Genomic sequencing confirms absence of introgression despite past hybridisation between a critically endangered bird and its common congener

To mix or not to mix gene pools for threatened species management? Few studies use genetic data to examine the risks of both actions, but failing to do so leads disproportionately to recommendations for separate management

(2021) Erin Liddell et al.   BIOLOGICAL CONSERVATION

A comparison of pedigree, genetic and genomic estimates of relatedness for informing pairing decisions in two critically endangered birds: Implications for conservation breeding programmes worldwide

(2020) Stephanie J. Galla et al.   Evolutionary Applications

Rare coral under the genomic microscope: timing and relationships among Hawaiian Montipora

(2019) Regina L. Cunha et al.   BMC EVOLUTIONARY BIOLOGY

Impact of reduced-representation sequencing protocols on detecting population structure in a threatened marsupial

(2019) B. R. Wright et al.   MOLECULAR BIOLOGY REPORTS

Genomics detects population structure within and between ocean basins in a circumpolar seabird: the white‐chinned petrel

(2019) Kalinka Rexer‐Huber et al.   MOLECULAR ECOLOGY

Invasion genomics supports an old hybrid swarm of pool frogs in Western Europe

(2019) Christophe Dufresnes et al.   BIOLOGICAL INVASIONS

Hybridization between two parapatric ranid frog species in the northern Sierra Nevada, California, USA

(2019) Ryan A. Peek et al.   MOLECULAR ECOLOGY

Persistence of an endangered native duck, feral mallards, and multiple hybrid swarms across the main Hawaiian Islands

(2019) Caitlin P. Wells et al.   MOLECULAR ECOLOGY

Population Genomics of Bettongia lesueur: Admixing Increases Genetic Diversity with no Evidence of Outbreeding Depression

(2019) Kate Rick et al.   Genes

Effect of hybridization with genome exclusion on extinction risk

(2018) Claudio S. Quilodrán et al.   CONSERVATION BIOLOGY

Empirical comparison of microsatellite and SNP markers to estimate introgression in Apis mellifera mellifera

(2018) Melanie Parejo et al.   JOURNAL OF APICULTURAL RESEARCH

A High-Quality, Long-Read De Novo Genome Assembly to Aid Conservation of Hawaii’s Last Remaining Crow Species

(2018) Jolene T. Sutton et al.   Genes

Genomic data recover previously undetectable fragmentation effects in an endangered amphibian

(2018) Evan McCartney-Melstad et al.   MOLECULAR ECOLOGY

Reference Genomes from Distantly Related Species Can Be Used for Discovery of Single Nucleotide Polymorphisms to Inform Conservation Management

(2018) Stephanie J. Galla et al.   Genes

Genomic signatures of evolution in Nautilus -An endangered living fossil

(2017) David J. Combosch et al.   MOLECULAR ECOLOGY

Redefining the Role of Admixture and Genomics in Species Conservation

(2017) Bridgett M. vonHoldt et al.   Conservation Letters

Population genomic data delineate conservation units in mottled ducks ( Anas fulvigula )

(2016) Jeffrey L. Peters et al.   BIOLOGICAL CONSERVATION

Plumage Genes and Little Else Distinguish the Genomes of Hybridizing Warblers

(2016) David P.L. Toews et al.   CURRENT BIOLOGY

Genomic Consequences of Population Decline in the Endangered Florida Scrub-Jay

(2016) Nancy Chen et al.   CURRENT BIOLOGY

Hybridization and extinction

(2016) Marco Todesco et al.   Evolutionary Applications

Origin of a cryptic lineage in a threatened reptile through isolation and historical hybridization

(2016) M G Sovic et al.   HEREDITY

Building strong relationships between conservation genetics and primary industry leads to mutually beneficial genomic advances

(2016) Stephanie J. Galla et al.   MOLECULAR ECOLOGY

Scope for genetic rescue of an endangered subspecies though re-establishing natural gene flow with another subspecies

(2016) Katherine A. Harrisson et al.   MOLECULAR ECOLOGY

Hybridization and endangered species protection in the molecular era

(2016) Robert K. Wayne et al.   MOLECULAR ECOLOGY

pophelper: an R package and web app to analyse and visualize population structure

(2016) R. M. Francis   Molecular Ecology Resources

Harnessing the power of RADseq for ecological and evolutionary genomics

(2016) Kimberly R. Andrews et al.   NATURE REVIEWS GENETICS

Adaptive introgression as a resource for management and genetic conservation in a changing climate

(2015) Jill A. Hamilton et al.   CONSERVATION BIOLOGY

A framework to guide the conservation of species hybrids based on ethical and ecological considerations

