences from the genomes, the AT and CG skews correlation increased for some mammal genomes, but were still clearly lower than in chickens. Conclusion Our results suggest that BSDT is an expressive visualization method for AT and CG skew and enabled the discovery of the very high skew correlation in bird genomes; this peculiarity is worth further study. Computational analysis indicated that this correlation might be a compositional characteristic

Comparative Phylogeography of Neotropical Birds

Science.gov (United States)

2009-05-01

birds, butterflies, plants , soil type, and precipitation (Whitmore and Prance 1987); (C) study populations based largely on neo-tropical lowland...Caballero, A. 1994. Developments in the prediction of effective population size. Heredity 73:657- 679. Camargo, A., R. O. De Sa, and W. R. Heyer. 2006...157-183. Hamrick, J. L., and M. J. W. Godt. 1996. Effects of life history traits on genetic diversity in plant species. Philosophical Transactions Of

DNA methylation analysis reveals distinct methylation signatures in pediatric germ cell tumors

International Nuclear Information System (INIS)

Amatruda, James F; Frazier, A Lindsay; Poynter, Jenny N; Ross, Julie A; Christensen, Brock; Fustino, Nicholas J; Chen, Kenneth S; Hooten, Anthony J; Nelson, Heather; Kuriger, Jacquelyn K; Rakheja, Dinesh

2013-01-01

Aberrant DNA methylation is a prominent feature of many cancers, and may be especially relevant in germ cell tumors (GCTs) due to the extensive epigenetic reprogramming that occurs in the germ line during normal development. We used the Illumina GoldenGate Cancer Methylation Panel to compare DNA methylation in the three main histologic subtypes of pediatric GCTs (germinoma, teratoma and yolk sac tumor (YST); N = 51) and used recursively partitioned mixture models (RPMM) to test associations between methylation pattern and tumor and demographic characteristics. We identified genes and pathways that were differentially methylated using generalized linear models and Ingenuity Pathway Analysis. We also measured global DNA methylation at LINE1 elements and evaluated methylation at selected imprinted loci using pyrosequencing. Methylation patterns differed by tumor histology, with 18/19 YSTs forming a distinct methylation class. Four pathways showed significant enrichment for YSTs, including a human embryonic stem cell pluripotency pathway. We identified 190 CpG loci with significant methylation differences in mature and immature teratomas (q < 0.05), including a number of CpGs in stem cell and pluripotency-related pathways. Both YST and germinoma showed significantly lower methylation at LINE1 elements compared with normal adjacent tissue while there was no difference between teratoma (mature and immature) and normal tissue. DNA methylation at imprinted loci differed significantly by tumor histology and location. Understanding methylation patterns may identify the developmental stage at which the GCT arose and the at-risk period when environmental exposures could be most harmful. Further, identification of relevant genetic pathways could lead to the development of new targets for therapy

50 CFR 20.38 - Possession of live birds.

Science.gov (United States)

2010-10-01

... 50 Wildlife and Fisheries 6 2010-10-01 2010-10-01 false Possession of live birds. 20.38 Section 20... WILDLIFE AND PLANTS (CONTINUED) MIGRATORY BIRD HUNTING Possession § 20.38 Possession of live birds. Every migratory game bird wounded by hunting and reduced to possession by the hunter shall be immediately killed...

Avian Bornavirus in Free-Ranging Psittacine Birds, Brazil

Science.gov (United States)

Encinas-Nagel, Nuri; Enderlein, Dirk; Piepenbring, Anne; Herden, Christiane; Heffels-Redmann, Ursula; Felippe, Paulo A.N.; Arns, Clarice; Hafez, Hafez M.

2014-01-01

Avian bornavirus (ABV) has been identified as the cause of proventricular dilatation disease in birds, but the virus is also found in healthy birds. Most studies of ABV have focused on captive birds. We investigated 86 free-ranging psittacine birds in Brazil and found evidence for natural, long-term ABV infection. PMID:25417715

Effects of drainage-basin geomorphology on insectivorous bird abundance in temperate forests.

Science.gov (United States)

Iwata, Tomoya; Urabe, Jotaro; Mitsuhashi, Hiromune

2010-10-01

Interfaces between terrestrial and stream ecosystems often enhance species diversity and population abundance of ecological communities beyond levels that would be expected separately from both the ecosystems. Nevertheless, no study has examined how stream configuration within a watershed influences the population of terrestrial predators at the drainage-basin scale. We examined the habitat and abundance relationships of forest insectivorous birds in eight drainage basins in a cool temperate forest of Japan during spring and summer. Each basin has different drainage-basin geomorphology, such as the density and frequency of stream channels. In spring, when terrestrial arthropod prey biomass is limited, insectivorous birds aggregated in habitats closer to streams, where emerging aquatic prey was abundant. Nevertheless, birds ceased to aggregate around streams in summer because terrestrial prey became plentiful. Watershed-scale analyses showed that drainage basins with longer stream channels per unit area sustained higher densities of insectivorous birds. Moreover, such effects of streams on birds continued from spring through summer, even though birds dispersed out of riparian areas in the summer. Although our data are from only a single year, our findings imply that physical modifications of stream channels may reduce populations of forest birds; thus, they emphasize the importance of landscape-based management approaches that consider both stream and forest ecosystems for watershed biodiversity conservation. © 2010 Society for Conservation Biology.

Metal complexes of salicylhydroxamic acid (H2Sha), anthranilic hydroxamic acid and benzohydroxamic acid. Crystal and molecular structure of [Cu(phen)2(Cl)]Cl x H2Sha, a model for a peroxidase-inhibitor complex.

Science.gov (United States)

O'Brien, E C; Farkas, E; Gil, M J; Fitzgerald, D; Castineras, A; Nolan, K B

2000-04-01

Stability constants of iron(III), copper(II), nickel(II) and zinc(II) complexes of salicylhydroxamic acid (H2Sha), anthranilic hydroxamic acid (HAha) and benzohydroxamic acid (HBha) have been determined at 25.0 degrees C, I=0.2 mol dm(-3) KCl in aqueous solution. The complex stability order, iron(III) > copper(II) > nickel(II) approximately = zinc(II) was observed whilst complexes of H2Sha were found to be more stable than those of the other two ligands. In the preparation of ternary metal ion complexes of these ligands and 1,10-phenanthroline (phen) the crystalline complex [Cu(phen)2(Cl)]Cl x H2Sha was obtained and its crystal structure determined. This complex is a model for hydroxamate-peroxidase inhibitor interactions.

Molecular Ecological Insights into Neotropical Bird-Tick Interactions.

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Matthew J Miller

Full Text Available In the tropics, ticks parasitize many classes of vertebrate hosts. However, because many tropical tick species are only identifiable in the adult stage, and these adults usually parasitize mammals, most attention on the ecology of tick-host interactions has focused on mammalian hosts. In contrast, immature Neotropical ticks are often found on wild birds, yet difficulties in identifying immatures hinder studies of birds' role in tropical tick ecology and tick-borne disease transmission. In Panama, we found immature ticks on 227 out of 3,498 individually-sampled birds representing 93 host species (24% of the bird species sampled, and 13% of the Panamanian land bird fauna. Tick parasitism rates did not vary with rainfall or temperature, but did vary significantly with several host ecological traits. Likewise, Neotropical-Nearctic migratory birds were significantly less likely to be infested than resident species. Using a molecular library developed from morphologically-identified adult ticks specifically for this study, we identified eleven tick species parasitizing birds, indicating that a substantial portion of the Panamanian avian species pool is parasitized by a diversity of tick species. Tick species that most commonly parasitized birds had the widest diversity of avian hosts, suggesting that immature tick species are opportunistic bird parasites. Although certain avian ecological traits are positively associated with parasitism, we found no evidence that individual tick species show specificity to particular avian host ecological traits. Finally, our data suggest that the four principal vectors of Rocky Mountain Spotted Fever in the Neotropics rarely, if ever, parasitize Panamanian birds. However, other tick species that harbor newly-discovered rickettsial parasites of unknown pathogenicity are frequently found on these birds. Given our discovery of broad interaction between Panamanian tick and avian biodiversity, future work on tick ecology

Molecular Ecological Insights into Neotropical Bird-Tick Interactions.

