About: Duck gut viral metagenome analysis captures snapshot of viral diversity

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
title	Duck gut viral metagenome analysis captures snapshot of viral diversity
Creator	Dutta, Rupam Fawaz, Mohammed Kumar, Himanshu Mishra, Anamika Roychoudhary, Parimal Vijayakumar, Periyasamy Gandhale, Pradeep Kamble, Nitin Kulkarni, Diwakar Raut, Ashwin Sudhakar, Shashi
source	Medline; PMC
abstract	BACKGROUND: Ducks (Anas platyrhynchos) an economically important waterfowl for meat, eggs and feathers; is also a natural reservoir for influenza A viruses. The emergence of novel viruses is attributed to the status of co-existence of multiple types and subtypes of viruses in the reservoir hosts. For effective prediction of future viral epidemic or pandemic an in-depth understanding of the virome status in the key reservoir species is highly essential. METHODS: To obtain an unbiased measure of viral diversity in the enteric tract of ducks by viral metagenomic approach, we deep sequenced the viral nucleic acid extracted from cloacal swabs collected from the flock of 23 ducks which shared the water bodies with wild migratory birds. RESULT: In total 7,455,180 reads with average length of 146 bases were generated of which 7,354,300 reads were de novo assembled into 24,945 contigs with an average length of 220 bases and the remaining 100,880 reads were singletons. The duck virome were identified by sequence similarity comparisons of contigs and singletons (BLASTx E score, <10(−3)) against viral reference database. Numerous duck virome sequences were homologous to the animal virus of the Papillomaviridae family; and phages of the Caudovirales, Inoviridae, Tectiviridae, Microviridae families and unclassified phages. Further, several duck virome sequences had homologous with the insect viruses of the Poxviridae, Alphatetraviridae, Baculoviridae, Densovirinae, Iflaviridae and Dicistroviridae families; and plant viruses of the Secoviridae, Virgaviridae, Tombusviridae and Partitiviridae families, which reflects the diet and habitation of ducks. CONCLUSION: This study increases our understanding of the viral diversity and expands the knowledge about the spectrum of viruses harboured in the enteric tract of ducks.
has issue date	2016-06-09(xsd:dateTime)
bibo:doi	10.1186/s13099-016-0113-5
bibo:pmid	27284287
has license	cc-by
sha1sum (hex)	c726b09add3a385ad9b4fa87e54130d78194dcd2
schema:url	https://doi.org/10.1186/s13099-016-0113-5
resource representing a document's title	Duck gut viral metagenome analysis captures snapshot of viral diversity
has PubMed Central identifier	PMC4899906
has PubMed identifier	27284287
schema:publication	Gut Pathog
resource representing a document's body	covid:c726b09add3a385ad9b4fa87e54130d78194dcd2#body_text
is schema:about of	named entity 'SNAPSHOT' named entity 'DIVERSITY' named entity 'STATUS' named entity 'NOVEL' named entity 'INFLUENZA A' named entity 'MULTIPLE' named entity 'EPIDEMIC' named entity 'ECONOMICALLY IMPORTANT' named entity 'VIRUSES' named entity 'KEY' named entity 'DEPTH' named entity 'TYPES' named entity 'EMERGENCE' named entity 'VIRAL' named entity 'NATURAL' named entity 'SUBTYPES' named entity 'EFFECTIVE' named entity 'VIRAL' named entity 'PREDICTION' named entity 'RESERVOIR' named entity 'PANDEMIC' named entity 'DUCKS' named entity 'METAGENOME' named entity 'DUCK' named entity 'ANALYSIS' named entity 'HIGHLY' named entity 'WATERFOWL' named entity 'FEATHERS' named entity 'MEAT' named entity 'UNDERSTANDING' named entity 'BACKGROUND' named entity 'FUTURE' named entity 'ESSENTIAL' named entity 'GUT' named entity 'HOSTS' named entity 'EGGS' named entity 'SPECIES' named entity 'natural reservoir' named entity 'epidemic' named entity 'For' named entity 'virome' named entity 'waterfowl' named entity 'reservoir hosts' named entity 'effective prediction' named entity 'Anas platyrhynchos' named entity 'metagenome' named entity 'double-stranded DNA' named entity 'deer mouse' named entity 'phylogenetic tree' named entity 'eukaryotic' named entity 'Baculoviridae' named entity 'papillomavirus' named entity 'BLASTn' named entity 'ferret' named entity 'fowlpox virus' named entity 'cricket paralysis virus' named entity 'Francolinus leucoscepus' named entity 'Tombusviridae' named entity 'viral protein' named entity 'papillomavirus' named entity 'protein' named entity 'NCBI' named entity 'ORF' named entity 'viral protein' named entity 'viruses' named entity 'disease outbreaks' named entity 'contig' named entity 'Vijayakumar' named entity 'vertebrates' named entity 'Experiments on Animals' named entity 'nucleotide'

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