Community Sequencing Program
Sequencing Plans for 2007
This page is verified at the beginning of every month.
| Organism | Proposer | Affiliation | Status* | Public Release** |
|---|---|---|---|---|
| Large Eukaryotes | ||||
| Aquilegia formosa Why? |
Hodges | UC Santa Barbara | In production | |
| Brachypodium distachyon (Poaceae) Why? |
Vogel | USDA-ARS | In production | |
| Gossypium (cotton) Why? |
Paterson | Univ. of Georgia | In assembly | |
| Manihot esculenta (cassava) Why? |
Fauquet | Danforth Plant Science Ctr. | In finishing | |
| Small Eukaryotes | ||||
| Cryphonectria parasitica (chestnut blight fungus) Why? |
Nuss | Univ. of Maryland Biotech. Inst. | In finishing | |
| Reef-building corals and dinoflagellate symbionts (ESTs from Acropora palmata, Montastraea faveolata, and Symbiodinium clade A and clade B) Why? |
Medina | Univ. of California, Merced | Clade B pending, others in production | |
| Fragilariopsis cylindrus (a diatom) Why? |
Mock | Univ. of Washington | In production | |
| Guillardia theta and Bigelowiella natans Why? |
Archibald | Dalhousie Univ. | G.t. in assembly, B.n. in production | |
| Heterobasidion annosum Why? |
Stenlid | Swedish Univ. of Agricultural Sciences | In production | |
| Three species of Neurospora (N. discreta, N. tetrasperma FGSC2508, N. tetrasperma FGSC2509) Why? |
Taylor | Univ. of California, Berkeley | discreta in finishing, 2508 and 2509 done (draft) | |
| Peronosporomycete mtDNAs (26) Why? |
Hudspeth | Northern Illinois Univ. | Pending | |
| Pleurotus ostreatus (oyster mushroom) Why? |
Pisabarro | Public Univ. of Navarre | In production | |
| Riftia pachyptila (deep-sea tubeworm) Why? |
Girguis | Harvard Univ. | Pending | |
| Switchgrass Why? |
Tobias | USDA-ARS | Pending | |
| Tetranychus urticae (two-spotted spider mite) Why? |
Grbic | Univ. of Western Ontario | In production | |
| Thellungiella halophila Why? |
Schumaker | Univ. of Arizona | In production | |
| Mating loci from Volvox carteri and Chlamydomonas reinhardtii Why? |
Umen | Salk Inst. | Volvox in assembly, Chlamy In production (at Stanford) | Volvox released (draft) |
| Bacteria and Archaea | ||||
| Candidatus Amoebophilus asiaticus 5a2 and Encarsia symbiont Cand. Cardinium hertigii Why? |
Horn | Univ. of Vienna | C.h. pending, A.a. in finishing (at LLNL) | A.a. released 2/25/2008 (draft) |
| Actinobacteria (Arthrobacter chlorophenolicus A6 and Micrococcus luteus) Why? |
Jansson | Swedish Univ. of Agricultural Sciences | In finishing (at PGF) | A.c. released 1/14/2008 (draft) , M.l. released 3/5/2008 |
| Beggiatoa alba Why? |
Mueller | Morgan State Univ. | Pending | |
| Burkholderia (B. ambifaria IOP40-10, B. ambifaria MEX-5, B. graminis C4D1M, B. sp. SEMIA 6167, B. sp. strain H160, B. sp. strain 144F, B. sp. strain CCGE1001, B. sp. strain CCGE1003, B. cepacia ATCC 25416) Why? |
Tiedje | Michigan State Univ. | 144F, CCGE1001, CCGE1003, and ATCC 25416 in production, B.g. and H160 in finishing, IOP40-10 and MEX-5 done (draft), others pending | IOP40-10 released 3/5/2008, MEX-5 released 3/5/2008, B. g. released 3/5/2008 |
| Anaerobic benzene-degrading methanogenic consortium (Chloroflexi, Desulfobacterium sp., Desulfosporosinus sp., Methanomicrobiales-like sp., Methanosaeta sp., Methanosarcinales-like spp) Why? |
Edwards | Univ. of Toronto | Pending | |
| Crenothrix polyspora enrichment Why? |
Wagner | Univ. of Vienna | In assembly | |
