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      A new tool for studying waterfowl immune and metabolic responses: Molecular level analysis using kinome profiling

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          Abstract

          Here, we describe the design of an Anas‐specific kinome peptide array that can be used to study the immunometabolic responses of mallard and American black duck to pathogens, contaminants, and environmental stress. The peptide arrays contain 2,642 unique phosphorylate‐able peptide sequences representing 1,900 proteins. These proteins cover a wide array of metabolic and immunological processes, and 758 Gene Ontology Biological processes are statistically significantly represented on the duck peptide array of those 164 contain the term “metabolic” and 25 “immune.” In addition, we conducted a comparison of mallard to American black duck at a genetic and proteomic level. Our results show a significant genomic and proteomic overlap between these two duck species, so that we have designed a cross‐reactive peptide array capable of studying both species. This is the first reported development of a wildlife species‐specific kinome peptide array.

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          Most cited references40

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          Gene Ontology: tool for the unification of biology

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            Expansion of the Gene Ontology knowledgebase and resources

            The Gene Ontology (GO) is a comprehensive resource of computable knowledge regarding the functions of genes and gene products. As such, it is extensively used by the biomedical research community for the analysis of -omics and related data. Our continued focus is on improving the quality and utility of the GO resources, and we welcome and encourage input from researchers in all areas of biology. In this update, we summarize the current contents of the GO knowledgebase, and present several new features and improvements that have been made to the ontology, the annotations and the tools. Among the highlights are 1) developments that facilitate access to, and application of, the GO knowledgebase, and 2) extensions to the resource as well as increasing support for descriptions of causal models of biological systems and network biology. To learn more, visit http://geneontology.org/.
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              Small RNAs in transcriptional gene silencing and genome defence.

              Small RNA molecules of about 20-30 nucleotides have emerged as powerful regulators of gene expression and genome stability. Studies in fission yeast and multicellular organisms suggest that effector complexes, directed by small RNAs, target nascent chromatin-bound non-coding RNAs and recruit chromatin-modifying complexes. Interactions between small RNAs and nascent non-coding transcripts thus reveal a new mechanism for targeting chromatin-modifying complexes to specific chromosome regions and suggest possibilities for how the resultant chromatin states may be inherited during the process of chromosome duplication.
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                Author and article information

                Contributors
                rja@udel.edu
                Journal
                Ecol Evol
                Ecol Evol
                10.1002/(ISSN)2045-7758
                ECE3
                Ecology and Evolution
                John Wiley and Sons Inc. (Hoboken )
                2045-7758
                30 July 2018
                August 2018
                : 8
                : 16 ( doiID: 10.1002/ece3.2018.8.issue-16 )
                : 8537-8546
                Affiliations
                [ 1 ] Center for Bioinformatics and Computational Biology University of Delaware Newark Delaware
                [ 2 ] Department of Animal and Food Sciences University of Delaware Newark Delaware
                [ 3 ] USGS Patuxent Wildlife Research Center Laurel Maryland
                Author notes
                [*] [* ] Correspondence

                Ryan J. Arsenault, Department of Animal and Food Sciences, University of Delaware, Newark, Delaware.

                Email: rja@ 123456udel.edu

                Article
                ECE34370
                10.1002/ece3.4370
                6144969
                01128eee-241e-4af0-937e-48ef4a15da81
                © 2018 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                Page count
                Figures: 2, Tables: 5, Pages: 10, Words: 8133
                Product
                Funding
                Funded by: U.S. Geological Survey
                Award ID: G16AS00087
                Categories
                Original Research
                Original Research
                Custom metadata
                2.0
                ece34370
                August 2018
                Converter:WILEY_ML3GV2_TO_NLMPMC version:version=5.4.9 mode:remove_FC converted:19.09.2018

                Evolutionary Biology
                american black duck,anatidae,cellular signaling pathways,immunometabolism,kinome,mallard duck,peptide array

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