Phylogenomic species delimitation and host-symbiont coevolution in the fungus-farming ant genus Sericomyrmex Mayr (Hymenoptera: Formicidae): ultraconserved elements (UCEs) resolve a recent radiation

High-throughput SNP genotyping of historical and modern samples of five bird species via sequence capture of ultraconserved elements

(2016) Haw Chuan Lim et al.   Molecular Ecology Resources

Phylogenomics, biogeography and diversification of obligate mealybug-tending ants in the genus Acropyga

(2016) Bonnie B. Blaimer et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Nutrition mediates the expression of cultivar–farmer conflict in a fungus-growing ant

(2016) Jonathan Z. Shik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparison of Target-Capture and Restriction-Site Associated DNA Sequencing for Phylogenomics: A Test in Cardinalid Tanagers (Aves, Genus:Piranga)

(2016) Joseph D. Manthey et al.   SYSTEMATIC BIOLOGY

Analysis of a Rapid Evolutionary Radiation Using Ultraconserved Elements: Evidence for a Bias in Some Multispecies Coalescent Methods

(2016) Kelly A. Meiklejohn et al.   SYSTEMATIC BIOLOGY

Tales of dracula ants: the evolutionary history of the ant subfamily Amblyoponinae (Hymenoptera: Formicidae)

(2016) PHILIP S. WARD et al.   SYSTEMATIC ENTOMOLOGY

Reciprocal genomic evolution in the ant–fungus agricultural symbiosis

(2016) Sanne Nygaard et al.   Nature Communications

Sequence Capture and Phylogenetic Utility of Genomic Ultraconserved Elements Obtained from Pinned Insect Specimens

(2016) Bonnie B. Blaimer et al.   PLoS One

Phylogenomics and Divergence Dating of Fungus-Farming Ants (Hymenoptera: Formicidae) of the Genera Sericomyrmex and Apterostigma

(2016) Ana Ješovnik et al.   PLoS One

The Most Relictual Fungus-Farming Ant Species Cultivates the Most Recently Evolved and Highly Domesticated Fungal Symbiont Species

(2015) Ted R. Schultz et al.   AMERICAN NATURALIST

PHYLUCE is a software package for the analysis of conserved genomic loci

(2015) Brant C. Faircloth   BIOINFORMATICS

Phylogenomic methods outperform traditional multi-locus approaches in resolving deep evolutionary history: a case study of formicine ants

(2015) Bonnie B. Blaimer et al.   BMC EVOLUTIONARY BIOLOGY

Automatic selection of partitioning schemes for phylogenetic analyses using iterative k-means clustering of site rates

(2015) Paul B Frandsen et al.   BMC EVOLUTIONARY BIOLOGY

Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa

(2015) Marek L. Borowiec et al.   BMC GENOMICS

Reticulate Speciation and Barriers to Introgression in theAnopheles gambiaeSpecies Complex

(2015) Jacob E. Crawford et al.   Genome Biology and Evolution

Evolutionarily advanced ant farmers rear polyploid fungal crops

(2015) P. W. Kooij et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Locating, collecting, and maintaining colonies of fungus-farming ants (Hymenoptera: Myrmicinae: Attini)

(2015) Jeffrey Sosa-Calvo et al.   SOCIOBIOLOGY

Three ways to distinguish species: using behavioural, ecological, and molecular data to tell apart two closely related ants,Camponotus renggeriandCamponotus rufipes(Hymenoptera: Formicidae)

(2015) Mariane U. V. Ronque et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses

(2015) Md Shamsuzzoha Bayzid et al.   PLoS One

ASTRAL: genome-scale coalescent-based species tree estimation

(2014) S. Mirarab et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Variable interaction specificity and symbiont performance in Panamanian Trachymyrmex and Sericomyrmexfungus-growing ants

(2014) Henrik H De Fine Licht et al.   BMC EVOLUTIONARY BIOLOGY

Could pseudogenes be widespread in ants? Evidence of numts in the leafcutter ant Acromyrmex striatus (Roger, 1863) (Formicidae: Attini)

(2014) Maykon Passos Cristiano et al.   COMPTES RENDUS BIOLOGIES

A Social Parasite Evolved Reproductive Isolation from Its Fungus-Growing Ant Host in Sympatry

(2014) Christian Rabeling et al.   CURRENT BIOLOGY

Explosive Adaptive Radiation and Extreme Phenotypic Diversity within Ant-Nest Beetles

(2014) Wendy Moore et al.   CURRENT BIOLOGY

Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among Hymenoptera

(2014) Brant C. Faircloth et al.   Molecular Ecology Resources

The Role of Fusion in Ant Chromosome Evolution: Insights from Cytogenetic Analysis Using a Molecular Phylogenetic Approach in the Genus Mycetophylax

(2014) Danon Clemes Cardoso et al.   PLoS One

A Brazilian Population of the Asexual Fungus-Growing Ant Mycocepurus smithii (Formicidae, Myrmicinae, Attini) Cultivates Fungal Symbionts with Gongylidia-Like Structures

(2014) Virginia E. Masiulionis et al.   PLoS One

Introgression in hybrid ants is favored in females but selected against in males

(2014) J. Kulmuni et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Statistical binning enables an accurate coalescent-based estimation of the avian tree

(2014) S. Mirarab et al.   SCIENCE

Characterization of the Uncertainty of Divergence Time Estimation under Relaxed Molecular Clock Models Using Multiple Loci

(2014) Tianqi Zhu et al.   SYSTEMATIC BIOLOGY

The Impact of the Rate Prior on Bayesian Estimation of Divergence Times with Multiple Loci

