Changes in gene expression during female reproductive development in a color polymorphic insect

Sexual conflict and intrasexual polymorphism promote assortative mating and halt population differentiation

(2019) Lars Lønsmann Iversen et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall lizard

(2019) Pedro Andrade et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Re-examining escape behaviour and habitat use as correlates of dorsal pattern variation in female brown anole lizards, Anolis sagrei (Squamata: Dactyloidae)

(2019) Rachel M Moon et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Pterin-pigmented nanospheres create the colours of the polymorphic damselfly Ischnura elegans

(2019) Miriam J. Henze et al.   Journal of the Royal Society Interface

Macroevolutionary origin and adaptive function of a polymorphic female signal involved in sexual conflict

(2019) Beatriz Willink et al.   AMERICAN NATURALIST

Sexual antagonism drives the displacement of polymorphism across gene regulatory cascades

(2019) Mark S. Hill et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Common cuckoo females may escape male sexual harassment by color polymorphism

(2019) Jin-Won Lee et al.   Scientific Reports

Temperature drives pre‐reproductive selection and shapes the biogeography of a female polymorphism

(2019) Erik I. Svensson et al.   ECOLOGY LETTERS

A transposable element insertion is associated with an alternative life history strategy

(2019) Alyssa Woronik et al.   Nature Communications

The Genomics of Sexual Conflict

(2018) Locke Rowe et al.   AMERICAN NATURALIST

Candidate genes associated with color morphs of female-limited polymorphisms of the damselfly Ischnura senegalensis

(2018) Michihiko Takahashi et al.   HEREDITY

Detecting the genomic signal of polygenic adaptation and the role of epistasis in evolution

(2018) Katalin Csilléry et al.   MOLECULAR ECOLOGY

Sex-biased gene expression, sexual antagonism and levels of genetic diversity in the collared flycatcher (Ficedula albicollis ) genome

(2018) Ludovic Dutoit et al.   MOLECULAR ECOLOGY

Sexual dimorphism and heightened conditional expression in a sexually selected weapon in the Asian rhinoceros beetle

(2018) Robert Zinna et al.   MOLECULAR ECOLOGY

UniProt: a worldwide hub of protein knowledge

(2018)   NUCLEIC ACIDS RESEARCH

FlyBase 2.0: the next generation

(2018) Jim Thurmond et al.   NUCLEIC ACIDS RESEARCH

A non-coding region near Follistatin controls head colour polymorphism in the Gouldian finch

(2018) Matthew B. Toomey et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Male-mimicking females increase male-male interactions, and decrease male survival and condition in a female-polymorphic damselfly

(2017) Eben J. Gering   EVOLUTION

Body size evolution in an old insect order: No evidence for Cope's Rule in spite of fitness benefits of large size

(2017) John T. Waller et al.   EVOLUTION

The evolutionary origination of a novel expression pattern through an extreme heterochronic shift

(2017) Thomas Pham et al.   EVOLUTION & DEVELOPMENT

Do group dynamics affect colour morph clines during a range shift?

(2017) L. T. Lancaster et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Long-term balancing selection on chromosomal variants associated with crypsis in a stick insect

(2017) Dorothea Lindtke et al.   MOLECULAR ECOLOGY

Back to basics: using colour polymorphisms to study evolutionary processes

(2017) Erik I. Svensson   MOLECULAR ECOLOGY

The melanocortin system regulates body pigmentation and social behaviour in a colour polymorphic cichlid fish

(2017) Peter D. Dijkstra et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Intra- and intersexual differences in parasite resistance and female fitness tolerance in a polymorphic insect

(2017) Beatriz Willink et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Specification and spatial arrangement of cells in the germline stem cell niche of the Drosophila ovary depend on the Maf transcription factor Traffic jam

(2017) Trupti Panchal et al.   PLoS Genetics

Robust hyperparameter estimation protects against hypervariable genes and improves power to detect differential expression

(2016) Belinda Phipson et al.   Annals of Applied Statistics

Genetic colour polymorphism is associated with avian malarial infections

(2016) Laura Gangoso et al.   Biology Letters

The pdm3 Locus Is a Hotspot for Recurrent Evolution of Female-Limited Color Dimorphism in Drosophila

(2016) Amir Yassin et al.   CURRENT BIOLOGY

Sex-Specific Selection and Sex-Biased Gene Expression in Humans and Flies

(2016) Changde Cheng et al.   PLoS Genetics

Evolutionary Time-Series Analysis Reveals the Signature of Frequency-Dependent Selection on a Female Mating Polymorphism

(2015) Arnaud Le Rouzic et al.   AMERICAN NATURALIST

The roles of Dmrt (Double sex/Male-abnormal-3 Related Transcription factor) genes in sex determination and differentiation mechanisms: Ubiquity and diversity across the animal kingdom

(2015) Marion Anne-Lise Picard et al.   COMPTES RENDUS BIOLOGIES

Sex-dependent dominance at a single locus maintains variation in age at maturity in salmon

(2015) Nicola J. Barson et al.   NATURE

Structural genomic changes underlie alternative reproductive strategies in the ruff (Philomachus pugnax)

(2015) Sangeet Lamichhaney et al.   NATURE GENETICS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Why weight? Modelling sample and observational level variability improves power in RNA-seq analyses

(2015) Ruijie Liu et al.   NUCLEIC ACIDS RESEARCH

MCMC Methods for Multi-Response Generalized Linear Mixed Models: TheMCMCglmmRPackage

