PROJECT NAME
GOLD Project ID
Gp0008205  
Project Name
Astrammina rara  
Other Names
  
Legacy ER Project ID
1073  
Legacy GOLD ID
Gi07225  
NCBI BioProject Name Astrammina rara
NCBI BioProject ID 47149
NCBI BioProject Accession
PRJNA47149  
NCBI Locus Tag
ARARA  
NCBI BioSample Accession
SAMN02953772  
PI
Added By Ioanna Pagani on 2010-07-02 00:00:00.0
Last Modified By Jyothi Mallajosyula on 2014-04-22 00:00:00.0
Project Comments
Foraminiferan protists, which are significant players in most marine ecosystems, are also genetic innovators, harboring unique modifications to proteins that make up the basic eukaryotic cell machinery. Despite their ecological and evolutionary importance, foraminiferan genomes are poorly understood due to the extreme sequence divergence of many genes and the difficulty of obtaining pure samples: exogenous DNA from ingested food or ecto/endo symbionts often vastly exceed the amount of "native" DNA, and foraminiferans cannot be cultured axenically. Few foraminiferal genes have been sequenced from genomic material, although partial sequences of coding regions have been determined by EST studies and mass spectroscopy. The lack of genomic data has impeded evolutionary and cell-biology studies and has also hindered our ability to test ecological hypotheses using genetic tools. These data provide the first window into genomic organization and genetic control in these organisms, and also complement and expands upon information about foraminiferal genes based on EST projects. The genomic data obtained are informative for environmental and cell-biological studies, and will also be useful for efforts to understand relationships between foraminiferans and other protists.  
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
PROJECT INFORMATION
Project Status
Permanent Draft  
Project Relevance Ecological
Evolution
Sequencing Center
  
Collaborating Institute ANRT (France)
Funding Agency
  
Project Description
Astrammina rara whole genome sequencing  
Project Information Visibility
Public  
EXTERNAL PROJECT LINKS
Project Information Publication
report
Database
  
Genome Publications BMC genomics 12(169):169 High-throughput sequencing of Astrammina rara: sampling the giant genome of a giant foraminiferan protist.
Other Publications
  
Isolation Publications
  
NCBI SRA ID
  
PROJECT COMPOSITION
Studies Astrammina rara
Analysis Projects Astrammina rara
SEQUENCING INFORMATION
Sequencing Status Draft
Sequencing Quality (MIGS-31) Level 2: High-Quality Draft
Finishing Goal Level 2: High-Quality Draft
Sequencing Comments
  
Sequencing Technology (MIGS-29) 454-GS-FLX
Library Method (MIGS-28)
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0008205
Organism Name
Astrammina rara  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
EUKARYAL  
Phylogeny
PROTISTS  
Genus
Astrammina  
Genus Synonyms
  
Species
Astrammina rara  
Subspecies
  
Species Synonyms
  
Strain
  
Strain Synonyms
  
Serovar-Biovar
  
Culture Collection ID
  
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 46078
NCBI Kingdom
  
NCBI Phylum
  
NCBI Class
  
NCBI Order
  
NCBI Family
  
NCBI Genus
Astrammina  
NCBI Species
Astrammina rara  
ISOLATION CLASSIFICATION
Ecosystem
Environmental  
Ecosystem Category
Aquatic  
Ecosystem Type
Marine  
Ecosystem Subtype
Oceanic  
Specific Ecosystem
Sediment  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
Synonym List
  
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
  
Motility
  
Sporulation
  
Temperature Range
  
Temperature Optimum
-2 C  
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
  
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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