Science.gov (United States)

Miller, Matthew J; Esser, Helen J; Loaiza, Jose R; Herre, Edward Allen; Aguilar, Celestino; Quintero, Diomedes; Alvarez, Eric; Bermingham, Eldredge

2016-01-01

In the tropics, ticks parasitize many classes of vertebrate hosts. However, because many tropical tick species are only identifiable in the adult stage, and these adults usually parasitize mammals, most attention on the ecology of tick-host interactions has focused on mammalian hosts. In contrast, immature Neotropical ticks are often found on wild birds, yet difficulties in identifying immatures hinder studies of birds' role in tropical tick ecology and tick-borne disease transmission. In Panama, we found immature ticks on 227 out of 3,498 individually-sampled birds representing 93 host species (24% of the bird species sampled, and 13% of the Panamanian land bird fauna). Tick parasitism rates did not vary with rainfall or temperature, but did vary significantly with several host ecological traits. Likewise, Neotropical-Nearctic migratory birds were significantly less likely to be infested than resident species. Using a molecular library developed from morphologically-identified adult ticks specifically for this study, we identified eleven tick species parasitizing birds, indicating that a substantial portion of the Panamanian avian species pool is parasitized by a diversity of tick species. Tick species that most commonly parasitized birds had the widest diversity of avian hosts, suggesting that immature tick species are opportunistic bird parasites. Although certain avian ecological traits are positively associated with parasitism, we found no evidence that individual tick species show specificity to particular avian host ecological traits. Finally, our data suggest that the four principal vectors of Rocky Mountain Spotted Fever in the Neotropics rarely, if ever, parasitize Panamanian birds. However, other tick species that harbor newly-discovered rickettsial parasites of unknown pathogenicity are frequently found on these birds. Given our discovery of broad interaction between Panamanian tick and avian biodiversity, future work on tick ecology and the dynamics of

75 FR 58993 - Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds

Science.gov (United States)

2010-09-24

... Part V Department of the Interior Fish and Wildlife Service 50 CFR Part 20 Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds; Final Rule #0;#0;Federal...-1231-9BPP-L2] RIN 1018-AX06 Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for...

Modeling of the oxidation of methyl esters—Validation for methyl hexanoate, methyl heptanoate, and methyl decanoate in a jet-stirred reactor

Science.gov (United States)

Glaude, Pierre Alexandre; Herbinet, Olivier; Bax, Sarah; Biet, Joffrey; Warth, Valérie; Battin-Leclerc, Frédérique

2013-01-01

The modeling of the oxidation of methyl esters was investigated and the specific chemistry, which is due to the presence of the ester group in this class of molecules, is described. New reactions and rate parameters were defined and included in the software EXGAS for the automatic generation of kinetic mechanisms. Models generated with EXGAS were successfully validated against data from the literature (oxidation of methyl hexanoate and methyl heptanoate in a jet-stirred reactor) and a new set of experimental results for methyl decanoate. The oxidation of this last species was investigated in a jet-stirred reactor at temperatures from 500 to 1100 K, including the negative temperature coefficient region, under stoichiometric conditions, at a pressure of 1.06 bar and for a residence time of 1.5 s: more than 30 reaction products, including olefins, unsaturated esters, and cyclic ethers, were quantified and successfully simulated. Flow rate analysis showed that reactions pathways for the oxidation of methyl esters in the low-temperature range are similar to that of alkanes. PMID:23710076

Modeling of the oxidation of methyl esters-Validation for methyl hexanoate, methyl heptanoate, and methyl decanoate in a jet-stirred reactor.

Science.gov (United States)

Glaude, Pierre Alexandre; Herbinet, Olivier; Bax, Sarah; Biet, Joffrey; Warth, Valérie; Battin-Leclerc, Frédérique

2010-11-01

The modeling of the oxidation of methyl esters was investigated and the specific chemistry, which is due to the presence of the ester group in this class of molecules, is described. New reactions and rate parameters were defined and included in the software EXGAS for the automatic generation of kinetic mechanisms. Models generated with EXGAS were successfully validated against data from the literature (oxidation of methyl hexanoate and methyl heptanoate in a jet-stirred reactor) and a new set of experimental results for methyl decanoate. The oxidation of this last species was investigated in a jet-stirred reactor at temperatures from 500 to 1100 K, including the negative temperature coefficient region, under stoichiometric conditions, at a pressure of 1.06 bar and for a residence time of 1.5 s: more than 30 reaction products, including olefins, unsaturated esters, and cyclic ethers, were quantified and successfully simulated. Flow rate analysis showed that reactions pathways for the oxidation of methyl esters in the low-temperature range are similar to that of alkanes.

19 CFR 10.76 - Game animals and birds.

Science.gov (United States)

2010-04-01

... 19 Customs Duties 1 2010-04-01 2010-04-01 false Game animals and birds. 10.76 Section 10.76... TREASURY ARTICLES CONDITIONALLY FREE, SUBJECT TO A REDUCED RATE, ETC. General Provisions Animals and Birds § 10.76 Game animals and birds. (a) The following classes of live game animals and birds may be...

Passerine bird communities of Iberian dehesas: a review

Directory of Open Access Journals (Sweden)

Tellería, J. L.

2001-01-01

Full Text Available The Iberian dehesas are a man-made habitat composed of scattered oaks (Quercus spp. and extensive grass cover occupying three million ha in south-western Iberia. This paper compares the structure of the passerine bird communities in this region with other bird assemblages of Iberian woodlands. Although forest bird numbers in the southern half of the Iberian peninsula are decreasing, the dehesas show the highest richness in breeding birds, seemingly as the result of the increased presence of border and open-habitat birds. A low intra-habitat turnover of species was observed in the dehesas, with birds recorded at a sampling point accounting for a high percentage of the total richness of the community. This can be related to the low spatial patchiness of this habitat. In winter, the dehesas continued to maintain many bird species, but showed bird densities similar to other woodlands. This pattern, as well as the scarcity of some common forest passerines during the breeding period, could result from the removal of the shrub layer typical of Mediterranean woodlands.

The role of cytosine methylation on charge transport through a DNA strand

Energy Technology Data Exchange (ETDEWEB)

Qi, Jianqing, E-mail: jqqi@uw.edu; Anantram, M. P., E-mail: anantmp@uw.edu [Department of Electrical Engineering, University of Washington, Seattle, Washington 98195-2500 (United States); Govind, Niranjan, E-mail: niri.govind@pnnl.gov [William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington 99352 (United States)

2015-09-07

Cytosine methylation has been found to play a crucial role in various biological processes, including a number of human diseases. The detection of this small modification remains challenging. In this work, we computationally explore the possibility of detecting methylated DNA strands through direct electrical conductance measurements. Using density functional theory and the Landauer-Büttiker method, we study the electronic properties and charge transport through an eight base-pair methylated DNA strand and its native counterpart. We first analyze the effect of cytosine methylation on the tight-binding parameters of two DNA strands and then model the transmission of the electrons and conductance through the strands both with and without decoherence. We find that the main difference of the tight-binding parameters between the native DNA and the methylated DNA lies in the on-site energies of (methylated) cytosine bases. The intra- and inter-strand hopping integrals between two nearest neighboring guanine base and (methylated) cytosine base also change with the addition of the methyl groups. Our calculations show that in the phase-coherent limit, the transmission of the methylated strand is close to the native strand when the energy is nearby the highest occupied molecular orbital level and larger than the native strand by 5 times in the bandgap. The trend in transmission also holds in the presence of the decoherence with the same rate. The lower conductance for the methylated strand in the experiment is suggested to be caused by the more stable structure due to the introduction of the methyl groups. We also study the role of the exchange-correlation functional and the effect of contact coupling by choosing coupling strengths ranging from weak to strong coupling limit.

Identifying effective actions to guide volunteer-based and nationwide conservation efforts for a ground-nesting farmland bird

OpenAIRE

Santangeli, Andrea; Arroyo, Beatriz; Millon, Alexandre; Bretagnolle, Vincent

2015-01-01

Modern farming practices threaten wildlife in different ways, and failure to identify the complexity of multiple threats acting in synergy may result in ineffective management. To protect ground-nesting birds in farmland, monitoring and mitigating impacts of mechanical harvesting is crucial. Here, we use 6 years of data from a nationwide volunteer-based monitoring scheme of the Montagu's harrier, a ground-nesting raptor, in French farmlands. We assess the effectiveness of alternative nest pro...

The Flight of Birds and Other Animals

Directory of Open Access Journals (Sweden)

Colin J. Pennycuick

2015-09-01

Full Text Available Methods of observing birds in flight now include training them to fly under known conditions in wind tunnels, and fitting free-flying birds with data loggers, that are either retrieved or read remotely via satellite links. The performance that comes to light depends on the known limitations of the materials from which they are made, and the conditions in which the birds live. Bird glide polars can be obtained by training birds to glide in a tilting wind tunnel. Translating these curves to power required from the flight muscles in level flight requires drag coefficients to be measured, which unfortunately does not work with bird bodies, because the flow is always fully detached. The drag of bodies in level flight can be determined by observing wingbeat frequency, and shows CD values around 0.08 in small birds, down to 0.06 in small waders specialised for efficient migration. Lift coefficients are up to 1.6 in gliding, or 1.8 for short, temporary glides. In-flight measurements can be used to calculate power curves for birds in level flight, and this has been applied to migrating geese in detail. These typically achieve lift:drag ratios around 15, including allowances for stops, as against 19 for continuous powered flight. The same calculations, applied to Pacific Black-tailed Godwits which start with fat fractions up to 0.55 at departure, show that such birds not only cross the Pacific to New Zealand, but have enough fuel in hand to reach the South Pole if that were necessary. This performance depends on the “dual fuel” arrangements of these migrants, whereby they use fat as their main fuel, and supplement this by extra fuel from burning the engine (flight muscles, as less power is needed later in the flight. The accuracy of these power curves has never been checked, although provision for stopping the bird, and making these checks at regular intervals during a simulated flight was built into the original design of the Lund wind tunnel. The

Bird evolution: testing the Metaves clade with six new mitochondrial genomes

Directory of Open Access Journals (Sweden)

Phillips Matthew J

2008-01-01

Full Text Available Abstract Background Evolutionary biologists are often misled by convergence of morphology and this has been common in the study of bird evolution. However, the use of molecular data sets have their own problems and phylogenies based on short DNA sequences have the potential to mislead us too. The relationships among clades and timing of the evolution of modern birds (Neoaves has not yet been well resolved. Evidence of convergence of morphology remain controversial. With six new bird mitochondrial genomes (hummingbird, swift, kagu, rail, flamingo and grebe we test the proposed Metaves/Coronaves division within Neoaves and the parallel radiations in this primary avian clade. Results Our mitochondrial trees did not return the Metaves clade that had been proposed based on one nuclear intron sequence. We suggest that the high number of indels within the seventh intron of the β-fibrinogen gene at this phylogenetic level, which left a dataset with not a single site across the alignment shared by all taxa, resulted in artifacts during analysis. With respect to the overall avian tree, we find the flamingo and grebe are sister taxa and basal to the shorebirds (Charadriiformes. Using a novel site-stripping technique for noise-reduction we found this relationship to be stable. The hummingbird/swift clade is outside the large and very diverse group of raptors, shore and sea birds. Unexpectedly the kagu is not closely related to the rail in our analysis, but because neither the kagu nor the rail have close affinity to any taxa within this dataset of 41 birds, their placement is not yet resolved. Conclusion Our phylogenetic hypothesis based on 41 avian mitochondrial genomes (13,229 bp rejects monophyly of seven Metaves species and we therefore conclude that the members of Metaves do not share a common evolutionary history within the Neoaves.

Supramolecular Affinity Chromatography for Methylation-Targeted Proteomics.

Science.gov (United States)

Garnett, Graham A E; Starke, Melissa J; Shaurya, Alok; Li, Janessa; Hof, Fraser

2016-04-05

Proteome-wide studies of post-translationally methylated species using mass spectrometry are complicated by high sample diversity, competition for ionization among peptides, and mass redundancies. Antibody-based enrichment has powered methylation proteomics until now, but the reliability, pan-specificity, polyclonal nature, and stability of the available pan-specific antibodies are problematic and do not provide a standard, reliable platform for investigators. We have invented an anionic supramolecular host that can form host-guest complexes selectively with methyllysine-containing peptides and used it to create a methylysine-affinity column. The column resolves peptides on the basis of methylation-a feat impossible with a comparable commercial cation-exchange column. A proteolyzed nuclear extract was separated on the methyl-affinity column prior to standard proteomics analysis. This experiment demonstrates that such chemical methyl-affinity columns are capable of enriching and improving the analysis of methyllysine residues from complex protein mixtures. We discuss the importance of this advance in the context of biomolecule-driven enrichment methods.

A new proton conducting membrane based on copolymer of methyl methacrylate and 2-acrylamido-2-methyl-1-propanesulfonic acid for direct methanol fuel cells

International Nuclear Information System (INIS)

Shen, Yi; Xi, Jingyu; Qiu, Xinping; Zhu, Wentao

2007-01-01

In this paper, a new kind of copolymer methyl methacrylate and 2-acrylamido-2-methyl-1-propanesulfonic acid (PAMPS-co-MMA) was synthesized by free radical polymerization. IR-spectrum and 1 H NMR were used to confirm the structure of the copolymers, and the thermal character of the copolymers was investigated with TGA and DSC. Flexible and transparent membranes based on this kind of copolymer were prepared by solution casting method. The physical properties including ionic exchange capability (IEC), water uptake, proton conductivity, methanol permeability and morphology of the membranes were investigated. These membranes showed higher water uptake though they had lower IEC compared with Nafion-117. The proton conductivity of the membrane with IEC of 0.9 mmol/g was 1.14 x 10 -2 S/cm and its methanol permeability coefficient was 5.46 x 10 -7 cm 2 /s, much lower than that of Nafion-117. Tests on cells were also carried out to measure the performance of the membrane

Effects of seismic lines on the abundance of breeding birds in the Kendall Island Bird Sanctuary, Northwest Territories, Canada

Energy Technology Data Exchange (ETDEWEB)

Ashenhurst, A.R.; Hannon, S.J. [Alberta Univ., Edmonton, AB (Canada). Dept. of Biological Sciences

2008-06-15

The effects of oil and gas exploration activities on bird abundance in the Arctic were investigated. The study examined the impacts of new and oil visible seismic lines within the Kendall Island Bird Sanctuary on the abundance of breeding passerines, Lapland longspur, common redpoll, American tree sparrow, and red-necked phalarope in upland tundra region and sedge-willow habitats. Results of the study showed that the effects on abundance with newer seismic lines were not statistically significant for most groups of birds. However, more birds were seen on reference transects than on seismic lines. The seismic lines had a significant impact on passerines grouped in upland tundra, as well as for sparrows in sedge and willows. Along older seismic lines, passerine abundance was lower than on reference transects in upland tundra. The study demonstrated that seismic lines created between 10 and 30 years ago had persistent vegetative changes that have reduced bird abundance. It was concluded that although the birds were not avoiding lines, some birds appeared to have increased the size of their territories in order to compensate for vegetative changes. 34 refs., 4 tabs.

Exploring 100 Years of Bollywood’s Infatuation with Birds

Directory of Open Access Journals (Sweden)

Reeny Modi

2017-02-01

Full Text Available Bollywood is the popular name which encapsulates the Hindi film industry which is based in Mumbai in the Central Indian state of Maharashtra. Indian cinema, as is true for any other cinema in any other part of the world, is a reflection of the society it is located in. Film makers in Bollywood have always remained sensitive towards societal issues. At the same time, the films made in Bollywood have been such that the average Indian citizen can relate to them physically and/or emotionally. One theme that Bollywood has constantly explored and relied on is nature – flower and birds. The following paper attempts to analyze and explore the depiction of birds in Bollywood in the over 100 years long history of the latter. The paper also attempts to assess the changing trend in depiction of birds in Bollywood over this time period.

Bird communities and biomass yields in potential bioenergy grasslands.

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Peter J Blank

Full Text Available Demand for bioenergy is increasing, but the ecological consequences of bioenergy crop production on working lands remain unresolved. Corn is currently a dominant bioenergy crop, but perennial grasslands could produce renewable bioenergy resources and enhance biodiversity. Grassland bird populations have declined in recent decades and may particularly benefit from perennial grasslands grown for bioenergy. We asked how breeding bird community assemblages, vegetation characteristics, and biomass yields varied among three types of potential bioenergy grassland fields (grass monocultures, grass-dominated fields, and forb-dominated fields, and assessed tradeoffs between grassland biomass production and bird habitat. We also compared the bird communities in grassland fields to nearby cornfields. Cornfields had few birds compared to perennial grassland fields. Ten bird Species of Greatest Conservation Need (SGCN were observed in perennial grassland fields. Bird species richness and total bird density increased with forb cover and were greater in forb-dominated fields than grass monocultures. SGCN density declined with increasing vertical vegetation density, indicating that tall, dense grassland fields managed for maximum biomass yield would be of lesser value to imperiled grassland bird species. The proportion of grassland habitat within 1 km of study sites was positively associated with bird species richness and the density of total birds and SGCNs, suggesting that grassland bioenergy fields may be more beneficial for grassland birds if they are established near other grassland parcels. Predicted total bird density peaked below maximum biomass yields and predicted SGCN density was negatively related to biomass yields. Our results indicate that perennial grassland fields could produce bioenergy feedstocks while providing bird habitat. Bioenergy grasslands promote agricultural multifunctionality and conservation of biodiversity in working landscapes.

Predictable evolution toward flightlessness in volant island birds.

Science.gov (United States)

Wright, Natalie A; Steadman, David W; Witt, Christopher C

2016-04-26

Birds are prolific colonists of islands, where they readily evolve distinct forms. Identifying predictable, directional patterns of evolutionary change in island birds, however, has proved challenging. The "island rule" predicts that island species evolve toward intermediate sizes, but its general applicability to birds is questionable. However, convergent evolution has clearly occurred in the island bird lineages that have undergone transitions to secondary flightlessness, a process involving drastic reduction of the flight muscles and enlargement of the hindlimbs. Here, we investigated whether volant island bird populations tend to change shape in a way that converges subtly on the flightless form. We found that island bird species have evolved smaller flight muscles than their continental relatives. Furthermore, in 366 populations of Caribbean and Pacific birds, smaller flight muscles and longer legs evolved in response to increasing insularity and, strikingly, the scarcity of avian and mammalian predators. On smaller islands with fewer predators, birds exhibited shifts in investment from forelimbs to hindlimbs that were qualitatively similar to anatomical rearrangements observed in flightless birds. These findings suggest that island bird populations tend to evolve on a trajectory toward flightlessness, even if most remain volant. This pattern was consistent across nine families and four orders that vary in lifestyle, foraging behavior, flight style, and body size. These predictable shifts in avian morphology may reduce the physical capacity for escape via flight and diminish the potential for small-island taxa to diversify via dispersal.