(2015) Jarrod D. Hadfield   Journal of Statistical Software

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Pan-metazoan phylogeny of the DMRT gene family: a framework for functional studies

(2014) Judith R. Wexler et al.   DEVELOPMENT GENES AND EVOLUTION

Detection and replication of epistasis influencing transcription in humans

(2014) Gibran Hemani et al.   NATURE

Another explanation for apparent epistasis

(2014) Andrew R. Wood et al.   NATURE

doublesex is a mimicry supergene

(2014) K. Kunte et al.   NATURE

Comparative genomics of the mimicry switch in Papilio dardanus

(2014) M. J. T. N. Timmermans et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Epistasis and natural selection shape the mutational architecture of complex traits

(2014) Adam G. Jones et al.   Nature Communications

Revisiting de Beer’s textbook example of heterochrony and jaw elongation in fish: calmodulin expression reflects heterochronic growth, and underlies morphological innovation in the jaws of belonoid fishes

(2014) Helen M Gunter et al.   EvoDevo

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

Assessing De Novo transcriptome assembly metrics for consistency and utility

(2013) Shawn T O’Neil et al.   BMC GENOMICS

The Maf factor Traffic jam both enables and inhibits collective cell migration in Drosophila oogenesis

(2013) Felix Gunawan et al.   DEVELOPMENT

The Drosophila putative histone acetyltransferase Enok maintains female germline stem cells through regulating Bruno and the niche

(2013) Tianchi Xin et al.   DEVELOPMENTAL BIOLOGY

WHY EPISTASIS IS IMPORTANT FOR SELECTION AND ADAPTATION

(2013) Thomas F. Hansen   EVOLUTION

Male clasping ability, female polymorphism and sexual conflict: fine-scale elytral morphology as a sexually antagonistic adaptation in female diving beetles

(2013) K. Karlsson Green et al.   Journal of the Royal Society Interface

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

Epistasis and quantitative traits: using model organisms to study gene–gene interactions

(2013) Trudy F. C. Mackay   NATURE REVIEWS GENETICS

A long life in the fast lane: positive association between peak metabolic rate and lifespan in a butterfly

(2012) K. Niitepold et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

Epistasis dominates the genetic architecture of Drosophila quantitative traits

(2012) W. Huang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Relaxed Phylogenetics and the Palaeoptera Problem: Resolving Deep Ancestral Splits in the Insect Phylogeny

(2012) Jessica A. Thomas et al.   SYSTEMATIC BIOLOGY

Dmrt genes in the development and evolution of sexual dimorphism

(2012) Artyom Kopp   TRENDS IN GENETICS

Poly(ADP-ribose) controls DE-cadherin-dependent stem cell maintenance and oocyte localization

(2012) Yingbiao Ji et al.   Nature Communications

dJun and Vri/dNFIL3 Are Major Regulators of Cardiac Aging in Drosophila

(2012) Véronique Monnier et al.   PLoS Genetics

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Evolution of Sex-Specific Traits through Changes in HOX-Dependent doublesex Expression

(2011) Kohtaro Tanaka et al.   PLOS BIOLOGY

Molecular pedomorphism underlies craniofacial skeletal evolution in Antarctic notothenioid fishes

(2010) R Craig Albertson et al.   BMC EVOLUTIONARY BIOLOGY

Population-level transcriptome sequencing of nonmodel organisms Erynnis propertius and Papilio zelicaon

(2010) Shawn T O'Neil et al.   BMC GENOMICS

The Steroid Hormone Ecdysone Functions with Intrinsic Chromatin Remodeling Factors to Control Female Germline Stem Cells in Drosophila

(2010) Elizabeth T. Ables et al.   Cell Stem Cell

NEGATIVE FREQUENCY-DEPENDENT SELECTION IN FEMALE COLOR POLYMORPHISM OF A DAMSELFLY

(2010) Yuma Takahashi et al.   EVOLUTION

Colour polymorphism and correlated characters: genetic mechanisms and evolution

(2010) JEFFREY S. MCKINNON et al.   MOLECULAR ECOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Density‐Dependent Male Mating Harassment, Female Resistance, and Male Mimicry

(2009) Thomas P. Gosden et al.   AMERICAN NATURALIST

Shadows of complexity: what biological networks reveal about epistasis and pleiotropy

(2009) Anna L. Tyler et al.   BIOESSAYS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

The Drosophila Hindgut Lacks Constitutively Active Adult Stem Cells but Proliferates in Response to Tissue Damage

(2009) Donald T. Fox et al.   Cell Stem Cell

Resting metabolic rate can vary with age independently from body mass changes in the Colorado potato beetle, Leptinotarsa decemlineata

(2009) Saija Piiroinen et al.   JOURNAL OF INSECT PHYSIOLOGY

Bunched specifically regulates α/β mushroom body neuronal cell proliferation during metamorphosis

(2009) J. Kim et al.   NEUROSCIENCE

Wings, Horns, and Butterfly Eyespots: How Do Complex Traits Evolve?

(2009) Antónia Monteiro et al.   PLOS BIOLOGY

Nuclear functions of heterogeneous nuclear ribonucleoproteins A/B

(2008) Yaowu He et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing

(2008) J. CRISTOBAL VERA et al.   MOLECULAR ECOLOGY

Control of segment number in vertebrate embryos

(2008) Céline Gomez et al.   NATURE

Genetic architecture of complex traits: Large phenotypic effects and pervasive epistasis

(2008) H. Shao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Data and Theory Point to Mainly Additive Genetic Variance for Complex Traits

(2008) William G. Hill et al.   PLoS Genetics