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ASM42466v1

Organism name:
Salinimicrobium terrae DSM 17865 (CFB group bacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: DSM 17865
BioSample:
SAMN02440676
BioProject:
PRJNA187101
Submitter:
DOE Joint Genome Institute
Date:
2013/07/11
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_000424665.1 (latest)
RefSeq assembly accession:
GCF_000424665.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AUKI01
Assembly method:
Velvet v. 1.1.04; ALLPATHS v. r41043
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 59831 [UID] 776248 [GenBank] 1131938 [RefSeq]

See Genome Information for Salinimicrobium terrae

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1007475
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::Velvet v. 1.1.04; ALLPATHS v. r41043
country::China
environment::Saline Soil; Soil
investigation_type::bacteria_archaea
isol_growth_condt::18984683
project_name::Salinimicrobium terrae DSM 17865
sequencing_meth::WGS
ref_biomaterial::DSM 17865
rel_to_oxygen::Obligate aerobe
finishing_strategy::Level 1: Standard Draft
GOLD Stamp ID::Gi11882
Type Strain::Yes
Funding Program::DOE-CSP 2012
Isolation Site::Saline soil
Cell Shape::Rod-shaped
Motility::Nonmotile
Sporulation::Nonsporulating
Temperature Range::Psychrotolerant
Temperature Optimum::28 C
Salinity::Halophile
Gram Staining::Gram-
Phenotypes::Catalase positive
##MIGS-Data-END##

Global statistics

Total sequence length3,544,726
Total ungapped length3,542,840
Gaps between scaffolds0
Number of scaffolds20
Scaffold N50385,774
Scaffold L504
Number of contigs24
Contig N50305,362
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)24

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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
unplaced3,544,726203,542,840385,77440

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Salinimicrobium terrae DSM 17865Salinimicrobium terrae

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_020866905.1Salinimicrobium sediminilitoristype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type82.3846.4645.79

ANI result

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