Supporting data for "Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific"

Dataset type: Transcriptomic
Data released on August 04, 2017

Bay LK; Kenkel CD (2017): Supporting data for "Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific" GigaScience Database. http://dx.doi.org/10.5524/100328

DOI10.5524/100328

Transcriptomic resources for coral species can provide insight into coral evolutionary history and stress-response physiology. Goniopora columna, Galaxea astreata and Galaxea acrhelia are scleractinian corals of the Indo-Pacific, representing a diversity of morphologies and life-history traits. G. columna and G. astreata are common and cosmopolitan, while G. acrhelia is largely restricted to the coral triangle and Great Barrier Reef. Reference transcriptomes for these species were assembled from replicate colony fragments exposed to elevated (31°C) and ambient (27°C) temperature.
Trinity was used to create de novo assemblies for each species from 92-102 million raw Illumina Hiseq 2 x 150 bp reads. Host-specific assemblies contained 65,460-72,405 contigs, representing 26,693-37,894 isogroups (~genes) with an average N50 of 2,254. Gene name and/or gene ontology annotations were possible for 58% of isogroups on average. Transcriptomes contained 93.1-94.3% of KOGs comprising the core eukaryotic gene set and 89.98-91.92% of the single-copy metazoan core gene set orthologs were complete, indicating fairly comprehensive assemblies.
This work expands the complement of transcriptomic resources available for scleractinian coral species, including the first reference for a representative of Goniopora spp. as well as species with novel morphology.

Additional details

Read the peer-reviewed publication(s):

Kenkel, C. D., & Bay, L. K. (2017). Novel transcriptome resources for three scleractinian coral species from the Indo-Pacific. GigaScience, 6(9). doi:10.1093/gigascience/gix074

Additional information:

http://dornsife.usc.edu/labs/carlslab/data/

Accessions (data included in GigaDB):

BioProject: PRJNA350363
BioProject: PRJNA352640
BioProject: PRJNA352641





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Gast154325  Galaxea astreata Description:RNA extracted from multiple pooled clo...
Analyte type:RNA
Isolate:Gast_R2
...
+
Gach1888344  Galaxea acrhelia Description:RNA extracted from multiple pooled clo...
Analyte type:RNA
Isolate:Gach_R2
...
+
Gcol541198  Goniopora columna Description:RNA extracted from multiple pooled clo...
Analyte type:RNA
Isolate:Gcol_R2
...
+
Displaying 1-3 of 3 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
protein sequenceFASTA56.56 MB2017-07-10
protein sequenceFASTA43.7 MB2017-07-10
transcriptome sequenceFASTA125.43 MB2017-07-10
BLASTTSV1.96 MB2017-07-10
protein sequenceFASTA19.67 MB2017-07-10
protein sequenceFASTA15.38 MB2017-07-10
annotationTSV1.25 MB2017-07-10
annotationTSV1.45 MB2017-07-10
annotationTSV108.03 KB2017-07-10
annotationTSV35.27 KB2017-07-10
Displaying 1-10 of 34 File(s).
Funding body Awardee Award ID Comments
National Science Foundation CD Kenkel DBI-1401165 International Postdoctoral Research Fellowship
Date Action
August 4, 2017 Dataset publish
October 2, 2017 Manuscript Link added : 10.1093/gigascience/gix074