An ovary transcriptome for all maturational stages of the striped bass (Morone saxatilis), a highly advanced perciform fish.

BMC Research Notes
Benjamin J ReadingCraig V Sullivan

Abstract

The striped bass and its relatives (genus Morone) are important fisheries and aquaculture species native to estuaries and rivers of the Atlantic coast and Gulf of Mexico in North America. To open avenues of gene expression research on reproduction and breeding of striped bass, we generated a collection of expressed sequence tags (ESTs) from a complementary DNA (cDNA) library representative of their ovarian transcriptome. Sequences of a total of 230,151 ESTs (51,259,448 bp) were acquired by Roche 454 pyrosequencing of cDNA pooled from ovarian tissues obtained at all stages of oocyte growth, at ovulation (eggs), and during preovulatory atresia. Quality filtering of ESTs allowed assembly of 11,208 high-quality contigs ≥ 100 bp, including 2,984 contigs 500 bp or longer (average length 895 bp). Blastx comparisons revealed 5,482 gene orthologues (E-value < 10-3), of which 4,120 (36.7% of total contigs) were annotated with Gene Ontology terms (E-value < 10-6). There were 5,726 remaining unknown unique sequences (51.1% of total contigs). All of the high-quality EST sequences are available in the National Center for Biotechnology Information (NCBI) Short Read Archive (GenBank: SRX007394). Informative contigs were considered to be abunda...Continue Reading

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Citations

Feb 19, 2013·Journal of Proteome Research·Benjamin J ReadingCraig V Sullivan
Oct 12, 2013·BMC Genomics·Vincent P RichardsMahmood S Shivji
Jul 18, 2015·International Journal of Molecular Sciences·Weiwei LuoYeke Wang
Feb 7, 2016·Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics·Benjamin H BeckEric Peatman
Jan 16, 2016·Environmental Toxicology and Chemistry·Paulina A BahamondeChristopher J Martyniuk
Jul 28, 2013·Marine Biotechnology·Carlos Frederico Ceccon LanesIgor Babiak
Dec 21, 2013·Molecular Ecology Resources·X Y ShenL Orbán
Mar 22, 2014·Journal of Experimental Zoology. Part A, Ecological Genetics and Physiology·Valerie N WilliamsCraig V Sullivan
Mar 1, 2015·General and Comparative Endocrinology·Craig V SullivanPaul E Anderson
Dec 10, 2013·Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics·Timothy S Breton, David L Berlinsky
May 23, 2015·Genome Biology and Evolution·Paul R BergCarl André
Jan 24, 2017·General and Comparative Endocrinology·Dong Teng LiuYong Zhu
Sep 14, 2014·Journal of Lipid Research·Benjamin J ReadingCraig V Sullivan
Jun 20, 2017·Molecular Ecology·Julia M I BarthCarl André
Apr 11, 2018·BMC Genomics·L Curry WoodsJiuzhou Song
Feb 22, 2017·BMC Genomics·UNKNOWN Aquaculture Genomics, Genetics and Breeding WorkshopTao Zhou

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Datasets Mentioned

BETA
HM447585
GenBank

Methods Mentioned

BETA
dissection
electrophoresis
PCR

Software Mentioned

Roche
UniClone
Newbler
gsAssembler
Digital Differential Display ( DDD )
SEQUEST
Blast2GO
BLAST
Proteome Discoverer

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