Cargando…

Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle

Golden cuttlefish Sepia esculenta Hoyle is an economically important cephalopod species. However, artificial hatching is currently challenged by low survival rate of larvae due to abnormal embryonic development. Dissecting the genetic foundation and regulatory mechanisms in embryonic development req...

Descripción completa

Detalles Bibliográficos
Autores principales: Liu, Changlin, Zhao, Fazhen, Yan, Jingping, Liu, Chunsheng, Liu, Siwei, Chen, Siqing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5085775/
https://www.ncbi.nlm.nih.gov/pubmed/27782082
http://dx.doi.org/10.3390/ijms17101749
_version_ 1782463642678067200
author Liu, Changlin
Zhao, Fazhen
Yan, Jingping
Liu, Chunsheng
Liu, Siwei
Chen, Siqing
author_facet Liu, Changlin
Zhao, Fazhen
Yan, Jingping
Liu, Chunsheng
Liu, Siwei
Chen, Siqing
author_sort Liu, Changlin
collection PubMed
description Golden cuttlefish Sepia esculenta Hoyle is an economically important cephalopod species. However, artificial hatching is currently challenged by low survival rate of larvae due to abnormal embryonic development. Dissecting the genetic foundation and regulatory mechanisms in embryonic development requires genomic background knowledge. Therefore, we carried out a transcriptome sequencing on Sepia embryos and larvae via mRNA-Seq. 32,597,241 raw reads were filtered and assembled into 98,615 unigenes (N50 length at 911 bp) which were annotated in NR database, GO and KEGG databases respectively. Digital gene expression analysis was carried out on cleavage stage embryos, healthy larvae and malformed larvae. Unigenes functioning in cell proliferation exhibited higher transcriptional levels at cleavage stage while those related to animal disease and organ development showed increased transcription in malformed larvae. Homologs of key genes in regulatory pathways related to early development of animals were identified in Sepia. Most of them exhibit higher transcriptional levels in cleavage stage than larvae, suggesting their potential roles in embryonic development of Sepia. The de novo assembly of Sepia transcriptome is fundamental genetic background for further exploration in Sepia research. Our demonstration on the transcriptional variations of genes in three developmental stages will provide new perspectives in understanding the molecular mechanisms in early embryonic development of cuttlefish.
format Online
Article
Text
id pubmed-5085775
institution National Center for Biotechnology Information
language English
publishDate 2016
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-50857752016-11-01 Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle Liu, Changlin Zhao, Fazhen Yan, Jingping Liu, Chunsheng Liu, Siwei Chen, Siqing Int J Mol Sci Article Golden cuttlefish Sepia esculenta Hoyle is an economically important cephalopod species. However, artificial hatching is currently challenged by low survival rate of larvae due to abnormal embryonic development. Dissecting the genetic foundation and regulatory mechanisms in embryonic development requires genomic background knowledge. Therefore, we carried out a transcriptome sequencing on Sepia embryos and larvae via mRNA-Seq. 32,597,241 raw reads were filtered and assembled into 98,615 unigenes (N50 length at 911 bp) which were annotated in NR database, GO and KEGG databases respectively. Digital gene expression analysis was carried out on cleavage stage embryos, healthy larvae and malformed larvae. Unigenes functioning in cell proliferation exhibited higher transcriptional levels at cleavage stage while those related to animal disease and organ development showed increased transcription in malformed larvae. Homologs of key genes in regulatory pathways related to early development of animals were identified in Sepia. Most of them exhibit higher transcriptional levels in cleavage stage than larvae, suggesting their potential roles in embryonic development of Sepia. The de novo assembly of Sepia transcriptome is fundamental genetic background for further exploration in Sepia research. Our demonstration on the transcriptional variations of genes in three developmental stages will provide new perspectives in understanding the molecular mechanisms in early embryonic development of cuttlefish. MDPI 2016-10-22 /pmc/articles/PMC5085775/ /pubmed/27782082 http://dx.doi.org/10.3390/ijms17101749 Text en © 2016 by the authors; licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC-BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Liu, Changlin
Zhao, Fazhen
Yan, Jingping
Liu, Chunsheng
Liu, Siwei
Chen, Siqing
Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title_full Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title_fullStr Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title_full_unstemmed Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title_short Transcriptome Sequencing and De Novo Assembly of Golden Cuttlefish Sepia esculenta Hoyle
title_sort transcriptome sequencing and de novo assembly of golden cuttlefish sepia esculenta hoyle
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5085775/
https://www.ncbi.nlm.nih.gov/pubmed/27782082
http://dx.doi.org/10.3390/ijms17101749
work_keys_str_mv AT liuchanglin transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle
AT zhaofazhen transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle
AT yanjingping transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle
AT liuchunsheng transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle
AT liusiwei transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle
AT chensiqing transcriptomesequencinganddenovoassemblyofgoldencuttlefishsepiaesculentahoyle