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
• Start date: February 15, 2018
• End date: 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
• Institution abroad: 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

Abstract

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)

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.; 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, SEP 29 2021. (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 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, SEP 29 2020. (18/08416-5, 16/21011-9, 17/26900-9, 16/18294-9)

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, JUN 9 2020. (16/21011-9, 17/26900-9)