PROJECT INFORMATION
GOLD Project ID
Gp0013281  
Project Name
Simiduia agarivorans DSM 21679  
Other Names
  
Legacy ER Project ID
21051  
Legacy GOLD ID
Gi11903  
NCBI BioProject Name Simiduia agarivorans SA1 = DSM 21679
NCBI BioProject Accession PRJNA185368
NCBI Locus Tag
G409  
NCBI BioSample Accession SAMN02440904
Source Sample ID
PI Nikos Kyrpides
Added By JGI automated process on 2012-01-11
Last Modified By JGI automated process on 2022-09-05
Project Comments
  
Project Status
Permanent Draft  
Project Relevance Tree of Life
GEBA-KMG
Sequencing Center DOE Joint Genome Institute (JGI) (USA)
Collaborating Institute Leibniz Institute (Germany)
Funding Agency U.S. Department of Energy (DOE) (USA)
Leibniz Institute (Germany)
Project Description
Genomic Encyclopedia of Type Strains, Phase I: one thousand microbial genomes (KMG) project. The goal of the Genomic Encyclopedia of Bacteria and Archaea (GEBA) initiative is to sequence genomes to fill phylogenetic gaps, generating reference genomes for every major and minor group of bacteria and archaea. Currently sequenced genomes have provided highly uneven coverage of the type strain material present in public culture collections. The Microbial Earth Project is an initiative of the Microbial Genomics Program of the DOE Joint Genome Institute that focuses on 1000 Type strains from the DSMZ and ATCC repositories.  
Is JGI Project
Yes  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
JGI Data Utilization Status
Unrestricted  
JGI Award DOI 10.46936/10.25585/60000886
JGI Portal Download Raw Sequence Data
Genome Publications Nature biotechnology: 35(7):676-683 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life.
PubMed: 28604660 DOI: 10.1038/nbt.3886
Other Publications
  
Ignored Publications
  
Unassigned Publications
  
SRA Experiment
  
PROJECT COMPOSITION
Study Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG-I) project
Organism Simiduia agarivorans SA1
Analysis Projects Simiduia agarivorans DSM 21679
Number of Analysis Projects (AP) 1
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31) Level 1: Standard Draft
Finishing Goal Level 1: Standard Draft
Contamination Screening Input
  
DNA Amplification Method
  
Single Cell Lysis Protocol
  
Single Cell Lysis Approach
  
Sequencing Comments
  
DNA Amplification Kit
  
Sequencing Technology (MIGS-29) Illumina HiSeq 2500
Library Method (MIGS-28)
  
Library Layout
  
Library Screening Method
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
56  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0013281
Organism Name
Simiduia agarivorans SA1  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
BACTERIAL  
Phylogeny
PROTEOBACTERIA-GAMMA  
Genus
Simiduia  
Genus Synonyms
  
Species
Simiduia agarivorans  
Subspecies
  
Species Synonyms
  
Strain
SA1  
Strain Synonyms
  
Serovar/Cultivar
  
Culture Collection ID
DSM 21679  
Type Strain
Yes  
Exemplar DOI
10.1601/ex.13777  
Exemplar Name
Simiduia agarivorans  
Taxon DOI
10.1601/tx.13777  
Biosafety Level
  
Organism Comments
  
Cultured
Yes  
Culture Type
Isolate  
Organism Type
Natural  
Uncultured Type
  
Commercial Strain
  
Commercial Strain Comments
  
ORGANISM TAXONOMY
NCBI Taxonomy ID 1117647
NCBI Superkingdom
Bacteria  
NCBI Kingdom
  
NCBI Phylum
Pseudomonadota  
NCBI Class
Gammaproteobacteria  
NCBI Order
Cellvibrionales  
NCBI Family
Cellvibrionaceae  
NCBI Genus
Simiduia  
NCBI Species
Simiduia agarivorans  
ISOLATION CLASSIFICATION
Ecosystem
Environmental  
Ecosystem Category
Aquatic  
Ecosystem Type
Marine  
Ecosystem Subtype
Coastal  
Specific Ecosystem
Unclassified  
ORGANISM EXTERNAL REFERENCES
Strain Info ID 802432
Genbank 16S ID EF617350
GENERAL PROPERTIES
Oxygen Requirement
Facultative  
Cell Shape
Rod-shaped  
Motility
  
Sporulation
  
Temperature Range
Mesophile  
Salinity
Halophile  
pH
7  
Cell Diameter
0.4-0.6 um  
Cell Length
2.0-5.0 um  
Color
  
Gram Staining
Gram-  
Biotic Relationships
  
Symbiotic Physical Interaction
  
Symbiotic Relationship
  
Symbiont Name
  
Symbiont Taxon ID
  
Cell Arrangements
  
Diseases
  
Known Habitats Marine
Aquatic
Sea water
Metabolisms Nitrate reducer
Phenotypes Vancomycin resistant
Non-Haemolytic
Catalase positive
Streptomycin resistant
Energy Sources Heterotroph

 

 

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