This paper defines contigs for variable-order de Bruijn graphs and presents an algorithm to improve genome assembly contiguity using PacBio HiFi data.

bioRxiv · Sep 6, 2022 · PreprintBioinformatics

Whole genome re-sequencing reveals recent signatures of selection in three strains of farmed Nile tilapia (Oreochromis niloticus)

María I. Cádiz, María E. López, Diego Diaz-Domínguez, Giovanna Cáceres, Grazyella Yoshida, Daniel Gomez‐Uchida, José Manuel Yañez

The paper identifies selection signatures in three farmed Nile tilapia strains using whole-genome sequencing and SNP analysis.

Scientific Reports · Jul 13, 2020Peer-reviewedGenomics

High-throughput single nucleotide polymorphism (SNP) discovery and validation through whole-genome resequencing of hundreds of individuals in Nile tilapia (Oreochromis niloticus)

José Manuel Yañez, Grazyella Yoshida, Agustin Barría, Ricardo Palma-Véjares, Dante Travisany, Diego Diaz-Domínguez, Giovanna Cáceres, María I. Cádiz, María E. López, Jean P. Lhorente, Ana Jedlicki, José Soto, Diego Salas, Alejandro Maass

The paper discovers and validates 50,000 high-quality SNPs in Nile tilapia through whole-genome resequencing of 326 individuals, useful for genomic selection and trait analysis.

Marine Biotechnology · Jan 14, 2020Peer-reviewedGenomics

Fine mapping using whole-genome sequencing confirms anti Mullerian hormone as a major gene for sex determination in farmed Nile tilapia (Oreochromis niloticus L.)

Giovanna Cáceres, María E. López, María I. Cádiz, Grazyella Yoshida, Ana Jedlicki, Ricardo Palma-Véjares, Dante Travisany, Diego Diaz-Domínguez, Alejandro Maass, Jean P. Lhorente, José Soto, Diego Salas, José Manuel Yañez

The paper uses whole-genome sequencing to fine-map sex determination genes in Nile tilapia, identifying anti-Mullerian hormone as a major gene.

G3 Genes Genomes Genetics · Aug 15, 2019Peer-reviewedGenomics