Full mitochondrial genome sequences reveal new insights about post-glacial expansion and regional phylogeographic structure in the Atlantic silverside (Menidia menidia)

Pleistocene divergence across a mountain range and the influence of selection on mitogenome evolution in threatened Australian freshwater cod species

(2016) K Harrisson et al.   HEREDITY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomics of local adaptation with gene flow

(2016) Anna Tigano et al.   MOLECULAR ECOLOGY

Practical low-coverage genomewide sequencing of hundreds of individually barcoded samples for population and evolutionary genomics in nonmodel species

(2016) Nina Overgaard Therkildsen et al.   Molecular Ecology Resources

Comparative analysis of complete mitochondrial genomes suggests that relaxed purifying selection is driving high nonsynonymous evolutionary rate of the NADH2 gene in whitefish ( Coregonus ssp.)

(2016) Magnus W. Jacobsen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The life aquatic: advances in marine vertebrate genomics

(2016) Joanna L. Kelley et al.   NATURE REVIEWS GENETICS

Phylogeographic model selection leads to insight into the evolutionary history of four-eyed frogs

(2016) Maria Tereza C. Thomé et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Positive and purifying selection in mitochondrial genomes of a bird with mitonuclear discordance

(2015) Hernán E. Morales et al.   MOLECULAR ECOLOGY

popart: full-feature software for haplotype network construction

(2015) Jessica W. Leigh et al.   Methods in Ecology and Evolution

DIYABC v2.0: a software to make approximate Bayesian computation inferences about population history using single nucleotide polymorphism, DNA sequence and microsatellite data

(2014) Jean-Marie Cornuet et al.   BIOINFORMATICS

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

So, you want to use next-generation sequencing in marine systems? Insight from the Pan-Pacific Advanced Studies Institute

(2014) DA Willette et al.   BULLETIN OF MARINE SCIENCE

High-throughput sequencing in mitochondrial DNA research

(2014) Fei Ye et al.   MITOCHONDRION

Model choice for phylogeographic inference using a large set of models

(2014) Tara A. Pelletier et al.   MOLECULAR ECOLOGY

Defining conservation units in a stocking-induced genetic melting pot: unraveling native and multiple exotic genetic imprints of recent and historical secondary contact in Adriatic grayling

(2014) Andreas Meraner et al.   Ecology and Evolution

Mitochondrial DNA differentiation between populations of black sea bass (Centropristis striata) across Cape Hatteras, North Carolina (USA)

(2013) Michael A. McCartney et al.   JOURNAL OF BIOGEOGRAPHY

MitoFish and MitoAnnotator: A Mitochondrial Genome Database of Fish with an Accurate and Automatic Annotation Pipeline

(2013) W. Iwasaki et al.   MOLECULAR BIOLOGY AND EVOLUTION

Going where traditional markers have not gone before: utility of and promise for RAD sequencing in marine invertebrate phylogeography and population genomics

(2013) A. M. Reitzel et al.   MOLECULAR ECOLOGY

A species-to-be? The genetic status and colonization history of the critically endangered Killarney shad

(2013) Ilaria Coscia et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Whole mitochondrial genome scan for population structure and selection in the Atlantic herring

(2012) Amber GF Teacher et al.   BMC EVOLUTIONARY BIOLOGY

Spatial scale and divergent patterns of variation in adapted traits in the ocean

(2012) Lyndie A. Hice et al.   ECOLOGY LETTERS

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

(2012) Alexei J. Drummond et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Population genetic structure and phylogeography of Mesokalliapseudes macsweenyi (Crustacea: Tanaidacea) in the northwestern Atlantic and Gulf of Mexico

(2011) David T. Drumm et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Genetic Structure and the North American Postglacial Expansion of the Barnacle, Semibalanus balanoides

(2011) Patrick A. Flight et al.   JOURNAL OF HEREDITY

Structure of the membrane domain of respiratory complex I

(2011) Rouslan G. Efremov et al.   NATURE

Phylogeographic analysis reveals a deep lineage split within North Atlantic Littorina saxatilis

(2011) M. M. Doellman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Post-glacial partitioning of mitochondrial genetic variation in the field vole

(2011) J. S. Herman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Local Adaptation in Marine Invertebrates

(2010) Eric Sanford et al.   Annual Review of Marine Science

High connectivity among locally adapted populations of a marine fish (Menidia menidia)

(2010) Lora M. Clarke et al.   ECOLOGY

Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species

(2010) P. A. Morin et al.   GENOME RESEARCH

Regional differentiation and post-glacial expansion of the Atlantic silverside, Menidia menidia, an annual fish with high dispersal potential

(2010) Megan E. Mach et al.   MARINE BIOLOGY

Of glaciers and refugia: a decade of study sheds new light on the phylogeography of northwestern North America

(2010) AARON B. A. SHAFER et al.   MOLECULAR ECOLOGY

Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

(2010) LAURENT EXCOFFIER et al.   Molecular Ecology Resources

The Covariance between Genetic and Environmental Influences across Ecological Gradients

(2009) David O. Conover et al.   Annals of the New York Academy of Sciences

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

Phenotype–environment mismatches reduce connectivity in the sea

(2009) D. J. Marshall et al.   ECOLOGY LETTERS

PERSPECTIVE: The role of experiments in understanding fishery-induced evolution

(2009) David O. Conover et al.   Evolutionary Applications

Funds enough, and time: mtDNA, nuDNA and the discovery of divergence

(2009) GEORGE F. BARROWCLOUGH et al.   MOLECULAR ECOLOGY

Looking forwards or looking backwards in avian phylogeography? A comment on Zink and Barrowclough 2008

(2009) SCOTT EDWARDS et al.   MOLECULAR ECOLOGY

Phylogeography’s past, present, and future: 10 years after Avise, 2000

(2009) M.J. Hickerson et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Refugia revisited: individualistic responses of species in space and time

(2009) J. R. Stewart et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Last Glacial Maximum

(2009) P. U. Clark et al.   SCIENCE

Limited genetic variation and structure in softshell clams (Mya arenaria) across their native and introduced range

(2008) C. A. Strasser et al.   CONSERVATION GENETICS

EVALUATING SIGNATURES OF GLACIAL REFUGIA FOR NORTH ATLANTIC BENTHIC MARINE TAXA

(2008) Christine A. Maggs et al.   ECOLOGY

Intraspecific Phylogeographic Genomics From Multiple Complete mtDNA Genomes in Atlantic Cod (Gadus morhua): Origins of the "Codmother," Transatlantic Vicariance and Midglacial Population Expansion

(2008) S. M. Carr et al.   GENETICS

Microrefugia

(2008) Valentí Rull   JOURNAL OF BIOGEOGRAPHY

Geological Dates and Molecular Rates: Fish DNA Sheds Light on Time Dependency

(2008) C. P. Burridge et al.   MOLECULAR BIOLOGY AND EVOLUTION

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION

Mitochondrial DNA under siege in avian phylogeography

(2008) ROBERT M. ZINK et al.   MOLECULAR ECOLOGY

Interrelationships of Atherinomorpha (medakas, flyingfishes, killifishes, silversides, and their relatives): The first evidence based on whole mitogenome sequences

(2008) Davin H.E. Setiamarga et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

High-Resolution Greenland Ice Core Data Show Abrupt Climate Change Happens in Few Years

(2008) J. P. Steffensen et al.   SCIENCE

Phylogeographic insights into cryptic glacial refugia

(2008) J PROVAN et al.   TRENDS IN ECOLOGY & EVOLUTION

Ice-age survival of Atlantic cod: agreement between palaeoecology models and genetics

(2007) G. R Bigg et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES