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Metagenomic Annotation Networks Construction and Applications 英文参考文献.doc

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Metagenomic Annotation Networks Construction and Applications 英文参考文献

MetagenomicAnnotationNetworks:Constructionand Applications GregoryVey1,GabrielMoreno-Hagelsieb2* 1DepartmentofBiology,UniversityofWaterloo,Waterloo,Ontario,Canada,2DepartmentofBiology,WilfridLaurierUniversity,Waterloo,Ontario,Canada Abstract Thederivationandcomparisonofbiologicalinteractionnetworksarevitalforunderstandingthefunctionalcapacityand hierarchical organization of integrated microbial communities. In the current work we present metagenomic annotation networksasanoveltaxonomy-freeapproachforunderstandingthefunctionalarchitectureofmetagenomes.Specifically, metagenomic operon predictions are exploited to derive functional interactions that are translated and categorized accordingtotheirassociatedfunctionalannotations.Theresultisacollectionofdiscretenetworksofweightedannotation linkages.Thesenetworksaresubsequentlyexaminedfortheoccurrenceofannotationmodulesthatportraythefunctional and organizational characteristics of various microbial communities. A variety of network perspectives and annotation categories are applied to recover a diverse range of modules with different degrees of annotative cohesiveness. Applications to biocatalyst discovery and human health issues are discussed, as well as the limitations of the current implementation. Citation: Vey G, Moreno-Hagelsieb G (2012) Metagenomic Annotation Networks: Construction and Applications. PLoS ONE 7(8): e41283. doi:10.1371/ journal.pone.0041283 Editor:OlleTerenius,SwedishUniversityofAgriculturalSciences,Sweden ReceivedMarch1,2012;AcceptedJune19,2012;PublishedAugust7,2012 Copyright: ? 2012 Vey, Moreno-Hagelsieb. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permitsunrestricteduse,distribution,andreproductioninanymedium,providedtheoriginalauthorandsourcearecredited. Funding:GVwassupportedbyanNSERCStrategicGrant;GM-H’sresearchwassupportedbyaNSERCDiscoveryGrant.Thefundershadnoroleinstudydesign, datacollectionandanalysis,decisiontopublish,orprep