Molecular adaptation and convergent evolution of frugivory in Old World and neotropical fruit bats

Parallel molecular evolution in pathways, genes, and sites in high-elevation hummingbirds revealed by comparative transcriptomics

(2019) Marisa C W Lim et al.   Genome Biology and Evolution

Independent amylase gene copy number bursts correlate with dietary preferences in mammals

(2019) Petar Pajic et al.   eLife

Evolution of digestive enzymes and dietary diversification in birds

(2019) Yan-Hong Chen et al.   PeerJ

Trehalase Gene as a Molecular Signature of Dietary Diversification in Mammals

(2019) Hengwu Jiao et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Paradox Behind the Pattern of Rapid Adaptive Radiation: How Can the Speciation Process Sustain Itself Through an Early Burst?

(2019) Christopher H. Martin et al.   Annual Review of Ecology Evolution and Systematics

Diet and adaptive evolution of alanine-glyoxylate aminotransferase mitochondrial targeting in birds

(2019) Bing-Jun Wang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evaluating the performance of targeted sequence capture, RNA‐Seq, and degenerate‐primer PCR cloning for sequencing the largest mammalian multigene family

(2019) Laurel R. Yohe et al.   Molecular Ecology Resources

Accurate Detection of Convergent Amino-Acid Evolution with PCOC

(2018) Carine Rey et al.   MOLECULAR BIOLOGY AND EVOLUTION

A genomics approach reveals insights into the importance of gene losses for mammalian adaptations

(2018) Virag Sharma et al.   Nature Communications

Bat Biology, Genomes, and the Bat1K Project: To Generate Chromosome-Level Genomes for All Living Bat Species

(2018) Emma C. Teeling et al.   Annual Review of Animal Biosciences

Chitinase genes ( CHIA s) provide genomic footprints of a post-Cretaceous dietary radiation in placental mammals

(2018) Christopher A. Emerling et al.   Science Advances

Lineage-specific duplication and adaptive evolution of bitter taste receptor genes in bats

(2018) Hengwu Jiao et al.   MOLECULAR ECOLOGY

Ancient convergent losses of Paraoxonase 1 yield potential risks for modern marine mammals

(2018) Wynn K. Meyer et al.   SCIENCE

BAIAP3, a C2 domain–containing Munc13 protein, controls the fate of dense-core vesicles in neuroendocrine cells

(2017) Xingmin Zhang et al.   JOURNAL OF CELL BIOLOGY

A Missense Mutation in the Extracellular Domain ofαENaC Causes Liddle Syndrome

(2017) Mahdi Salih et al.   JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY

Comparative genomics reveals convergent evolution between the bamboo-eating giant and red pandas

(2017) Yibo Hu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Neuronostatin acts via GPR107 to increase cAMP-independent PKA phosphorylation and proglucagon mRNA accumulation in pancreatic α-cells

(2016) Mollisa M. Elrick et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Polyhydramnios, Transient Antenatal Bartter’s Syndrome, andMAGED2Mutations

(2016) Kamel Laghmani et al.   NEW ENGLAND JOURNAL OF MEDICINE

PROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels

(2015) Yongwook Choi et al.   BIOINFORMATICS

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Birds Generally Carry a Small Repertoire of Bitter Taste Receptor Genes

(2015) Kai Wang et al.   Genome Biology and Evolution

Determining the Null Model for Detecting Adaptive Convergence from Genomic Data: A Case Study using Echolocating Mammals

(2015) G. W. C. Thomas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Are Convergent and Parallel Amino Acid Substitutions in Protein Evolution More Prevalent Than Neutral Expectations?

