The Comprehensive Phytopathogen Genomics Resource: a web-based resource for data-mining plant pathogen genomes

被引：22

作者：

Hamilton, John P. ^{[1
]}

Neeno-Eckwall, Eric C. ^{[2
]}

Adhikari, Bishwo N. ^{[1
]}

Perna, Nicole T. ^{[2
]}

Tisserat, Ned ^{[3
]}

Leach, Jan E. ^{[3
]}

Levesque, C. Andre ^{[4
,5
]}

Buell, C. Robin ^{[1
]}

机构：

[1] Michigan State Univ, Dept Plant Biol, E Lansing, MI 48824 USA

[2] Univ Wisconsin, Dept Genet, Madison, WI 53706 USA

[3] Colorado State Univ, Dept Bioagr Sci & Pest Management, Ft Collins, CO 80523 USA

[4] Carleton Univ, Dept Biol, Ottawa, ON K1S 5B6, Canada

[5] Agr & Agri Food Canada, Ottawa, ON K1A 0C6, Canada

来源：

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION | 2011年

关键词：

EXPRESSED SEQUENCE TAGS; RALSTONIA-SOLANACEARUM; GENE; ANNOTATION; PROTEIN; IDENTIFICATION; GENERATION; BACTERIAL; SYSTEM; FUNGI;

D O I：

10.1093/database/bar053

中图分类号：

Q [生物科学];

学科分类号：

090105 [作物生产系统与生态工程];

摘要：

The Comprehensive Phytopathogen Genomics Resource (CPGR) provides a web-based portal for plant pathologists and diagnosticians to view the genome and trancriptome sequence status of 806 bacterial, fungal, oomycete, nematode, viral and viroid plant pathogens. Tools are available to search and analyze annotated genome sequences of 74 bacterial, fungal and oomycete pathogens. Oomycete and fungal genomes are obtained directly from GenBank, whereas bacterial genome sequences are downloaded from the A Systematic Annotation Package (ASAP) database that provides curation of genomes using comparative approaches. Curated lists of bacterial genes relevant to pathogenicity and avirulence are also provided. The Plant Pathogen Transcript Assemblies Database provides annotated assemblies of the transcribed regions of 82 eukaryotic genomes from publicly available single pass Expressed Sequence Tags. Data-mining tools are provided along with tools to create candidate diagnostic markers, an emerging use for genomic sequence data in plant pathology. The Plant Pathogen Ribosomal DNA (rDNA) database is a resource for pathogens that lack genome or transcriptome data sets and contains 131 755 rDNA sequences from GenBank for 17 613 species identified as plant pathogens and related genera. Database URL: http://cpgr.plantbiology.msu.edu.

引用

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