Studies
|
56,336 |
|
Biosamples
|
196,965 |
|
Sequencing Projects
|
525,338 |
|
Analysis Projects
|
385,100 |
| Organisms | 484,220 |
| PROJECT INFORMATION | |
|---|---|
|
GOLD Project ID
|
Gp0004152
|
|
Project Name
|
Abiotrophia defectiva ATCC 49176
|
|
Other Names
|
|
|
Legacy ER Project ID
|
227
|
|
Legacy GOLD ID
|
Gi03551
|
| NCBI BioProject Name | Abiotrophia defectiva ATCC 49176 |
|
NCBI BioProject Accession
|
PRJNA33011 |
|
NCBI Locus Tag
|
GCWU000182
|
|
NCBI BioSample Accession
|
SAMN02436801 |
|
Source Sample ID
|
|
| PI | Weinstock, G |
| Added By | Heather Creasy on 2008-11-06 |
| 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
|
Washington University in St. Louis
(USA)
|
|
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 | |
|
JGI Data Utilization Status
|
|
|
JGI Award DOI
|
|
|
Genome Publications
|
|
|
Other Publications
|
|
|
Ignored Publications
|
|
|
Unassigned Publications
|
|
| SRA Experiment |
|
| PROJECT COMPOSITION | |
| Study |
Human Microbiome Project (HMP) Reference Genomes |
| Organism |
Abiotrophia defectiva ATCC 49176 |
| Analysis Projects |
Abiotrophia defectiva ATCC 49176 |
| Number of Analysis Projects (AP) |
1 |
| Number of Derived Analyis Projects (DAP) |
0
|
| SEQUENCING INFORMATION | |
|---|---|
|
Sequencing Status
|
Complete |
| Sequencing Quality (MIGS-31) |
Level 3: Improved-High-Quality Draft |
|
Finishing Goal
|
Level 3: Improved-High-Quality Draft |
|
Contamination Screening Input
|
|
|
DNA Amplification Method
|
|
|
Single Cell Lysis Protocol
|
|
|
Single Cell Lysis Approach
|
|
|
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 |
47
|
| Chromosome Count |
|
| Plasmid Count |
|
| ORGANISM NAME | |
|---|---|
| GOLD Organism ID |
Go0004152 |
| Organism Name |
Abiotrophia defectiva ATCC 49176
|
| Other names (alias, synonyms, short names, common names) |
|
| Organism Domain |
BACTERIAL
|
| Phylogeny |
BACILLOTA
|
| Genus |
Abiotrophia
|
| Genus Synonyms |
|
| Species |
Abiotrophia defectiva
|
| Subspecies |
|
| Species Synonyms |
|
| Strain |
ATCC 49176
|
| Strain Synonyms |
|
| Serovar/Cultivar |
|
| Culture Collection ID |
ATCC 49176
|
| Type Strain |
Yes
|
| Exemplar DOI |
10.1601/ex.5623
|
| Exemplar Name |
Abiotrophia defectiva
|
| Taxon DOI |
10.1601/tx.5467
|
| 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 |
592010 |
| NCBI Superkingdom |
Bacteria
|
| NCBI Kingdom |
|
| NCBI Phylum |
Bacillota
|
| NCBI Class |
Bacilli
|
| NCBI Order |
Lactobacillales
|
| NCBI Family |
Aerococcaceae
|
| NCBI Genus |
Abiotrophia
|
| NCBI Species |
Abiotrophia defectiva
|
| ISOLATION CLASSIFICATION | |
| Ecosystem |
Host-associated
|
| Ecosystem Category |
Mammals: Human
|
| Ecosystem Type |
Circulatory system
|
| Ecosystem Subtype |
Blood
|
| Specific Ecosystem |
Unclassified
|
| ORGANISM EXTERNAL REFERENCES | |
| Strain Info ID |
|
| Genbank 16S ID |
D50541 |
| GENERAL PROPERTIES | |
|---|---|
| Oxygen Requirement |
Facultative
|
| Cell Shape |
Coccus-shaped
|
| Motility |
Nonmotile
|
| Sporulation |
Nonsporulating
|
| Temperature Range |
|
| Salinity |
|
| pH |
|
| Cell Diameter |
|
| Cell Length |
|
| Color |
|
| Gram Staining |
Gram+
|
| Biotic Relationships |
|
| Symbiotic Physical Interaction |
|
| Symbiotic Relationship |
|
| Symbiont Name |
|
| Symbiont Taxon ID |
|
| Cell Arrangements |
|
| Diseases |
|
| Known Habitats |
Host Human oral cavity |
| Metabolisms |
|
| Phenotypes |
|
| Energy Sources |
|
| HMP METADATA | |
|---|---|
| HMP ID |
1
|
| 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 |
Oral
|
| HMP Isolation Body Sample Subsite |
|
| HMP Finishing Goal |
|
| Source, Sample & Medical Relevance Comments |
|
| Isolate Availability Comments |
Dewhirst/Izard
|
| Project Comments |
|
| DNA Received |
Yes
|
| Date DNA Received |
2008-10-21
|
| Date Sequencing Begins |
2009-01-30
|
| Date Draft Sequencing Completed |
2009-02-23
|
| Cross Reference ID |
HOMD: tax_389
|
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