LIST OF AVAILABLE CAENORHABDITIS SPECIES and the state of their genome projects
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See RhabditinaDB for a comprehensive morphological and taxonomic database of Rhabditina, including Caenorhabditis
| Species | number | Reference strain | Repro- duction | Collector | Location | Date | Isolated by | Supergroup (annotation incomplete) | Group (annotation incomplete) | Geographic distribution and available isolates (lab) | Inbred strain | Genome | Data (WORMBASE or other) | Publications (incomplete) | Other strains sequenced & other sequence data |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| elegans | a | N2 | H/M | - | - | - | - | Elegans | world-wide (mostly temperate) distribution, 100s of isolates | N.A. | SEQUENCED Sanger WashU | WORMBASE | C. elegans Sequencing Consortium 1998 Science | >400 wild isolates sequenced, see CeNDR | |
| briggsae | b | AF16 | H/M | - | - | - | - | Elegans | world-wide distribution, 100s of isolates | N.A. | SEQUENCED WashU | WORMBASE | Stein et al. 2003 | 37 wild isolates sequenced 30x (Cutter lab) | |
| japonica | c | F/M | - | - | - | - | Elegans | Japonica | isolates from Japan (Yoshiga/Cutter) | DF5080 | SEQUENCED WashU | WORMBASE | - | - | |
| remanei | d | F/M | - | - | - | - | Elegans | USA/Canada, Europe, Japan, Taiwan, 100s of isolates | PB4641, PX356, PX349 | SEQUENCED WashU, Phillips | WORMBASE | Fierst et al. 2015 | approx 35 wild isolates sequenced | ||
| drosophilae | f | DF5077 | F/M | - | - | - | - | Drosophilae | rotting saguaro cactus in Arizona, a few isolates | DF5112 | SEQUENCED Blaxter | - | - | - | |
| plicata | g | SB355 | F/M | - | - | - | - | base | - | - | SEQUENCED Blaxter | Caenorhabditis DB | - | - | |
| monodelphis | 1 | SB341 | F/M | J. Raschka | Berlin, Germany | 2001 | W. Sudhaus | base | A second isolate from Norway (Félix) | JU1667 | SEQUENCED Blaxter | Caenorhabditis DB | Slos et al. BMC Zool. 2017 | - | |
| sp. 2 | 2 | DF5070 | F/M | S. Wirth | Corsica, France | Oct 2001 | W. Sudhaus | Drosophilae | (sister of drosophilae) | 1 single isolate | - | SEQUENCED Blaxter | - | - | - |
| angaria | 3 | PS1010 | F/M | - | - | 1990 | - | Drosophilae | Angaria | 3 isolates from Florida USA | - | SEQUENCED CalTech | WORMBASE | Mortazavi et al. | - |
| brenneri | 4 | F/M | - | - | - | - | Elegans | Elegans | tropical, ~30 isolates (Felix, Cutter, Braendle) | PB2801, VX223-225, VX227 | SEQUENCED WashU | WORMBASE | - | VX strains sequenced but not yet assembled (Cutter lab); RNA seq for 10 isolates http://www.ncbi.nlm.nih.gov/sra/?term=SRP042651+Caenorhabditis | |
| sinica | 5 | F/M | M.-A. Félix | Chengyang, Guangxi, China | 6 May 2005 | M.-A. Félix | Elegans | Briggase | Isolates from China, Vietnam (Cutter, Ailion, Félix) | JU800 | SEQUENCED Cutter Blaxter | WORMBASE | - | - | |
| portoensis | 6 | EG4788 | F/M | M. Ailion, A.-J. Rodrigues | Amares, Portugal | 28 Mar 2007 | M. Ailion | Drosophilae super group | Portugal, Spain, France, Ireland (Ailion, Félix, Braendle) | EG5626 | Sequenced Blaxter | - | - | - | |
