Genomes
5. Genomes
Genome sequences are now available for a variety of methanotrophs, either as complete or gapped sequences (Table 5.1). Those listed as JGI/DOE that have not yet been submitted to GenBank are available on the JGI website through the IMG browser. Those with accession numbers can be accessed through the NCBI Microbial Genomes site. Note that several of these genomes have been analyzed under the auspices of OMeGA (Organization of Methanotroph Genome Analysis), a consortium focused on the sequencing and annotation of multiple methanotroph genomes.
Table 5.1. Genome Sequences for Methanotrophs
| Strain | Contact person | Sequencing center(leading group/ organization) | AccessionGenBankIMG | Status | References |
| Alpha-proteobacteria | |||||
| Methylocapsa acidiphila B2 | Murrell C. | JGI/DOE | ABLP0100000 | Complete | (Chen, 2010) |
| Methylocystis sp. strain Rockwell | Stein L. | JGI/DOE | AEVM00000000 | Final draft | (Stein et al., 2011) |
| Methylocystis sp. SC2 | Liesack W. | Max Planck Institute | NC_018485 | Complete | (Dam et al., 2012) |
| Methylocystis rosea SV97T | Svenning M.M. | JGI/DOE(OMeGA) | ARCT0100000 | Final draft | |
| Methylocystis parvus OBBP | García J. | Centro de Investigaciones Biológicas | AJTV00000000 | Final draft | (del Cerro et al., 2012) |
| Methylosinus trichosporium OB3b | Stein L. | JGI/DOE(OMeGA) | ADVE00000000 | Final draft | (Stein et al., 2010) |
| Methylosinus sp. LW4 | Chistoserdova L. | JGI/DOE(University of Washington) | ARAB00000000 | Final draft | |
| Methylosinus sp. LW8 | Chistoserdova L. | JGI/DOE (University of Washington) | in progress | ||
| Methylosinus sp. LW3 | Chistoserdova L. | JGI/DOE(University of Washington) | Final draft | ||
| Methylosinus sp. PW1 | Chistoserdova L. | JGI/DOE(University of Washington) | in progress | ||
| Methylosinus sporium sp.5T | Stein L. | JGI/DOE(OMeGA) | in progress | ||
| Methylocystis sp. LW5 | Chistoserdova L. | JGI/DOE(University of Washington) | in progress | ||
| Methyloferula stellata AR4T | Dedysh S. | JGI/DOE(OMeGA) | ARWA01000000 | Final draft | |
| Methylocapsa aurea KYG T | Dedysh S. | JGI/DOE(OMeGA) | in progress | ||
| Gamma-proteobacteria | |||||
| Methylococcus capsulatus BATH | TIGR | TIGR | AE017282.2 | Complete sequence | (Ward et al., 2004) |
| Methylococcus capsulatus TexasATCC19069 | Kleiveland C.R. | Norwegian University of Life Sciences | AMCE00000000 | Draft | (Kleiveland et al., 2012) |
| Methylocaldum szegediense O-12 | Kalyuzhnaya M.G.Khmelenina V.N. | JGI/DOE(OMeGA) | SRX030733 | Final draft | |
| Methylomonas methanica MC09 | Murrell J.C. | JGI/DOE(OMeGA) | NC_015572 | Complete sequence | (Boden et al., 2011) |
| Methylomonas LW13 | Kalyuzhnaya M.G | University of Washington | Draft | ||
| Methylomonas MK1 | Kalyuzhnaya M.G | JGI/DOE(University of Washington) | AQOV00000000 | Final draft | |
| Methylomonas 11b | Kalyuzhnaya M.G. | JGI/DOE(University of Washington | PRJNA157071 | Final draft | |
| Methylobacter tundripaludum SV96 | Svenning M.M. | JGI/DOE(OMeGA) | AEGW00000000 | Final draft | (Svenning et al., 2011) |
| Methylohalobius crimeensis 10KiT | Dunfield P. | JGI/DOE(OMeGA) | ATXB01000000 | Annotation in progress | |
| Methylosarcina lacus LW14 | Kalyuzhnaya M.G. | JGI/DOE(University of Washington) | Final draft | ||
| Methylosarcina fibrata AML-C10T | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | ARCU01000000 | in progress | |
| Methylobacter marinus A45 | Kalyuzhnaya M.G. | JGI/DOE(University of Washington) | ARVS00000000 | Final draft | |
| Methylobacter luteus (synonym M. bovis) IMV-B-3098T | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | ATYJ01000000 | Final draft | |
| Methylobacter whittenburyi (synonym M. vinelandii) ACM 3586T | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | in progress | ||
| Methylobacter sp. BBA5 (synonym UW 659-2-H10) | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | AQVZ01000000 | in progress | |
| Methylobacter BB5 | Murrell J.C. | University of East Anglia | in progress | ||
| Methylobacter 31-32 | Kalyuzhnaya M.G.Beck D. | University of Washington/ Calysta | Draft | ||
| Methylococaceae 12 | Kalyuzhnaya M.G.Beck D. | University of Washington | Draft | ||
| Methylomicrobium pelagicum sp. D100#4 | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | in progress | ||
| Methylomicrobium alcaliphilum 20Z | Kalyuzhnaya M.G. | Genoscope | NC_016112 | Complete sequence | (Vuilleumier et al., 2012) |
| Methylomicrobium buryatense 5G | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | AOTL00000000 | Final draft | (Khmelenina et al., 2013) |
| Methylomicrobium album BG8 | Stein L. | JGI/DOE(OMeGA) | CM001475 | Final draft | (Kits et al., 2013) |
| Methylomicrobium agile | Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | in progress | ||
| Methylomonas sp. LWB | Murrell J.C. | University of East Anglia | in progress | ||
| Methylovulum miyakonense HT12T | Sakai Y. | JGI/DOE(OMeGA) | AQZU01000000 | Draft | |
| Methylomarinum vadi | Hirayama H./ Kalyuzhnaya M.G. | JGI/DOE(OMeGA) | In progress | ||
| Methylocaldum sp. 175 | Knief C. | JGI/DOE(OMeGA) | in progress | ||
| Methanotrophic bacteria Type 1b” strain 73a (representing the RPC-1 cluster) | Knief C. | JGI/DOE(OMeGA) | in progress | ||
| Verrucomicrobia | |||||
| Methylacidiphilum infernorum V4 | Dunfield P. | University of Hawaii | CP000975.1 | Final draft | (Hou et al., 2008) |
| Methylacidiphilum fumariolicum SolV | Huub J.M., Op den Camp H.J. | Radbaoud University Nijmegen, | CAHT00000000 | Draft | |
| Methylacidiphilum kamchatkense Kam1 | University of Bergen | 169117 | In progress | ||
| Verrucomicrobium sp. LP2A | Dunfield , P. | JGI/DOE(OMeGA) | Assembly in progress | ||
| Verrucomicrobium sp. 3C | Jetten M.S; Huub J.M.; Op den Camp H.J. | JGI/DOE(OMeGA) | ARAS01000000 | Final draft |