(2015) Raeya N. Jackiw et al.   CONSERVATION BIOLOGY

Valid estimates of individual inbreeding coefficients from marker-based pedigrees are not feasible in wild populations with low allelic diversity

(2015) Helen R. Taylor et al.   CONSERVATION GENETICS

Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse

(2015) Clio Der Sarkissian et al.   CURRENT BIOLOGY

Measuring individual inbreeding in the age of genomics: marker-based measures are better than pedigrees

(2015) M Kardos et al.   HEREDITY

The use and abuse of genetic marker-based estimates of relatedness and inbreeding

(2015) Helen R. Taylor   Ecology and Evolution

Clarifying values, risk perceptions, and attitudes to resolve or avoid social conflicts in invasive species management

(2014) Rodrigo A. Estévez et al.   CONSERVATION BIOLOGY

Genetic evidence of hybridization between the critically endangered Cuban crocodile and the American crocodile: implications for population history and in situ/ex situ conservation

(2014) Y Milián-García et al.   HEREDITY

UpSet: Visualization of Intersecting Sets

(2014) Alexander Lex et al.   IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS

A comparison of single nucleotide polymorphism and microsatellite markers for analysis of parentage and kinship in a cooperatively breeding bird

(2014) Lucia R. Weinman et al.   Molecular Ecology Resources

Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications

(2014) Andy Rimmer et al.   NATURE GENETICS

TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline

(2014) Jeffrey C. Glaubitz et al.   PLoS One

Hybridization in a warmer world

(2014) Amanda J. Chunco   Ecology and Evolution

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

(2013) Paul A. Hohenlohe et al.   MOLECULAR ECOLOGY

Genotyping-by-sequencing in ecological and conservation genomics

(2013) Shawn R. Narum et al.   MOLECULAR ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

Population genomics as a new tool for wildlife management

(2012) ZACHARIAH GOMPERT   MOLECULAR ECOLOGY

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

(2011) Thibaut Jombart 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

The value of species rarity in biodiversity recreation: A birdwatching example

(2011) Josephine E. Booth et al.   BIOLOGICAL CONSERVATION

RADSeq: next-generation population genetics

(2011) J. W. Davey et al.   Briefings in Functional Genomics

The Potential Conservation Value of Non-Native Species

(2011) MARTIN A. SCHLAEPFER et al.   CONSERVATION BIOLOGY

Conservation genetic management of a critically endangered New Zealand endemic bird: minimizing inbreeding in the Black Stilt Himantopus novaezelandiae

(2011) ERIN N. HAGEN et al.   IBIS

An empirical comparison of SNPs and microsatellites for parentage and kinship assignment in a wild sockeye salmon (Oncorhynchus nerka) population

(2011) LORENZ HAUSER et al.   Molecular Ecology Resources

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Genome-Wide Polymorphism and Comparative Analyses in the White-Tailed Deer (Odocoileus virginianus): A Model for Conservation Genomics

(2011) Christopher M. Seabury et al.   PLoS One

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Speciation genetics of biological invasions with hybridization

(2010) ROBB T. BRUMFIELD   MOLECULAR ECOLOGY

Genetic analyses reveal hybridization but no hybrid swarm in one of the world’s rarest birds

(2010) TAMMY E. STEEVES et al.   MOLECULAR ECOLOGY

On the use of large marker panels to estimate inbreeding and relatedness: empirical and simulation studies of a pedigreed zebra finch population typed at 771 SNPs

(2010) ANNA W. SANTURE et al.   MOLECULAR ECOLOGY

Genomics and the future of conservation genetics

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

Rapid spread of invasive genes into a threatened native species

(2010) Benjamin M. Fitzpatrick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

From Conservation Genetics to Conservation Genomics

(2009) Craig R. Primmer   Annals of the New York Academy of Sciences

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Perspective: conservation genetics enters the genomics era

(2009) John C. Avise   CONSERVATION GENETICS

Fast model-based estimation of ancestry in unrelated individuals

(2009) D. H. Alexander et al.   GENOME RESEARCH

Effectiveness of microsatellite and SNP markers for parentage and identity analysis in species with low genetic diversity: the case of European bison

(2009) M Tokarska et al.   HEREDITY

The sequence and de novo assembly of the giant panda genome

(2009) Ruiqiang Li et al.   NATURE

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

(2008) Thibaut Jombart   BIOINFORMATICS

Why Intrinsic Value Is a Poor Basis for Conservation Decisions

(2008) Lynn A. Maguire et al.   BIOSCIENCE

The total economic value of threatened, endangered and rare species: An updated meta-analysis

(2008) Leslie Richardson et al.   ECOLOGICAL ECONOMICS

To what extent do microsatellite markers reflect genome-wide genetic diversity in natural populations?

(2008) ÜLO VÄLI et al.   MOLECULAR ECOLOGY

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One