Whole‐genome sequencing approaches for conservation biology: Advantages, limitations and practical recommendations

AP Fuentes‐Pardo, DE Ruzzante - Molecular ecology, 2017 - Wiley Online Library
Whole‐genome resequencing (WGR) is a powerful method for addressing fundamental
evolutionary biology questions that have not been fully resolved using traditional methods …

Sequencing pools of individuals—mining genome-wide polymorphism data without big funding

C Schlötterer, R Tobler, R Kofler, V Nolte - Nature Reviews Genetics, 2014 - nature.com
The analysis of polymorphism data is becoming increasingly important as a complementary
tool to classical genetic analyses. Nevertheless, despite plunging sequencing costs …

Direct observation of adaptive tracking on ecological time scales in Drosophila

SM Rudman, SI Greenblum, S Rajpurohit… - Science, 2022 - science.org
Direct observation of evolution in response to natural environmental change can resolve
fundamental questions about adaptation, including its pace, temporal dynamics, and …

Oak genome reveals facets of long lifespan

C Plomion, JM Aury, J Amselem, T Leroy, F Murat… - Nature plants, 2018 - nature.com
Oaks are an important part of our natural and cultural heritage. Not only are they ubiquitous
in our most common landscapes but they have also supplied human societies with …

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 …

A rhesus macaque model of Asian-lineage Zika virus infection

DM Dudley, MT Aliota, EL Mohr, AM Weiler… - Nature …, 2016 - nature.com
Abstract Infection with Asian-lineage Zika virus (ZIKV) has been associated with Guillain–
Barré syndrome and fetal abnormalities, but the underlying mechanisms remain poorly …

Genome-wide genetic marker discovery and genoty** using next-generation sequencing

JW Davey, PA Hohenlohe, PD Etter, JQ Boone… - Nature Reviews …, 2011 - nature.com
The advent of next-generation sequencing (NGS) has revolutionized genomic and
transcriptomic approaches to biology. These new sequencing tools are also valuable for the …

Estimating genomic diversity and population differentiation – an empirical comparison of microsatellite and SNP variation in Arabidopsis halleri

MC Fischer, C Rellstab, M Leuzinger, M Roumet… - BMC genomics, 2017 - Springer
Background Microsatellite markers are widely used for estimating genetic diversity within
and differentiation among populations. However, it has rarely been tested whether such …

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)

R Kofler, RV Pandey, C Schlötterer - Bioinformatics, 2011 - academic.oup.com
Sequencing pooled DNA samples (Pool-Seq) is the most cost-effective approach for the
genome-wide comparison of population samples. Here, we introduce PoPoolation2, the first …

Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares

MR Jones, LS Mills, PC Alves, CM Callahan, JM Alves… - Science, 2018 - science.org
Snowshoe hares (Lepus americanus) maintain seasonal camouflage by molting to a white
winter coat, but some hares remain brown during the winter in regions with low snow cover …