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RNA-seq and RAD-seq techniques for genetic characterization of pacu (Piaractus mesopotamicus) resistant to the bacteria Aeromonas hydrophila

Grant number: 17/26900-9
Support Opportunities:Scholarships abroad - Research Internship - Doctorate
Effective date (Start): February 15, 2018
Effective date (End): December 14, 2018
Field of knowledge:Agronomical Sciences - Fishery Resources and Fishery Engineering - Aquaculture
Principal Investigator:Diogo Teruo Hashimoto
Grantee:Vito Antonio Mastrochirico Filho
Supervisor: Ross Houston
Host Institution: Centro de Aquicultura (CAUNESP). Universidade Estadual Paulista (UNESP). Campus de Jaboticabal. Jaboticabal , SP, Brazil
Research place: University of Edinburgh, Scotland  
Associated to the scholarship:16/18294-9 - Integration of genomic methods for genotypes selection of pacu (Piaractus mesopotamicus) resistant to Aeromonas hydrophila bacteria, BP.DR


This study aims to characterize genetically the fish pacu (Piaractus mesopotamicus) resistant to the bacteria Aeromonas hydrophila. The specific objectives are: 1) characterization of immune system genes, by RNA-seq technique, of susceptible and resistant individuals challenged with A. hydrophila infection; 2) characterization of QTL (Quantitative Trait Locus) associated with resistance to A. hydrophila, by sequencing/genotyping of SNPs (ddRAD-seq, double-digest restriction- site-associated DNA sequencing). In relation to the RNA-seq experiment, after inoculation of A. hydrophila, analyses will be performed at the following times: T1 (early death of animals), fish that show signs of infection, considered susceptible; T2 (after mortality plateau), individuals considered resistant to A. hydrophila challenge; and both T1 and T2, control treatment individuals inoculated with saline solution. Bioinformatic analyses will be performed from de novo assembly of pacu transcriptome, comparing T1 x Control, T2 x Control and T1 x T2. Afterwards, sequencing/genotyping will be performed by ddRAD-seq technique (restriction enzymes SphI and MluCI), in order to perform molecular analysis of 10 families of pacu challenged with A. hydrophila, which will allow the search for QTL and provide support for marker-assisted selection. The potential impact of this study is to make viable technologies for production of improved fish for the aquaculture industry. (AU)

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Scientific publications
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
MASTROCHIRICO-FILHO, VITO A.; BORGES, CAROLINA H. S.; FREITAS, MILENA V.; ARIEDE, RAQUEL B.; PILARSKI, FABIANA; UTSUNOMIA, RICARDO; CARVALHEIRO, ROBERTO; GUTIERREZ, ALEJANDRO P.; PENALOZA, CAROLINA; YANEZ, JOSE M.; et al. Development of a SNP linkage map and genome-wide association study for resistance to Aeromonas hydrophila in pacu (Piaractus mesopotamicus). BMC Genomics, v. 21, n. 1, . (18/08416-5, 16/21011-9, 17/26900-9, 16/18294-9)
MASTROCHIRICO-FILHO, VITO A.; ARIEDE, RAQUEL B.; FREITAS, V, MILENA; BORGES, CAROLINA H. S.; LIRA, LIESCHEN V. G.; MENDES, NATALIA J.; AGUDELO, JOHN F. G.; CACERES, PABLO; BERROCAL, MILTHON H. M.; SUCERQUIA, GUSTAVO A. L.; et al. Development of a multi-species SNP array for serrasalmid fish Colossoma macropomum and Piaractus mesopotamicus. SCIENTIFIC REPORTS, v. 11, n. 1, . (16/21011-9, 17/26900-9, 20/11049-4, 16/18294-9, 18/08416-5, 17/19717-3, 19/10662-7, 19/08972-8)
MASTROCHIRICO-FILHO, VITO ANTONIO; HATA, MILENE ELISSA; KURADOMI, RAFAEL YUTAKA; DE FREITAS, MILENA VIEIRA; ARIEDE, RAQUEL BELINI; PINHEIRO, DANIEL GUARIZ; ROBLEDO, DIEGO; HOUSTON, ROSS; HASHIMOTO, DIOGO TERUO. Transcriptome Profiling of Pacu (Piaractus mesopotamicus) Challenged With PathogenicAeromonas hydrophila: Inference on Immune Gene Response. FRONTIERS IN GENETICS, v. 11, . (16/21011-9, 17/26900-9)

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