PROJECT NAME
GOLD Project ID
Gp0004090  
Project Name
Clostridium difficile NAP08  
Other Names
  
Legacy ER Project ID
14064  
Legacy ER ID
14064  
Legacy GOLD ID
Gi03538  
NCBI BioProject Name Clostridium difficile NAP08
NCBI BioProject ID 31441
NCBI BioProject Accession
PRJNA31441  
NCBI Locus Tag
HMPREF0220  
NCBI Biosample ID SAMN00001466
PI BCM-HGSC
Added By Heather Creasy on 2008-10-19
Last Modified By Auto script update processes on 2014-03-26
Project Comments
  
PROJECT TYPE
Specimen Organism
Nucleic Acid
DNA  
Nucleic Acid
  
Sequencing Strategy Whole Genome Sequencing
PROJECT INFORMATION
Project Status Permanent Draft
Project Relevance Human Microbiome Project (HMP)
Medical
Sequencing Center
  
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
  
Other Publications
  
Isolation Publications
  
NCBI SRA ID
  
PROJECT COMPOSITION
Studies Human Microbiome Project (HMP) Reference Genomes
Biosamples Clostridium difficile NAP08
Analysis Projects Clostridium difficile NAP08
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality Level 2: High-Quality Draft
Finishing Goal Level 2: High-Quality Draft
Sequencing Comments
  
Sequencing Technology 454
Library Method
  
Number Of Reads
619069  
Read Size
  
Sequencing Depth
94.44x  
Vector
  
GC Percent
29  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
Organism Name Clostridium difficile NAP08
Other names (alias, synonyms, short names, common names)
  
Domain
BACTERIAL  
Phylogeny
FIRMICUTES  
Genus
Clostridium  
Genus Synonyms
  
Species
difficile  
Species Synonyms
  
Strain
NAP08  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
BEI HM-89  
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 525259
NCBI Kingdom
Bacteria  
NCBI Phylum
Firmicutes  
NCBI Class
Clostridia  
NCBI Order
Clostridiales  
NCBI Family
Peptostreptococcaceae  
NCBI Genus
Clostridium  
NCBI Species
[Clostridium] difficile  
ISOLATION CLASSIFICATION
Ecosystem
Host-associated  
Ecosystem Category
Human  
Ecosystem Type
Digestive system  
Ecosystem Subtype
Large intestine  
Specific Ecosystem
Fecal  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
Anaerobe  
Cell Shape
Rod-shaped  
Motility
Motile  
Sporulation
Sporulating  
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 Pairs
Singles
Diseases None
Known Habitats Feces
Gastrointestinal tract
Host
Human fecal
Human intestinal microflora
Metabolisms
  
Phenotypes Non-Pathogen
Energy Sources Chemoorganotroph
HMP METADATA
HMP ID
220  
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
Gastrointestinal tract  
HMP Isolation Body Sample Subsite
  
HMP Finishing Goal
  
Source, Sample & Medical Relevance Comments
  
Isolate Availability Comments
Glen Songer  
Project Comments
  
DNA Received
Yes  
Date DNA Received
  
Date Sequencing Begins
2008-02-19  
Date Draft Sequencing Completed
2010-01-14  
Cross Reference ID