U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM61980v1

Organism name:
Sulfurihydrogenibium subterraneum DSM 15120 (aquificales)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: DSM:15120
Infraspecific name:
Strain: DSM 15120
BioSample:
SAMN02769639
BioProject:
PRJNA221056
Submitter:
DOE Joint Genome Institute
Date:
2014/04/08
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
RefSeq category:
representative genome
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_000619805.1 (latest)
RefSeq assembly accession:
GCF_000619805.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JHUV01
Assembly method:
vpAllpaths v. r46652
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 140931 [UID] 992138 [GenBank] 1129978 [RefSeq]

See Genome Information for Sulfurihydrogenibium subterraneum

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1011109
Source DNA and organism available from Hans-Peter Klenk at the German Collection of Microorganisms and Cell Cultures (DSMZ) (hans-peter.klenk@dsmz.de)
Contacts: Nikos Kyrpides (nckyrpides@lbl.gov)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI
Annotation by JGI
The ... JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. It is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376)
Full annotations are available from IMG  more

MIGS-Data

##MIGS-Data-START##
assembly::vpAllpaths v. r46652
country::Japan
environment::Aquatic
investigation_type::bacteria_archaea
isol_growth_condt::12807207
project_name::Sulfurihydrogenibium subterraneum DSM 15120
sequencing_meth::WGS
ref_biomaterial::DSM 15120
rel_to_oxygen::Facultative
finishing_strategy::Level 1: Standard Draft
trophic_level::Chemolithoautotroph
GOLD Stamp ID::Gi11975
Type Strain::Yes
Funding Program::DOE-CSP 2012
Gene Calling Method::Prodigal 2.5
Isolation Site::Subsurface hot aquifer water from Japanese gold mine
Cell Shape::Rod-shaped
Motility::Motile
Temperature Range::Thermophile
Temperature Optimum::65 C
pH::6.4-8.8
Gram Staining::Gram-
Phenotypes::Neutrophilic
##MIGS-Data-END##

Global statistics

Total sequence length1,610,181
Total ungapped length1,609,023
Gaps between scaffolds0
Number of scaffolds16
Scaffold N50248,578
Scaffold L503
Number of contigs17
Contig N50248,578
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)17

Supplemental Content

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced1,610,181161,609,023248,57810

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Sulfurihydrogenibium subterraneum DSM 15120Sulfurihydrogenibium subterraneum

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000021545.1Sulfurihydrogenibium azorensetype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.2884.3882.74

ANI result

Taxonomy check statusBest match statusComment
OKbelow-threshold-mismatchAssembly is the type-strain, mismatch is within genus and expected