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ASM47348v1

Organism name:
Burkholderia cepacia ATCC 25416 (b-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: ATCC 25416
BioSample:
SAMN02440719
BioProject:
PRJNA66169
Submitter:
JGI
Date:
2013/09/30
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Relation to type material:
assembly from type material
GenBank assembly accession:
GCA_000473485.1 (latest)
RefSeq assembly accession:
GCF_000473485.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
AXBO01
Assembly method:
ALLPATHS v. R37654
Genome coverage:
Unknown
Sequencing technology:
454-GS-FLX-Titanium; Illumina GAII; Sanger

IDs: 66811 [UID] 792388 [GenBank] 1120548 [RefSeq]

See Genome Information for Burkholderia cepacia

There are 324 assemblies for this organism

See more

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 400290
Source DNA and Organism available from James M Tiedje (tiedjej@msu.edu)
Source DNA available from James M Tiedje (tiedjej@msu.edu)
Organism available from James M Tiedje (tiedjej@msu.edu)
Contacts: James M Tiedje (tiedjej@msu.edu)
 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
collection_date::1948
environment::Host; Rhizosphere; Rhizosphere-colonizing
investigation_type::bacteria_archaea
project_name::Burkholderia cepacia UCB 717, ATCC 25416
sequencing_meth::WGS
ref_biomaterial::ATCC 25416, DSM 7288
biotic_relationship::Free living
rel_to_oxygen::Facultative
GOLD Stamp ID::Gi03921
Current Finishing Status::Level 3: Improved-High-Quality Draft
Type Strain::Yes
Funding Program::DOE-CSP 2007
Gene Calling Method::Prodigal, GenePRIMP
Isolation Site::plant-derived foodstuff (onion, Allium cepa)
Host Name::onion, Allium cepa
Cell Shape::Rod-shaped
Motility::Motile
Sporulation::Nonsporulating
Temperature Range::Mesophile
Temperature Optimum::30 - 42
Gram Staining::Gram-
Diseases::None
##MIGS-Data-END##

Global statistics

Total sequence length8,612,710
Total ungapped length8,608,510
Gaps between scaffolds0
Number of scaffolds4
Scaffold N503,405,813
Scaffold L502
Number of contigs46
Contig N50369,461
Contig L505
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)46

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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
unplaced8,612,71048,608,5103,405,813420

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Burkholderia cepacia ATCC 25416Burkholderia cepacia

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001411495.1Burkholderia cepacia ATCC 25416type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001411495.1Burkholderia cepaciatype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type99.9999.3799.40
Best-match type99.9999.3799.40

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna