Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.

Deep RNA sequencing (RNA-seq) was performed to provide an in-depth view of the transcriptome of red and white skeletal muscle of exercised and non-exercised rainbow trout (Oncorhynchus mykiss) with the specific objective to identify expressed genes and quantify the transcriptomic effects of swimming...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Arjan P Palstra, Sergi Beltran, Erik Burgerhout, Sebastiaan A Brittijn, Leonardo J Magnoni, Christiaan V Henkel, Hans J Jansen, Guido E E J M van den Thillart, Herman P Spaink, Josep V Planas
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/3df975f8bab54d94b0eab9c0cc92c50a
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:3df975f8bab54d94b0eab9c0cc92c50a
record_format	dspace
spelling	oai:doaj.org-article:3df975f8bab54d94b0eab9c0cc92c50a2021-11-18T08:02:23ZDeep RNA sequencing of the skeletal muscle transcriptome in swimming fish.1932-620310.1371/journal.pone.0053171https://doaj.org/article/3df975f8bab54d94b0eab9c0cc92c50a2013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23308156/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Deep RNA sequencing (RNA-seq) was performed to provide an in-depth view of the transcriptome of red and white skeletal muscle of exercised and non-exercised rainbow trout (Oncorhynchus mykiss) with the specific objective to identify expressed genes and quantify the transcriptomic effects of swimming-induced exercise. Pubertal autumn-spawning seawater-raised female rainbow trout were rested (n = 10) or swum (n = 10) for 1176 km at 0.75 body-lengths per second in a 6,000-L swim-flume under reproductive conditions for 40 days. Red and white muscle RNA of exercised and non-exercised fish (4 lanes) was sequenced and resulted in 15-17 million reads per lane that, after de novo assembly, yielded 149,159 red and 118,572 white muscle contigs. Most contigs were annotated using an iterative homology search strategy against salmonid ESTs, the zebrafish Danio rerio genome and general Metazoan genes. When selecting for large contigs (>500 nucleotides), a number of novel rainbow trout gene sequences were identified in this study: 1,085 and 1,228 novel gene sequences for red and white muscle, respectively, which included a number of important molecules for skeletal muscle function. Transcriptomic analysis revealed that sustained swimming increased transcriptional activity in skeletal muscle and specifically an up-regulation of genes involved in muscle growth and developmental processes in white muscle. The unique collection of transcripts will contribute to our understanding of red and white muscle physiology, specifically during the long-term reproductive migration of salmonids.Arjan P PalstraSergi BeltranErik BurgerhoutSebastiaan A BrittijnLeonardo J MagnoniChristiaan V HenkelHans J JansenGuido E E J M van den ThillartHerman P SpainkJosep V PlanasPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 1, p e53171 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Arjan P Palstra Sergi Beltran Erik Burgerhout Sebastiaan A Brittijn Leonardo J Magnoni Christiaan V Henkel Hans J Jansen Guido E E J M van den Thillart Herman P Spaink Josep V Planas Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
description	Deep RNA sequencing (RNA-seq) was performed to provide an in-depth view of the transcriptome of red and white skeletal muscle of exercised and non-exercised rainbow trout (Oncorhynchus mykiss) with the specific objective to identify expressed genes and quantify the transcriptomic effects of swimming-induced exercise. Pubertal autumn-spawning seawater-raised female rainbow trout were rested (n = 10) or swum (n = 10) for 1176 km at 0.75 body-lengths per second in a 6,000-L swim-flume under reproductive conditions for 40 days. Red and white muscle RNA of exercised and non-exercised fish (4 lanes) was sequenced and resulted in 15-17 million reads per lane that, after de novo assembly, yielded 149,159 red and 118,572 white muscle contigs. Most contigs were annotated using an iterative homology search strategy against salmonid ESTs, the zebrafish Danio rerio genome and general Metazoan genes. When selecting for large contigs (>500 nucleotides), a number of novel rainbow trout gene sequences were identified in this study: 1,085 and 1,228 novel gene sequences for red and white muscle, respectively, which included a number of important molecules for skeletal muscle function. Transcriptomic analysis revealed that sustained swimming increased transcriptional activity in skeletal muscle and specifically an up-regulation of genes involved in muscle growth and developmental processes in white muscle. The unique collection of transcripts will contribute to our understanding of red and white muscle physiology, specifically during the long-term reproductive migration of salmonids.
format	article
author	Arjan P Palstra Sergi Beltran Erik Burgerhout Sebastiaan A Brittijn Leonardo J Magnoni Christiaan V Henkel Hans J Jansen Guido E E J M van den Thillart Herman P Spaink Josep V Planas
author_facet	Arjan P Palstra Sergi Beltran Erik Burgerhout Sebastiaan A Brittijn Leonardo J Magnoni Christiaan V Henkel Hans J Jansen Guido E E J M van den Thillart Herman P Spaink Josep V Planas
author_sort	Arjan P Palstra
title	Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
title_short	Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
title_full	Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
title_fullStr	Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
title_full_unstemmed	Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.
title_sort	deep rna sequencing of the skeletal muscle transcriptome in swimming fish.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/3df975f8bab54d94b0eab9c0cc92c50a
work_keys_str_mv	AT arjanppalstra deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT sergibeltran deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT erikburgerhout deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT sebastiaanabrittijn deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT leonardojmagnoni deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT christiaanvhenkel deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT hansjjansen deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT guidoeejmvandenthillart deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT hermanpspaink deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish AT josepvplanas deeprnasequencingoftheskeletalmuscletranscriptomeinswimmingfish
_version_	1718422597219123200

Deep RNA sequencing of the skeletal muscle transcriptome in swimming fish.

Ejemplares similares