PROJECT NAME
GOLD Project ID
Gp0001218  
Project Name
Pedobacter heparinus HIM 762-3, DSM 2366  
Other Names
  
Legacy ER Project ID
11111  
Legacy GOLD ID
Gi02243, Gc01041  
NCBI BioProject Name Pedobacter heparinus DSM 2366
NCBI BioProject ID 27949
NCBI BioProject Accession
PRJNA27949  
NCBI Locus Tag
Phep  
NCBI BioSample Accession
SAMN02598456  
PI Jonathan Eisen
Added By GEBA on 2007-11-27
Last Modified By Nikos Kyrpides on 2016-06-03
Project Comments
  
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
PROJECT INFORMATION
Project Status
Complete and Published  
Project Relevance GEBA
Tree of Life
Sequencing Center DOE Joint Genome Institute (JGI) (USA)
Collaborating Institute Leibniz Institute (Germany)
Funding Agency Leibniz Institute (Germany)
U.S. Department of Energy (DOE) (USA)
Project Description
Heparinase-producing bacterium  
Project Information Visibility
Public  
EXTERNAL PROJECT LINKS
JGI Portal Download Raw Sequence Data
Project Information Entrez
Taxonomy
Database
  
Genome Publications Standards in genomic sciences 1(1):54-62 Complete genome sequence of Pedobacter heparinus type strain (HIM 762-3).
Other Publications
  
Isolation Publications
  
PROJECT COMPOSITION
Studies A Genomic Encyclopedia of Bacteria and Archaea (GEBA)
Analysis Projects Pedobacter heparinus HIM 762-3, DSM 2366
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31) Level 3: Improved-High-Quality Draft
Finishing Goal Level 3: Improved-High-Quality Draft
Sequencing Comments
  
Sequencing Technology (MIGS-29) Sanger
Illumina HiSeq 2500
Library Method (MIGS-28)
Illumina Regular Fragment, 300bp, Tubes; Illumina Regular LMP, 8kb, CLRS  
Number Of Reads
  
Read Size
  
Vector
pMCL200, pcc1Fos  
GC Percent
42  
Chromosome Count
1  
Plasmid Count
0  
ORGANISM NAME
GOLD Organism ID Go0001218
Organism Name
Pedobacter heparinus HIM 762-3  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
BACTEROIDETES  
Genus
Pedobacter  
Genus Synonyms
  
Species
Pedobacter heparinus  
Subspecies
  
Species Synonyms
  
Strain
HIM 762-3  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
DSM 2366  
Type Strain
Yes  
Exemplar DOI
10.1601/ex.8092  
Exemplar Name
Pedobacter heparinus  
Taxon DOI
10.1601/tx.8233  
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 485917
NCBI Kingdom
  
NCBI Phylum
Bacteroidetes  
NCBI Class
Sphingobacteriia  
NCBI Order
Sphingobacteriales  
NCBI Family
Sphingobacteriaceae  
NCBI Genus
Pedobacter  
NCBI Species
Pedobacter heparinus  
ISOLATION CLASSIFICATION
Ecosystem
Environmental  
Ecosystem Category
Terrestrial  
Ecosystem Type
Soil  
Ecosystem Subtype
Unclassified  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID 40322
Genbank 16S ID AJ438172
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
Aerobe  
Cell Shape
Rod-shaped  
Motility
Motile  
Sporulation
Nonsporulating  
Temperature Range
Mesophile  
Temperature Optimum
25 - 30  
Salinity
  
pH
7  
Cell Diameter
1 - 3 um  
Cell Length
0.5 - 6 um  
Color
  
Gram Staining
Gram-  
Biotic Relationships
ID 3
Term Free living
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases None
Known Habitats Soil
Metabolisms
  
Phenotypes Chondroitinases producer
Heparinases producer
Energy Sources Chemoorganotroph
CYANOBACTERIA METADATA
Filaments
  
Filament Type
  
Differentiated Cells
  
Position Of Heterocysts
  
Cysts
  
Mode Of Reproduction
  
Trichome
  
Trichome Type
  
Carotenoids
  
Pigments
  
Phage Infectivity
  
Phage Type
  
Restriction Enzyme
  
Toxin Production
  
Toxin Type
  
Secondary Metabolites
  
Developmental Cycle
  
Branching
  
Gas Vesicles
  
Gas Vesicle Type
  
Diagnostic Inclusion Body Information
  
Extracellular Structures
  
Bloom Forming
  
Pigment Type
  
Complementary chromatic adaptation (CCA)
  
Medium Types
  

 

 

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