| Cyanothece strains Why? |
Pakrasi | Washington Univ. | 1 in production, 5 in finishing | PCC 7424 released 2/25/2008 (draft), PCC 8801 released 2/25/2008 (draft) |
| Dechlorinating community (KB-1) (Dehalococcoides, Geobacter, Methanosarcina, Spirochete, Sporomusa) Why? |
Edwards | Univ. of Toronto | 1 in production, 5 pending | |
| Lithifying mat communities of marine stromatolites (Desulfovibrio sp. H0407_12.1Lac, Schizothrix gebeleni sp.A and sp. B, Solentia sp., Sulfate Reducing Bacterium sp. B, and sulfur-oxidizing bacteria) Why? |
Decho | Univ. of South Carolina | Pending | |
| Candidatus Endomicrobium trichonymphae, Elusimicrobium minutum Pei191 Why? |
Brune | Max Planck Institute for Terrestrial Microbiology | E.m. finished, E.t. In finishing (at PGF) | E.m. 5/7/2008 |
| Symbiont from the basal clade of the Frankiaceae Why? |
Benson | Univ. of Connecticut | Pending | |
| Six freshwater iron-oxidizing bacteria (Gallionella ferruginea capsiferriformans ES-2, Leptothrix cholodnii SP-6, Rhodobacter sp. str. SW2, Rhodopseudomonas palustris TIE-1, and Sideroxydans lithotrophicus, Acidovorax delafieldii 2AN) Why? |
Emerson | Amer. Type Culture Collection | A.d. 2AN, SW2, S.l., and G.f. ES-2 in production, R.p. in finishing (at LLNL); L.c. finished | L.c. released 4/21/2008 , R.p. released 1/30/2008 (draft) |
| Microbiome resident in the foregut of the tammar wallaby (Macropus eugenii) Why? |
McSweeney | CSIRO | In production | |
| Methanomicrococcus blatticola Why? |
Hackstein | Radboud Univ. Nijmegen | Pending | |
| Methylocella silvestris BL2, Methylocapsa acidiphila B2, and Beijerinckia indica subsp. indica Why? |
Dunfield | Inst. of Geological and Nuclear Sciences, New Zealand | B.i. finished, M.s. in finishing, M.a. pending | M.s. released 3/5/2008 , B.i. released 4/14/2008 |
| Pedomicrobium manganicum Why? |
Mackenzie, | Univ. of Texas, Houston | Pending | |
| Microbial community (plasmid mobilome) in wastewater treatment plant Why? |
van der Meer | Univ. of Lausanne | In production | |
| Rhizobium leguminosarum bv trifolii (strains WSM1325 and WSM2304) Why? |
Reeve | Murdoch Univ. | In finishing (at LLNL) | WSM1325 released 1/30/2008 (draft), WSM2304 released 2/25/2008 (draft) |
| Near-shore anoxic basin: Saanich Inlet Why? |
Hallam | Univ. of British Columbia | In assembly | |
| Thauera sp. MZ1T Why? |
Sayler | Univ. of Tennessee | In finishing (at LANL) | Released 1/23/2008 (draft) |
| Thermolithobacter ferrireducens Why? |
Wiegel | Univ. of Georgia | Pending | |
| Haloalkaliphilic sulfur-oxidizing bacteria (Thioalkalivibrio sp. HL-EbGR7, and T. sp. K90 mix) Why? |
Muyzer | Delft Univ. of Technology | HL-EbGR7 in finishing, K90 In production | |
*"Pending" indicates that we are waiting for DNA or the DNA is waiting to enter the production process; "in production" includes both library creation and production sequencing; "draft assembly" is the first assembly, made without finishing the genome; "finishing" is postproduction work not carried out for all organisms; "final assembly" is the process of assembling the finished genome; "annotation" refers to automated finding of genes and assignment of functions; genomes on which we do not plan further work are labeled "done".
**"Reads released" indicates that reads have been sent to the GenBank Trace Archive; release dates indicate the date an assembly was made publicly available.
