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ASM47316v1

Organism name:
Leisingera aquimarina DSM 24565 (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: DSM 24565
BioSample:
SAMN02441453
BioProject:
PRJNA81653
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_000473165.1 (latest)
RefSeq assembly accession:
GCF_000473165.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AXBE01
Assembly method:
Consed v. 20.0
Genome coverage:
Unknown
Sequencing technology:
454-GS-FLX-Titanium; Illumina HiSeq 2000

IDs: 66661 [UID] 792108 [GenBank] 1116468 [RefSeq]

See Genome Information for Leisingera aquimarina

There are 2 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 404181
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::Consed v. 20.0
country::Italy
environment::Biofilm; Sea water
investigation_type::bacteria_archaea
isol_growth_condt::19060059
lat_lon::44.4123 8.9264
project_name::Leisingera aquimarina DSM 24565
sequencing_meth::WGS
ref_biomaterial::DSM 24565, CCUG 55860, LMG 24366
biotic_relationship::Free living
rel_to_oxygen::Aerobe
finishing_strategy::Level 2: High-Quality Draft
GOLD Stamp ID::Gi10856
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::Marine biofilm on stainless steel electrode from Genoa harbour, Italy
Source of Isolate::I. Vandecandelaere, Lab. Microbiology, Ghent Univ., Belgium
Cell Shape::Ovoid-shaped
Motility::Motile
Sporulation::Nonsporulating
Temperature Range::Mesophile
Temperature Optimum::20C
Salinity::Halophile
pH::6.5 - 8
Gram Staining::Gram-
##MIGS-Data-END##

Global statistics

Total sequence length5,344,253
Total ungapped length5,343,553
Gaps between scaffolds0
Number of scaffolds8
Scaffold N504,250,010
Scaffold L501
Number of contigs15
Contig N501,453,999
Contig L502
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)15

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
unplaced5,344,25385,343,5534,250,01070

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Leisingera aquimarina DSM 24565Leisingera aquimarina

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_000511355.1Leisingera methylohalidivoranstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type88.2565.1174.81

ANI result

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