O-methylation of natural phenolic compounds based on green chemistry using dimethyl carbonate

Science.gov (United States)

Prakoso, N. I.; Pangestu, P. H.; Wahyuningsih, T. D.

2016-02-01

The alkyl aryl ether compounds, of which methyl eugenol and veratraldehyde are the simplest intermediates can be synthesized by reacting eugenol and vanillin with the green reagent dimethyl carbonate (DMC). The reaction was carried out under mild of temperature and pressure. Excellent yields and selective products were obtained (95-96%) after a few hours. In the end of the reaction, the catalysts (base and Phase Transfer Catalyst) can be recovered and regenerated.

Fluff-thieving birds sabotage seed dispersal

OpenAIRE

Rohwer, Vanya G.; Pauw, Anton; Martin, Paul R.

2017-01-01

Characterizing many species interactions as mutualisms can be misleading because some members of the interaction derive greater fitness benefits at the expense of other members. We provide detailed natural history data on a suspected bird?plant mutualism in South Africa where many species of birds use fluffy Eriocephalus seed material to construct their nests, potentially dispersing seeds for the plant. We focus on a common bird, Prinia maculosa, which invests heavily in gathering Eriocephalu...

The Effects of Different Forest Loggings on Forest Birds Community Composition in Shastkolateh Forest, Gorgan

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F. Parsaei

2014-06-01

Full Text Available The species composition of a bird community is dependent upon many factors. Within any geographic area, vegetation structure may be the most important factor. The changes of bird community composition based on foraging behavior in relation to 3 different harvesting systems, including strip cutting, group selection logging, and single tree selection logging, was evaluated in a virgin area in this study. Birds and environmental variables were detected within 103 circle sampling plots with 25m radius. Based on the results, 4 groups of birds were observed in treatments based on the foraging behavior. Group 1 was ground foragers, group 2 consisted of foliage gleaning, group 3 included flycatchers, and group 4 represented bark foraging. The first group had the highest abundance in the strip treatment. The second group in group selection treatment, and the third and fourth groups had the highest abundance in the virgin area and then, in single tree selection treatment. The first group showed the highest correlation with shrub and herb or grass layer, stone cover and the number of trees 10-20m in height. The second, third and fourth groups showed the highest correlation with the number of trees>20m in height, basal areas, dead trees number, and the number of fagus trees. The results showed the single cutting treatment had a relatively minor effect on mature forest bird species and were more appropriate and sustainable methods to reduce the negative effects of forest harvesting on the birds.

IGFBP3 Promoter Methylation in Colorectal Cancer: Relationship with Microsatellite Instability, CpG Island Methylator Phenotype, p53

Directory of Open Access Journals (Sweden)

Takako Kawasaki

2007-12-01

Full Text Available Insulin-like growth factor binding protein 3 (IGFBP3, which is induced by wild-type p53, regulates IGF and interacts with the TGF-β pathway. IGFBP3 promoter methylation may occur in colorectal cancer with or without the CpG island methylator phenotype (CIMP, which is associated with microsatellite instability (MSI and TGFBR2 mutation. We examined the relationship between IGFBP3 methylation, p53 expression, CIMP and MSI in 902 population-based colorectal cancers. Utilizing real-time PCR (MethyLight, we quantified promoter methylation in IGFBP3 and eight other CIMP-high-specific promoters (CACNA1G, CDKN2A, CRABP1, IGF2, MLH1, NEUROG1, RUNX3, and SOCS1. IGFBP3 methylation was far more frequent in non-MSI-high CIMP-high tumors (85% = 35/41 than in MSI-high CIMPhigh (49% = 44/90, P < .0001, MSI-high non-CIMP-high (17% = 6/36, P < .0001, non-MSI-high non-CIMP-high tumors (22% = 152/680, P < .0001. Among CIMPhigh tumors, the inverse relationship between MSI and IGFBP3 methylation persisted in p53-negative tumors (P < .0001, but not in p53-positive tumors. IGFBP3 methylation was associated inversely with TGFBR2 mutation in MSI-high non-CIMP-high tumors (P = .02. In conclusion, IGFBP3 methylation is inversely associated with MSI in CIMP-high colorectal cancers, this relationship is limited to p53-negative tumors. Our data suggest complex relationship between global genomic/epigenomic phenomena (such as MSI/ CIMP, single molecular events (e.g., IGFBP3 methylation, TP53 mutation, TGFBR2 mutation, the related pathways.

Leucocytozoon spp. infection in Accipitriformes birds in Iran.

Science.gov (United States)

Rassouli, Maryam; Aghazamani, Ghazaleh; Ardekani, Abbas Oliya

2017-09-01

Leucocytozoon spp. (Haemosporida, Leucocytozoidae) are vector-borne parasites of various birds. Leucocytozoon can infect different reticuloendothelial tissues and blood cells of birds. In this study peripheral blood samples were collected from Accipitriformes birds [three marsh harriers ( Circus aeruginosus ) and one tawny eagle ( Aquila rapax )] in one birds' garden in Iran. Blood films were observed for identification of hemoparasites. All samples were infected by different Leucocytozoon species. All of the observed species were first reported in Iran in Accipitriformes birds which one of them was described as a new species.

Elevated Frequency of Cataracts in Birds from Chernobyl

Science.gov (United States)

Mousseau, Timothy Alexander; Møller, Anders Pape

2013-01-01

Background Radiation cataracts develop as a consequence of the effects of ionizing radiation on the development of the lens of the eye with an opaque lens reducing or eliminating the ability to see. Therefore, we would expect cataracts to be associated with reduced fitness in free-living animals. Methodology/Principal Findings We investigated the incidence of lens opacities typical of cataracts in more than 1100 free-living birds in the Chernobyl region in relation to background radiation. The incidence of cataracts increased with level of background radiation both in analyses based on a dichotomous score and in analyses of continuous scores of intensity of cataracts. The odds ratio per unit change in the regressor was 0.722 (95% CI 0.648, 0.804), which was less than odds ratios from investigations of radiation cataracts in humans. The relatively small odds ratio may be due to increased mortality in birds with cataracts. We found a stronger negative relationship between bird abundance and background radiation when the frequency of cataracts was higher, but also a direct effect of radiation on abundance, suggesting that radiation indirectly affects abundance negatively through an increase in the frequency of cataracts in bird populations, but also through direct effects of radiation on other diseases, food abundance and interactions with other species. There was no increase in incidence of cataracts with increasing age, suggesting that yearlings and older individuals were similarly affected as is typical of radiation cataract. Conclusions/Significance These findings suggest that cataracts are an under-estimated cause of morbidity in free-living birds and, by inference, other vertebrates in areas contaminated with radioactive materials. PMID:23935827

Elevated frequency of cataracts in birds from chernobyl.

Directory of Open Access Journals (Sweden)

Timothy Alexander Mousseau

Full Text Available BACKGROUND: Radiation cataracts develop as a consequence of the effects of ionizing radiation on the development of the lens of the eye with an opaque lens reducing or eliminating the ability to see. Therefore, we would expect cataracts to be associated with reduced fitness in free-living animals. METHODOLOGY/PRINCIPAL FINDINGS: We investigated the incidence of lens opacities typical of cataracts in more than 1100 free-living birds in the Chernobyl region in relation to background radiation. The incidence of cataracts increased with level of background radiation both in analyses based on a dichotomous score and in analyses of continuous scores of intensity of cataracts. The odds ratio per unit change in the regressor was 0.722 (95% CI 0.648, 0.804, which was less than odds ratios from investigations of radiation cataracts in humans. The relatively small odds ratio may be due to increased mortality in birds with cataracts. We found a stronger negative relationship between bird abundance and background radiation when the frequency of cataracts was higher, but also a direct effect of radiation on abundance, suggesting that radiation indirectly affects abundance negatively through an increase in the frequency of cataracts in bird populations, but also through direct effects of radiation on other diseases, food abundance and interactions with other species. There was no increase in incidence of cataracts with increasing age, suggesting that yearlings and older individuals were similarly affected as is typical of radiation cataract. CONCLUSIONS/SIGNIFICANCE: These findings suggest that cataracts are an under-estimated cause of morbidity in free-living birds and, by inference, other vertebrates in areas contaminated with radioactive materials.

Lead and zinc intoxication in companion birds.

Science.gov (United States)

Puschner, Birgit; Poppenga, Robert H

2009-01-01

Although the toxicity of lead and zinc to birds is widely recognized by veterinarians and bird owners, these metals are frequently found in the environments of pet and aviary birds, and intoxications are common. Clinical signs exhibited by intoxicated birds are often nonspecific, which makes early diagnosis difficult. Fortunately, lead and zinc analyses of whole blood and serum or plasma, respectively, are readily available and inexpensive; elevated concentrations can confirm intoxication. Once diagnosed, intoxication can be effectively treated by (1) preventing further exposure, (2) administering chelating drugs, and (3) providing symptomatic and supportive care.

