Harnessing the power of RADseq for ecological and evolutionary genomics

KR Andrews, JM Good, MR Miller, G Luikart… - Nature Reviews …, 2016 - nature.com
High-throughput techniques based on restriction site-associated DNA sequencing (RADseq)
are enabling the low-cost discovery and genotyping of thousands of genetic markers for any …

Sex determination mechanisms and sex control approaches in aquaculture animals

XY Li, J Mei, CT Ge, XL Liu, JF Gui - Science China Life Sciences, 2022 - Springer
Aquaculture is one of the most efficient modes of animal protein production and plays an
important role in global food security. Aquaculture animals exhibit extraordinarily diverse …

Stacks 2: Analytical methods for paired‐end sequencing improve RADseq‐based population genomics

NC Rochette, AG Rivera‐Colón… - Molecular ecology, 2019 - Wiley Online Library
For half a century population genetics studies have put type II restriction endonucleases to
work. Now, coupled with massively‐parallel, short‐read sequencing, the family of RAD …

Bulk segregation analysis in the NGS era: a review of its teenage years

Z Li, Y Xu - The Plant Journal, 2022 - Wiley Online Library
Bulk segregation analysis (BSA) utilizes a strategy of pooling individuals with extreme
phenotypes to conduct economical and rapidly linked marker screening or quantitative trait …

Stacks: an analysis tool set for population genomics

J Catchen, PA Hohenlohe, S Bassham… - Molecular …, 2013 - Wiley Online Library
Massively parallel short‐read sequencing technologies, coupled with powerful software
platforms, are enabling investigators to analyse tens of thousands of genetic markers. This …

TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline

JC Glaubitz, TM Casstevens, F Lu, J Harriman… - PloS one, 2014 - journals.plos.org
Genotyping by sequencing (GBS) is a next generation sequencing based method that takes
advantage of reduced representation to enable high throughput genotyping of large …

Scallop genome provides insights into evolution of bilaterian karyotype and development

S Wang, J Zhang, W Jiao, JI Li, X Xun, Y Sun… - Nature ecology & …, 2017 - nature.com
Reconstructing the genomes of bilaterian ancestors is central to our understanding of animal
evolution, where knowledge from ancient and/or slow-evolving bilaterian lineages is critical …

Genomic determinants of coral heat tolerance across latitudes

GB Dixon, SW Davies, GV Aglyamova, E Meyer… - Science, 2015 - science.org
As global warming continues, reef-building corals could avoid local population declines
through “genetic rescue” involving exchange of heat-tolerant genotypes across latitudes, but …

[HTML][HTML] Rethinking fish biology and biotechnologies in the challenge era for burgeoning genome resources and strengthening food security

JF Gui, L Zhou, XY Li - Water Biology and Security, 2022 - Elsevier
Fish biology has been developed for more than 100 years, but some important
breakthroughs have been made in the last decade. Early studies commonly concentrated on …

These aren't the loci you'e looking for: Principles of effective SNP filtering for molecular ecologists

SJ O'Leary, JB Puritz, SC Willis, CM Hollenbeck… - 2018 - Wiley Online Library
Sequencing reduced‐representation libraries of restriction site‐associated DNA (RAD seq)
to identify single nucleotide polymorphisms (SNP s) is quickly becoming a standard …