U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Download Assembly



ASM68664v1

Organism name:
Desulfofundulus thermocisternus DSM 10259 (firmicutes)
Taxonomy check:
OK
Infraspecific name:
Strain: DSM 10259
BioSample:
SAMN02743376
BioProject:
PRJNA234877
Submitter:
DOE Joint Genome Institute
Date:
2014/05/08
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_000686645.1 (latest)
RefSeq assembly accession:
GCF_000686645.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
JMLG01
Assembly method:
Unknown program v. before 2014-04-08
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 176341 [UID] 1065038 [GenBank] 1141428 [RefSeq]

See Genome Information for Desulfofundulus thermocisternus

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1030920
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::Norway
depth::2600 m
environment::Aquatic; Oil fields
investigation_type::bacteria_archaea
project_name::Desulfotomaculum thermocisternum DSM 10259
sequencing_meth::WGS
ref_biomaterial::DSM 10259
rel_to_oxygen::Anaerobe
finishing_strategy::Level 1: Standard Draft
GOLD Stamp ID::Gi11407
Type Strain::Yes
Funding Program::DOE-CSP 2012
Gene Calling Method::Prodigal 2.5
Isolation Site::Formation water, oil reservoir
Cell Shape::Rod-shaped
Motility::Motile
Sporulation::Sporulating
Temperature Range::Thermophile
Temperature Optimum::62 C
pH::6.2-8.9
Gram Staining::Gram+
##MIGS-Data-END##

Global statistics

Total sequence length2,654,868
Total ungapped length2,650,422
Gaps between scaffolds0
Number of scaffolds45
Scaffold N50139,887
Scaffold L506
Number of contigs50
Contig N50126,122
Contig L507
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)48

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
unplaced2,654,868452,650,422139,88750

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Desulfofundulus thermocisternus DSM 10259Desulfofundulus thermocisternus

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900129285.1Desulfofundulus australicustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type97.4485.0678.37

ANI result

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