| afra | 7 | JU1199 | F/M | M. Herrmann | Begoro, Ghana | Jun 2007 | M.-A. Félix | Japonica group | Japonica | 2 isolates from West Africa (Félix) | JU1286 | SEQUENCED Blaxter | Caenorhabditis DB | - | - |
| sp. 8 | 8 | QX1182 | F/M | M. Rockman | Backyard of 93 Mercer St., Jersey City, NJ, USA | 28 Jul 2007 | M. Rockman | Angaria group | Angaria | Isolates from USA (Fitch), Europe (Braendle, Félix), Canada (Rockman) | JU3312 | SEQUENCED Blaxter | - | - | - |
| nigoni | 9 | JU1325 | F/M | M.-A. Félix | Trivandrum Zoo, Kerala, India | 21 Dec 2007 | M.-A. Félix | Briggsae subgroup, sister of briggsae | Briggsae | Various wet tropical places from Yucatan to Singapore (Ailion, Félix, Inoue) | JU1422 | SEQUENCED Schwarz | OPEN SCIENCE FRAMEWORK | - | - |
| doughertyi | 10 | JU1333 | F/M | M.-A. Félix | Angela Spice Garden, Kerala, India | 27 Dec 2007 | M.-A. Félix | Brenneri subgroup | Brenneri | 6 isolates from South India | JU1771 | SEQUENCED Blaxter | Caenorhabditis DB | - | RNA seq for JU1328 & JU1333 |
| tropicalis | 11 | JU1373 | H/M | V. Robert, L. Sablé | Saint-Benoît, La Réunion | Jan 2008 | M.-A. Félix | Brenneri subgroup | Brenneri | Common in tropical regions (not so far on the African continent, one in Asia) | - | SEQUENCED WashU, etc | WORMBASE | - | - |
| castelli | 12 | JU1426 | F/M | P. Châtelet | Nouragues Forest, French Guiana | May 2008 | M.-A. Félix | Angaria group | Angaria | Several isolates from French Guiana (Félix, Braendle, Cutter) | JU1956 | SEQUENCED Blaxter | Caenorhabditis DB | - | - |
| virilis | 13 | JU1528 | F/M | M.-A. Félix | Orsay apple orchard | 9 Sep 2008 | M.-A. Félix | Drosophilae super group | Several isolates from two locations in France | JU1968 | SEQUENCED Blaxter | Caenorhabditis DB | - | - | |
| imperialis | 14 | EG5716 | F/M | D. Ailion | Moorea, French Polynesia | 24 Jul 2009 | M. Ailion | Japonica group | also Polynesia, Guadeloupe (Félix, Braendle) | EG5942-EG5947 | SEQUENCED Blaxter | - | - | - | |
| kamaaina | 15 | QG122 | F/M | M. Rockman | Near Hanalei Bay, Kauai, Hawaii, USA | 2 Aug 2009 | M. Rockman | Elegans super group | Kauai and Maui, 2 isolates | QG2076, QG2077 | SEQUENCED Rockman | Caenorhabditis DB | - | ||
| wallacei | 16 | JU1873 | F/M | J.-B. Pénigault | Sanda Center, Bali, Indonesia | 11 Nov 2009 | J.-B. Pénigault | Brenneri subgroup | 2 isolates from Indonesia (Félix) | JU1898 | in assembly Schwarz | - | |||
| nouraguensis | 17 | JU1825 | F/M | C. Braendle, M.-A. Félix | Nouragues Forest, French Guiana | 21 Nov 2009 | C. Braendle, M.-A. Félix | Japonica group | Many isolates from French Guiana | JU2079 | SEQUENCED Blaxter | Caenorhabditis DB | - | additional strains sequenced | |
| macrosperma | 18 | JU1857 | F/M | C. Braendle, M.-A. Félix | Nouragues Forest, French Guiana | 23 Nov 2009 | C. Braendle, M.-A. Félix | Japonica group | A few isolates from Nouragues, French Guiana | JU2083 | SEQUENCED Cutter | Caenorhabditis DB | - | - | |