Shades of green: A bird's eye view of wind energy; L'energie eolienne et son impact sur les oiseaux

Energy Technology Data Exchange (ETDEWEB)

Whittam, B.; Kingsley, A.

2003-03-31

The issue of birds being killed by wind turbines is discussed. The substance of the argument is that contrary to beliefs held primarily by those opposed to wind turbine developments, when correctly sited, wind turbines appear to have relatively little impact on birds. Historically, 'bird-kill' was a significant factor in the 1980s when a significant number of raptors were killed by wind turbines and their associated power lines in California, Tennessee, Spain and the Netherlands, where many turbines were located on major bird migration routes. Based on experiences learned from these occurrences, several countries have produced bird-focused guidelines for the siting of wind turbines. In Canada, Bird Studies Canada was recently contracted by Environment Canada to produce guidelines for the environmental assessment of wind turbine projects related to birds. The objective of the guidelines is to help prevent adverse impacts on birds, whether the impact is related to habitat disturbance or collision. Based on American studies, it is estimated that 2.19 birds are killed annually at each wind turbine in California; the estimated fatality rate elsewhere in the United States is 1.83. That works out to 33,000 dead birds (based on 15,000 wind turbines), a large number, but relatively small when compared with the millions of birds that travel over windfarms each year, or when compared to the many millions of birds that die annually due to collisions with transmission lines, vehicles, buildings and communication towers. Nevertheless, there is room for concern. Bird Studies Canada is particularly concerned about the growing offshore wind industry and its potential to disrupt songbird migration, waterfowl staging areas and the prey base of seabirds. In general, Bird Studies Canada advises against siting large wind facilities in areas heavily travelled by birds, and is firmly opposed to placing wind turbines in areas known to provide critical habitat for Species At Risk

Model-based clustering of DNA methylation array data: a recursive-partitioning algorithm for high-dimensional data arising as a mixture of beta distributions

Directory of Open Access Journals (Sweden)

Wiemels Joseph

2008-09-01

Full Text Available Abstract Background Epigenetics is the study of heritable changes in gene function that cannot be explained by changes in DNA sequence. One of the most commonly studied epigenetic alterations is cytosine methylation, which is a well recognized mechanism of epigenetic gene silencing and often occurs at tumor suppressor gene loci in human cancer. Arrays are now being used to study DNA methylation at a large number of loci; for example, the Illumina GoldenGate platform assesses DNA methylation at 1505 loci associated with over 800 cancer-related genes. Model-based cluster analysis is often used to identify DNA methylation subgroups in data, but it is unclear how to cluster DNA methylation data from arrays in a scalable and reliable manner. Results We propose a novel model-based recursive-partitioning algorithm to navigate clusters in a beta mixture model. We present simulations that show that the method is more reliable than competing nonparametric clustering approaches, and is at least as reliable as conventional mixture model methods. We also show that our proposed method is more computationally efficient than conventional mixture model approaches. We demonstrate our method on the normal tissue samples and show that the clusters are associated with tissue type as well as age. Conclusion Our proposed recursively-partitioned mixture model is an effective and computationally efficient method for clustering DNA methylation data.

Bird species and numbers of birds in oak savannas of the Southwestern Borderlands region including effects of burning

Science.gov (United States)

Peter F. Ffolliott; Hui Chen; Gerald J. Gottfried

2011-01-01

Oak savannas of the Southwestern Borderlands region provide food, cover, and sites for nesting, roosting, and perching for a diversity of bird species. The results of a five-year (2003-2007) study of bird species, numbers of birds, and their diversities in the naturally occurring (unburned) oak savannas of the region are reported in this paper. Effects of cool-season...

77 FR 58627 - Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds

Science.gov (United States)

2012-09-21

... Service 50 CFR Part 20 Migratory Bird Hunting; Late Seasons and Bag and Possession Limits for Certain Migratory Game Birds; Final Rule #0;#0;Federal Register / Vol. 77 , No. 184 / Friday, September 21, 2012... Part 20 [Docket No. FWS-R9-MB-2012-0005; FF09M21200-123-FXMB1231099BPP0L2] RIN 1018-AX97 Migratory Bird...

Genome-wide DNA methylation maps in follicular lymphoma cells determined by methylation-enriched bisulfite sequencing.

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Jeong-Hyeon Choi

Full Text Available BACKGROUND: Follicular lymphoma (FL is a form of non-Hodgkin's lymphoma (NHL that arises from germinal center (GC B-cells. Despite the significant advances in immunotherapy, FL is still not curable. Beyond transcriptional profiling and genomics datasets, there currently is no epigenome-scale dataset or integrative biology approach that can adequately model this disease and therefore identify novel mechanisms and targets for successful prevention and treatment of FL. METHODOLOGY/PRINCIPAL FINDINGS: We performed methylation-enriched genome-wide bisulfite sequencing of FL cells and normal CD19(+ B-cells using 454 sequencing technology. The methylated DNA fragments were enriched with methyl-binding proteins, treated with bisulfite, and sequenced using the Roche-454 GS FLX sequencer. The total number of bases covered in the human genome was 18.2 and 49.3 million including 726,003 and 1.3 million CpGs in FL and CD19(+ B-cells, respectively. 11,971 and 7,882 methylated regions of interest (MRIs were identified respectively. The genome-wide distribution of these MRIs displayed significant differences between FL and normal B-cells. A reverse trend in the distribution of MRIs between the promoter and the gene body was observed in FL and CD19(+ B-cells. The MRIs identified in FL cells also correlated well with transcriptomic data and ChIP-on-Chip analyses of genome-wide histone modifications such as tri-methyl-H3K27, and tri-methyl-H3K4, indicating a concerted epigenetic alteration in FL cells. CONCLUSIONS/SIGNIFICANCE: This study is the first to provide a large scale and comprehensive analysis of the DNA methylation sequence composition and distribution in the FL epigenome. These integrated approaches have led to the discovery of novel and frequent targets of aberrant epigenetic alterations. The genome-wide bisulfite sequencing approach developed here can be a useful tool for profiling DNA methylation in clinical samples.

Occurrence of keratinophilic fungi on Indian birds.

Science.gov (United States)

Dixit, A K; Kushwaha, R K

1991-01-01

Keratinophilic fungi were isolated from feathers of most common Indian birds, viz. domestic chicken (Gallus domesticus), domestic pigeon (Columba livia), house sparrow (Passer domesticus), house crow (Corvus splendens), duck (Anas sp.), rose-ringed parakeet (Psittacula krameri). Out of 87 birds, 58 yielded 4 keratinophilic fungal genera representing 13 fungal species and one sterile mycelium. The isolated fungi were cultured on Sabouraud's dextrose agar at 28 +/- 2 degrees C. Chrysosporium species were isolated on most of the birds. Chrysosporium lucknowense and Chrysosporium tropicum were the most common fungal species associated with these Indian birds. Maximum occurrence of fungi (47%) was recorded on domestic chickens and the least number of keratinophilic fungi was isolated from the domestic pigeon and duck. The average number of fungi per bird was found to be the 0.44.

Neotropical Migratory Bird Communities in a Developing Pine Plantation

Science.gov (United States)

James G. Dickson; Richard N. Conner; J. Howard Williamson

1993-01-01

Birds were censused annually from 4 250-x80-in transects in a young pine plantation from age to 2 to 17 to assess changes in the bird community.Bird abundance was low and the bird communitry was the least diverse when the pine plantation was sparsely vegetated at age 2. As the plantation developed rapidly into the shrub stage, the bird communitry became more abundant...

Laboratory Animal Management: Wild Birds.

Science.gov (United States)

National Academy of Sciences - National Research Council, Washington, DC. Inst. of Lab. Animal Resources.

This is a report on the care and use of wild birds in captivity as research animals. Chapters are presented on procurement and identification, housing, nutrition, health of birds and personnel, reproduction in confinement, and surgical procedures. Also included are addresses of federal, state, and provencial regulatory agencies concerned with wild…

Chewing lice from wild birds in northern Greece.

