Show simple item record Blaxter, Mark L. Wasmuth, James Elsworth, Benjamin 2011-10-31T18:30:36Z 2011-10-31T18:30:36Z 2011-04-21
dc.identifier doi:10.5061/dryad.b22430s2
dc.identifier.citation Elsworth B, Wasmuth J, Blaxter M (2011) NEMBASE4: the nematode transcriptome resource. International Journal for Parasitology 41(8): 881-894.
dc.description Nematode parasites are of major importance in human health and agriculture, and free-living species deliver essential ecosystem services. The genomics revolution has resulted in the production of many datasets of expressed sequence tags (ESTs) from a phylogenetically wide range of nematode species, but these are not easily compared. NEMBASE4 presents a single portal onto extensively functionally annotated, EST-derived transcriptomes from over sixty species of nematodes, including plant and animal parasites and free-living taxa. Using the PartiGene suite of tools, we have assembled the ESTs publicly available for each species into a high-quality set of putative transcripts. These transcripts have been translated to produce a protein sequence resource, and each annotated with functional information derived from comparison to well-studied nematode species such as Caenorhabditis elegans and also other non-nematode resources. By cross-comparing the sequences within NEMBASE4, we have also generated a protein family assignment for each translation. The data are presented in an openly-accessible, interactive database. To demonstrate the utility of NEMBASE4, we have used the database to examine the uniqueness of the transcriptomes of major clades of parasitic nematodes, identifying lineage-restricted genes that may underpin particular parasitic phenotypes, possible viral pathogens of nematodes, and nematode-unique protein families that may be developed as drug targets.
dc.relation.ispartofseries 41;8;2011
dc.relation.haspart doi:10.5061/dryad.b22430s2/1
dc.relation.isreferencedby doi:10.1016/j.ijpara.2011.03.009
dc.relation.isreferencedby PMID:21550347
dc.subject nematode
dc.subject transcriptome
dc.subject genome
dc.subject expressed sequence tag
dc.subject database
dc.subject PartiGene
dc.title Data from: NEMBASE4: the nematode transcriptome resource
dc.type Article
dwc.ScientificName Nematoda
dc.contributor.correspondingAuthor Blaxter, Mark L.
prism.publicationName International Journal for Parasitology
dryad.dansTransferDate 2017-09-26T11:13:59.649-0400

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