| yunquensis | 19 | EG6142 | F/M | S. Dalton | El Yunque, Puerto Rico | 28 Mar 2010 | S. Dalton, M. Ailion | Japonica group | Puerto Rico | XZ1517-XZ1520 | SEQUENCED Blaxter | - | - | - | |
| guadeloupensis | 20 | NIC113 | F/M | C. Braendle | Soufrière Forest trail, Guadeloupe | Mar 2010 | C. Braendle | Drosophilae supergroup | Guadeloupe | SEQUENCED Blaxter | Caenorhabditis DB | - | resequencing required | ||
| parvicauda | 21 | NIC134 | F/M | C. Gimond | Island of Sainte Marie, Madagascar | Dec 2010 | C. Braendle | base | Also Polynesia, Thailand and Caribbean (Félix) | NIC534 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - | |
| latens | 23 | VX88 | F/M | G.-X. Wang | Jiufeng Village, Wuhan City, Hubei Province, China | 27 Oct 2009 | G.-X. Wang | Briggsae subgroup, sister of C. remanei | Several isolates from China (Cutter) | PX534, PX573, PX574, PX580 | SEQUENCED Phillips | Caenorhabditis DB | - | - | |
| sp. 24 | 24 | QG555 | F/M | A. Paaby | Santa Barbara, USA | July 2011 | A. Paaby | Angaria group, sister of sp. 8 | Angaria | Isolates from California, Panama, Mexico (Rockman, Félix) | SEQUENCED Blaxter | - | - | - | |
| sp. 25 | 25 | ZF1222 | F/M | A. Seah, T. Inoue | Singapore | 3 Sep 2011 | T. Inoue | Japonica group | Japonica | 2 isolates from Singapore | ZF1457 | SEQUENCED Blaxter | - | - | - |
| zanzibari | 26 | JU2161 | F/M | M.-A. Félix | Zanzibar, Tanzania | 9 Mar 2012 | M.-A. Félix | Briggsae subgroup, close relative of C. sinica | 5 isolates from Zanzibar | JU2190 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - | |
| sp. 27 | 27 | QX2263 | F/M | - | Buenos Aires, Argentina | 2 Mar 2012 | E. Andersen | Drosophilae supergroup, sister of portoensis | Argentina | SEQUENCED Blaxter | - | - | - | ||
| panamensis | 28 | QG702 | F/M | M. Rockman | Barro Colorado Island, Panama | 23 Apr 2012 | M. Rockman | Japonica group | Japonica | several isofemale lines from Panama | QG2080, QG2081 | SEQUENCED Rockman | Caenorhabditis DB | BIORXIV | - |
| becei | 29 | QG704 | F/M | M. Rockman | Barro Colorado Island, Panama | 25 Apr 2012 | M. Rockman | Japonica group, sister of nouraguensis | Japonica | many isofemale lines from Panama | QG2082, QG2083 | SEQUENCED Rockman | Caenorhabditis DB | BIORXIV | - |
| sp. 30 | 30 | DF5152 | F/M | - | Gallon Jug, Belize | 15 Nov 2012 | K. Kiontke | Drosophilae subgroup | 4 isofemale lines from Belize | ongoing (K. Kiontke) | SEQUENCED Blaxter | - | - | - | |
| uteleia | 31 | JU2469 | F/M | - | Madre de Dios, Peru | Jan 2013 | L. Frézal | May branch basally within the Elegans supergroup, see Slos et al. | 2 isolates from Peru | JU2585 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - | |
| sulstoni | 32 | SB454 | F/M | - | East Africa? | Feb 2013 | W. Sudhaus | Japonica group, sister of afra | Japonica | 1 isolate, from the gut of the millipede Archispirostreptus gigas | JU2788 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - |
