RNA-seq analysis of the head-kidney transcriptome response to handling-stress in the red cusk-eel (Genypterus chilensis)

Víctor Aballai, Jorge E. Aedo, Jonathan Maldonado, Macarena Bastias-Molina, Herman Silva, Claudio Meneses, Sebastian Boltaña, Ariel Reyes, Alfredo Molina, Juan Antonio Valdés

Resultado de la investigación: Article

3 Citas (Scopus)

Resumen

Stress is a primary contributing factor of fish disease and mortality in aquaculture. We have previously reported that the red cusk-eel (Genypterus chilensis), an important farmed marine fish, demonstrates a handling-stress response that results in increased juvenile mortality, which is mainly associated with skeletal muscle atrophy and liver steatosis. To better understand the systemic effects of stress on red cusk-eel immune-related gene expression, the present study assessed the transcriptomic head-kidney response to handling-stress. The RNA sequencing generated a total of 61,655,525 paired-end reads from control and stressed conditions. De novo assembly using the CLC Genomic Workbench produced 86,840 transcripts and created a reference transcriptome with a N50 of 1426 bp. Reads mapped onto the assembled reference transcriptome resulted in the identification of 569 up-regulated and 513 down-regulated transcripts. Gene ontology enrichment analysis revealed a significant up-regulation of the biological processes, like response to stress, response to biotic stimulus, and immune response. Conversely, a significant down-regulation of biological processes is associated with metabolic processes. These results were validated by RT-qPCR analysis for nine candidate genes involved in the immune response. The present data demonstrated that short term stress promotes the immune innate response in the marine teleost G. chilensis. This study is an important step towards understanding the immune adaptive response to stress in non-model teleost species.

Idioma originalEnglish
Páginas (desde-hasta)111-117
Número de páginas7
PublicaciónComparative Biochemistry and Physiology - Part D: Genomics and Proteomics
Volumen24
DOI
EstadoPublished - 1 dic 2017

Huella dactilar

Head Kidney
Biological Phenomena
Eels
Transcriptome
Fish Diseases
RNA
RNA Sequence Analysis
Aquaculture
Gene Ontology
Muscular Atrophy
Mortality
Genetic Association Studies
Adaptive Immunity
Fatty Liver
Innate Immunity
Fishes
Skeletal Muscle
Up-Regulation
Down-Regulation
Gene Expression

ASJC Scopus subject areas

  • Physiology
  • Biochemistry
  • Molecular Biology
  • Genetics

Citar esto

@article{557fae2a3f7649b5ba52763f0c8f2c83,
title = "RNA-seq analysis of the head-kidney transcriptome response to handling-stress in the red cusk-eel (Genypterus chilensis)",
abstract = "Stress is a primary contributing factor of fish disease and mortality in aquaculture. We have previously reported that the red cusk-eel (Genypterus chilensis), an important farmed marine fish, demonstrates a handling-stress response that results in increased juvenile mortality, which is mainly associated with skeletal muscle atrophy and liver steatosis. To better understand the systemic effects of stress on red cusk-eel immune-related gene expression, the present study assessed the transcriptomic head-kidney response to handling-stress. The RNA sequencing generated a total of 61,655,525 paired-end reads from control and stressed conditions. De novo assembly using the CLC Genomic Workbench produced 86,840 transcripts and created a reference transcriptome with a N50 of 1426 bp. Reads mapped onto the assembled reference transcriptome resulted in the identification of 569 up-regulated and 513 down-regulated transcripts. Gene ontology enrichment analysis revealed a significant up-regulation of the biological processes, like response to stress, response to biotic stimulus, and immune response. Conversely, a significant down-regulation of biological processes is associated with metabolic processes. These results were validated by RT-qPCR analysis for nine candidate genes involved in the immune response. The present data demonstrated that short term stress promotes the immune innate response in the marine teleost G. chilensis. This study is an important step towards understanding the immune adaptive response to stress in non-model teleost species.",
keywords = "Genypterus chilensis, Handling-stress, Head-kidney transcriptome, Immune response, Red cusk-eel",
author = "V{\'i}ctor Aballai and Aedo, {Jorge E.} and Jonathan Maldonado and Macarena Bastias-Molina and Herman Silva and Claudio Meneses and Sebastian Bolta{\~n}a and Ariel Reyes and Alfredo Molina and Vald{\'e}s, {Juan Antonio}",
year = "2017",
month = "12",
day = "1",
doi = "10.1016/j.cbd.2017.09.002",
language = "English",
volume = "24",
pages = "111--117",
journal = "Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics",
issn = "1744-117X",
publisher = "Elsevier Inc.",

