Reticulate evolution in Conidae: Evidence of nuclear and mitochondrial introgression

Taxonomic revision of West African cone snails (Gastropoda: Conidae) based upon mitogenomic studies: implications for conservation

(2020) Manuel J. Tenorio et al.   European Journal of Taxonomy

Lack of signal for the impact of conotoxin gene diversity on speciation rates in cone snails

(2019) Mark A Phuong et al.   SYSTEMATIC BIOLOGY

Effects of Predator-Prey Interactions on Predator Traits: Differentiation of Diets and Venoms of a Marine Snail

(2019) David A. Weese et al.   Toxins

Evidence for divergent patterns of local selection driving venom variation in Mojave Rattlesnakes (Crotalus scutulatus)

(2018) Jason L. Strickland et al.   Scientific Reports

Evaluation and assessment of read-mapping by multiple next-generation sequencing aligners based on genome-wide characteristics

(2017) Subazini Thankaswamy-Kosalai et al.   GENOMICS

Molecular and morphometric data suggest the presence of a neglected species in the marine gastropod family Conidae

(2017) Alyssa J. Lawler et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Ancient hybridization fuels rapid cichlid fish adaptive radiations

(2017) Joana I. Meier et al.   Nature Communications

Adaptive introgression from distant Caribbean islands contributed to the diversification of a microendemic adaptive radiation of trophic specialist pupfishes

(2017) Emilie J. Richards et al.   PLoS Genetics

TransRate: reference-free quality assessment of de novo transcriptome assemblies

(2016) Richard Smith-Unna et al.   GENOME RESEARCH

Cryptic Species Differentiated in Conus ebraeus, a Widespread Tropical Marine Gastropod

(2016) Thomas F. Duda et al.   BIOLOGICAL BULLETIN

Insights into the origins of fish hunting in venomous cone snails from studies ofConus tessulatus

(2015) Joseph W. Aman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Detection and Polarization of Introgression in a Five-Taxon Phylogeny

(2015) James B. Pease et al.   SYSTEMATIC BIOLOGY

Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads

(2015) Li Song et al.   GigaScience

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Orthology Inference in Nonmodel Organisms Using Transcriptomes and Low-Coverage Genomes: Improving Accuracy and Matrix Occupancy for Phylogenomics

(2014) Ya Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular phylogeny and evolution of the cone snails (Gastropoda, Conoidea)

(2014) N. Puillandre et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Hybridization and speciation

(2013) R. Abbott et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Ancient Admixture in Human History

(2012) N. Patterson et al.   GENETICS

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

Adaptive Introgression across Species Boundaries in Heliconius Butterflies

(2012) Carolina Pardo-Diaz et al.   PLoS Genetics

Testing for Ancient Admixture between Closely Related Populations

(2011) Eric Y. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

ConoServer: updated content, knowledge, and discovery tools in the conopeptide database

(2011) Q. Kaas et al.   NUCLEIC ACIDS RESEARCH

BUCKy: Gene tree/species tree reconciliation with Bayesian concordance analysis

(2010) Bret R. Larget et al.   BIOINFORMATICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Morphology and nuclear markers reveal extensive mitochondrial introgressions in the Iberian Wall Lizard species complex

(2009) JULIEN P. RENOULT et al.   MOLECULAR ECOLOGY

Geographic Variation in Venom Allelic Composition and Diets of the Widespread Predatory Marine Gastropod Conus ebraeus

(2009) Thomas F. Duda et al.   PLoS One

Evolution of ecological specialization and venom of a predatory marine gastropod

(2008) E. A. REMIGIO et al.   MOLECULAR ECOLOGY

Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis

(2008) A. Loytynoja et al.   SCIENCE