| sp. 33 | 33 | BRC20065 | F/M | J. Wang | Taiwan | 24 May 2012 | J. Wang | Elegans | Briggsae | 1 isolate from Taiwan | BRC20066 | IN SEQUENCING Wang Tsai | - | - | - |
| inopinata | 34 | NK74SC | F/M | N. Kanzaki | Shigaki Island, Japan | May 2013 | N. Kanzaki | Elegans | Elegans supergroup, with C. sp. 35 sister of C. elegans | 1 isolate from Japan. Associated with fig wasps and Ficus septica | - | SEQUENCED Kanzaki, Kikuchi | Caenorhabditis DB | - | - |
| sp. 35 | 35 | DF5171 | F/M | - | Banda Ache, Indonesia | Aug 2013 | N. Kanzaki | Elegans supergroup, with C. sp. 34 sister of C. elegans | 2 Isolates from Indonesia, associated with Ficus hispida | - | IN SEQUENCING Kanzaki, Kikuchi | - | - | - | |
| sp. 36 | 36 | NK02NV | F/M | N. Kanzaki | Tokyo, Japan | Apr 2013 | N. Kanzaki | Japonica group | Japonica | 1 isolate from Japan. Associated with the weevil Niphades variegatus | - | IN SEQUENCING Kanzaki, Kikuchi | - | - | - |
| dolens | 37 | NIC394 | F/M | C. Braendle, A. Cutter, R. Jovelin, N. Callemeyn | Nouragues National Reserve, French Guiana | 18 Apr 2013 | C. Braendle | Angaria group | Angaria | 1 isolate from French Guiana | - | SEQUENCED Blaxter | - | - | - |
| quiockensis | 38 | JU2745 | F/M | F. Besnard | Guadeloupe (Basse Terre) | 09 June 2014 | F. Besnard | Angaria group | Angaria | 1 isolate from Guadeloupe | JU2809 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - |
| waitukubuli | 39 | NIC564 | F/M | C. Braendle | Dominica | 13 May 2014 | C. Braendle | Japonica group | Japonica | 1 isolate from Dominique | - | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - |
| tribulationis | 40 | JU2774 | F/M | J.-B. Pénigault | Danbulla, Australia | 08 August 2014 | L. Frézal | Briggsae subgroup, close relative of C. sinica | Briggsae | 5 isolates from Australia, in fresh or rotting figs | JU2818 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | - |
| sp. 41 | 41 | BRC20276 | F/M | - | Solomon Islands | October 2014 | J. Wang | Briggsae subgroup, sister species of C. sp. 40 | Briggsae | 2 isolates from Solomon Islands | - | IN SEQUENCING Wang Tsai | - | - | - |
| astrocarya | 42 | NIC1040 | F/M | C. Braendle/A. Cutter | Nouragues Forest, French Guiana | August 2014 | C. Braendle | Drosophilae super group | Drosophilae | one isolate from French Guiana | - | SEQUENCED Blaxter | - | - | - |
| vivipara | 43 | NIC1070 | F/M | C. Gosse | Chichén Itzá, Yucatán, Mexico | 17 October 2014 | C. Braendle | Drosophilae super group | Drsophilae | 2 isolates from Mexico; in orange berries | NIC1581 | SEQUENCED Blaxter | Caenorhabditis DB | BIORXIV | resequencing required |
| sp. 44 | 44 | BRC20300 | F/M | J. Wang | Shihting mountain near Taipei City, Taiwan | Dec 2014 | J. Wang | sister species of C. brenneri | one isolate from Taiwan; in flowers | - | IN SEQUENCING Wang Tsai | - | - | - | |
| sp. 45 | 45 | NIC759 | F/M | C. Braendle | Sylvania, Dominica | 16 May 2014 | C. Braendle | sister species of C. guadeloupensis | one isolate from Dominica; in Cecropia fruit | - | SEQUENCED Blaxter | - | - | - | |
