PROJECT INFORMATION
GOLD Project ID
Gp0312051  
Project Name
Pseudomonas protegens Pf-5-2 transcriptome - Pf-5-2_5  
Other Names
  
Legacy GOLD ID
  
NCBI BioProject Name Pseudomonas protegens Pf-5-2 transcriptome - Pf-5-2_5
NCBI BioProject ID 538151
NCBI BioProject Accession PRJNA538151
NCBI Locus Tag
  
NCBI BioSample Accession SAMN11513142
PI Nikos Kyrpides
Added By JGI automated process on 2018-05-11
Last Modified By JGI automated process on 2019-06-18
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
Pseudomonas protegens Pf-5-2 transcriptome  
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
 
SRA Experiment Id SRX5785331
Experiment Title Pseudomonas protegens Pf-5-2 transcriptome
Exp Library Strategy RNA_SEQ
Library Source TRANSCRIPTOMIC
Library Selection other
Library Name CTWUH
Library Layout PAIRED
PROJECT COMPOSITION
Study Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG-I) project
Organism Pseudomonas protegens Pf-5
Analysis Projects
  
Number of Analysis Projects 0
Number of DAPs
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31)
Finishing Goal
  
Sequencing Comments
  
Sequencing Technology (MIGS-29) Illumina NovaSeq
Illumina HiSeq 2500-1TB
Library Method (MIGS-28)
Illumina RNASeq w/rRNA Depletion, Plates; Illumina Low Input RNASeq w/rRNA Depletion, Plates  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0000479
Organism Name
Pseudomonas protegens Pf-5  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
PROTEOBACTERIA-GAMMA  
Genus
Pseudomonas  
Genus Synonyms
  
Species
Pseudomonas protegens  
Subspecies
  
Species Synonyms
  
Strain
Pf-5  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
ATCC BAA-477  
Type Strain
No  
Exemplar DOI
  
Exemplar Name
  
Taxon DOI
  
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 220664
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Proteobacteria  
NCBI Class
Gammaproteobacteria  
NCBI Order
Pseudomonadales  
NCBI Family
Pseudomonadaceae  
NCBI Genus
Pseudomonas  
NCBI Species
Pseudomonas protegens  
ISOLATION CLASSIFICATION
Ecosystem
Host-associated  
Ecosystem Category
Plants  
Ecosystem Type
Rhizoplane  
Ecosystem Subtype
Unclassified  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID 493739
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
Aerobe  
Cell Shape
Rod-shaped  
Motility
Motile  
Sporulation
Nonsporulating  
Temperature Range
Mesophile  
Temperature Optimum
25 - 30  
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 Singles
Diseases None
Known Habitats Soil
Host
Fresh water
Metabolisms
  
Phenotypes Non-Pathogen
Energy Sources Heterotroph

 

 

  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?