Welcome to the GenomeWeb
Other Vertebrate Genome Databases
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This is a collection of vertebrate genome databases.

Fish

[info] HGMP-RC Fugu Project
[info] The Zebra Fish Server
[info] Zebra Fish Information
[info] Tilapia Genome Project
[info] MEDAKAFISH
[info] Rivulus marmoratus
[info] Tetraodon nigroviridis

Sheep

[info] SheepMap
[info] Centre for Animal Biotechnology (University of Melbourne)

Goat

[info] GOATMAP

Pig

[info] Roslin PiGMaP Data
[info] USDA Swine Genome Map
[info] NAGRP Pig Gene Map

Poultry

[info] Chicken Genome Map
[info] The U.S. Poultry Gene Mapping Homepage
[info] NAGRP Chicken Gene Map

Cattle

[info] Cattle Genome Database (CSIRO Molecular Animal Genetics Centre)
[info] University of Illinois NCSA Biotechnology Center
[info] Bovine Genome Database (NAGRP)
[info] BOVMAP - INRA
[info] Cattle Genome Map

Dog

[info] The Dog Genome Project
[info] The FHCRC Dog Genome Project
[info] Canine Genetics Research

Horse

[info] Horse Genetics
[info] HORSEMAP

Marsupials and monotremes

[info] ROOBASE

Mixtures and Other Species

[info] JGBASE - The Animal Genome Database

Detailed information on the above options

HGMP-RC Fugu Project
The MRC has granted an award to Sydney Brenner and Greg Elgar through the HGMP-RC to generate a landmark map of the Fugu genome.

The Fugu fish has essentially the same number of genes as the human genome, although its genome size is only approx. 400 Mb. Data obtained to date is consistent with an overall 8x compression of the Fugu genome compared to the human. Isolation of Fugu homologies to human genomic regions thus facilitate gene finding.

Cosmids from the Fugu library will be sequenced using a scanning approach. The data arising from other groups using the library, and returning the data to the Resource Centre, will be integrated into the database.

The Zebra Fish Server
This gives information on the genetics, breeding and care of zebra fish.

Zebra Fish Information
This gives links to useful things about Zebra fish genetics and care and breeding of Zebra fish.

Tilapia Genome Project
A first-generation genetic map for tilapia, a group of fishes important to aquaculture around the world. Microsatellite markers consisting of a variable number of dinucleotide repeats have been isolated from an enriched genomic DNA library. These markers will be useful for characterizing the genomic composition and level of inbreeding of commercial tilapia strains, many of which have been derived by hybridization of several related species of Oreochromis. The genetic map will facilitate the improvement of strains with respect to traits of commercial importance, such as growth rate and flesh quality, through marker-assisted selection.

MEDAKAFISH
In recent years, the medaka (Oryzias latipes) has come to be widely used as a laboratory animal in various fields in biology, especially in developmental biology and genetics. Its relatively short life cycle, capacity to reproduce, and ease of breeding are chiefly responsible for its popularity in these fields.

Rivulus marmoratus
The killifish Rivulus marmoratus is the only vertebrate known to reproduce by virtually obligate self-fertilization and whose natural populations are generally comprised of homozygous clones. A webpage discussing the biology of this organism in some detail, including a review article, bibliography, faqs, and some illustrations, is now available.

Tetraodon nigroviridis
The fish Tetraodon nigroviridis lives in the rivers and estuaries of Indonesia, Malaysia and India. As a vertebrate, its gene pool is very similar to that of other vertebrates, including mammals such as humans and mice. It has been observed by Brenner et al. (Nature (1993) 336: 265-268) that the genome of Fugu rubripes, another puffer fish from the same family, has a remarkably low content of repetitive DNA, and this also applies to Tetraodon nigroviridis Therefore, for geneticists interested in studying genes, fishes of the Tetraodontiform family have a huge advantage over mammals: their gene pool is contained within approximately 8 times less DNA (i.e. the genome is 8 times smaller). This feature allows us to rapidly target our studies on the interesting part: the genes.

The Genoscope has set out to perform a global analysis of this genome, by first determining the sequence of a large number of random DNA fragments. Because of the compactness of the genome, an important fraction of these sequences will carry a fragment of a gene. With several hundred thousand such sequences, we should be able to build a collection containing at least part of each gene. This should allow us, for the first time, to get the complete picture of the gene content of a vertebrate genome. This collection should also serve as a reference for comparisons with the human genome.

SheepMap
The purpose of SheepBase is to provide an up-to-date compilation of published data from sheep genome mapping projects. Information is presented using the WWW interface, where both physical and linkage maps of the sheep genome are available, together with information on individual loci and associated references.

Centre for Animal Biotechnology (University of Melbourne)

GOATMAP
The INRA GOATMAP Database holds data on the goat genome.

Roslin PiGMaP Data
This gives details of the PiGMaP project at the Roslin Institute.

USDA Swine Genome Map
This gives chromosome maps and linkage group data.

NAGRP Pig Gene Map
This gives details of pig mapping coordinated by the NAGRP.

Chicken Genome Map
This gives details of the ChickMap project at the Roslin Institute.

The U.S. Poultry Gene Mapping Homepage
The Chicken Genome Project Homepage at Iowa State University

NAGRP Chicken Gene Map

Cattle Genome Database (CSIRO Molecular Animal Genetics Centre)
Welcome to the Cattle Genome Database hosted at the CSIRO Molecular Animal Genetics Centre, Brisbane, Australia. The CGD is part of an international collaboration to map the Bovine genome.

University of Illinois NCSA Biotechnology Center

Bovine Genome Database (NAGRP)

BOVMAP - INRA
The goal of the BOVMAP database is to offer to the scientific community working on the bovine genome a useful and practical tool to follow the rapid mapping progress. As such, BOVMAP contains information on loci, alleles, genetic and physical maps, polymorphisms, homologies (comparative mapping), probes, primers and bibliographic references. At the moment near 900 loci, 500 polymorphism and 360 bibliographic references are registered.

Cattle Genome Map
This gives the cattle genome marker tables and a chromosome map.

The Dog Genome Project
The dog genome project is a collaborative study involving scientists at the University of California, the University of Oregon, and the Fred Hutchinson Cancer Research Center aimed at producing a map of all of the chromosomes in dogs, which can be used to map the genes causing disease and those genes controlling morphology and behavior. Different dog breeds are distinguished by varieties of morphologies and behaviors that exceed the range of variation in any other species on earth.

The FHCRC Dog Genome Project
The Dog Genome Project at the Fred Hutchinson Cancer Research Center is working to develop resources necessary to map and clone canine genes.

Canine Genetics Research

Horse Genetics
Information on horse genetics, gene mapping and horse typing services at the Veterinary Genetics Laboratory at Davis University.

HORSEMAP
The INRA HORSEMAP Database holds data on the horse genome.

ROOBASE
Kangeroo genome database.

JGBASE - The Animal Genome Database
Contains records in various tables about pig, cattle, horse, mouse, human, rat and sheep.

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