Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response
Autor(a) principal: | |
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Data de Publicação: | 2020 |
Outros Autores: | , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.3389/fgene.2020.00604 http://hdl.handle.net/11449/200653 |
Resumo: | Pacu (Piaractus mesopotamicus) is a Neotropical fish of major importance for South American aquaculture. Septicemia caused by Aeromonas hydrophila bacteria is currently considered a substantial threat for pacu aquaculture that have provoked infectious disease outbreaks with high economic losses. The understanding of molecular aspects on progress of A. hydrophila infection and pacu immune response is scarce, which have limited the development of genomic selection for resistance to this infection. The present study aimed to generate information on transcriptome of pacu in face of A. hydrophila infection, and compare the transcriptomic responses between two groups of time-series belonging to a disease resistance challenge, peak mortality (HM) and mortality plateau (PM) groups of individuals. Nine RNA sequencing (RNA-Seq) libraries were prepared from liver tissue of challenged individuals, generating ∼160 million 150 bp pair-end reads. After quality trimming/cleanup, these reads were assembled de novo generating 211,259 contigs. When the expression of genes from individuals of HM group were compared to individuals from control group, a total of 4,413 differentially expressed transcripts were found (2,000 upregulated and 2,413 downregulated candidate genes). Additionally, 433 transcripts were differentially expressed when individuals from MP group were compared with those in the control group (155 upregulated and 278 downregulated candidate genes). The resulting differentially expressed transcripts were clustered into the following functional categories: cytokines and signaling, epithelial protection, antigen processing and presentation, apoptosis, phagocytosis, complement system cascades and pattern recognition receptors. The proposed results revealing relevant differential gene expression on HM and PM groups which will contribute to a better understanding of the molecular defense mechanisms during A. hydrophila infection. |
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Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Responseaquaculturecomplement systemde novo assemblydisease resistanceRNA-SeqPacu (Piaractus mesopotamicus) is a Neotropical fish of major importance for South American aquaculture. Septicemia caused by Aeromonas hydrophila bacteria is currently considered a substantial threat for pacu aquaculture that have provoked infectious disease outbreaks with high economic losses. The understanding of molecular aspects on progress of A. hydrophila infection and pacu immune response is scarce, which have limited the development of genomic selection for resistance to this infection. The present study aimed to generate information on transcriptome of pacu in face of A. hydrophila infection, and compare the transcriptomic responses between two groups of time-series belonging to a disease resistance challenge, peak mortality (HM) and mortality plateau (PM) groups of individuals. Nine RNA sequencing (RNA-Seq) libraries were prepared from liver tissue of challenged individuals, generating ∼160 million 150 bp pair-end reads. After quality trimming/cleanup, these reads were assembled de novo generating 211,259 contigs. When the expression of genes from individuals of HM group were compared to individuals from control group, a total of 4,413 differentially expressed transcripts were found (2,000 upregulated and 2,413 downregulated candidate genes). Additionally, 433 transcripts were differentially expressed when individuals from MP group were compared with those in the control group (155 upregulated and 278 downregulated candidate genes). The resulting differentially expressed transcripts were clustered into the following functional categories: cytokines and signaling, epithelial protection, antigen processing and presentation, apoptosis, phagocytosis, complement system cascades and pattern recognition receptors. The proposed results revealing relevant differential gene expression on HM and PM groups which will contribute to a better understanding of the molecular defense mechanisms during A. hydrophila infection.Biotechnology and Biological Sciences Research CouncilCoordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)Comisión Nacional de Investigación Científica y TecnológicaFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Aquaculture Center São Paulo State University (Unesp)Faculty of Agricultural and Veterinary Sciences São Paulo State University (Unesp)The Royal (Dick) School of Veterinary Studies The University of EdinburghAquaculture Center São Paulo State University (Unesp)Faculty of Agricultural and Veterinary Sciences São Paulo State University (Unesp)Universidade Estadual Paulista (Unesp)The University of EdinburghMastrochirico-Filho, Vito Antonio [UNESP]Hata, Milene Elissa [UNESP]Kuradomi, Rafael Yutaka [UNESP]de Freitas, Milena Vieira [UNESP]Ariede, Raquel Belini [UNESP]Pinheiro, Daniel Guariz [UNESP]Robledo, DiegoHouston, RossHashimoto, Diogo Teruo [UNESP]2020-12-12T02:12:26Z2020-12-12T02:12:26Z2020-06-09info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articlehttp://dx.doi.org/10.3389/fgene.2020.00604Frontiers in Genetics, v. 11.1664-8021http://hdl.handle.net/11449/20065310.3389/fgene.2020.006042-s2.0-85087033095Scopusreponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengFrontiers in Geneticsinfo:eu-repo/semantics/openAccess2024-04-09T15:43:35Zoai:repositorio.unesp.br:11449/200653Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-04-09T15:43:35Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
