Genomics in conservation: case studies and bridging the gap between data and application

BA Garner, BK Hand, SJ Amish, L Bernatchez… - Trends in ecology & …, 2016 - cell.com
We agree with Shafer et al.[1] that there is a need for well-documented case studies of the
application of genomics in conservation and management as well as increased …

Next‐generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout

PA Hohenlohe, SJ Amish, JM Catchen… - Molecular ecology …, 2011 - Wiley Online Library
The increased numbers of genetic markers produced by genomic techniques have the
potential to both identify hybrid individuals and localize chromosomal regions responding to …

RAD capture (Rapture): flexible and efficient sequence-based genotyping

OA Ali, SM O'Rourke, SJ Amish, MH Meek, G Luikart… - Genetics, 2016 - academic.oup.com
Massively parallel sequencing has revolutionized many areas of biology, but sequencing large
amounts of DNA in many individuals is cost-prohibitive and unnecessary for many studies…

Genomic patterns of introgression in rainbow and westslope cutthroat trout illuminated by overlapping paired‐end RAD sequencing

PA Hohenlohe, MD Day, SJ Amish, MR Miller… - Molecular …, 2013 - Wiley Online Library
Rapid and inexpensive methods for genomewide single nucleotide polymorphism ( SNP )
discovery and genotyping are urgently needed for population management and conservation. …

Legacy introductions and climatic variation explain spatiotemporal patterns of invasive hybridization in a native trout

…, RP Kovach, R Al‐Chokhachy, SJ Amish… - Global Change …, 2017 - Wiley Online Library
Hybridization between invasive and native species, a significant threat to worldwide biodiversity,
is predicted to increase due to climate‐induced expansions of invasive species. Long‐…

Improved detection of rare, endangered and invasive trout in using a new large‐volume sampling method for eDNA capture

…, R Al‐Chokhachy, G Luikart, SJ Amish - Environmental …, 2019 - Wiley Online Library
Environmental DNA (eDNA) detection probability increases with volume of water sampled.
Common approaches for collecting eDNA samples often require many samples since these …

RAD sequencing yields a high success rate for westslope cutthroat and rainbow trout species‐diagnostic SNP assays

SJ Amish, PA Hohenlohe, S Painter… - Molecular ecology …, 2012 - Wiley Online Library
Hybridization with introduced rainbow trout threatens most native westslope cutthroat trout
populations. Understanding the genetic effects of hybridization and introgression requires a …

Increased eDNA detection sensitivity using a novel high‐volume water sampling method

JC Schabacker, SJ Amish, BK Ellis… - Environmental …, 2020 - Wiley Online Library
Environmental DNA analysis has revolutionized the way we study rare, invasive, and
endangered taxa. However, if eDNA testing is to become an increasingly reliable tool, high …

Vive la résistance: genome-wide selection against introduced alleles in invasive hybrid zones

…, HH Neville, CC Muhlfeld, SJ Amish… - … of the Royal …, 2016 - royalsocietypublishing.org
Evolutionary and ecological consequences of hybridization between native and invasive
species are notoriously complicated because patterns of selection acting on non-native alleles …

Signatures of polygenic adaptation associated with climate across the range of a threatened fish species with high genetic connectivity

KA Harrisson, SJ Amish, A Pavlova… - Molecular …, 2017 - Wiley Online Library
Adaptive differences across species’ ranges can have important implications for population
persistence and conservation management decisions. Despite advances in genomic …