PROJECT INFORMATION
GOLD Project ID
Gp0234147  
Project Name
Dinoroseobacter shibae Dinoroseobacter shibae DSM 16439 transcriptome - FEBA_7_MM_RNA  
Other Names
  
Legacy GOLD ID
  
NCBI BioProject Name Dinoroseobacter shibae Dinoroseobacter shibae DSM 16439 transcriptome - FEBA_7_MM_RNA
NCBI BioProject ID 426730
NCBI BioProject Accession PRJNA426730
NCBI Locus Tag
  
NCBI BioSample Accession SAMN08219886
PI Adam Deutschbauer
Added By JGI automated process on 2017-08-25
Last Modified By JGI automated process on 2019-04-29
Project Comments
  
Project Status
incomplete  
Project Relevance
  
Sequencing Center DOE Joint Genome Institute (JGI) (USA)
Collaborating Institute
  
Funding Agency U.S. Department of Energy (DOE) (USA)
Project Description
Dinoroseobacter shibae transcriptome in minimal media  
Is JGI Project
  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid RNA
Sequencing Strategy
Transcriptome  
EXTERNAL PROJECT LINKS
JGI Portal Download Raw Sequence Data
Project Information
  
Database
  
Genome Publications
  
Other Publications
  
SRA Experiment
  
PROJECT COMPOSITION
Study Functional Encyclopedia of Bacteria and Archaea (FEBA)
Organism Dinoroseobacter shibae DSM 16439
Analysis Projects
  
Number of Analysis Projects 0
Number of DAPs
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31)
Finishing Goal
  
Sequencing Comments
JGI Contact: Cindi Hoover. DOP = 8, 1x100 if possible. Sample ID 43441 failed sample QC - not enough material Replacement sample ID 43652 passed sample QC. 6/12/13 - rich media library PYTG awaiting pooling. Minimal media library awaiting sample aliquot. 7/18/13 - PYTG awaiting seq prep, NZZB awaiting library pooling. 7/26/13 - seq in progress 8/12/13 - NZZB awaiting seq prep since 7/18 (per Matt it is waiting for 1 more channel to generate FC; additional samples coming in next week); PYTG RQC complete 9/23/13 - NZZB complete; sent to Anna for seq QC 9/24/13 - seq QC passed; results sent to Frank and Matt  
Sequencing Technology (MIGS-29) Illumina HiSeq 2500
Library Method (MIGS-28)
Illumina RNASeq w/rRNA Depletion, Tubes  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0072810
Organism Name
Dinoroseobacter shibae DSM 16439  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
PROTEOBACTERIA-ALPHA  
Genus
Dinoroseobacter  
Genus Synonyms
  
Species
Dinoroseobacter shibae  
Subspecies
  
Species Synonyms
  
Strain
DSM 16439  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
DSM 16439  
Type Strain
Unknown  
Exemplar DOI
  
Exemplar Name
  
Taxon DOI
  
Biosafety Level
  
Organism Comments
  
Cultured
Yes  
Culture Type
Isolate  
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 215813
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Proteobacteria  
NCBI Class
Alphaproteobacteria  
NCBI Order
Rhodobacterales  
NCBI Family
Rhodobacteraceae  
NCBI Genus
Dinoroseobacter  
NCBI Species
Dinoroseobacter shibae  
ISOLATION CLASSIFICATION
Ecosystem
Environmental  
Ecosystem Category
Unclassified  
Ecosystem Type
Unclassified  
Ecosystem Subtype
Unclassified  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
  
Motility
  
Sporulation
  
Temperature Range
  
Temperature Optimum
  
Salinity
  
pH
  
Cell Diameter
  
Cell Length
  
Color
  
Gram Staining
  
Biotic Relationships
  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases
  
Known Habitats
  
Metabolisms
  
Phenotypes
  
Energy Sources
  

 

 

  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?