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Plant Genome Databases

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This is a collection of plant genome databases

Arabidopsis Databases

[info] Arabidopsis Genome Resource (AGR)
[info] TAIR - The Arabidopsis Information Resource
[info] Arabidopsis Information Management System (AIMS)
[info] AraClean
[info] MIPS Arabidopsis thaliana group (MATDB)

Other Plant Databases

[info] UK Crop Plant Bioinformatics Network (UK CropNet)
[info] Dendrome: A Genome Database for Forest Trees
[info] Pisum sativum Genetics
[info] BeanRef
[info] Demeter's Genomes
[info] Japan Rice Genome Research Program (RGP)
[info] MaizeDB Maize Genome Database
[info] National Corn Genome Initiative NCGI
[info] University of Minnesota Medical School
[info] SoyBase: Metabolic Database
[info] North American Barley Genome Mapping Project (NABGMP)
[info] Mendel - Plant Gene Nomenclature Database
[info] Medicago Genome Initiative

Detailed information on the above options

Arabidopsis Genome Resource (AGR)
The Arabidopsis Genome Resource (AGR) is an information resource being developed at NASC as part of the UK-CropNet project. The aim is to integrate sequence data with physical and genetic maps of Arabidopsis, within the UK CropNet project and provide information for identifying gene function and crop plant orthologues of Arabidopsis genes.

TAIR - The Arabidopsis Information Resource
TAIR assumed responsibility for Arabidopsis information from AtDB on September 1, 1999. TAIR is a collaborative effort between the Carnegie Institution of Washington Department of Plant Biology at Stanford, California, and the National Center for Genome Resources (NCGR) at Santa Fe, New Mexico.

TAIR will expand and improve on the AtDB to include comprehensive sequence and map information, community information (people, labs, companies, and databases), expression data, and experimental data from the literature. We also plan to improve the interfaces with considerable input from users.

Arabidopsis Information Management System (AIMS)
AIMS is intended to support the database needs for all Arabidopsis Stock Centers around the world. Currently one can order stocks from ABRC and NASC (Nottingham Arabidopsis Stock Centre) through AIMS.

AraClean is an corrected and redundancy reduced database of Arabidopsis thaliana sequences extracted from GenBank.

MIPS Arabidopsis thaliana group (MATDB)
MIPS Arabidopsis thaliana database (MATDB) is the www access to data of the Arabidopsis Genome Initiative compiled, analysed, annotated and stored at MIPS by the MIPS Arabidopsis group

UK Crop Plant Bioinformatics Network (UK CropNet)
UK CropNet has been established as part of the BBSRC's Plant and Animal Genome Analysis special initiative. The networks focus is the development, management and distribution of information relating to comparative mapping and genome research.

The network uses the ACEDB software to manage the information. Individual databases for Arabidopsis, Barley, Brassica, Forage grasses, Millet and comparative analysis are being developed by each of the partners. In addition new tools and displays to highlight the agronomic significance of comparative analysis are also being developed.

Dendrome: A Genome Database for Forest Trees
This is a collection of specialized forest tree genome databases which are being developed by the Institute of Forest Genetics. The initial focus of the project is to develop a genome mapping database for loblolly pine (Pinus taeda L.)

Pisum sativum Genetics
Information on Pea genetics.

A collection of references about different aspects of research on beans (Phaseolus/Vigna).

BeanRef contains addresses, short descriptions, and links to germplasm collections, genetic maps, conferences, organizations, mailing list, and newsletters.

Demeter's Genomes
Demeter's Genomes is primarily a site for communication of Plant Genome data among scientists worldwide. The medium is a set of genome databases, similar to the ones for Human genome mapping and sequencing. They include data about

This is a semi-private research consortium, managed and supported by MAFF, NIAR, a consortium of some twenty Japanese companies and the Japan Racing Association (JRA).

MaizeDB Maize Genome Database
This project is part of the National Agricultural Library's Plant Genome Research Program. This provides access to Maize-related information in a variety of formats.

National Corn Genome Initiative NCGI
Links to the main maize genome sites.

University of Minnesota Medical School
Has information on various plant genome projects including the Arabidopsis cDNA Sequence Analysis Project.

cDNA Sequence Analysis Projects on Rice, Corn (Maize), Pine, Brassica napus.

SoyBase: Metabolic Database
The metabolic component of SoyBase, a soybean genetic database, contains reaction and pathway descriptions and diagrams for a number of basic metabolic pathways.

North American Barley Genome Mapping Project (NABGMP)
The NABGMP is a multi-institutional, multi-disciplinary project that applies the latest genetic technology to barley improvement. The long-term goal of the NABGMP is to locate and characterize genes of economic importance and to use these genes in applied plant breeding.

Mendel - Plant Gene Nomenclature Database
The Mendel database project aims to develop a common nomenclature for sequenced genes, based on gene families, for all photosynthetic organisms, the organelle genomes of both photosynthetic and non-photosynthetic organisms (fungi, algae, and protozoa) and plant viruses.

The Mendel database contains information on :

Medicago Genome Initiative
Medicago truncatula is a model system for studying crop species in the family Fabaceae.

Currently, the database contains only cDNA sequences from Medicago truncatula that were submitted from the Noble Foundation Center for Medicago Genomics Research. NCGR plans to form collaborations that make this resource useful for researchers interested in other legume species by adding publicly available Medicago sequences and sequences from other species in the same family.

Enhancements to the functionality of the system are planned:

Any Comments, Questions? Support@hgmp.mrc.ac.uk