Welcome to 959 Nematode Genomes

This collaborative wiki collates information on completed, ongoing and planned genome and transcriptome sequencing projects on species from phylum Nematoda.

Please do:

• browse the information available, and get involved with these projects

• join this wiki - Special:UserLogin

• add your details and interests - use this form

• add details of new species for which genome projects are underway or planned - use this form

• add details of species for which you would like to promote genome projects - use this form

• add additional details for existing species - use this form

Thanks Our inspiration for this wiki is the Arthropod Genomes site set up by Daniel Lawson and colleages.

This SemanticMediaWiki was set up by Sujai Kumar (97%) and Mark Blaxter (3%).

Why more nematode genomes?

There are ~23,000 described species of nematodes, and an estimated 2-10 million species exist. Genomics research on nematodes (particularly Caenorhabditis elegans) has delivered important information on core biological processes. Adding additional nematode genomes to that of C. elegans will allow the specific instance of C. elegans to be contextualised, and will we hope feed research on comparative genomics of nematodes, the evolutionary biology of genome change, and the biology of the (many) parasitic nematodes, amongst other fields.

Why (only) 959 nematode genomes?

All adult female hermaphrodite C. elegans have 959 somatic cells*. The definition of the embryonic lineage of C. elegans from fertilised zygote to fertile adult was a milestone in C. elegans developmental biology. Just as the tree of the C. elegans embryonic lineage was a key underpinning of later work on this model nematode, we hope that a Nematoda phylogeny with 959 genome-sequenced taxa will underpin the investigation of nematode biology in general. Next generation sequencing technologies already can deliver 100-fold coverage of a new genome in under a week: our challenge is to recruit the next generation of (bioinformatics-capable, genome-savvy) nematologists to drive this aspiration.

[*Male C. elegans have 1031 cells, so we can (obviously) aim for any number we care to define.]

Adding data to this wiki

We need your help in making this wiki work, and that means as many people adding content as possible.

Please edit the page for your target species, and provide a paragraph or two of text describing the status of genomics in your organism, what resources you are in the process of generating and plan to generate, and what resources are lacking and why they are needed.

You can check whether your species is already present by using the Category:Species page.

• Why not register for a user account on this wiki?
• Add Person information using the Person form.
• Add Species information using the Species form.

This wiki uses the SemanticMediawiki extensions so that many of the main pages (Species,Person) do not need direct editing. Instead data can be added using the above forms and this will automatically get displayed in the relevant page (e.g. add your name to the species page as an interested party and the species will automatically appear on your page, no need to edit your page to explicitly say that). The site is still under development and comments/ideas for improvements are very welcome.

Thanks for your help and welcome to the consortium.

Best practice in genome sequencing: protocols, strategies, ideas

DNA extraction protocols [[1]]

959 nematode genomes oversight group

The following individuals have agreed to be part of the 959 nematode genomes initiative, offering guidance and oversight to the prioject, and bringing their particular expertise and enthusiasms.

• Mark Blaxter
• Matt Berriman
• Makedonka Mitreva
• Paul Sternberg
• Etenne Danchin
• Paul DeLey
• David Bird
• David Fitch
• Marie-Anne Felix
• Dee Denver
• Asher Cutter
• Kelley Thomas (asked)