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ASM47322v1

Organism name:
Sedimentitalea nanhaiensis DSM 24252 (a-proteobacteria)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: DSM 24252
BioSample:
SAMN02440717
BioProject:
PRJNA78295
Submitter:
DOE Joint Genome Institute
Date:
2013/09/30
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_000473225.1 (latest)
RefSeq assembly accession:
GCF_000473225.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AXBG01
Assembly method:
ALLPATHS v. R37654
Genome coverage:
Unknown
Sequencing technology:
454-GS-FLX-Titanium; Illumina HiSeq 2000

IDs: 66691 [UID] 792158 [GenBank] 1116488 [RefSeq]

See Genome Information for Sedimentitalea nanhaiensis

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 404180
Source DNA and Organism available from Hans-Peter Klenk (hpk@dsmz.de)
Source DNA available from Hans-Peter Klenk (hpk@dsmz.de)
Organism available from Hans-Peter Klenk (hpk@dsmz.de)
Contacts: Hans-Peter Klenk (hpk@dsmz.de)
 Tanja Woyke (microbe@cuba.jgi-psf.org)
Whole genome sequencing and draft assembly at JGI-PGF
Annotation by ... JGI-ORNL
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::ALLPATHS v. R37654
country::China
environment::Aquatic; Marine; Sand; Sea water; Sediment
investigation_type::bacteria_archaea
isol_growth_condt::19651744
lat_lon::15.55 114.49
project_name::Leisingera nanhaiensis NH52F, DSM 24252
sequencing_meth::WGS
ref_biomaterial::ACTCC AB 208316, LMG 24841, MCCC 1A04178, DSM 24252
biotic_relationship::Free living
rel_to_oxygen::Anaerobe
GOLD Stamp ID::Gi10857
Current Finishing Status::Level 3: Improved-High-Quality Draft
Type Strain::Yes
Funding Program::DOE-CSP 2010
Gene Calling Method::Prodigal 1.4, GenePRIMP
Isolation Site::Sandy sediment from the South China Sea
Cell Shape::Rod-shaped
Motility::Motile
Temperature Range::Mesophile
Temperature Optimum::25C
Salinity::Halophile
pH::7 - 8.5
Gram Staining::Gram-
##MIGS-Data-END##

Global statistics

Total sequence length4,948,550
Total ungapped length4,946,250
Gaps between scaffolds0
Number of scaffolds7
Scaffold N504,411,177
Scaffold L501
Number of contigs30
Contig N50370,888
Contig L504
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)30

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
unplaced4,948,55074,946,2504,411,177230

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Sedimentitalea nanhaiensis DSM 24252Sedimentitalea nanhaiensis

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_900142185.1Lutimaribacter pacificustype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.9010.7312.00

ANI result

Taxonomy check statusBest match statusComment
Inconclusivebelow-threshold-mismatchna