Science.gov (United States)

Diakou, Anastasia; Pedroso Couto Soares, José Bernardo; Alivizatos, Haralambos; Panagiotopoulou, Maria; Kazantzidis, Savas; Literák, Ivan; Sychra, Oldřich

2017-10-01

Greece represents an important area for wild birds due to its geographical position and habitat diversity. Although the bird species in Greece are well recorded, the information about the chewing lice that infest them is practically non-existent. Thus, the aim of the present study was to record the species of lice infesting wild birds in northern Greece and furthermore, to associate the infestation prevalence with factors such as the age, sex, migration and social behaviour of the host as well as the time of the year. In total 729 birds, (belonging to 9 orders, 32 families and 68 species) were examined in 7 localities of northern Greece, during 9 ringing sessions from June 2013 until October 2015. Eighty (11%) of the birds were found to be infested with lice. In 31 different bird species, 560 specimens of lice, belonging to 33 species were recorded. Mixed infestations were recorded in 11 cases where birds were infested with 2-3 different lice species. Four new host-parasite associations were recorded i.e. Menacanthus curuccae from Acrocephalus melanopogon, Menacanthus agilis from Cettia cetti, Myrsidea sp. from Acrocephalus schoenobaenus, and Philopretus citrinellae from Spinus spinus. Moreover, Menacanthus sinuatus was detected on Poecile lugubris, rendering this report the first record of louse infestation in this bird species. The statistical analysis of the data collected showed no association between parasitological parameters (prevalence, mean and median intensity and mean abundance) in two different periods of the year (breeding vs post-breeding season). However, there was a statistically significant difference in the prevalence of infestation between a) migrating and sedentary passerine birds (7.4% vs 13.2%), b) colonial and territorial birds (54.5% vs 9.6%), and c) female and male birds in breeding period (2.6% vs 15.6%). Copyright © 2017. Published by Elsevier B.V.

Winnowing DNA for rare sequences: highly specific sequence and methylation based enrichment.

Directory of Open Access Journals (Sweden)

Jason D Thompson

Full Text Available Rare mutations in cell populations are known to be hallmarks of many diseases and cancers. Similarly, differential DNA methylation patterns arise in rare cell populations with diagnostic potential such as fetal cells circulating in maternal blood. Unfortunately, the frequency of alleles with diagnostic potential, relative to wild-type background sequence, is often well below the frequency of errors in currently available methods for sequence analysis, including very high throughput DNA sequencing. We demonstrate a DNA preparation and purification method that through non-linear electrophoretic separation in media containing oligonucleotide probes, achieves 10,000 fold enrichment of target DNA with single nucleotide specificity, and 100 fold enrichment of unmodified methylated DNA differing from the background by the methylation of a single cytosine residue.

Winnowing DNA for rare sequences: highly specific sequence and methylation based enrichment.

Science.gov (United States)

Thompson, Jason D; Shibahara, Gosuke; Rajan, Sweta; Pel, Joel; Marziali, Andre

2012-01-01

Rare mutations in cell populations are known to be hallmarks of many diseases and cancers. Similarly, differential DNA methylation patterns arise in rare cell populations with diagnostic potential such as fetal cells circulating in maternal blood. Unfortunately, the frequency of alleles with diagnostic potential, relative to wild-type background sequence, is often well below the frequency of errors in currently available methods for sequence analysis, including very high throughput DNA sequencing. We demonstrate a DNA preparation and purification method that through non-linear electrophoretic separation in media containing oligonucleotide probes, achieves 10,000 fold enrichment of target DNA with single nucleotide specificity, and 100 fold enrichment of unmodified methylated DNA differing from the background by the methylation of a single cytosine residue.

The Physics of Bird Flight: An Experiment

Science.gov (United States)

Mihail, Michael D.; George, Thomas F.; Feldman, Bernard J.

2008-01-01

This article describes an experiment that measures the forces acting on a flying bird during takeoff. The experiment uses a minimum of equipment and only an elementary knowledge of kinematics and Newton's second law. The experiment involves first digitally videotaping a bird during takeoff, analyzing the video to determine the bird's position as a…

Avitourism and Australian Important Bird and Biodiversity Areas.

Science.gov (United States)

Steven, Rochelle; Morrison, Clare; Arthur, J Michael; Castley, J Guy

2015-01-01

Formal protected areas will not provide adequate protection to conserve all biodiversity, and are not always designated using systematic or strategic criteria. Using a systematic process, the Important Bird and Biodiversity Area (IBA) network was designed to highlight areas of conservation significance for birds (i.e. IBA trigger species), and more recently general biodiversity. Land use activities that take place in IBAs are diverse, including consumptive and non-consumptive activities. Avitourism in Australia, generally a non-consumptive activity, is reliant on the IBA network and the birds IBAs aim to protect. However, companies tend not to mention IBAs in their marketing. Furthermore, avitourism, like other nature-based tourism has the potential to be both a threatening process as well as a conservation tool. We aimed to assess the current use of IBAs among Australian-based avitour companies' marketing, giving some indication of which IBAs are visited by avitourists on organised tours. We reviewed online avitour itineraries, recorded sites featuring in descriptions of avitours and which IBA trigger species are used to sell those tours. Of the 209 avitours reviewed, Queensland is the most featured state (n = 59 tours), and 73% feature at least one IBA. Daintree (n = 22) and Bruny Island (n = 17) IBAs are the most popular, nationally. Trigger species represent 34% (n = 254 out of 747) of species used in avitour descriptions. The most popular trigger species' are wetland species including; Brolga (n = 37), Black-necked Stork (n = 30) and Magpie Goose (n = 27). Opportunities exist to increase collaboration between avitour companies and IBA stakeholders. Our results can provide guidance for managing sustainability of the avitourism industry at sites that feature heavily in avitour descriptions and enhance potential cooperation between avitour companies, IBA stakeholders and bird conservation organisations.

Avitourism and Australian Important Bird and Biodiversity Areas.

Directory of Open Access Journals (Sweden)

Rochelle Steven

Full Text Available Formal protected areas will not provide adequate protection to conserve all biodiversity, and are not always designated using systematic or strategic criteria. Using a systematic process, the Important Bird and Biodiversity Area (IBA network was designed to highlight areas of conservation significance for birds (i.e. IBA trigger species, and more recently general biodiversity. Land use activities that take place in IBAs are diverse, including consumptive and non-consumptive activities. Avitourism in Australia, generally a non-consumptive activity, is reliant on the IBA network and the birds IBAs aim to protect. However, companies tend not to mention IBAs in their marketing. Furthermore, avitourism, like other nature-based tourism has the potential to be both a threatening process as well as a conservation tool. We aimed to assess the current use of IBAs among Australian-based avitour companies' marketing, giving some indication of which IBAs are visited by avitourists on organised tours. We reviewed online avitour itineraries, recorded sites featuring in descriptions of avitours and which IBA trigger species are used to sell those tours. Of the 209 avitours reviewed, Queensland is the most featured state (n = 59 tours, and 73% feature at least one IBA. Daintree (n = 22 and Bruny Island (n = 17 IBAs are the most popular, nationally. Trigger species represent 34% (n = 254 out of 747 of species used in avitour descriptions. The most popular trigger species' are wetland species including; Brolga (n = 37, Black-necked Stork (n = 30 and Magpie Goose (n = 27. Opportunities exist to increase collaboration between avitour companies and IBA stakeholders. Our results can provide guidance for managing sustainability of the avitourism industry at sites that feature heavily in avitour descriptions and enhance potential cooperation between avitour companies, IBA stakeholders and bird conservation organisations.

Avitourism and Australian Important Bird and Biodiversity Areas

Science.gov (United States)

Steven, Rochelle; Morrison, Clare; Arthur, J. Michael; Castley, J. Guy

2015-01-01

Formal protected areas will not provide adequate protection to conserve all biodiversity, and are not always designated using systematic or strategic criteria. Using a systematic process, the Important Bird and Biodiversity Area (IBA) network was designed to highlight areas of conservation significance for birds (i.e. IBA trigger species), and more recently general biodiversity. Land use activities that take place in IBAs are diverse, including consumptive and non-consumptive activities. Avitourism in Australia, generally a non-consumptive activity, is reliant on the IBA network and the birds IBAs aim to protect. However, companies tend not to mention IBAs in their marketing. Furthermore, avitourism, like other nature-based tourism has the potential to be both a threatening process as well as a conservation tool. We aimed to assess the current use of IBAs among Australian-based avitour companies’ marketing, giving some indication of which IBAs are visited by avitourists on organised tours. We reviewed online avitour itineraries, recorded sites featuring in descriptions of avitours and which IBA trigger species are used to sell those tours. Of the 209 avitours reviewed, Queensland is the most featured state (n = 59 tours), and 73% feature at least one IBA. Daintree (n = 22) and Bruny Island (n = 17) IBAs are the most popular, nationally. Trigger species represent 34% (n = 254 out of 747) of species used in avitour descriptions. The most popular trigger species’ are wetland species including; Brolga (n = 37), Black-necked Stork (n = 30) and Magpie Goose (n = 27). Opportunities exist to increase collaboration between avitour companies and IBA stakeholders. Our results can provide guidance for managing sustainability of the avitourism industry at sites that feature heavily in avitour descriptions and enhance potential cooperation between avitour companies, IBA stakeholders and bird conservation organisations. PMID:26701779

76 FR 44729 - Migratory Bird Hunting; Proposed Frameworks for Early-Season Migratory Bird Hunting Regulations...

Science.gov (United States)

2011-07-26

...- 2010 average (3.4 0.03 million). As expected, residual water from summer 2010 precipitation remained in... preliminary 2010 Migratory Bird Harvest Information Program (HIP) estimate of harvest was 84,900 birds. In... trend in the population indices between 1966 and 2010. According to HIP surveys, the preliminary harvest...

