Genomewide SNP data reveal cryptic phylogeographic structure and microallopatric divergence in a rapids-adapted clade of cichlids from the Congo River

Past connection of the upper reaches of a Lake Tanganyika tributary with the upper Congo drainage suggested by genetic data of riverine cichlid fishes

(2017) S. Koblmüller et al.   AFRICAN ZOOLOGY

Balancing hydropower and biodiversity in the Amazon, Congo, and Mekong

(2016) K. O. Winemiller et al.   SCIENCE

Sexual selection on color and behavior within and between cichlid populations: Implications for speciation

(2016) Michael J. Pauers et al.   Current Zoology

Phylogenetics ofTeleogramma, a Riverine Clade of African Cichlid Fishes, with a Description of the Deepwater Molluskivore—Teleogramma obamaorum— from the Lower Reaches of the Middle Congo River

(2015) Melanie L.J. Stiassny et al.   AMERICAN MUSEUM NOVITATES

Connectivity and vagility determine spatial richness gradients and diversification of freshwater fish in North America and Europe

(2015) David Griffiths   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Geographical ancestry of Lake Malawi's cichlid fish diversity: Figure 1.

(2015) Martin J. Genner et al.   Biology Letters

Molecular phylogenetics reveals convergent evolution in lower Congo River spiny eels

(2015) S. Elizabeth Alter et al.   BMC EVOLUTIONARY BIOLOGY

High levels of interspecific gene flow in an endemic cichlid fish adaptive radiation from an extreme lake environment

(2015) Antonia G. P. Ford et al.   MOLECULAR ECOLOGY

Quartet Inference from SNP Data Under the Coalescent Model

(2014) Julia Chifman et al.   BIOINFORMATICS

Phylogeny and age of chromidotilapiine cichlids (Teleostei: Cichlidae)

(2014) Julia Schwarzer et al.   HYDROBIOLOGIA

Phylogeographic and phenotypic assessment of a basal haplochromine cichlid fish from Lake Chila, Zambia

(2014) B. Egger et al.   HYDROBIOLOGIA

The genomic substrate for adaptive radiation in African cichlid fish

(2014) David Brawand et al.   NATURE

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

TESTING MITOCHONDRIAL CAPTURE AND DEEP COALESCENCE IN AMAZONIAN CICHLID FISHES (CICHLIDAE:CICHLA)

(2013) Stuart C. Willis et al.   EVOLUTION

The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Molecular and fossil evidence place the origin of cichlid fishes long after Gondwanan rifting

(2013) M. Friedman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

Patterns and processes of global riverine fish endemism

(2012) Pablo A. Tedesco et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Origins of Shared Genetic Variation in African Cichlids

(2012) Yong-Hwee E. Loh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inferring Species Trees Directly from Biallelic Genetic Markers: Bypassing Gene Trees in a Full Coalescent Analysis

(2012) David Bryant et al.   MOLECULAR BIOLOGY AND EVOLUTION

Population genomic signatures of divergent adaptation, gene flow and hybrid speciation in the rapid radiation of Lake Victoria cichlid fishes

(2012) I. Keller et al.   MOLECULAR ECOLOGY

Genome-wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the Lake Victoria cichlid adaptive radiation

(2012) Catherine E. Wagner et al.   MOLECULAR ECOLOGY

The biogeography of mitochondrial and nuclear discordance in animals

(2012) DAVID P. L. TOEWS et al.   MOLECULAR ECOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

Repeated trans-watershed hybridization among haplochromine cichlids (Cichlidae) was triggered by Neogene landscape evolution

(2012) J. Schwarzer et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

How Cichlids Diversify

(2012) M. E. Santos et al.   SCIENCE

The genomics of speciation-with-gene-flow

(2012) Jeffrey L. Feder et al.   TRENDS IN GENETICS

Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

(2012) Joseph K. Pickrell et al.   PLoS Genetics

Enhancements to the ADMIXTURE algorithm for individual ancestry estimation

(2011) David H Alexander et al.   BMC BIOINFORMATICS

Incorporating DNA barcodes into a multi-year inventory of the fishes of the hyperdiverse Lower Congo River, with a multi-gene performance assessment of the genusLabeoas a case study

(2011) Jacob H. Lowenstein et al.   Mitochondrial DNA

Time and Origin of Cichlid Colonization of the Lower Congo Rapids

(2011) Julia Schwarzer et al.   PLoS One

Calibrated Tree Priors for Relaxed Phylogenetics and Divergence Time Estimation

(2011) Joseph Heled et al.   SYSTEMATIC BIOLOGY

DensiTree: making sense of sets of phylogenetic trees

(2010) R. R. Bouckaert   BIOINFORMATICS

Genetic isolation and morphological divergence mediated by high-energy rapids in two cichlid genera from the lower Congo rapids

(2010) Jeffrey A Markert et al.   BMC EVOLUTIONARY BIOLOGY

MorphoJ: an integrated software package for geometric morphometrics

(2010) CHRISTIAN PETER KLINGENBERG   Molecular Ecology Resources

Fast model-based estimation of ancestry in unrelated individuals

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

Complete mitochondrial DNA replacement in a Lake Tanganyika cichlid fish

(2009) B. NEVADO et al.   MOLECULAR ECOLOGY

Rapid radiation, ancient incomplete lineage sorting and ancient hybridization in the endemic Lake Tanganyika cichlid tribe Tropheini

(2009) Stephan Koblmüller et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Reconstructing Indian population history

(2009) David Reich et al.   NATURE

Accounting for Calibration Uncertainty in Phylogenetic Estimation of Evolutionary Divergence Times

(2009) Simon Y. W. Ho et al.   SYSTEMATIC BIOLOGY

DOES FISH ECOLOGY PREDICT DISPERSAL ACROSS A RIVER DRAINAGE DIVIDE?

(2008) Christopher P. Burridge et al.   EVOLUTION

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION