Spatial, climate and ploidy factors drive genomic diversity and resilience in the widespread grass Themeda triandra

Ploidy affects the seed, dormancy and seedling characteristics of a perennial grass, conferring an advantage in stressful climates

(2020) Amelia V. Stevens et al.   PLANT BIOLOGY

‘At the crossroads towards polyploidy’: Genomic divergence and extent of homoploid hybridisation are drivers for the formation of the ox-eye daisy polyploid complex (Leucanthemum , Compositae-Anthemideae)

(2019) Florian Wagner et al.   NEW PHYTOLOGIST

Polyploidy-related differential gene expression between diploid and synthesized allotriploid and allotetraploid hybrids of Populus

(2019) Guo Liqin et al.   MOLECULAR BREEDING

Standing genomic variation within coding and regulatory regions contributes to the adaptive capacity to climate in a foundation tree species

(2019) Collin W. Ahrens et al.   MOLECULAR ECOLOGY

Local and regional scale habitat heterogeneity contribute to genetic adaptation in a commercially important marine mollusc ( Haliotis rubra ) from southeastern Australia

(2019) A. D. Miller et al.   MOLECULAR ECOLOGY

The potential of genomics for restoring ecosystems and biodiversity

(2019) Martin F. Breed et al.   NATURE REVIEWS GENETICS

Genetic Diversity of Verticillium dahliae Isolates from Mint Detected with Genotyping by Sequencing

(2019) Jeremiah K. S. Dung et al.   PHYTOPATHOLOGY

QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient

(2019) David B. Lowry et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Polyploid plants have faster rates of multivariate niche differentiation than their diploid relatives

(2019) Anthony E. Baniaga et al.   ECOLOGY LETTERS

Adaptational lag to temperature in valley oak (Quercus lobata) can be mitigated by genome-informed assisted gene flow

(2019) Luke Browne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Comprehensive Workflow for Read Depth-Based Identification of Copy-Number Variation from Whole-Genome Sequence Data

(2018) Brett Trost et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Axe: rapid, competitive sequence read demultiplexing using a trie

(2018) Kevin D Murray et al.   BIOINFORMATICS

NanoPack: visualizing and processing long-read sequencing data

(2018) Wouter De Coster et al.   BIOINFORMATICS

Differential expression of photosynthesis-related genes in pentaploid interspecific hybrid and its decaploid of Fragaria spp.

(2018) Tao Wang et al.   Genes & Genomics

The Analysis of Polyploid Genetic Data

(2018) Patrick G Meirmans et al.   JOURNAL OF HEREDITY

The Neutral Theory in Light of Natural Selection

(2018) Andrew D Kern et al.   MOLECULAR BIOLOGY AND EVOLUTION

Widespread ancient whole-genome duplications in Malpighiales coincide with Eocene global climatic upheaval

(2018) Liming Cai et al.   NEW PHYTOLOGIST

Genomic signals of selection predict climate-driven population declines in a migratory bird

(2018) Rachael A. Bay et al.   SCIENCE

Landscape genomic prediction for restoration of a Eucalyptus foundation species under climate change

(2018) Megan Ann Supple et al.   eLife

Impacts of recent climate change on terrestrial flora and fauna: Some emerging Australian examples

(2018) Ary A. Hoffmann et al.   AUSTRAL ECOLOGY

Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae)

(2018) Billie A. Gould et al.   BMC GENOMICS

Local adaptation, genetic divergence, and experimental selection in a foundation grass across the US Great Plains’ climate gradient

(2018) Matthew Galliart et al.   GLOBAL CHANGE BIOLOGY

A natural heating experiment: Phenotypic and genotypic responses of plant phenology to geothermal soil warming

(2018) Alicia Valdés et al.   GLOBAL CHANGE BIOLOGY

Functional trait divergence and trait plasticity confer polyploid advantage in heterogeneous environments

(2018) Na Wei et al.   NEW PHYTOLOGIST

Genomic Scans across Three Eucalypts Suggest that Adaptation to Aridity is a Genome-Wide Phenomenon

(2017) Dorothy A. Steane et al.   Genome Biology and Evolution

WorldClim 2: new 1-km spatial resolution climate surfaces for global land areas

(2017) Stephen E. Fick et al.   INTERNATIONAL JOURNAL OF CLIMATOLOGY

Genomic Studies of Local Adaptation in Natural Plant Populations

(2017) Victoria L Sork   JOURNAL OF HEREDITY

Evidence of genomic adaptation to climate in Eucalyptus microcarpa : Implications for adaptive potential to projected climate change

(2017) Rebecca Jordan et al.   MOLECULAR ECOLOGY

Detection of individual ploidy levels with genotyping-by-sequencing (GBS) analysis

(2017) Zachariah Gompert et al.   Molecular Ecology Resources

The evolutionary significance of polyploidy

(2017) Yves Van de Peer et al.   NATURE REVIEWS GENETICS

Ploidy-dependent changes in the epigenome of symbiotic cells correlate with specific patterns of gene expression

(2017) Marianna Nagymihály et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Empirical evidence of fixed and homeostatic patterns of polyploid advantage in a keystone grass exposed to drought and heat stress

(2017) Robert C. Godfree et al.   Royal Society Open Science

The recent and rapid spread of Themeda triandra

(2017) Luke T. Dunning et al.   Botany Letters

vcfr: a package to manipulate and visualize variant call format data in R

(2016) Brian J. Knaus et al.   Molecular Ecology Resources

The challenge of separating signatures of local adaptation from those of isolation by distance and colonization history: The case of two white pines

(2016) Simon Nadeau et al.   Ecology and Evolution

Dissecting Gene Expression Changes Accompanying a Ploidy-Based Phenotypic Switch

(2016) Gareth A. Cromie et al.   G3-Genes Genomes Genetics

Determining the Effect of Natural Selection on Linked Neutral Divergence across Species

(2016) Tanya N. Phung et al.   PLoS Genetics

Constraints to and conservation implications for climate change adaptation in plants

(2015) Matthew J. Christmas et al.   CONSERVATION GENETICS

Genotypic variation in foundation species generates network structure that may drive community dynamics and evolution

(2015) Matthew K. Lau et al.   ECOLOGY

Intraspecific variation of a dominant grass and local adaptation in reciprocal garden communities along a US Great Plains' precipitation gradient: implications for grassland restoration with climate change

(2015) Loretta C. Johnson et al.   Evolutionary Applications

Climate-driven diversity loss in a grassland community

(2015) Susan P. Harrison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide scans reveal cryptic population structure in a dry-adapted eucalypt

(2015) Dorothy A. Steane et al.   Tree Genetics & Genomes

LEA: AnRpackage for landscape and ecological association studies

(2015) Eric Frichot et al.   Methods in Ecology and Evolution

Adaptations between Ecotypes and along Environmental Gradients in Panicum virgatum

(2014) David B. Lowry et al.   AMERICAN NATURALIST

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Ecological genomics meets community-level modelling of biodiversity: mapping the genomic landscape of current and future environmental adaptation

(2014) Matthew C. Fitzpatrick et al.   ECOLOGY LETTERS

Fast and Efficient Estimation of Individual Ancestry Coefficients

(2014) Eric Frichot et al.   GENETICS

Population genomic variation reveals roles of history, adaptation and ploidy in switchgrass

(2014) Paul P. Grabowski et al.   MOLECULAR ECOLOGY

Ecotypes of an ecologically dominant prairie grass (Andropogon gerardii) exhibit genetic divergence across the U.S. Midwest grasslands' environmental gradient

(2014) Miranda M. Gray et al.   MOLECULAR ECOLOGY

MEMGENE: Spatial pattern detection in genetic distance data

(2014) Paul Galpern et al.   Methods in Ecology and Evolution

Themeda triandra: a keystone grass species

(2013) Hennie A Snyman et al.   AFRICAN JOURNAL OF RANGE & FORAGE SCIENCE

GENETIC ISOLATION BY ENVIRONMENT OR DISTANCE: WHICH PATTERN OF GENE FLOW IS MOST COMMON?

(2013) Jason P. Sexton et al.   EVOLUTION

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Are Plant Species Able to Keep Pace with the Rapidly Changing Climate?

(2013) Sarah Cunze et al.   PLoS One

A tropical grass resource for pasture improvement and landscape management:Themeda triandraForssk

(2012) M. Dell'Acqua et al.   GRASS AND FORAGE SCIENCE

The effects of inheritance in tetraploids on genetic diversity and population divergence

(2012) P G Meirmans et al.   HEREDITY

Genetic diversity of a dominant C4 grass is altered with increased precipitation variability

(2012) Meghan L. Avolio et al.   OECOLOGIA

Increased Phenotypic Plasticity to Climate May Have Boosted the Invasion Success of Polyploid Centaurea stoebe

(2012) Min A. Hahn et al.   PLoS One

Widespread Triploidy in Western North American Aspen (Populus tremuloides)

(2012) Karen E. Mock et al.   PLoS One

Differential effects of polyploidy and diploidy on fitness of apomictic Boechera

(2012) Marie-Luise Voigt-Zielinski et al.   SEXUAL PLANT REPRODUCTION

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Assessing the benefits and risks of translocations in changing environments: a genetic perspective

(2011) Andrew R. Weeks et al.   Evolutionary Applications

Post-glacial evolution of Panicum virgatum: centers of diversity and gene pools revealed by SSR markers and cpDNA sequences

(2011) Yunwei Zhang et al.   GENETICA

Genomic diversity in switchgrass (Panicum virgatum): from the continental scale to a dune landscape

(2011) GEOFFREY P. MORRIS et al.   MOLECULAR ECOLOGY

Effects of foundation species genotypic diversity on subordinate species richness in an assembling community

(2011) David J. Gibson et al.   OIKOS

Polyploidy and ecological adaptation in wild yarrow

(2011) J. Ramsey   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Beyond Predictions: Biodiversity Conservation in a Changing Climate

(2011) T. P. Dawson et al.   SCIENCE

Building evolutionary resilience for conserving biodiversity under climate change

(2010) Carla M. Sgrò et al.   Evolutionary Applications

Evolutionary consequences of autopolyploidy

(2010) Christian Parisod et al.   NEW PHYTOLOGIST

The Origins of C4 Grasslands: Integrating Evolutionary and Ecosystem Science

(2010) E. J. Edwards et al.   SCIENCE

Seed dynamics of Themeda triandra in the montane grasslands of South Africa

(2009) TM Everson et al.   AFRICAN JOURNAL OF RANGE & FORAGE SCIENCE

The frequency of polyploid speciation in vascular plants

(2009) T. E. Wood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Seed supply for broadscale restoration: maximizing evolutionary potential

(2008) Linda M. Broadhurst et al.   Evolutionary Applications