Difference between revisions of "Last news on SAMPLING"

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And remember that the cash and naming [http://forums.wormbase.org/index.php?topic=308.0 prize] for the ''C. elegans'' sister species is - unfortunately - still not claimed. So please SAMPLE and share!
 
And remember that the cash and naming [http://forums.wormbase.org/index.php?topic=308.0 prize] for the ''C. elegans'' sister species is - unfortunately - still not claimed. So please SAMPLE and share!
  
Please submit your wild strain information using the format at Wormbase through http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/wild_isolate.cgi by e-mailing the information in a table to genenames@wormbase.org, copying to david.fitch@nyu.edu and wormstrain@biologie.ens.fr (Felix lab) for integration in the Rhabditina database (http://128.122.60.136/fmi/iwp/cgi?-db=RhabditinaDB&-loadframes) and the world map (to be announced). This does not mean that you need to send the strain to CGC. (Please note that CGC now requires a justification for taking up new strains in the CGC collection; for new species, they agreed to take a reference non-inbred isolate & the genome-sequenced inbred strain.  
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Please submit your wild strain information using the format at Wormbase through http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/wild_isolate.cgi or preferrably if you have many, by e-mailing the information in a table to genenames@wormbase.org, copying to david.fitch@nyu.edu and wormstrain@biologie.ens.fr (Felix lab) for integration in the Rhabditina database (http://128.122.60.136/fmi/iwp/cgi?-db=RhabditinaDB&-loadframes) and the world map (to be announced). This does not mean that you need to send the strain to CGC. (Please note that CGC now requires a justification for taking up new strains in the CGC collection; for new species, they agreed to take a reference non-inbred isolate & the genome-sequenced inbred strain).  
  
 
For methods, see: [http://www.wormbook.org/chapters/www_nematodeisolation/nematodeisolation.html WormMethod chapter by Barrière and Félix], [http://groups.molbiosci.northwestern.edu/andersen/Collections.html Andersen lab].
 
For methods, see: [http://www.wormbook.org/chapters/www_nematodeisolation/nematodeisolation.html WormMethod chapter by Barrière and Félix], [http://groups.molbiosci.northwestern.edu/andersen/Collections.html Andersen lab].

Revision as of 14:54, 6 September 2014

The diversity of Caenorhabditis is just starting to be uncovered, and we likely have only scratched the surface. And remember that the cash and naming prize for the C. elegans sister species is - unfortunately - still not claimed. So please SAMPLE and share!

Please submit your wild strain information using the format at Wormbase through http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/wild_isolate.cgi or preferrably if you have many, by e-mailing the information in a table to genenames@wormbase.org, copying to david.fitch@nyu.edu and wormstrain@biologie.ens.fr (Felix lab) for integration in the Rhabditina database (http://128.122.60.136/fmi/iwp/cgi?-db=RhabditinaDB&-loadframes) and the world map (to be announced). This does not mean that you need to send the strain to CGC. (Please note that CGC now requires a justification for taking up new strains in the CGC collection; for new species, they agreed to take a reference non-inbred isolate & the genome-sequenced inbred strain).

For methods, see: WormMethod chapter by Barrière and Félix, Andersen lab.


Félix lab

2014:

- C. nigoni from Yucatan, Mexico (MAF)

- C. remanei from Seoul, Korea and Cologne, Germany (MAF)

- C. elegans from San Diego, California (Sarah Marsh)

- C. briggsae, C. tropicalis and a strain close to C. angaria (more news later) from Guadeloupe (Fabrice Besnard)

- A strain close to or belonging to C. sp. 21 from Martinique (Fabrice Besnard)

- C. virilis from two samples that were likely feces from a fow or a marten, in Longueville, a second location for this species in the vicinity of Paris (MAF)

- C. briggsae from Armenia (MAF)

- C. briggsae and several strains of a species likely in the sp. 5/ sp. 26 clade (more news later) from Australia (Jean-Baptiste Pénigault)

- New C. elegans and C. briggsae from various regions of France (lab)

2013: The fall 2013 was very rainy and busy, with sampling of lots of C. elegans, C. briggsae and associated organisms from France by Lise Frézal, Sarah Marsh and MAF. Be prepared to pronounce "Crouy-sur-Ourcq" as a new location. The Orsay virus was finally found again by Lise in Ivry near Paris. Sarah established a collection of bacteria isolated from C. elegans and C. briggsae, presumably most from their guts. Marie-Anne isolated an oomycete infecting C. elegans, identified by 18S as a Myzocytiopsis sp. (for those who like her have no clue what oomycetes are, they are related to brown algae and diatoms).

And thanks to many samplers, in the last year we isolated:

- a new species C. sp. 31 from Peru, with a beautiful male tail, as well as some C. briggsae and C. elegans from Peru

- C. briggsae from Mayotte

- a sp. 9 from Sao Tome, extending the Afro-Asian equatorial distribution of this species (from W to E: Sao Tome, Congo, Seychelles, Kerala, Singapore)

- a second C. elegans isolate from Greece

- a new collection of C. elegans from the botanical garden of Lisbon, Portugal

- a sp. 11 from Costa Rica

- C. elegans from Kerala, South of India!

- C. remanei from Strasbourg ... and from near Paris (thanks to Christian Braendle's prior finding)

- and finally sp. 6 again (after Michael Ailion first found it in Portugal) near Paris and in Ireland, all in rotting apples.

Conclusion: we are far from having sampled the Paris region to saturation, finding two more species this year, adding up to five (Cel, Cbr, Cre, spp. 13 and 6). Nouragues in French Guiana still holds the species diversity record with six species in a smaller area.

Tell us if you are interested in some of these isolates (here is our current collection of isolates, not yet including the most recent, nor our collection of C. elegans kept as potential heterozygotes by freezing the whole progeny of each wild P0 individual).


Braendle lab

Sampling news 2013-14

- Châtenay-Malabry, France (near Paris): C. elegans, C. briggsae and C. remanei

- Naples, Italy: C. elegans, C. briggsae

- Lisbon, Portugal: C. elegans

- Cadiz, Spain: C. elegans

- Cordoba, Spain: C. elegans, C. sp. 6

- Taiwan: C. briggsae, C. sp. 11, C. sp. 5 (sampling by Charlie Gosse - merci!)


Cutter lab

Sampling news 2014

- Koffler Scientific Reserve (near Toronto, Canada): C. remanei found commonly in May on isopods (Porcellio, Oniscus), but very rare June-August

- French Guiana, Parare station in Nouragues reserve (with C. Braendle): 200 opportunistic samples collected, 300 orange bait samples collected, preliminary looks suggest approx 120 strains of Caenorhabditis (both hermaphrodite and dioecious)