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ASM74625v1

Organism name:
Thermodesulfobacterium hydrogeniphilum (bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: DSM 14290
BioSample:
SAMN02744824
BioProject:
PRJNA239492
Submitter:
DOE Joint Genome Institute
Date:
2014/08/28
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_000746255.1 (latest)
RefSeq assembly accession:
GCF_000746255.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JQKW01
Assembly method:
Unknown program v. before Fri Aug 15 11:05:18 PDT 2014
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000; Illumina MiSeq

IDs: 206671 [UID] 1194568 [GenBank] 1448628 [RefSeq]

See Genome Information for Thermodesulfobacterium hydrogeniphilum

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
jgi Project ID: 1025050
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##
country::Pacific Ocean
environment::Deep sea; Aquatic; Marine
investigation_type::bacteria_archaea
project_name::Thermodesulfobacterium hydrogeniphilum DSM 14290
sequencing_meth::WGS
ref_biomaterial::DSM 14290
finishing_strategy::Level 1: Standard Draft
GOLD Stamp ID::Gi0051644
Type Strain::Yes
Gene Calling Method::Prodigal 2.5
Isolation Site::deep-sea hydrothermal vent sulfides
Gram Staining::Gram-
##MIGS-Data-END##

Global statistics

Total sequence length1,687,244
Total ungapped length1,685,468
Gaps between scaffolds0
Number of scaffolds13
Scaffold N50200,496
Scaffold L503
Number of contigs14
Contig N50200,496
Contig L503
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)14

Supplemental Content

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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
unplaced1,687,244131,685,468200,49610

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Thermodesulfobacterium hydrogeniphilumThermodesulfobacterium hydrogeniphilum

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_005843985.1Caminibacter mediatlanticustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type81.830.130.13

ANI result

Taxonomy check statusBest match statusComment
OKlow-coverageAssembly is the type-strain, no match is expected
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