AAWO00000000.1 mine drainage metagenome
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# of Contigs: 87 # of Proteins: 0 # of Scaffolds/Chrs: 8 Total length: 2,632,898 bp BioProject: PRJNA18537 BioSample: SAMN02954271 Keywords: WGS Annotation: Scaffolds Organism: mine drainage metagenome – show lineagehide lineage Biosource: /collection_date = Jun-2005/country = USA: Ultra Back A (UBA) site of Richmond Mine (elevation 3100ft) at Iron Mountain, CA/environmental_sample/isolation_source = pink subaerial biofilm microbial community collected from the base of 2m high pile of pyrite sediment over which pH 1.1, 41C acid mine drainage solution was flowing/lat_lon = 40.68 N 122.2 W/metagenomic/mol_type = genomicWGS: AAWO01000001:AAWO01000087 Scaffolds: DS180869:DS180876 8 scaffolds, 2,601 proteins, total length is 2,636,861 basesReference: Strain-resolved community proteomics reveals recombining genomes of acidophilic bacteria : Nature 446 (7135), 537-541 (2007) – show 14 authorshide authorsLo,I., Denef,V.J., Verberkmoes,N.C., Shah,M.B., Goltsman,D., DiBartolo,G., Tyson,G.W., Allen,E.E., Ram,R.J., Detter,J.C., Richardson,P., Thelen,M.P., Hettich,R.L., Banfield,J.F.Reference: Community genomic and proteomic analyses of chemoautotrophic iron-oxidizing 'Leptospirillum rubarum' (Group II) and 'Leptospirillum ferrodiazotrophum' (Group III) bacteria in acid mine drainage biofilms : Appl. Environ. Microbiol. 75 (13), 4599-4615 (2009) – show 17 authorshide authorsGoltsman,D.S., Denef,V.J., Singer,S.W., VerBerkmoes,N.C., Lefsrud,M., Mueller,R.S., Dick,G.J., Sun,C.L., Wheeler,K.E., Zemla,A., Baker,B.J., Hauser,L., Land,M., Shah,M.B., Thelen,M.P., Hettich,R.L., Banfield,J.F.Submission: Submitted (17-JAN-2007) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA – show 15 authorshide authorsGoltsman,D., Denef,V.J., Banfield,J.F., Tyson,G.W., Allen,E.E., Copeland,A., Lucas,S., Barry,K., Glavina del Rio,T., Dalin,E., Tice,H., Bruce,D., Pitluck,S., Richardson,P., US DOE Joint Genome Institute (JGI-PGF)The mine drainage metagenome whole genome shotgun (WGS) project has the project accession AAWO00000000. This version of the project (01) has the accession number AAWO01000000, and consists of sequences AAWO01000001-AAWO01000087.
URL -- http://www.jgi.doe.gov JGI Project ID: 4001343 Source DNA available from Jillian F. Banfield (jbanfield@berkeley.edu) Contacts: Jillian F. Banfield (jbanfield@berkeley.edu) Paul Richardson (microbes@cuba.jgi-psf.org) Whole genome sequencing at JGI-PGF This first version of the project has a partial genome of one Leptospirillum group II species that dominates a biofilm collected from the UBA location of the Richmond Mine acid mine drainage site, Iron Mountain, near Redding CA. The contigs were assembled in a single genomic path, thus strain variation is not evident. Annotation is on the scaffolds. Manual assembly by J. Banfield. Manual curation of ORFs by D. Goltsman and V. Denef.
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