Using urban forest assessment tools to model bird habitat potential

Science.gov (United States)

Lerman, Susannah B.; Nislow, Keith H.; Nowak, David J.; DeStefano, Stephen; King, David I.; Jones-Farrand, D. Todd

2014-01-01

The alteration of forest cover and the replacement of native vegetation with buildings, roads, exotic vegetation, and other urban features pose one of the greatest threats to global biodiversity. As more land becomes slated for urban development, identifying effective urban forest wildlife management tools becomes paramount to ensure the urban forest provides habitat to sustain bird and other wildlife populations. The primary goal of this study was to integrate wildlife suitability indices to an existing national urban forest assessment tool, i-Tree. We quantified available habitat characteristics of urban forests for ten northeastern U.S. cities, and summarized bird habitat relationships from the literature in terms of variables that were represented in the i-Tree datasets. With these data, we generated habitat suitability equations for nine bird species representing a range of life history traits and conservation status that predicts the habitat suitability based on i-Tree data. We applied these equations to the urban forest datasets to calculate the overall habitat suitability for each city and the habitat suitability for different types of land-use (e.g., residential, commercial, parkland) for each bird species. The proposed habitat models will help guide wildlife managers, urban planners, and landscape designers who require specific information such as desirable habitat conditions within an urban management project to help improve the suitability of urban forests for birds.

Tidal energy site - Tidal energy site mammal/bird survey

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — A vessel-based line visual transect survey was conducted for birds and marine mammals near the proposed Snohomish County PUD Admiralty Inlet tidal energy site...

Landscape associations of birds during migratory stopover

Science.gov (United States)

Diehl, Robert Howard

The challenge for migratory bird conservation is habitat preservation that sustains breeding, migration, and non-breeding biological processes. In choosing an appropriately scaled conservation arena for habitat preservation, a conservative and thorough examination of stopover habitat use patterns by migrants works back from the larger scales at which such relationships may occur. Because the use of stopover habitats by migrating birds occurs at spatial scales larger than traditional field techniques can easily accommodate, I quantify these relationship using the United States system of weather surveillance radars (popularly known as NEXRAD). To provide perspective on use of this system for biologists, I first describe the technical challenges as well as some of the biological potential of these radars for ornithological research. Using data from these radars, I then examined the influence of Lake Michigan and the distribution of woodland habitat on migrant concentrations in northeastern Illinois habitats during stopover. Lake Michigan exerted less influence on migrant abundance and density than the distribution and availability of habitat for stopover. There was evidence of post-migratory movement resulting in habitats within suburban landscapes experiencing higher migrant abundance but lower migrant density than habitats within nearby urban and agricultural landscapes. Finally, in the context of hierarchy theory, I examined the influence of landscape ecological and behavioral processes on bird density during migratory stopover. Migrant abundance did not vary across landscapes that differed considerably in the amount of habitat available for stopover. As a result, smaller, more isolated patches held higher densities of birds. Spatial models of migrant habitat selection based on migrant proximity to a patch explained nearly as much variance in the number of migrants occupying patches (R2 = 0.88) as selection models based on migrant interception of patches during

L-tryptophan synthesis from 14C-anthranilic acid in plants with high and low tryptophan content

International Nuclear Information System (INIS)

Kutacek, M.; Eder, J.; Vackova, K.; Prochazka, S.

1978-01-01

The biosynthesis of L-tryptophan (L-trp) from anthranilic acid- 14 C (AA- 14 C) in undamaged organs of the seedlings of kohlrabi and peas, with high L-trp content and maize plants, with low L-trp content was compared. As for maize the experiments were carried out with normal and opaque-2 phenotypes, both with the seedlings and with the ripening kernels. AA- 14 C is metabolized in the plants to L-trp pool and to glycosyl esters of AA. In maize seedlings L-trp- 14 C is synthesized relatively less than in kohlrabi and in pea. The de novo formation of L-trp- 14 C is stopped earlier in maize than in kohlrabi. The level of free L-trp- 14 C is relatively low in maize in comparison with kohlrabi and peas. In spite of this the formation of L-trp- 14 C from AA- 14 C is sufficient in maize to incorporate L-trp both into the proteins and into a secondary metabolite that is not yet defined. At the period of seedlings the incorporation in maize of L-trp into the proteins is comparable with that in kohlrabi, and it is maximum in pea. Maize, at the stage of germination, thus forms proteins rich in L-trp. The formation of free L-trp is approximately ten times lower in ripening kernels and in the leaves adjacent to the ear and it further decreases in the course of the ripening of the kernels. Although the activity of the biosynthesis of the AA- 14 C→L-trp- 14 C pathway is relatively lower in maize than in kohlrabi and peas, this pathway is most responsible for the differences in the content of L-trp in these plants. Neither amitrol nor histidine affected the biosynthesis of L-trp in kohlrabi; the interaction of the biosynthetic pathways of L-trp and histidine known in microorganisms is thus not important in a higher plant. (author)

Borrelia burgdorferi sensu lato spirochetes in wild birds in northwestern California: associations with ecological factors, bird behavior and tick infestation.

Science.gov (United States)

Newman, Erica A; Eisen, Lars; Eisen, Rebecca J; Fedorova, Natalia; Hasty, Jeomhee M; Vaughn, Charles; Lane, Robert S

2015-01-01

Although Borrelia burgdorferi sensu lato (s.l.) are found in a great diversity of vertebrates, most studies in North America have focused on the role of mammals as spirochete reservoir hosts. We investigated the roles of birds as hosts for subadult Ixodes pacificus ticks and potential reservoirs of the Lyme disease spirochete B. burgdorferi sensu stricto (s.s.) in northwestern California. Overall, 623 birds representing 53 species yielded 284 I. pacificus larvae and nymphs. We used generalized linear models and zero-inflated negative binomial models to determine associations of bird behaviors, taxonomic relationships and infestation by I. pacificus with borrelial infection in the birds. Infection status in birds was best explained by taxonomic order, number of infesting nymphs, sampling year, and log-transformed average body weight. Presence and counts of larvae and nymphs could be predicted by ground- or bark-foraging behavior and contact with dense oak woodland. Molecular analysis yielded the first reported detection of Borrelia bissettii in birds. Moreover, our data suggest that the Golden-crowned Sparrow (Zonotrichia atricapilla), a non-resident species, could be an important reservoir for B. burgdorferi s.s. Of 12 individual birds (9 species) that carried B. burgdorferi s.l.-infected larvae, no birds carried the same genospecies of B. burgdorferi s.l. in their blood as were present in the infected larvae removed from them. Possible reasons for this discrepancy are discussed. Our study is the first to explicitly incorporate both taxonomic relationships and behaviors as predictor variables to identify putative avian reservoirs of B. burgdorferi s.l. Our findings underscore the importance of bird behavior to explain local tick infestation and Borrelia infection in these animals, and suggest the potential for bird-mediated geographic spread of vector ticks and spirochetes in the far-western United States.

Blood protozoa of free-living birds

Science.gov (United States)

Herman, C.M.; McDiarmid, Archibald

1969-01-01

Blood protozoa were first reported from wild birds in 1884. Since then numerous surveys throughout the world have demonstrated their presence in a wide variety of hosts and localities with continuing designations of new species. Taxonomic determinations include parasites in the genera Plasmodium, Haemoproteus, Leucocytozoon, Babesia, Lankesterella and Trypanosoma. Transmission of Plasmodium by mosquitoes was demonstrated with a bird parasite before these insects were proven as vectors of human malaria. All the genera under consideration require an insect vector to complete their life-cycles and susceptible vectors have been demonstrated. Most experimental work on the blood protozoa of birds has been carried on with captive birds. An extensive volume of research has been conducted on Plasmodium because of its close similarity to malaria in man. Field studies that would provide information on the epizootiology of occurrence of these parasites in wild populations have been very limited, mainly confined to single blood film surveys. Such data are inadequate to provide an understanding of true prevalence or incidence or of factual knowledge of their impact on the wild population. Mechanisms for procuring such information are available in some cases and can be developed to fit other situations. Isodiagnosis, inoculation of blood from wild birds into susceptible captive hosts, has revealed a prevalence of over 60 % for Plasmodium in situations where microscope examination of single peripheral blood preparations yielded less than 1 %. Culture of bone marrow collected by biopsy demonstrates high prevalence of trypanosomes even when none are evident from microscopic examination of blood. Often preparations of tissues collected at necropsy reveal Leucocytozoon and Lankesterella when examination of peripheral blood gave no indication of infection. Methods developed by bird ringers provide techniques for obtaining repeat examinations of free-living birds that can yield further

Status for investigations of birds and proposals for further investigations of birds in 2002 and 2003 for Horns Rev offshore wind farm; Status for fugleundersoegelser samt forslag til opfoelgende fugleundersoegelser i 2002 og 2003 for Horns Rev vindmoellepark

Energy Technology Data Exchange (ETDEWEB)

NONE

2001-09-15

The purpose of the investigations of birds is to establish a knowledge and data base that can make possible to enlighten the extent and character of potential influences the offshore wind farm might have on the birds. The potential influences the offshore wind farm might have on birds include: a) modification of the habitat, b) collision effects, and c) disturbances. (BA)