| sp. 46 | 46 | NIC1120 | F/M | C. Braendle | Macchu Picchu, Aguas Calientes, Peru | 7 April 2015 | C. Braendle | Japonica group | Japonica | one isolate from Peru | - | SEQUENCED Blaxter | - | - | - |
| sp. 47 | 47 | NIC1127 | F/M | C. Braendle | Tambopata region, Amazon, Peru | 7 April 2015 | C. Braendle | Angaria group | Angaria | one isolate from Peru | - | SEQUENCED Blaxter | - | - | - |
| sp. 48 | 48 | BRC20359 | F/M | J. Wang | Khao Yai National park, Thailand | 4 May 2015 | J. Wang | sister of C. brenneri | Brenneri | one isolate from Thailand | - | SSEQUENCED Blaxter | - | - | - |
| sp. 49 | 49 | BRC20376 | F/M | J. Wang | Solomon Islands | - | J. Wang | Japonica group? | Japonica | one isolate Solomon Islands | - | SEQUENCED Blaxter | - | - | - |
| sp. 50 | 50 | BRC20387 | F/M | Dai | near Taipei City, Taiwan | 18 October 2015 | J. Wang | Elegans | Elegans | two isolates from Taiwan | - | Sequencing_planned Blaxter | - | - | - |
| sp. 51 | 51 | QG2915 | F/M | M. Rockman | Australia | 2017 | M Rockman | Elegans | Elegans | one isolate from Australia | - | SEQUENCED Blaxter | - | - | - |
| sp. 52 | 52 | QG2933 | F/M | M. Rockman | Australia | 2017 | M Rockman | Drosophilae | one isolate from Australia | - | Sequencing_planned Blaxter | - | - | - | |
| sp. 53 | 53 | ECA821 | F/M | E. Andersen | Oahu, Hawaii | 2017 | T Crombie | sister of C. kamaaina | several isolates from Oahu and Kauai | - | SEQUENCED Blaxter | - | - | - | |
| sp. 54 | 54 | BRC20468 | F/M | Hsueh, Yen-Ping | Miaoli County?, Taiwan | 18 August 2016 | J Wang | Elegans | - | SEQUENCED Blaxter | - | - | - | ||
| sp. 55 | 55 | JU3317 | F/M | M.-A. Félix | Pugao Laozhai, Yuanyang, Yunnan, China | 5 March 2018 | M.-A. Félix | Elegans | one isolate from Yunnan, China | - | SEQUENCED Blaxter | - | - | - | |
| sp. 56 | 56 | JU2215 | F/M | M. Joron | Tarapoto, Peru | October 2012 | L. Frézal | Angaria group, close to spp. 8 and 24 | Angaria | one isolate from Peru | (JU3313 8x inbred and very sick) | SEQUENCED Blaxter | - | - | - |
| sp. 57 | 57 | QG3050 | F/M | M. Rockman | Barro Colorado Island, Panama | August 2018 | M. Rockman | near monodelphis and sonorae? | two isolates from Panama | in inbreeding | - | - | - |
Species numbers are assigned by Karin Kiontke, NYU.
Published phylogeny, up to sp. 21:
Kiontke et al. 2011 BMC Evolutionary Biology 11: 339.
Published phylogeny from Kiontke et al. 2011 with species names from Félix, Braendle & Cutter 2014
Félix, Braendle @ Cutter PLoS One 2014 http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0094723
Updated phylogeny, up to sp. 32:
http://wormtails.bio.nyu.edu/RhabditinaDB_Images/GenusTrees/CaenorhabditisTree.png
2017 phylogeny of a subset of species, based on their genome sequences by Slos et al.
https://bmczool.biomedcentral.com/articles/10.1186/s40850-017-0013-2
See Stevens et al. 2019 [1]
and the latest unpublished phylogeny [2]. Thank you Lewis!
