Supporting data for "Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis".

Dataset type: Genomic
Data released on April 25, 2016

Long KA; Nossa CW; Putnam NH; Ryan JF; Sewell MA (2016): Supporting data for "Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis". GigaScience Database. http://dx.doi.org/10.5524/100194

DOI10.5524/100194

There are five major extant groups of Echinodermata: Crinoidea (feather stars and sea lillies), Ophiuroidea (brittle stars and basket stars), Asteroidea (sea stars), Echinoidea (sea urchins, sea biscuits, and sand dollars), and Holothuroidea (sea cucumbers). These animals are known for their pentaradial symmetry as adults, unique water vascular system, mutable collagenous tissues, and endoskeletons of high magnesium calcite. To our knowledge, the only echinoderm species with a genome sequence available to date is Strongylocentrotus pupuratus (Echinoidea). The availability of additional echinoderm genome sequences is crucial for understanding the biology of these animals.
Here we present assembled draft genomes of the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis from Illumina sequence data with coverages of 12.5x, 22.5x, and 21.4x, respectively.
These data provide a resource for mining gene superfamilies, identifying non-coding RNAs, confirming gene losses, and designing experimental constructs. They will be important comparative resources for future genomic studies in echinoderms.

Additional details

Read the peer-reviewed publication(s):

Long, K. A., Nossa, C. W., Sewell, M. A., Putnam, N. H., & Ryan, J. F. (2016). Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis. GigaScience, 5(1). doi:10.1186/s13742-016-0125-6

Additional information:

http://ryanlab.whitney.ufl.edu/genomes/

Accessions (data included in GigaDB):

BioProject: PRJEB10600
BioProject: PRJEB10682
BioProject: PRJEB10339





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
SAMEA35066821401014  Ophionereis fasciata Description:Ofas larva (01)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066831401014  Ophionereis fasciata Description:Ofas larva (02)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066841401014  Ophionereis fasciata Description:Ofas larva (03)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066851401014  Ophionereis fasciata Description:Ofas larva (04)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066861401014  Ophionereis fasciata Description:Ofas larva (05)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066871401014  Ophionereis fasciata Description:Ofas larva (06)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066881401014  Ophionereis fasciata Description:Ofas larva (07)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066891401014  Ophionereis fasciata Description:Ofas larva (08)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066901401014  Ophionereis fasciata Description:Ofas larva (09)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
SAMEA35066911401014  Ophionereis fasciata Description:Ofas larva (10)
Geographic location (country and/or sea,region):Ma...
Geographic location (latitude and longitude):-36.3...
...
+
Displaying 1-10 of 71 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
FASTAUNKNOWN3.42 MB2016-04-01
GFFGFF41.45 MB2016-04-01
FASTAFASTA1.24 GB2016-04-01
BLASTUNKNOWN348.57 KB2016-04-01
BLASTUNKNOWN410.11 KB2016-04-01
BLASTUNKNOWN434.41 KB2016-04-01
BLASTUNKNOWN502.12 KB2016-04-01
BLASTUNKNOWN428.63 KB2016-04-01
BLASTUNKNOWN417.53 KB2016-04-01
BLASTUNKNOWN53.54 KB2016-04-01
Displaying 1-10 of 31 File(s).
Funding body Awardee Award ID Comments
National Science Foundation DBI-1156528 Kyle Long
Date Action
April 25, 2016 Dataset publish
May 12, 2016 Manuscript Link added : 10.1186/s13742-016-0125-6
May 12, 2016 File readme.txt updated