}

RNA-seq analysis of the head-kidney transcriptome response to handling-stress in the red cusk-eel (Genypterus chilensis). / Aballai, Víctor; Aedo, Jorge E.; Maldonado, Jonathan; Bastias-Molina, Macarena; Silva, Herman; Meneses, Claudio; Boltaña, Sebastian; Reyes, Ariel; Molina, Alfredo; Valdés, Juan Antonio.

En: Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics, Vol. 24, 01.12.2017, p. 111-117.

Resultado de la investigación: Article

TY - JOUR

T1 - RNA-seq analysis of the head-kidney transcriptome response to handling-stress in the red cusk-eel (Genypterus chilensis)

AU - Aballai, Víctor

AU - Aedo, Jorge E.

AU - Maldonado, Jonathan

AU - Bastias-Molina, Macarena

AU - Silva, Herman

AU - Meneses, Claudio

AU - Boltaña, Sebastian

AU - Reyes, Ariel

AU - Molina, Alfredo

AU - Valdés, Juan Antonio

PY - 2017/12/1

Y1 - 2017/12/1

N2 - Stress is a primary contributing factor of fish disease and mortality in aquaculture. We have previously reported that the red cusk-eel (Genypterus chilensis), an important farmed marine fish, demonstrates a handling-stress response that results in increased juvenile mortality, which is mainly associated with skeletal muscle atrophy and liver steatosis. To better understand the systemic effects of stress on red cusk-eel immune-related gene expression, the present study assessed the transcriptomic head-kidney response to handling-stress. The RNA sequencing generated a total of 61,655,525 paired-end reads from control and stressed conditions. De novo assembly using the CLC Genomic Workbench produced 86,840 transcripts and created a reference transcriptome with a N50 of 1426 bp. Reads mapped onto the assembled reference transcriptome resulted in the identification of 569 up-regulated and 513 down-regulated transcripts. Gene ontology enrichment analysis revealed a significant up-regulation of the biological processes, like response to stress, response to biotic stimulus, and immune response. Conversely, a significant down-regulation of biological processes is associated with metabolic processes. These results were validated by RT-qPCR analysis for nine candidate genes involved in the immune response. The present data demonstrated that short term stress promotes the immune innate response in the marine teleost G. chilensis. This study is an important step towards understanding the immune adaptive response to stress in non-model teleost species.

AB - Stress is a primary contributing factor of fish disease and mortality in aquaculture. We have previously reported that the red cusk-eel (Genypterus chilensis), an important farmed marine fish, demonstrates a handling-stress response that results in increased juvenile mortality, which is mainly associated with skeletal muscle atrophy and liver steatosis. To better understand the systemic effects of stress on red cusk-eel immune-related gene expression, the present study assessed the transcriptomic head-kidney response to handling-stress. The RNA sequencing generated a total of 61,655,525 paired-end reads from control and stressed conditions. De novo assembly using the CLC Genomic Workbench produced 86,840 transcripts and created a reference transcriptome with a N50 of 1426 bp. Reads mapped onto the assembled reference transcriptome resulted in the identification of 569 up-regulated and 513 down-regulated transcripts. Gene ontology enrichment analysis revealed a significant up-regulation of the biological processes, like response to stress, response to biotic stimulus, and immune response. Conversely, a significant down-regulation of biological processes is associated with metabolic processes. These results were validated by RT-qPCR analysis for nine candidate genes involved in the immune response. The present data demonstrated that short term stress promotes the immune innate response in the marine teleost G. chilensis. This study is an important step towards understanding the immune adaptive response to stress in non-model teleost species.

KW - Genypterus chilensis

KW - Handling-stress

KW - Head-kidney transcriptome

KW - Immune response

KW - Red cusk-eel

UR - http://www.scopus.com/inward/record.url?scp=85030162437&partnerID=8YFLogxK

U2 - 10.1016/j.cbd.2017.09.002

DO - 10.1016/j.cbd.2017.09.002

M3 - Article

AN - SCOPUS:85030162437

VL - 24

SP - 111

EP - 117

JO - Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics

JF - Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics

SN - 1744-117X

ER -