title |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
spellingShingle |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response Mastrochirico-Filho, Vito Antonio [UNESP] aquaculture complement system de novo assembly disease resistance RNA-Seq |
title_short |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
title_full |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
title_fullStr |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
title_full_unstemmed |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
title_sort |
Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With Pathogenic Aeromonas hydrophila: Inference on Immune Gene Response |
author |
Mastrochirico-Filho, Vito Antonio [UNESP] |
author_facet |
Mastrochirico-Filho, Vito Antonio [UNESP] Hata, Milene Elissa [UNESP] Kuradomi, Rafael Yutaka [UNESP] de Freitas, Milena Vieira [UNESP] Ariede, Raquel Belini [UNESP] Pinheiro, Daniel Guariz [UNESP] Robledo, Diego Houston, Ross Hashimoto, Diogo Teruo [UNESP] |
author_role |
author |
author2 |
Hata, Milene Elissa [UNESP] Kuradomi, Rafael Yutaka [UNESP] de Freitas, Milena Vieira [UNESP] Ariede, Raquel Belini [UNESP] Pinheiro, Daniel Guariz [UNESP] Robledo, Diego Houston, Ross Hashimoto, Diogo Teruo [UNESP] |
author2_role |
author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) The University of Edinburgh |
dc.contributor.author.fl_str_mv |
Mastrochirico-Filho, Vito Antonio [UNESP] Hata, Milene Elissa [UNESP] Kuradomi, Rafael Yutaka [UNESP] de Freitas, Milena Vieira [UNESP] Ariede, Raquel Belini [UNESP] Pinheiro, Daniel Guariz [UNESP] Robledo, Diego Houston, Ross Hashimoto, Diogo Teruo [UNESP] |
dc.subject.por.fl_str_mv |
aquaculture complement system de novo assembly disease resistance RNA-Seq |
topic |
aquaculture complement system de novo assembly disease resistance RNA-Seq |
description |
Pacu (Piaractus mesopotamicus) is a Neotropical fish of major importance for South American aquaculture. Septicemia caused by Aeromonas hydrophila bacteria is currently considered a substantial threat for pacu aquaculture that have provoked infectious disease outbreaks with high economic losses. The understanding of molecular aspects on progress of A. hydrophila infection and pacu immune response is scarce, which have limited the development of genomic selection for resistance to this infection. The present study aimed to generate information on transcriptome of pacu in face of A. hydrophila infection, and compare the transcriptomic responses between two groups of time-series belonging to a disease resistance challenge, peak mortality (HM) and mortality plateau (PM) groups of individuals. Nine RNA sequencing (RNA-Seq) libraries were prepared from liver tissue of challenged individuals, generating ∼160 million 150 bp pair-end reads. After quality trimming/cleanup, these reads were assembled de novo generating 211,259 contigs. When the expression of genes from individuals of HM group were compared to individuals from control group, a total of 4,413 differentially expressed transcripts were found (2,000 upregulated and 2,413 downregulated candidate genes). Additionally, 433 transcripts were differentially expressed when individuals from MP group were compared with those in the control group (155 upregulated and 278 downregulated candidate genes). The resulting differentially expressed transcripts were clustered into the following functional categories: cytokines and signaling, epithelial protection, antigen processing and presentation, apoptosis, phagocytosis, complement system cascades and pattern recognition receptors. The proposed results revealing relevant differential gene expression on HM and PM groups which will contribute to a better understanding of the molecular defense mechanisms during A. hydrophila infection. |
publishDate |
2020 |
dc.date.none.fl_str_mv |
2020-12-12T02:12:26Z 2020-12-12T02:12:26Z 2020-06-09 |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.3389/fgene.2020.00604 Frontiers in Genetics, v. 11. 1664-8021 http://hdl.handle.net/11449/200653 10.3389/fgene.2020.00604 2-s2.0-85087033095 |
url |
http://dx.doi.org/10.3389/fgene.2020.00604 http://hdl.handle.net/11449/200653 |
identifier_str_mv |
Frontiers in Genetics, v. 11. 1664-8021 10.3389/fgene.2020.00604 2-s2.0-85087033095 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Frontiers in Genetics |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.source.none.fl_str_mv |
Scopus reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1799965702876037120 |