PROJECT INFORMATION
GOLD Project ID
Gp0004126  
Project Name
Rothia mucilaginosa ATCC 25296  
Other Names
  
Legacy ER Project ID
14021  
Legacy GOLD ID
Gi03493  
NCBI BioProject Name Rothia mucilaginosa ATCC 25296
NCBI BioProject ID 31405
NCBI BioProject Accession PRJNA31405
NCBI Locus Tag
ROTMU0001  
NCBI BioSample Accession SAMN00001919
PI Dodson R.
Added By Heather Creasy on 2008-10-05
Last Modified By JGI automated process on 2014-03-26
Project Comments
  
Project Status
Permanent Draft  
Project Relevance Human Microbiome Project (HMP)
Medical
Sequencing Center J. Craig Venter Institute
Collaborating Institute
  
Funding Agency NIH (USA)
Project Description
Reference genome for the Human Microbiome Project  
Is JGI Project
No  
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 SRX001621  (Link to NCBI )
Experiment Title 454 sequencing of Rothia mucilaginosa ATCC 25296 HMP030 genomic fragment library
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection RANDOM
Library Name HMP030-4F-01-535
Library Layout SINGLE
Library Instrument 454 GS FLX
PROJECT COMPOSITION
Study Human Microbiome Project (HMP) Reference Genomes
Organism Rothia mucilaginosa ATCC 25296
Analysis Projects Rothia mucilaginosa ATCC 25296
Number of Analysis Projects (AP) 1
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31) Level 2: High-Quality Draft
Finishing Goal Level 2: High-Quality Draft
Contamination Screening Input
  
DNA Amplification Method
  
Sequencing Comments
  
DNA Amplification Kit
  
Sequencing Technology (MIGS-29) 454
Library Method (MIGS-28)
  
Library Layout
  
Library Screening Method
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
60  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0004126
Organism Name
Rothia mucilaginosa ATCC 25296  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
ACTINOBACTERIA  
Genus
Rothia  
Genus Synonyms
  
Species
Rothia mucilaginosa  
Subspecies
  
Species Synonyms
  
Strain
ATCC 25296  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
ATCC 25296  
Type Strain
Yes  
Exemplar DOI
10.1601/ex.5905  
Exemplar Name
Rothia mucilaginosa  
Taxon DOI
10.1601/tx.5902  
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 553201
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Actinobacteria  
NCBI Class
Actinomycetia  
NCBI Order
Micrococcales  
NCBI Family
Micrococcaceae  
NCBI Genus
Rothia  
NCBI Species
Rothia mucilaginosa  
ISOLATION CLASSIFICATION
Ecosystem
Host-associated  
Ecosystem Category
Human  
Ecosystem Type
Digestive system  
Ecosystem Subtype
Oral cavity  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
Coccus-shaped  
Motility
  
Sporulation
  
Temperature Range
Mesophile  
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 Periodontitis
Endocarditis
Opportunistic infection
Meningitis
Known Habitats Host
Human oral cavity
Metabolisms
  
Phenotypes Opportunistic Pathogen
Energy Sources
  
HMP METADATA
HMP ID
736  
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
Airways  
HMP Isolation Body Sample Subsite
Pharyngeal mucosa  
HMP Finishing Goal
  
Source, Sample & Medical Relevance Comments
  
Isolate Availability Comments
  
Project Comments
  
DNA Received
Yes  
Date DNA Received
2008-03-25  
Date Sequencing Begins
  
Date Draft Sequencing Completed
2008-10-20  
Cross Reference ID
HOMD: tax_681  

 

 

  You are going to add the following user to your project, biosample and study.

 

Contact Name/Email:

Do you want to continue?

 

 

  You are going to remove permissions for the following user to your project, biosample and study.

 

Contact Name/Email:

Do you want to continue?

 

 

  Changing the SP visibility will also change visibility on the following items:

 

Do you want to continue with this visibility change?

 

 

  Checking that this Sequencing Project can be made private:

 

Do you want to continue with this visibility change?

 

 

 

 

 

  Changing the SP Sequencing Strategy will also effect these items:

 

Do you want to continue with this Sequencing Strategy change?