Plant Pathogens &
Host-Pathogen Interactions
General or Collective Resources | Magnaporthe | Phytophthora
General or Collective Resources
COGEME---Phytopathogenic Fungi and Oomycete EST Database (Manchester
University)
http://cogeme.ex.ac.uk/
ESTs from eighteen species of plant pathogenic fungi, two species of phytopathogenic
oomycete, and three species of saprophytic fungi are analyzed and clustered
to obtain a consensus sequence for a gene or contig (unisequences). Putative
functions were assigned based on searches in the NCBI RefSeq database.
Fungal Genome Initiative (Broad Institute)
http://www.broad.harvard.edu/annotation/fgi/
The Fungal Genome Initiative (FGI) produces and analyzes sequence data from
fungal organisms that are important to medicine, agriculture and industry.
Over 25 fungi have been sequenced or are being sequenced, including human and
plant pathogens as well as fungi that serve as basic models for molecular and
cellular biology. Annotated genomes are available for Aspergillus, Cryptococcus,
Fusarium, Magnaporthe, Neurospora, Rhizopus, Sclerotinia, and several
other fungi.
Nematode.net (Washington University,
Genome Sequencing Center, St. Louis)
http://www.nematode.net/
Nematode.net
provides access to NemaGene EST cluster consensus sequences with functional classifications.
ESTs have been generated from >30 nematodes
including key parasites of humans, animals and plants.
PathPort, pathogen portal project (Virginia Bioinformatics Institute)
http://pathport.vbi.vt.edu/main/home1.php
PathPort combines information about high priority pathogens with powerful
analysis and visualization tools. High quality genomic, transcriptomic, proteomic,
pathway, and other data for select pathogens is curated or stored at VBI.
PHI-base: Pathogen Host Interaction
http://www.phi-base.org/
PHI-base contains information molecular and biological about pathogenicity,
virulence, and effector genes from fungal and Oomycete pathogens. Each entry
is curated by domain experts and supported by experimental evidence plus literature
references to the descriptions of the experiments. Information for each gene
includes its nucleotide and deduced amino acid sequence and a description of
the predicted protein's function during the host infection process. Gene annotations
use controlled vocabularies (Gene Ontology terms, EC Numbers, etc.) and links
to other external data sources (e.g., NCBI taxonomy, EMBL and COGEME).
Comprehensive Phytopathogen
Genome Warehouse
http://cpgr.tigr.org/cgi-bin/warehouse/cpgr_warehouse.cgi
A database of f genome
sequencing projects--inished, draft and in progress--and EST projects
for viral, bacterial, stramenopile, fungal, and nematode plant pathogens.
Plant Viruses Online: Descriptions and Lists from the VIDE Database
http://image.fs.uidaho.edu/vide/
This resource provides access to information on most species of virus known
to infect plants. Data includes host range; transmission and control; physical,
chemical and genomic properties; taxonomy; and literature references. The database
provides accession numbers (GenBank and EMBL) of viral genomic sequences and
links to the NCBI taxonomy database.
Magnaporthe (Rice
blast)
MGOS: Magnaporthe grisea Oryza sativa Interaction Database
http://www.mgosdb.org/
MGOS focuses on an analysis of molecular events that occur during pathogen-host
recognition and defense responses. Data is available for rice and M. grisea and
includes genome sequences, maps, gene information, mutants, EST libraries,
microarray experiments, and SAGE data.
One of the principal investigators is Ralph
Dean, North Carolina State University.
RiceBlastDB
http://ascus.plbr.cornell.edu/blastdb/
RiceBlastDB integrates a variety of information about Magnaporthe grisea,
the causal agent of rice blast disease. The database contains genetic and physical
maps, marker data, population structure, DNA fingerprints, pathotype, mating
type, geographical distribution, and an extensive bibliography.
RiceBlast.org (The International Rice Blast Genome Consortium)
http://www.riceblast.org/index.htm
The goal of the consortium is to develop genomic resources for understanding
fungal-host interactions and to develop strategies for managing rice blast
disease. The site provides links to many resources, including the sequence
of M. grisea and other resources and research projects.
Phytophthora
Oomycete Genomics Database
http://www.oomycete.org/
Includes functional assays, expression data, and transcript and genome
analysis and annotation from several phytophthora research projects.
Phytophthora infestans Mitochondrial Genome Project
http://www.tigr.org/tdb/e2k1/pima1/index.shtml
North
Carolina State University and TIGR are collaborating on the sequencing and annotation
of haplotypes of the mitochondrial genome of P. infestans.
The mitochondrial genome of P. infestans isolate ATCC-16981 has been
sequenced and annotated (Genbank Accession NC_002387). Three additional isolates
of P. infestans will be sequenced, annotated and compared with the
reference sequence
VBI Microbial Database (Virginia Bioinformatics Institute (VBI))
http://phytophthora.vbi.vt.edu/
The microbial database at VBI hosts data from plant pathogenic oomycetes,
fungi, and bacteria. Data come from different sources, including pathogens
under study at VBI.. Currently, EST, genome sequence and microarray data are
available for oomycetes, e.g., Phytophthora sojae. Related resources
include:
- PhESTDB v 1.0 (Phytophthora Soybean EST
Database) http://phytophthora.vbi.vt.edu/EST/
The
database contains ESTs from P. sojae, P. infestans, and soybean
with sequence annotation and other data.
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