(2015) Zhengting Zou et al.   MOLECULAR BIOLOGY AND EVOLUTION

Extreme obesity is associated with variation in genes related to the circadian rhythm of food intake and hypothalamic signaling

(2015) Edwin C. M. Mariman et al.   PHYSIOLOGICAL GENOMICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

EltonTraits 1.0: Species-level foraging attributes of the world's birds and mammals

(2014) Hamish Wilman et al.   ECOLOGY

In vitro, long-range sequence information for de novo genome assembly via transposase contiguity

(2014) Andrew Adey et al.   GENOME RESEARCH

Frequent Expansions of the Bitter Taste Receptor Gene Repertoire during Evolution of Mammals in the Euarchontoglires Clade

(2014) Takashi Hayakawa et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Cluster of Olfactory Receptor Genes Linked to Frugivory in Bats

(2014) Sara Hayden et al.   MOLECULAR BIOLOGY AND EVOLUTION

Dynamic recruitment of amino acid transporters to the insect/symbiont interface

(2014) Rebecca P. Duncan et al.   MOLECULAR ECOLOGY

Vampire bats exhibit evolutionary reduction of bitter taste receptor genes common to other bats

(2014) W. Hong et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evolution of sweet taste perception in hummingbirds by transformation of the ancestral umami receptor

(2014) M. W. Baldwin et al.   SCIENCE

Identification of the SPLUNC1 ENaC-inhibitory domain yields novel strategies to treat sodium hyperabsorption in cystic fibrosis airway epithelial cultures

(2013) Carey A. Hobbs et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Diet Shapes the Evolution of the Vertebrate Bitter Taste Receptor Gene Repertoire

(2013) Diyan Li et al.   MOLECULAR BIOLOGY AND EVOLUTION

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(2013) Sonja Wojcik et al.   MOLECULAR MEDICINE

Insectivorous Bats Digest Chitin in the Stomach Using Acidic Mammalian Chitinase

(2013) Sara Strobel et al.   PLoS One

The king cobra genome reveals dynamic gene evolution and adaptation in the snake venom system

(2013) F. J. Vonk et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Evidence for an interaction of neuronostatin with the orphan G protein-coupled receptor, GPR107

(2012) Gina L. C. Yosten et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Ecological Physiology of Diet and Digestive Systems

(2011) William H. Karasov et al.   Annual Review of Physiology

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Regulation of the Bcas1 and Baiap3 transcripts in the subthalamic nucleus in mice recovering from MPTP toxicity

(2011) J.B. Lauridsen et al.   NEUROSCIENCE RESEARCH

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

Evolutionary Adaptations to Dietary Changes

(2010) F. Luca et al.   Annual Review of Nutrition

Sources of Assimilated Proteins in Old and New World Phytophagous Bats

(2010) Christian C. Voigt et al.   BIOTROPICA

Per-arnt-sim (PAS) domain-containing protein kinase is downregulated in human islets in type 2 diabetes and regulates glucagon secretion

(2010) G. da Silva Xavier et al.   DIABETOLOGIA

Fruit bats (Pteropodidae) fuel their metabolism rapidly and directly with exogenous sugars

(2010) O. Amitai et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Evolution of the Sweet Taste Receptor Gene Tas1r2 in Bats

(2010) H. Zhao et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Ecological adaptation determines functional mammalian olfactory subgenomes

(2009) S. Hayden et al.   GENOME RESEARCH

Triad of polar residues implicated in pH specificity of acidic mammalian chitinase

(2009) Andrea M. Olland et al.   PROTEIN SCIENCE

Extensive Copy-Number Variation of the Human Olfactory Receptor Gene Family

(2008) Janet M. Young et al.   AMERICAN JOURNAL OF HUMAN GENETICS

genBlastA: Enabling BLAST to identify homologous gene sequences

(2008) R. She et al.   GENOME RESEARCH

ALLPATHS: De novo assembly of whole-genome shotgun microreads

(2008) J. Butler et al.   GENOME RESEARCH

Saturation and base composition bias explain phylogenomic conflict in Plasmodium

(2008) Liliana M. Dávalos et al.   GENOMICS

Primitive Early Eocene bat from Wyoming and the evolution of flight and echolocation

(2008) Nancy B. Simmons et al.   NATURE

High-Resolution Copy-Number Variation Map Reflects Human Olfactory Receptor Diversity and Evolution

(2008) Yehudit Hasin et al.   PLoS Genetics

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

(2008) Brian J Haas et al.   GENOME BIOLOGY