PROJECT NAME
GOLD Project ID
Gp0004621  
Project Name
Lactobacillus vaginalis ATCC 49540  
Other Names
  
Legacy ER Project ID
14293  
Legacy ER ID
14293  
Legacy GOLD ID
Gi03861  
NCBI BioProject Name Lactobacillus vaginalis ATCC 49540
NCBI BioProject ID 31507
NCBI BioProject Accession
PRJNA31507  
NCBI Locus Tag
HMPREF0549  
NCBI Biosample ID SAMN00001485
Added By Heather Creasy on 2009-01-03
Last Modified By Auto script update processes on 2014-03-26
Project Comments
  
PROJECT TYPE
Specimen Organism
Nucleic Acid
DNA  
Sequencing Strategy Whole Genome Sequencing
PROJECT INFORMATION
Project Status Permanent Draft
Project Relevance Human Microbiome Project (HMP)
Medical
Sequencing Center Baylor College of Medicine (USA)
Collaborating Institute
  
Funding Agency NIH (USA)
Project Description
Reference genome for the Human Microbiome Project  
Project Information Visibility
Public  
EXTERNAL PROJECT LINKS
Project Information HMP
Entrez
Taxonomy
Database
  
Genome Publications
  
Other Publications
  
Isolation Publications
  
NCBI SRA ID
  
PROJECT COMPOSITION
Studies Human Microbiome Project (HMP) Reference Genomes
Biosamples Lactobacillus vaginalis ATCC 49540
Analysis Projects Lactobacillus vaginalis ATCC 49540
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality Level 2: High-Quality Draft
Finishing Goal Level 2: High-Quality Draft
Sequencing Comments
  
Sequencing Technology 454-GS-FLX
Illumina
Sanger
Library Method
  
Number Of Reads
707527  
Read Size
  
Sequencing Depth
90.9x  
Vector
  
GC Percent
41  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
Organism Name Lactobacillus vaginalis ATCC 49540
Other names (alias, synonyms, short names, common names)
  
Domain
BACTERIAL  
Phylogeny
FIRMICUTES  
Genus
Lactobacillus  
Genus Synonyms
  
Species
vaginalis  
Species Synonyms
  
Strain
ATCC 49540  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
ATCC 49540  
Type Strain
  
Exemplar DOI
10.1601/ex.5439  
Exemplar Name
Lactobacillus vaginalis  
Taxon DOI
10.1601/tx.5439  
Biosafety Level
1  
Organism Comments
  
Cultured
Yes  
Culture Type Isolate
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 525366
NCBI Kingdom
Bacteria  
NCBI Phylum
Firmicutes  
NCBI Class
Bacilli  
NCBI Order
Lactobacillales  
NCBI Family
Lactobacillaceae  
NCBI Genus
Lactobacillus  
NCBI Species
Lactobacillus vaginalis  
ISOLATION CLASSIFICATION
Ecosystem
  
Ecosystem Category
  
Ecosystem Type
  
Ecosystem Subtype
  
Specific Ecosystem
  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID AF243177
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
Microaerophilic  
Cell Shape
Rod-shaped  
Motility
Nonmotile  
Sporulation
  
Temperature Range
Mesophile  
Temperature Optimum
  
Salinity
  
pH
  
Cell Diameter
  
Cell Length
  
Color
  
Gram Staining
Gram+  
Biotic Relationships
Free living  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases None
Known Habitats Host
Metabolisms
  
Phenotypes
  
Energy Sources
  
HMP METADATA
HMP ID
549  
Show in DACC?
Yes  
HMP Project Status
Complete  
BEI Status
  
NCBI Submission Status
6. annotation (and sequence) public on NCBI site  
Isolate Suggestion Source
  
HMP Isolation Body Sample Site
Urogenital tract  
HMP Isolation Body Sample Subsite
Vaginal  
HMP Finishing Goal
  
Source, Sample & Medical Relevance Comments
  
Isolate Availability Comments
ATCC  
Project Comments
  
DNA Received
Yes  
Date DNA Received
  
Date Sequencing Begins
2008-12-01  
Date Draft Sequencing Completed
2008-12-01  
Cross Reference ID
HOMD: tax_51