Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program

LL Wong, SA Razali, ZM Deris, M Danish-Daniel… - Aquaculture, 2022 - Elsevier
High-throughput sequencing technologies have expanded gene-based to genome-wide
research in aquaculture species. Several techniques adopting the Second Generation …

Genome-wide simple sequence repeats (SSR) markers discovered from whole-genome sequence comparisons of multiple spinach accessions

G Bhattarai, A Shi, DR Kandel, N Solís-Gracia… - Scientific reports, 2021 - nature.com
The availability of well-assembled genome sequences and reduced sequencing costs have
enabled the resequencing of many additional accessions in several crops, thus facilitating …

DNA-based assessment of genetic diversity in grassland plant species: Challenges, approaches, and applications

M Loera-Sánchez, B Studer, R Kölliker - Agronomy, 2019 - mdpi.com
Grasslands are wide-spread, multi-species ecosystems that provide many valuable services.
Plant genetic diversity (ie, the diversity within species) is closely linked to ecosystem …

Handling of targeted amplicon sequencing data focusing on index hopping and demultiplexing using a nested metabarcoding approach in ecology

Y Guenay-Greunke, DA Bohan, M Traugott… - Scientific reports, 2021 - nature.com
High-throughput sequencing platforms are increasingly being used for targeted amplicon
sequencing because they enable cost-effective sequencing of large sample sets. For …

More affordable and effective noninvasive single nucleotide polymorphism genotyping using high‐throughput amplicon sequencing

CE Eriksson, J Ruprecht, T Levi - Molecular Ecology Resources, 2020 - Wiley Online Library
Noninvasive genotyping methods have become key elements of wildlife research over the
last two decades, but their widespread adoption is limited by high costs, low success rates …

Genomic prediction of complex traits in perennial plants: a case for forest trees

F Isik - Genomic prediction of complex traits: Methods and …, 2022 - Springer
This chapter provides an overview of the genomic selection progress in long-lived forest tree
species. Factors affecting the prediction accuracy in genomic prediction are assessed with …

Genomic selection for heterobothriosis resistance concurrent with body size in the tiger pufferfish, Takifugu rubripes

Z Lin, S Hosoya, M Sato, N Mizuno, Y Kobayashi… - Scientific Reports, 2020 - nature.com
Parasite resistance traits in aquaculture species often have moderate heritability, indicating
the potential for genetic improvements by selective breeding. However, parasite resistance …

Genomic prediction for testes weight of the tiger pufferfish, Takifugu rubripes, using medium to low density SNPs

S Hosoya, S Yoshikawa, M Sato, K Kikuchi - Scientific Reports, 2021 - nature.com
Aquaculture production is expected to increase with the help of genomic selection (GS). The
possibility of performing GS using only a small number of SNPs has been examined in order …

Genetic Dissection of a Precocious Phenotype in Male Tiger Pufferfish (Takifugu rubripes) using Genotyping by Random Amplicon Sequencing, Direct (GRAS-Di)

S Yoshikawa, M Hamasaki, K Kadomura… - Marine …, 2021 - Springer
The novel non-targeted PCR-based genotyping system, namely Genotyping by Random
Amplicon Sequencing, Direct (GRAS-Di), is characterized by the simplicity in library …

Effects of low fishmeal diets on growth performance, blood chemical composition, parasite resistance, and gene expression in the tiger pufferfish, Takifugu rubripes

Z Lin, S Yoshikawa, M Hamasaki, T Koyama, K Kikuchi… - Aquaculture, 2022 - Elsevier
The rising price of fishmeal and the need for sustainable use of fishery resources have
encouraged efforts by the aquaculture industry to identify alternative protein sources …