Automated sequence- and stereo-specific assignment of methyl-labeled proteins by paramagnetic relaxation and methyl-methyl nuclear overhauser enhancement spectroscopy

Energy Technology Data Exchange (ETDEWEB)

Venditti, Vincenzo; Fawzi, Nicolas L.; Clore, G. Marius, E-mail: mariusc@mail.nih.gov [National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Laboratory of Chemical Physics (United States)

2011-11-15

Methyl-transverse relaxation optimized spectroscopy is rapidly becoming the preferred NMR technique for probing structure and dynamics of very large proteins up to {approx}1 MDa in molecular size. Data interpretation, however, necessitates assignment of methyl groups which still presents a very challenging and time-consuming process. Here we demonstrate that, in combination with a known 3D structure, paramagnetic relaxation enhancement (PRE), induced by nitroxide spin-labels incorporated at only a few surface-exposed engineered cysteines, provides fast, straightforward and robust access to methyl group resonance assignments, including stereoassignments for the methyl groups of leucine and valine. Neither prior assignments, including backbone assignments, for the protein, nor experiments that transfer magnetization between methyl groups and the protein backbone, are required. PRE-derived assignments are refined by 4D methyl-methyl nuclear Overhauser enhancement data, eliminating ambiguities and errors that may arise due to the high sensitivity of PREs to the potential presence of sparsely-populated transient states.

Molecular correlates with MGMT promoter methylation and silencing support CpG island methylator phenotype-low (CIMP-low) in colorectal cancer.

Science.gov (United States)

Ogino, Shuji; Kawasaki, Takako; Kirkner, Gregory J; Suemoto, Yuko; Meyerhardt, Jeffrey A; Fuchs, Charles S

2007-11-01

The CpG island methylator phenotype (CIMP or CIMP-high) with widespread promoter methylation is a distinct epigenetic phenotype in colorectal cancer. In contrast, a phenotype with less widespread promoter methylation (CIMP-low) has not been well characterised. O-6-methylguanine-DNA methyltransferase (MGMT) promoter methylation and silencing have been associated with G>A mutations and microsatellite instability-low (MSI-low). To examine molecular correlates with MGMT methylation/silencing in colorectal cancer. Utilising MethyLight technology, we quantified DNA methylation in MGMT and eight other markers (a CIMP-diagnostic panel; CACNA1G, CDKN2A (p16), CRABP1, IGF2, MLH1, NEUROG1, RUNX3 and SOCS1) in 920 population-based colorectal cancers. Tumours with both MGMT methylation and loss were correlated positively with MSI-low (p = 0.02), CIMP-high (>or=6/8 methylated CIMP markers, p = 0.005), CIMP-low (1/8-5/8 methylated CIMP markers, p = 0.002, compared to CIMP-0 with 0/8 methylated markers), KRAS G>A mutation (p = 0.02), and inversely with 18q loss of heterozygosity (p = 0.0002). Tumours were classified into nine MSI/CIMP subtypes. Among the CIMP-low group, tumours with both MGMT methylation and loss were far more frequent in MSI-low tumours (67%, 12/18) than MSI-high tumours (5.6%, 1/18; p = 0.0003) and microsatellite stable (MSS) tumours (33%, 52/160; p = 0.008). However, no such relationship was observed among the CIMP-high or CIMP-0 groups. The relationship between MGMT methylation/silencing and MSI-low is limited to only CIMP-low tumours, supporting the suggestion that CIMP-low in colorectal cancer may be a different molecular phenotype from CIMP-high and CIMP-0. Our data support a molecular difference between MSI-low and MSS in colorectal cancer, and a possible link between CIMP-low, MSI-low, MGMT methylation/loss and KRAS mutation.

77 FR 58443 - Migratory Bird Hunting; Final Frameworks for Late-Season Migratory Bird Hunting Regulations

Science.gov (United States)

2012-09-20

... to move toward a more holistic and uniform approach to Canada goose harvest management across the... selections to: Chief, Division of Migratory Bird Management, U.S. Fish and Wildlife Service, ms MBSP-4107... address above, or from the Division of Migratory Bird Management's Web site at http://www.fws.gov...

75 FR 47681 - Migratory Bird Hunting; Proposed Migratory Bird Hunting Regulations on Certain Federal Indian...

Science.gov (United States)

2010-08-06

... million). Residual water remains in the Parklands and these were classified as fair to good. Most of the... stabilized at around 100,000 birds; the preliminary 2009 Migratory Bird Harvest Information Program (HIP... and 2009. According to HIP surveys, the preliminary harvest estimate for 2009 was 66,100 white-winged...

Adsorption of methyl violet from aqueous solution using gum xanthan/Fe3O4 based nanocomposite hydrogel

CSIR Research Space (South Africa)

Mittal, H

2016-08-01

Full Text Available This research paper reports the utilization of gum xanthan-grafted-polyacrylic acid and Fe(sub3)O(sub4) magnetic nanoparticles based nanocomposite hydrogel (NCH) for the highly effective adsorption of methyl violet (MV) from aqueous solution...

Reference Materials for Calibration of Analytical Biases in Quantification of DNA Methylation.

Science.gov (United States)

Yu, Hannah; Hahn, Yoonsoo; Yang, Inchul

2015-01-01

Most contemporary methods for the quantification of DNA methylation employ bisulfite conversion and PCR amplification. However, many reports have indicated that bisulfite-mediated PCR methodologies can result in inaccurate measurements of DNA methylation owing to amplification biases. To calibrate analytical biases in quantification of gene methylation, especially those that arise during PCR, we utilized reference materials that represent exact bisulfite-converted sequences with 0% and 100% methylation status of specific genes. After determining relative quantities using qPCR, pairs of plasmids were gravimetrically mixed to generate working standards with predefined DNA methylation levels at 10% intervals in terms of mole fractions. The working standards were used as controls to optimize the experimental conditions and also as calibration standards in melting-based and sequencing-based analyses of DNA methylation. Use of the reference materials enabled precise characterization and proper calibration of various biases during PCR and subsequent methylation measurement processes, resulting in accurate measurements.

Monitoring potential geographical distribution of four wild bird species in China

Science.gov (United States)

Dai, S.; Feng, D.; Xu, B.

2015-12-01

The outbreak of highly pathogenic avian influenza (HPAI) of the H5N1 subtype in wild birds and poultry have caught worldwide attention. To explore the association between wild bird migration and avian influenza virus transmission, we monitored potential geographical distribution of four wild bird species that might carry the avian influenza viruses in China. They are Bar-headed geese (Anser indicus), Ruddy Shelduck (Tadorna ferruginea), Whooper Swan (Cygnus cygnus) and Black-headed Gull (Larus ridibundus). They served as major reservoir of the avian influenza viruses. We used bird watching records with the precise latitude/longitude coordinates from January 2002 to August 2014, and environmental variables with a pixel resolution of 5 km × 5 km from 2002 to 2014. The study utilized maximum entropy (MaxEnt) model based on ecological niche model approaches, and got the following results: 1) MaxEnt model have good discriminatory ability with the area under the curve (AUC) of the receiver operating curve (ROC) of 0.86-0.97; 2) The four wild bird species were estimated to concentrate in the North China Plain, the middle and lower region of the Yangtze River, Qinghai Lake, Tianshan Mountain and Tarim Basin, part of Tibet Plateau, and Hengduan Mountains; 3) Radiation and the minimum temperature were found to provide the most significant information. Our findings will help to understand the spread of avian influenza viruses by wild bird migration in China, which benefits for effective monitoring strategies and prevention measures.

Model-Based Estimation of Collision Risks of Predatory Birds with Wind Turbines

Directory of Open Access Journals (Sweden)

Marcus Eichhorn

2012-06-01

Full Text Available The expansion of renewable energies, such as wind power, is a promising way of mitigating climate change. Because of the risk of collision with rotor blades, wind turbines have negative effects on local bird populations, particularly on raptors such as the Red Kite (Milvus milvus. Appropriate assessment tools for these effects have been lacking. To close this gap, we have developed an agent-based, spatially explicit model that simulates the foraging behavior of the Red Kite around its aerie in a landscape consisting of different land-use types. We determined the collision risk of the Red Kite with the turbine as a function of the distance between the wind turbine and the aerie and other parameters. The impact function comprises the synergistic effects of species-specific foraging behavior and landscape structure. The collision risk declines exponentially with increasing distance. The strength of this decline depends on the raptor's foraging behavior, its ability to avoid wind turbines, and the mean wind speed in the region. The collision risks, which are estimated by the simulation model, are in the range of values observed in the field. The derived impact function shows that the collision risk can be described as an aggregated function of distance between the wind turbine and the raptor's aerie. This allows an easy and rapid assessment of the ecological impacts of (existing or planned wind turbines in relation to their spatial location. Furthermore, it implies that minimum buffer zones for different landscapes can be determined in a defensible way. This modeling approach can be extended to other bird species with central-place foraging behavior. It provides a helpful tool for landscape planning aimed at minimizing the impacts of wind power on biodiversity.