10.5061/DRYAD.50DC6
Pérez-Porro, Alicia R.
Spanish National Research Council
Navarro-Gómez, Daniel
Harvard University
Uriz, Maria J.
Harvard University
Giribet, Gonzalo
Harvard University
Data from: A NGS approach to the encrusting Mediterranean sponge Crella
elegans (Porifera, Demospongiae, Poecilosclerida): transcriptome
sequencing, characterization and overview of the gene expression along
three life cycle stages
Dryad
dataset
2013
transcriptome characterization
Mediterranean sponge
Poecilosclerida
de novo Assembly
life cycle stages
Crella elegans
2013-01-25T18:09:56Z
2013-01-25T18:09:56Z
en
https://doi.org/10.1111/1755-0998.12085
186168854 bytes
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CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
Sponges can be dominant organisms in many marine and freshwater habitats
where they play essential ecological roles. They also represent a key
group to address important questions in early metazoan evolution. Recent
approaches for improving knowledge on sponge biological and ecological
functions as well as on animal evolution have focused on the genetic
toolkits involved in ecological responses to environmental changes (biotic
and abiotic), development and reproduction. These approaches are possible
thanks to newly available, massive sequencing technologies–such as the
Illumina platform, which facilitate genome and transcriptome sequencing in
a cost-effective manner. Here we present the first NGS (next-generation
sequencing) approach to understanding the life cycle of an encrusting
marine sponge. For this we sequenced libraries of three different life
cycle stages of the Mediterranean sponge Crella elegans and generated de
novo transcriptome assemblies. Three assemblies were based on sponge
tissue of a particular life cycle stage, including non-reproductive
tissue, tissue with sperm cysts and tissue with larvae. The fourth
assembly pooled the data from all three stages. By aggregating data from
all the different life cycle stages we obtained a higher total number of
contigs, contigs with blast hit and annotated contigs than from one
stage-based assemblies. In that multi-stage assembly we obtained a larger
number of the developmental regulatory genes known for metazoans than in
any other assembly. We also advance the differential expression of
selected genes in the three life cycle stages to explore the potential of
RNA-seq for improving knowledge on functional processes along the sponge
life cycle.
Non-reproductive stage of Crella elegansIndividual collected by SCUBA on
March'10 and fixed in RNAlater. Assembled with CLC Genomics Workbench
4.6.1 (CLC bio, Aarhus, Denmark).C3_MAR10_non-reproductive.fastaIndividual
of Crella elegans with spermatic cystsIndividual collected by SCUBA on
April'10 and fixed in RNAlater. Assembled with CLC Genomics Workbench
4.6.1 (CLC bio, Aarhus, Denmark).C4_APR10_spermatic_cysts.fastaIndividual
of Crella elegans with larvae in its tissueIndividual collected by SCUBA
on October'09 and fixed in RNAlater. Assembled with CLC Genomics
Workbench 4.6.1 (CLC bio, Aarhus, Denmark).C1_OCT09_larvae.fastaReference
transcriptome obtained by pooling reads from three different life stages
of Crella elegans (individual with larvae, individual with spematic cysts
and non-reproductive individual)Individuals collected by SCUBA on
October'09, March'10 and April'10 and fixed in RNAlater.
Each sample was sequenced independently and afterwards reads from all
three samples were pooled together and assembled with CLC Genomics
Workbench 4.6.1 (CLC bio, Aarhus, Denmark).Reference_transcriptome.fasta
Tossa de Mar
Girona
Spain