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BMC GenomicsResearch articleBioMed CentralOpen AccessAnalysis of expressed sequence tags and identification of genes encoding cell-wall-degrading enzymes from the fungivorous nematode Aphelenchus avenaeNurul Karim1, John T Jones2, Hiroaki Okada3 and Taisei Kikuchi*Address: 1Forestry and Forest Products Research Institute, Tsukuba, Ibaraki 305-8687, Japan, 2Plant-Pathogen Interactions Programme, Scottish Crop Research Institute, Invergowrie, Dundee, DD2 5DA, UK and 3National Institute for Agro-Environmental Sciences, Tsukuba, Ibaraki, 3058604, Japan Email: Nurul Karim – nkarim@affrc.go.jp; John T Jones – jjones@scri.ac.uk; Hiroaki Okada – hokada@affrc.go.jp; Taisei Kikuchi* – kikuchit@affrc.go.jp * Corresponding authorPublished: 16 November 2009 BMC Genomics 2009, 10:525 doi:10.1186/1471-2164-10-Received: 9 June 2009 Accepted: 16 NovemberThis article is available from: http://www.biomedcentral.com/1471-2164/10/525 ?2009 Karim et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.AbstractBackground: The fungivorus nematode, Aphelenchus avenae is widespread in soil and is found in association with decaying plant material. This nematode is also found in association with plants but its ability to cause plant disease remains largely undetermined. The taxonomic position and intermediate lifestyle of A. avenae make it an important model for studying the evolution of plant parasitism within the Nematoda. In addition, the exceptional capacity of this nematode to survive desiccation makes it an important system for study of anhydrobiosis. Expressed sequence tag (EST) analysis may therefore be useful Lenalidomide in providing an initial insight into the poorly understood genetic background of A. avenae. Results: We present the generation, analysis and annotation of over 5,000 ESTs from a mixed-stage A. avenae cDNA library. Clustering PubMed ID:https://www.ncbi.nlm.nih.gov/pubmed/17139194 of 5,076 high-quality ESTs resulted in a set of 2,700 non-redundant sequences comprising 695 contigs and 2,005 singletons. Comparative analyses indicated that 1,567 (58.0 ) of the cluster sequences had homologues in Caenorhabditis elegans, 1,750 (64.8 ) in other nematodes, 1,321(48.