(2014) Mario Dos Reis et al.   SYSTEMATIC BIOLOGY

The evolution of myrmicine ants: phylogeny and biogeography of a hyperdiverse ant clade (Hymenoptera: Formicidae)

(2014) PHILIP S. WARD et al.   SYSTEMATIC ENTOMOLOGY

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Leucoagaricus gongylophorus Produces Diverse Enzymes for the Degradation of Recalcitrant Plant Polymers in Leaf-Cutter Ant Fungus Gardens

(2013) Frank O. Aylward et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenomics Resolves Evolutionary Relationships among Ants, Bees, and Wasps

(2013) Brian R. Johnson et al.   CURRENT BIOLOGY

Instability of novel ant-fungal associations constrains horizontal exchange of fungal symbionts

(2013) Jon N. Seal et al.   EVOLUTIONARY ECOLOGY

DNA Barcodes for Species Identification in the Hyperdiverse Ant GenusPheidole(Formicidae: Myrmicinae)

(2013) R.N. Ng'endo et al.   JOURNAL OF INSECT SCIENCE

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

How Much Variation Can One Ant Species Hold? Species Delimitation in the Crematogaster kelleri-Group in Madagascar

(2013) Bonnie B. Blaimer et al.   PLoS One

Target Capture and Massively Parallel Sequencing of Ultraconserved Elements for Comparative Studies at Shallow Evolutionary Time Scales

(2013) Brian Tilston Smith et al.   SYSTEMATIC BIOLOGY

Revision of the Middle American clade of the ant genus Stenamma Westwood (Hymenoptera, Formicidae, Myrmicinae)

(2013) Michael Branstetter   ZooKeys

Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

(2012) M. Kearse et al.   BIOINFORMATICS

Cost-effective, high-throughput DNA sequencing libraries for multiplexed target capture

(2012) N. Rohland et al.   GENOME RESEARCH

Bayesian Phylogenetics with BEAUti and the BEAST 1.7

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

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Not All Sequence Tags Are Created Equal: Designing and Validating Sequence Identification Tags Robust to Indels

(2012) Brant C. Faircloth et al.   PLoS One

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales

(2012) Brant C. Faircloth et al.   SYSTEMATIC BIOLOGY

Symbiont fidelity and the origin of species in fungus-growing ants

(2012) Natasha J. Mehdiabadi et al.   Nature Communications

Symbiotic bacteria on the cuticle of the leaf-cutting ant Acromyrmex subterraneus subterraneus protect workers from attack by entomopathogenic fungi

(2011) T. C. Mattoso et al.   Biology Letters

Transcriptome analysis and comparison reveal divergence between two invasive whitefly cryptic species

(2011) Xiao-Wei Wang et al.   BMC GENOMICS

Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysis

(2011) J. E. McCormack et al.   GENOME RESEARCH

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Mixed colonies and hybridisation of Messor harvester ant species (Hymenoptera: Formicidae)

(2011) Florian M. Steiner et al.   ORGANISMS DIVERSITY & EVOLUTION

Cryptic sexual populations account for genetic diversity and ecological success in a widely distributed, asexual fungus-growing ant

(2011) C. Rabeling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Frontier mutualism: coevolutionary patterns at the northern range limit of the leaf-cutter ant-fungus symbiosis

(2011) U. G. Mueller et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A scalable, fully automated process for construction of sequence-ready human exome targeted capture libraries

(2011) Sheila Fisher et al.   GENOME BIOLOGY

Phylogeny, divergence-time estimation, biogeography and social parasite–host relationships of the Holarctic ant genus Myrmica (Hymenoptera: Formicidae)

(2010) Gunther Jansen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Monoculture of Leafcutter Ant Gardens

(2010) Ulrich G. Mueller et al.   PLoS One

Integrative taxonomy, or iterative taxonomy?

(2010) DAVID K. YEATES et al.   SYSTEMATIC ENTOMOLOGY

Integrative Taxonomy: A Multisource Approach to Exploring Biodiversity

(2009) Birgit C. Schlick-Steiner et al.   Annual Review of Entomology

Thelytokous parthenogenesis, male clonality and genetic caste determination in the little fire ant: new evidence and insights from the lab

(2009) J Foucaud et al.   HEREDITY

Free-living fungal symbionts (Lepiotaceae) of fungus-growing ants (Attini: Formicidae)

(2009) Tanya L. Vo et al.   MYCOLOGIA

Reduced biological control and enhanced chemical pest management in the evolution of fungus farming in ants

(2009) H. Fernandez-Marin et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Accounting for Calibration Uncertainty in Phylogenetic Estimation of Evolutionary Divergence Times

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

Species Delimitation: A Case Study in a Problematic Ant Taxon

(2009) Kenneth G. Ross et al.   SYSTEMATIC BIOLOGY

Evolution of species-specific cuticular hydrocarbon patterns in Formica ants

(2008) STEPHEN J. MARTIN et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

The evolution of genome size in ants

(2008) Neil D Tsutsui et al.   BMC EVOLUTIONARY BIOLOGY

COEVOLUTION BETWEEN ATTINE ANTS AND ACTINOMYCETE BACTERIA: A REEVALUATION

(2008) Ulrich G. Mueller et al.   EVOLUTION

Phylogeography of post-Pleistocene population expansion in a fungus-gardening ant and its microbial mutualists

(2008) Alexander S. Mikheyev et al.   MOLECULAR ECOLOGY

NCBI BLAST: a better web interface

(2008) M. Johnson et al.   NUCLEIC ACIDS RESEARCH

Major evolutionary transitions in ant agriculture

(2008) T. R. Schultz et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

How many species of cichlid fishes are there in African lakes?

(2003) George F. Turner et al.   MOLECULAR ECOLOGY