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ASM42964v1

Organism name:
Niveispirillum irakense DSM 11586 (a-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Culture-collection: DSM:11586
Infraspecific name:
Strain: DSM 11586
BioSample:
SAMN02440868
BioProject:
PRJNA185556
Submitter:
DOE Joint Genome Institute
Date:
2013/09/05
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_000429645.1 (latest)
RefSeq assembly accession:
GCF_000429645.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AUCG01
Assembly method:
Unknown program v. before 2013-03-26
Genome coverage:
Unknown
Sequencing technology:
Illumina HiSeq 2000

IDs: 62111 [UID] 778618 [GenBank] 1141008 [RefSeq]

See Genome Information for Niveispirillum irakense

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 1012004
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::Iraq
environment::Rice roots; Rhizosphere
investigation_type::bacteria_archaea
isol_growth_condt::2626596
lat_lon::31.995557 44.924412
project_name::Azospirillum irakense DSM 11586
sequencing_meth::WGS
ref_biomaterial::DSM 11586, ATCC 51182
finishing_strategy::Level 1: Standard Draft
GOLD Stamp ID::Gi11179
Type Strain::Yes
Funding Program::DOE-CSP 2012
Isolation Site::Rice roots, Oryza sativa
Cell Shape::Curved-shaped
Motility::Motile
Temperature Range::Mesophile
Temperature Optimum::30-33 C
pH::5.5-8.5
Gram Staining::Gram-
Phenotypes::Catalase positive
##MIGS-Data-END##

Global statistics

Total sequence length5,455,784
Total ungapped length5,446,975
Gaps between scaffolds0
Number of scaffolds20
Scaffold N50442,879
Scaffold L504
Number of contigs30
Contig N50407,223
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)29

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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
unplaced5,455,784205,446,975442,879100

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Niveispirillum irakense DSM 11586Niveispirillum irakense

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
samena

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_014640215.1Niveispirillum cyanobacteriorumtype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type83.0321.4919.44

ANI result

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