WormBase Genomes

WormBase Genomes

This is a record of the current and proposed set of genomes in WormBase.

Tiers

Tier I - All efforts are made to curate the gene structuers and any other genetic or metabolic information. Only C. elegans is in this group.

Tier II - Efforts are made, where practical, to manually curate the gene structure and possibly some other genomic information.

Tier III - We will set up the genome on WormBase with any gene structures that the authors of this genome have predicted. No further curation efforts are made by the WormBase consortium.

Tier IV - Proposed tier for organisms with only transcriptome information and no coherent genome. There are no examples of this at present.

Genome

The Genome column in the table indicates whether the genome has been added to WormBase.

Gene

The Genes column in the table indicates whether gene structures have been predicted.

The genome status

Species	NCBI TaxonID	Tier	Genome	Genes	Origin	Comments
Caenorhabditis briggsae	6228	II	Yes	Yes	WashU	New assembly from Erich Haag Sept 2010
Caenorhabditis remanei	31234	II	Yes	Yes	WashU
Caenorhabditis brenneri (Species 4)	135651	II	Yes	Yes	WashU	A lot of heterozygosity.
Caenorhabditis elegans strain N2	6239	I	Yes	Yes	WashU/Hinxton
Caenorhabditis elegans strain DR1035	6239	III			Mark Blaxter	status unclear
Caenorhabditis japonica	281617	II	Yes	Yes	WashU
Caenorhabditis species 3 strain PS1010	9668	II	Yes	Yes	CalTech
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU
		II	Yes	Yes	WashU

Phylogeny

Given my understanding of the current phylogenetic literature, the correct guide tree would be:

   ((((((((C._briggsae,C._remanei),C._brenneri),C._elegans),C._japonica),H._contortus),P._pacificus),(M._hapla,M._incognita)),,B._malayi)