PROJECT INFORMATION
GOLD Project ID
Gp0087734  
Project Name
Treponema socranskii socranskii VPI DR56BR1116, ATCC 35536  
Other Names
  
Legacy ER Project ID
70775  
Legacy GOLD ID
Gi0070775  
NCBI BioProject Name Treponema socranskii subsp. socranskii VPI DR56BR1116 = ATCC 35536
NCBI BioProject ID 216958
NCBI BioProject Accession PRJNA216958
NCBI Locus Tag
HMPREF0860  
NCBI BioSample Accession SAMN02344580
PI
Added By JGI automated process on 2014-02-14
Last Modified By Supratim Mukherjee on 2017-03-29
Project Comments
  
Project Status
Permanent Draft  
Project Relevance Medical
Sequencing Center J. Craig Venter Institute (JCVI) (USA)
Collaborating Institute
  
Funding Agency
  
Project Description
Reference genome for the Human Microbiome Project  
Is JGI Project
  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
Project Information
  
Database
  
Genome Publications
  
Other Publications
  
SRA Experiment
 
SRA Experiment Id SRX344444
Experiment Title 1135067705247 Treponema socranskii ATCC 35536 HMP346-PE-IL4-1 Experiment
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name HMP346-PE-IL4-1
Library Layout PAIRED
Library Instrument ILLUMINA_HI_SEQ_2000
Spot Length 202
PROJECT COMPOSITION
Study Treponema socranskii socranskii VPI DR56BR1116
Organism Treponema socranskii socranskii VPI DR56BR1116
Analysis Projects Treponema socranskii socranskii VPI DR56BR1116, ATCC 35536
Number of Analysis Projects 1
Number of DAPs
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31)
Finishing Goal
  
Sequencing Comments
  
Sequencing Technology (MIGS-29) Illumina
Library Method (MIGS-28)
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
49  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0004615
Organism Name
Treponema socranskii socranskii VPI DR56BR1116  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
SPIROCHAETES  
Genus
Treponema  
Genus Synonyms
  
Species
Treponema socranskii  
Subspecies
socranskii  
Species Synonyms
  
Strain
VPI DR56BR1116  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
ATCC 35536  
Type Strain
Yes  
Exemplar DOI
10.1601/ex.7874  
Exemplar Name
Treponema socranskii socranskii  
Taxon DOI
10.1601/tx.7874  
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 1125725
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Spirochaetes  
NCBI Class
Spirochaetia  
NCBI Order
Spirochaetales  
NCBI Family
Spirochaetaceae  
NCBI Genus
Treponema  
NCBI Species
Treponema socranskii  
ISOLATION CLASSIFICATION
Ecosystem
Host-associated  
Ecosystem Category
Human  
Ecosystem Type
Digestive system  
Ecosystem Subtype
Oral  
Specific Ecosystem
Subgingival plaque  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID AF033306
GENERAL PROPERTIES
Oxygen Requirement
Anaerobe  
Cell Shape
Spiral-shaped  
Motility
Motile  
Sporulation
Nonsporulating  
Temperature Range
Mesophile  
Temperature Optimum
37  
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 Singles
Diseases
  
Known Habitats Host
Human oral cavity
Metabolisms
  
Phenotypes
  
Energy Sources Heterotroph

 

 

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