PROJECT INFORMATION
GOLD Project ID
Gp0038698  
Project Name
Acropora digitifera  
Other Names
  
Legacy ER Project ID
44889  
Legacy GOLD ID
Gi0044889  
NCBI BioProject Name Acropora digitifera
NCBI BioProject Accession PRJDA67425
NCBI Locus Tag
  
NCBI BioSample Accession SAMD00004206
PI Unknown
Added By JGI automated process on 2013-04-02
Last Modified By Supratim Mukherjee on 2017-03-29
Project Comments
  
Project Status
Permanent Draft  
Project Relevance
  
Sequencing Center Okinawa Institute of Science and Technology (Japan)
Collaborating Institute
  
Funding Agency
  
Project Description
  
Is JGI Project
No  
Project Information Visibility Public
PROJECT TYPE
Specimen Organism
Nucleic Acid DNA
Sequencing Strategy
Whole Genome Sequencing  
EXTERNAL PROJECT LINKS
JGI Data Utilization Status
  
JGI Award DOI
Genome Publications Nature 476(7360):320-3 Using the Acropora digitifera genome to understand coral responses to environmental change.

Other Publications
  
Ignored Publications
  
Unassigned Publications Scientific reports Genome-wide SNP analysis explains coral diversity and recovery in the Ryukyu Archipelago.

Nucleic acids research 25(5):955-64 tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.

SRA Experiment
 
SRA Experiment Id DRX000979  (Link to NCBI )
Experiment Title Acropora digitifera Illumina PE 300 bp
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina PE 300 bp
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 100
 
SRA Experiment Id DRX000978  (Link to NCBI )
Experiment Title Acropora digitifera Illumina PE 200 bp
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina PE 200 bp
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 100
 
SRA Experiment Id DRX000975  (Link to NCBI )
Experiment Title Acropora digitifera 454 Titanium
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera 454 shotgun
Library Layout SINGLE
Library Instrument 454 GS FLX Titanium
Spot Length 800
 
SRA Experiment Id DRX000986  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 15 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 15 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 150
 
SRA Experiment Id DRX000974  (Link to NCBI )
Experiment Title Acropora digitifera 454 standard
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera 454 shotgun
Library Layout SINGLE
Library Instrument 454 GS FLX
Spot Length 504
 
SRA Experiment Id DRX000985  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 7 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 7 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 150
 
SRA Experiment Id DRX000977  (Link to NCBI )
Experiment Title Acropora digitifera paired-end 3K
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera 454 paired-end library
Library Layout PAIRED
Library Instrument 454 GS FLX Titanium
Spot Length 800
 
SRA Experiment Id DRX000976  (Link to NCBI )
Experiment Title Acropora digitifera 454 Titanium 2
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera 454 shotgun
Library Layout SINGLE
Library Instrument 454 GS FLX Titanium
Spot Length 800
 
SRA Experiment Id DRX000987  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 20 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 20 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 150
 
SRA Experiment Id DRX000982  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 5 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 5 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 100
 
SRA Experiment Id DRX000981  (Link to NCBI )
Experiment Title Acropora digitifera Illumina PE 700 bp
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina PE 700 bp
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 100
 
SRA Experiment Id DRX000984  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 3 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 3 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 70
 
SRA Experiment Id DRX000983  (Link to NCBI )
Experiment Title Acropora digitifera Illumina mate-pair 1 Kb
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina mate-pair 1 Kb
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 70
 
SRA Experiment Id DRX000980  (Link to NCBI )
Experiment Title Acropora digitifera Illumina PE 500 bp
Exp Library Strategy WGS
Library Source GENOMIC
Library Selection size fractionation
Library Name Acropora digitifera Illumina PE 500 bp
Library Layout PAIRED
Library Instrument ILLUMINA_GENOME_ANALYZER_I_IX
Spot Length 100
PROJECT COMPOSITION
Study Acropora digitifera
Organism Acropora digitifera
Analysis Projects Acropora digitifera
Number of Analysis Projects (AP) 1
Number of Derived Analyis Projects (DAP)
0  
SEQUENCING INFORMATION
Sequencing Status Complete
Sequencing Quality (MIGS-31)
Finishing Goal
Contamination Screening Input
  
DNA Amplification Method
  
Single Cell Lysis Protocol
  
Single Cell Lysis Approach
  
Sequencing Comments
  
DNA Amplification Kit
  
Sequencing Technology (MIGS-29) 454 GS FLX
Illumina GA
Library Method (MIGS-28)
  
Library Layout
  
Library Screening Method
  
Number Of Reads
  
Read Size
  
Vector
  
GC Percent
  
Chromosome Count
  
Plasmid Count
  
ORGANISM NAME
GOLD Organism ID Go0038698
Organism Name
Acropora digitifera  
Other names (alias, synonyms, short names, common names)
  
Organism Domain
EUKARYAL  
Phylogeny
CNIDARIA  
Genus
Acropora  
Genus Synonyms
  
Species
Acropora digitifera  
Subspecies
  
Species Synonyms
  
Strain
  
Strain Synonyms
  
Serovar/Cultivar
  
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 70779
NCBI Superkingdom
Eukaryota  
NCBI Kingdom
Metazoa  
NCBI Phylum
Cnidaria  
NCBI Class
Anthozoa  
NCBI Order
Scleractinia  
NCBI Family
Acroporidae  
NCBI Genus
Acropora  
NCBI Species
Acropora digitifera  
ISOLATION CLASSIFICATION
Ecosystem
Environmental  
Ecosystem Category
Aquatic  
Ecosystem Type
Marine  
Ecosystem Subtype
Intertidal zone  
Specific Ecosystem
Coral reef  
ORGANISM EXTERNAL REFERENCES
Strain Info ID
Genbank 16S ID
GENERAL PROPERTIES
Oxygen Requirement
  
Cell Shape
  
Motility
  
Sporulation
  
Temperature Range
  
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
  

 

 

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