Home     Genomes     Blat     Tables     PCR     FAQ     Help  
  Nitrosopumilus maritimus (Nitrosopumilus maritimus SCM1) Genome Browser Gateway
 
The UCSC Genome Browser was created by the Genome Bioinformatics Group of UC Santa Cruz.
Software Copyright (c) The Regents of the University of California. All rights reserved.
clade genome assembly position or search term image width  
Click here to reset the browser user interface settings to their defaults.

  About the Nitrosopumilus maritimus Nov 2007 (nitrMari1) assembly (sequences)
 

Species Information

The Nitrosopumilus maritimus SCM1 genome is 1.65 Million bp long and contains approximately 1840 predicted genes.

Taxonomy: Archaea; Crenarchaeota; Thermoprotei; marine_archaeal_group_1; Nitrosopumilales; Nitrosopumilaceae; Nitrosopumilus.

The most recent genome sequence draft was released Nov 2007 by the Joint Genome Institute / Univ. of Washington, but there is no associated genome publication to date.

Isolation: Nature 437:543-6 (2005) Konneke M, Bernhard AE, de la Torre JR, Walker CB, Waterbury JB, et al. "Isolation of an autotrophic ammonia-oxidizing marine archaeon."

Abstract: For years, microbiologists characterized the Archaea as obligate extremophiles that thrive in environments too harsh for other organisms. The limited physiological diversity among cultivated Archaea suggested that these organisms were metabolically constrained to a few environmental niches. For instance, all Crenarchaeota that are currently cultivated are sulphur-metabolizing thermophiles. However, landmark studies using cultivation-independent methods uncovered vast numbers of... [Click above reference link for full abstract]

Sequenced related species/strains: None

Browse Specific Gene/Feature Sets

Sample position queries

A genome position can be specified by chromosomal coordinate range, COGID, or keywords from the GenBank or TIGR description of a gene. The available chromosome/plasmid names are:

Browser Chrom/Plasmid NameLength (bp)GC Content (%)Gene CountNCBI RefSeq Accession
chr164525934.171840NC_010085

The following list shows examples of valid position queries for thisgenome: 

Request:Genome Browser Response:
chrDisplays the entire sequence "chr" in the browser window
chr:1-10000    Displays first ten thousand bases of the sequence "chr"
transporter    Lists all genes with "transporter" in the name or description
Nmar_0010Display genome at position of gene Nmar_0010

Phylogenetic tree of related species based on multiple-genome alignment in browser:

Phylogeny tree

Credits

The Archaeal Genome Browsers at UCSC were developed by members of theLowe Lab (Kevin Schneider,Katherine Pollard, Andy Pohl, Todd Lowe) and Robert Baertsch, with significant support fromthe UCSC Human GenomeBrowser group.The Archaeal Browsers are run by a slightly modifiedversion of the UCSC Human GenomeBrowser system. All queries, bug reports, content corrections, suggested improvements,and new track data submissions should be sent to Todd Lowe (lowe@soe.ucsc.edu).

If you use the browser in your published research, please cite ourpublication in the Nucleic Acids Research DatabaseIssue. Citations and positive feedback will help us obtain fundingto continue development of this community resource.