Revisiting conservation units for the endangered mountain yellow-legged frog species complex (Rana muscosa, Rana sierrae) using multiple genomic methods

Twelve years of SAMtools and BCFtools

(2021) Petr Danecek et al.   GigaScience

Flow modification associated with reduced genetic health of a river‐breeding frog, Rana boylii

(2021) Ryan A. Peek et al.   Ecosphere

Divergent regional evolutionary histories of a devastating global amphibian pathogen

(2021) Andrew P. Rothstein et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Overwinter behavior, movement, and survival in a recently reintroduced, endangered amphibian, Rana muscosa

(2021) Talisin T. Hammond et al.   JOURNAL FOR NATURE CONSERVATION

Stepping into the past to conserve the future: Archived skin swabs from extant and extirpated populations inform genetic management of an endangered amphibian

(2020) Andrew P. Rothstein et al.   MOLECULAR ECOLOGY

Highly accurate long-read HiFi sequencing data for five complex genomes

(2020) Ting Hon et al.   Scientific Data

RZooRoH : An R package to characterize individual genomic autozygosity and identify homozygous-by-descent segments

(2019) Amandine R. Bertrand et al.   Methods in Ecology and Evolution

The future is now: amplicon sequencing and sequence capture usher in the conservation genomics era

(2019) Mariah H. Meek et al.   Molecular Ecology Resources

Pleistocene glacial cycles drove lineage diversification and fusion in the Yosemite toad ( Anaxyrus canorus )

(2019) Paul A. Maier et al.   EVOLUTION

OUP accepted manuscript

(2018)   BIOINFORMATICS

Inferring Continuous and Discrete Population Genetic Structure Across Space

(2018) Gideon S. Bradburd et al.   GENETICS

Runs of homozygosity: windows into population history and trait architecture

(2018) Francisco C. Ceballos et al.   NATURE REVIEWS GENETICS

Inferring Continuous and Discrete Population Genetic Structure Across Space

(2018) Gideon S. Bradburd et al.   GENETICS

Disease and climate effects on individuals drive post‐reintroduction population dynamics of an endangered amphibian

(2018) Maxwell B. Joseph et al.   Ecosphere

Large-scale recovery of an endangered amphibian despite ongoing exposure to multiple stressors

(2016) Roland A. Knapp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Amphibian molecular ecology and how it has informed conservation

(2015) Evan McCartney-Melstad et al.   MOLECULAR ECOLOGY

Genetic rescue to the rescue

(2015) Andrew R. Whiteley et al.   TRENDS IN ECOLOGY & EVOLUTION

Conservation Genetics and Genomics of Amphibians and Reptiles

(2015) H. Bradley Shaffer et al.   Annual Review of Animal Biosciences

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

How much is new information worth? Evaluating the financial benefit of resolving management uncertainty

(2014) Sean L. Maxwell et al.   JOURNAL OF APPLIED ECOLOGY

De novotranscriptomic analyses for non-model organisms: an evaluation of methods across a multi-species data set

(2013) Sonal Singhal   Molecular Ecology Resources

The precarious persistence of the Endangered Sierra Madre yellow-legged frog Rana muscosa in southern California, USA

(2013) Adam R. Backlin et al.   ORYX

Transcriptome-based exon capture enables highly cost-effective comparative genomic data collection at moderate evolutionary scales

(2012) Ke Bi et al.   BMC GENOMICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Conservation genetics of evolutionary lineages of the endangered mountain yellow-legged frog, Rana muscosa (Amphibia: Ranidae), in southern California

(2011) Sean. D. Schoville et al.   BIOLOGICAL CONSERVATION

Predicting the Probability of Outbreeding Depression

(2011) RICHARD FRANKHAM et al.   CONSERVATION BIOLOGY

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Nowhere to hide: impact of a temperature-sensitive amphibian pathogen along an elevation gradient in the temperate zone

(2011) Roland A. Knapp et al.   Ecosphere

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Genomics and the future of conservation genetics

(2010) Fred W. Allendorf et al.   NATURE REVIEWS GENETICS

Dynamics of an emerging disease drive large-scale amphibian population extinctions

(2010) V. T. Vredenburg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS