PROJECT NAME
GOLD Project ID
Gp0004245  
Project Name
Gardnerella vaginalis 317, ATCC 14019  
Other Names
  
Legacy ER Project ID
175  
Legacy ER ID
175  
Legacy GOLD ID
Gi03392, Gc01640  
NCBI BioProject Name Gardnerella vaginalis ATCC 14019
NCBI BioProject ID 31473
NCBI BioProject Accession
PRJNA31473  
NCBI Locus Tag
HMPREF0421  
NCBI Biosample ID SAMN00001462
Added By Heather Creasy on 2008-09-06
Last Modified By Jon Bertsch on 2014-04-08
Project Comments
  
PROJECT TYPE
Specimen Organism
Nucleic Acid
DNA  
Sequencing Strategy Whole Genome Sequencing
PROJECT INFORMATION
Project Status Complete and Published
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
Database
  
Genome Publications PloS one 5(8):e12411 Comparative genomics of Gardnerella vaginalis strains reveals substantial differences in metabolic and virulence potential.
Other Publications
  
Isolation Publications
  
NCBI SRA ID
  
PROJECT COMPOSITION
Studies Human Microbiome Project (HMP) Reference Genomes
Biosamples Gardnerella vaginalis 317, ATCC 14019
Analysis Projects Gardnerella vaginalis 317, ATCC 14019
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality Level 6: Finished
Finishing Goal Level 5: Non-contiguous Finished
Sequencing Comments
  
Sequencing Technology 454
454-GS-FLX
Library Method
454 Paired-end  
Number Of Reads
550406  
Read Size
  
Sequencing Depth
88.88x  
Vector
  
GC Percent
41  
Chromosome Count
1  
Plasmid Count
0  
ORGANISM NAME
Organism Name Gardnerella vaginalis 317, ATCC 14019
Other names (alias, synonyms, short names, common names)
  
Domain
BACTERIAL  
Phylogeny
ACTINOBACTERIA  
Genus
Gardnerella  
Genus Synonyms
  
Species
vaginalis  
Species Synonyms
  
Strain
317, ATCC 14019  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
ATCC 14019  
Type Strain
  
Exemplar DOI
  
Exemplar Name
  
Taxon DOI
  
Biosafety Level
2  
Organism Comments
  
Cultured
Yes  
Culture Type Isolate
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 525284
NCBI Kingdom
Bacteria  
NCBI Phylum
Actinobacteria  
NCBI Class
Actinobacteria  
NCBI Order
Bifidobacteriales  
NCBI Family
Bifidobacteriaceae  
NCBI Genus
Gardnerella  
NCBI Species
Gardnerella vaginalis  
ISOLATION CLASSIFICATION
Ecosystem
  
Ecosystem Category
  
Ecosystem Type
  
Ecosystem Subtype
  
Specific Ecosystem
  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
Anaerobe  
Cell Shape
Rod-shaped  
Motility
  
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 Bacterial vaginosis
Known Habitats Host
Metabolisms
  
Phenotypes
  
Energy Sources
  
HMP METADATA
HMP ID
421  
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
2008-01-03  
Date Draft Sequencing Completed
2008-01-03  
Cross Reference ID
HOMD: tax_829