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  Ferroplasma acidarmanus (Ferroplasma acidarmanus Fer1) Genome Browser Gateway
 
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  About the Ferroplasma acidarmanus June 2005 Draft (ferrAcid1) assembly (sequences)
 

Species Information

The Ferroplasma acidarmanus Fer1 genome is 1.87 Million bp long and contains approximately 1695 predicted genes. F. acidarmanus is an acidophilic iron-oxidizing euryarchaeon that is native to metal-rich environments (including those rich in arsenic). It grows optimally at 42C and pH 1.2. The genome is still in draft form.

Taxonomy: Archaea; Euryarchaeota; Thermoplasmata; Thermoplasmatales; Ferroplasmaceae; Ferroplasma.

The most recent genome sequence draft was released June 2005 Draft by the US DOE Joint Genome Institute, but there is no associated genome publication to date.

Isolation: Science 287:1796-9 (2000) Edwards KJ, Bond PL, Gihring TM, Banfield JF, "An archaeal iron-oxidizing extreme acidophile important in acid mine drainage."

Abstract: A new species of Archaea grows at pH approximately 0.5 and approximately 40 degrees C in slime streamers and attached to pyrite surfaces at a sulfide ore body, Iron Mountain, California. This iron-oxidizing Archaeon is capable of growth at pH 0. This species represents a dominant prokaryote in the environment studied (slimes and sediments) and constituted up to 85% of the microbial community when solution concentrations were high (conductivity of 100 to 160 millisiemens per... [Click above reference link for full abstract]

Sequenced related species/strains: Picrophilus torridus DSM 9790, Thermoplasma acidophilum DSM 1728, Thermoplasma volcanium GSS1

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
Contig90256744.570NZ_AABC04000056
Contig1097600737.6076NZ_AABC04000008
Contig1125793437.3953NZ_AABC04000014
Contig116274632.272NZ_AABC04000054
Contig1029047136.8777NZ_AABC04000005
Contig45452034.823NZ_AABC04000046
Contig1141319235.346NZ_AABC04000028
Contig111212231.342NZ_AABC04000060
Contig11512787236.87136NZ_AABC04000004
Contig1036510737.3357NZ_AABC04000012
Contig1061323836.7511NZ_AABC04000027
Contig1072435636.6624NZ_AABC04000020
Contig117956834.025NZ_AABC04000034
Contig121569935.837NZ_AABC04000041
Contig125734035.465NZ_AABC04000038
Contig118204430.380NZ_AABC04000061
Contig123608335.137NZ_AABC04000040
Contig1195282937.7647NZ_AABC04000016
Contig1241265036.378NZ_AABC04000030
Contig120939233.078NZ_AABC04000035
Contig1262142536.9320NZ_AABC04000021
Contig1323236237.3830NZ_AABC04000018
Contig134215732.550NZ_AABC04000059
Contig130453235.226NZ_AABC04000045
Contig1336757136.8575NZ_AABC04000011
Contig129996535.357NZ_AABC04000032
Contig128279638.452NZ_AABC04000053
Contig135258031.982NZ_AABC04000055
Contig1405743337.2258NZ_AABC04000015
Contig1378358737.2584NZ_AABC04000006
Contig1396405936.7955NZ_AABC04000013
Contig1381605937.9513NZ_AABC04000025
Contig1361876535.598NZ_AABC04000023
Contig14213610836.99123NZ_AABC04000003
Contig141567731.626NZ_AABC04000042
Contig1444883937.2737NZ_AABC04000017
Contig148983835.399NZ_AABC04000033
Contig143240431.412NZ_AABC04000058
Contig145444631.695NZ_AABC04000047
Contig1461137437.1010NZ_AABC04000031
Contig147538734.013NZ_AABC04000043
Contig1493192736.3231NZ_AABC04000019
Contig15014564036.59144NZ_AABC04000002
Contig151282429.920NZ_AABC04000052
Contig1557309537.5761NZ_AABC04000009
Contig152363133.962NZ_AABC04000049
Contig1567976038.5081NZ_AABC04000007
Contig1591940835.6611NZ_AABC04000022
Contig157455135.844NZ_AABC04000044
Contig1601854435.4916NZ_AABC04000024
Contig15816039537.34147NZ_AABC04000001
Contig154811736.017NZ_AABC04000037
Contig161412136.354NZ_AABC04000048
Contig162624435.496NZ_AABC04000039
Contig1631479334.4411NZ_AABC04000026
Contig165871930.817NZ_AABC04000036
Contig1641292735.089NZ_AABC04000029
Contig166247428.250NZ_AABC04000057
Contig1676943335.4363NZ_AABC04000010
Contig168285532.190NZ_AABC04000051
Contig169287930.642NZ_AABC04000050

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

Request:Genome Browser Response:
Contig90Displays the entire sequence "Contig90" in the browser window
Contig90:1-10000    Displays first ten thousand bases of the sequence "Contig90"
transporter    Lists all genes with "transporter" in the name or description
FaciDRAFT_0917Display genome at position of gene FaciDRAFT_0917

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.