PROJECT NAME
GOLD Project ID
Gp0003610  
Project Name
Holdemania filiformis VPI J1-31B-1, DSM 12042  
Other Names
  
Legacy ER Project ID
13360  
Legacy ER ID
13360  
Legacy GOLD ID
Gi02780  
NCBI BioProject Name Holdemania filiformis DSM 12042
NCBI BioProject ID 30361
NCBI BioProject Accession
PRJNA30361  
NCBI Locus Tag
HOLDEFILI  
NCBI Biosample ID SAMN00008830
PI Human Gut Community Users
Added By Heather Creasy on 2007-12-31
Last Modified By Auto script update processes on 2014-05-20
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 Washington University in St. Louis (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 Isolation
HMP
Database
  
Genome Publications
  
Other Publications
  
Isolation Publications
  
NCBI SRA ID
  
PROJECT COMPOSITION
Studies Human Microbiome Project (HMP) Reference Genomes
Biosamples Holdemania filiformis VPI J1-31B-1, DSM 12042
Analysis Projects Holdemania filiformis VPI J1-31B-1, DSM 12042
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
Library Method
  
Number Of Reads
  
Read Size
  
Sequencing Depth
18.2x  
Vector
  
GC Percent
50  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
Organism Name Holdemania filiformis VPI J1-31B-1, DSM 12042
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
FIRMICUTES  
Genus
Holdemania  
Genus Synonyms
  
Species
filiformis  
Species Synonyms
  
Strain
VPI J1-31B-1, DSM 12042  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
DSM 12042  
Type Strain
  
Exemplar DOI
10.1601/ex.4851  
Exemplar Name
Holdemania filiformis  
Taxon DOI
10.1601/tx.4851  
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 545696
NCBI Kingdom
Bacteria  
NCBI Phylum
Firmicutes  
NCBI Class
Erysipelotrichi  
NCBI Order
Erysipelotrichales  
NCBI Family
Erysipelotrichaceae  
NCBI Genus
Holdemania  
NCBI Species
Holdemania filiformis  
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 Y11466
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
Anaerobe  
Cell Shape
Rod-shaped  
Motility
  
Sporulation
Nonsporulating  
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 Feces
Gastrointestinal tract
Host
Metabolisms
  
Phenotypes
  
Energy Sources
  
HMP METADATA
HMP ID
471  
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
Yes  
Project Comments
  
DNA Received
Yes  
Date DNA Received
2008-06-19  
Date Sequencing Begins
2008-07-19  
Date Draft Sequencing Completed
2008-12-19  
Cross Reference ID