Functional genomic tools for emerging model species

Butterfly eyespots evolved via cooption of an ancestral gene-regulatory network that also patterns antennae, legs, and wings

(2022) Suriya Narayanan Murugesan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mapping and CRISPR homology-directed repair of a recessive white eye mutation in Plodia moths

(2022) Christa Heryanto et al.   iScience

The growth factor BMP11 is required for the development and evolution of a male exaggerated weapon and its associated fighting behavior in a water strider

(2021) William Toubiana et al.   PLOS BIOLOGY

Cortex cis-regulatory switches establish scale colour identity and pattern diversity in Heliconius

(2021) Luca Livraghi et al.   eLife

Bringing immersive science to undergraduate laboratory courses using CRISPR gene knockouts in frogs and butterflies

(2020) Arnaud Martin et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

DNA Methylation Editing by CRISPR-guided Excision of 5-Methylcytosine

(2020) Iván Devesa-Guerra et al.   JOURNAL OF MOLECULAR BIOLOGY

Complex evolution of insect insulin receptors and homologous decoy receptors, and functional significance of their multiplicity

(2020) Vlastimil Smýkal et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cas9-Mediated Gene-Editing in the Malaria Mosquito Anopheles stephensi by ReMOT Control

(2020) Vanessa M. Macias et al.   G3-Genes Genomes Genetics

A Roadmap for Understanding the Evolutionary Significance of Structural Genomic Variation

(2020) Claire Mérot et al.   TRENDS IN ECOLOGY & EVOLUTION

CRISPR/Cas9 mediated genetic resource for unknown kinase and phosphatase genes in Drosophila

(2020) Menghua Wu et al.   Scientific Reports

Two different epigenetic information channels in wild three-spined sticklebacks are involved in salinity adaptation

(2020) Melanie J. Heckwolf et al.   Science Advances

Nutrition-responsive gene expression and the developmental evolution of insect polyphenism

(2020) Sofia Casasa et al.   Nature Ecology & Evolution

Mutations in cardinal are responsible for the red-1 and peach eye color mutants of the red flour beetle Tribolium castaneum

(2020) Yu Shirai et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

CRISPR/Cas9 mediated ryanodine receptor I4790M knockin confers unequal resistance to diamides in Plutella xylostella

(2020) Xingliang Wang et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

RNA Interference in Insects: Protecting Beneficials and Controlling Pests

(2019) Elise Vogel et al.   Frontiers in Physiology

Genome editing in large animals: Current status and future prospects

(2019) Jianguo Zhao et al.   National Science Review

Seasonal variation in genome-wide DNA methylation patterns and the onset of seasonal timing of reproduction in great tits

(2019) Heidi M Viitaniemi et al.   Genome Biology and Evolution

RNA Interference by Ingested dsRNA-Expressing Bacteria to Study Shell Biosynthesis and Pigmentation in Crassostrea gigas

(2019) Dandan Feng et al.   MARINE BIOTECHNOLOGY

RNAi expression tuning, microfluidic screening, and genome recombineering for improved protein production in Saccharomyces cerevisiae

(2019) Guokun Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CRISPR/Cas9 Genome Editing Introduction and Optimization in the Non-model Insect Pyrrhocoris apterus

(2019) Joanna Kotwica-Rolinska et al.   Frontiers in Physiology

Gene Knock-Ins in Drosophila Using Homology-Independent Insertion of Universal Donor Plasmids

(2019) Justin A. Bosch et al.   GENETICS

Structural variation in the sequencing era

(2019) Steve S. Ho et al.   NATURE REVIEWS GENETICS

Parallel evolution of ancient, pleiotropic enhancers underlies butterfly wing pattern mimicry

(2019) James J. Lewis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of gene expression by altered promoter methylation using a CRISPR/Cas9-mediated epigenetic editing system

(2019) Jeong Gu Kang et al.   Scientific Reports

Mutations in NlInR1 affect normal growth and lifespan in the brown planthopper Nilaparvata lugens

(2019) Yu Zhao et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

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

(2019) Alyssa Woronik et al.   Nature Communications

CRISPR mutagenesis confirms the role of oca2 in melanin pigmentation in Astyanax mexicanus

(2018) Hannah Klaassen et al.   DEVELOPMENTAL BIOLOGY

Quantitative epigenetics and evolution

(2018) Joshua A. Banta et al.   HEREDITY

Success and failure in replication of genotype-phenotype associations: How does replication help in understanding the genetic basis of phenotypic variation in outbred populations?

(2018) Holger Schielzeth et al.   Molecular Ecology Resources

The CRISPR tool kit for genome editing and beyond

(2018) Mazhar Adli   Nature Communications

Interpretation of biological experiments changes with evolution of the Gene Ontology and its annotations

(2018) Aurelie Tomczak et al.   Scientific Reports

Review of CRISPR/Cas9 sgRNA Design Tools

(2018) Yingbo Cui et al.   Interdisciplinary Sciences-Computational Life Sciences

An epigenetic mechanism for cavefish eye degeneration

(2018) Aniket V. Gore et al.   Nature Ecology & Evolution

Targeted delivery of CRISPR-Cas9 ribonucleoprotein into arthropod ovaries for heritable germline gene editing

(2018) Duverney Chaverra-Rodriguez et al.   Nature Communications

Large-scale investigation of the reasons why potentially important genes are ignored

(2018) Thomas Stoeger et al.   PLOS BIOLOGY

Molecular Mechanisms of Wing Polymorphism in Insects

(2018) Chuan-Xi Zhang et al.   Annual Review of Entomology

Macroevolutionary shifts ofWntAfunction potentiate butterfly wing-pattern diversity

(2017) Anyi Mazo-Vargas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single master regulatory gene coordinates the evolution and development of butterfly color and iridescence

(2017) Linlin Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Taxon-restricted genes at the origin of a novel trait allowing access to a new environment

(2017) M. Emília Santos et al.   SCIENCE

Rapid and reversible epigenome editing by endogenous chromatin regulators

(2017) Simon M. G. Braun et al.   Nature Communications

Genetic compensation: A phenomenon in search of mechanisms

(2017) Mohamed A. El-Brolosy et al.   PLoS Genetics

Progress and Prospects of CRISPR/Cas Systems in Insects and Other Arthropods

(2017) Dan Sun et al.   Frontiers in Physiology

Experimental test and refutation of a classic case of molecular adaptation in Drosophila melanogaster

(2017) Mohammad A. Siddiq et al.   Nature Ecology & Evolution

Inhibition of TrkB limits development of the zebra finch song system

(2016) Linda Qi Beach et al.   BRAIN RESEARCH

On the Dependency of Cellular Protein Levels on mRNA Abundance

(2016) Yansheng Liu et al.   CELL

Repurposing the CRISPR-Cas9 system for targeted DNA methylation

(2016) Aleksandar Vojta et al.   NUCLEIC ACIDS RESEARCH

Detecting Polygenic Evolution: Problems, Pitfalls, and Promises

(2016) Maren Wellenreuther et al.   TRENDS IN GENETICS

Whole-animal genome-wide RNAi screen identifies networks regulating male germline stem cells in Drosophila

(2016) Ying Liu et al.   Nature Communications

The expanding epigenetic landscape of non-model organisms

(2015) R. Bonasio   JOURNAL OF EXPERIMENTAL BIOLOGY

Masculinisation of the Zebra Finch Song System: Roles of Oestradiol and the Z-chromosome Gene Tubulin-Specific Chaperone Protein A

(2015) L. Q. Beach et al.   JOURNAL OF NEUROENDOCRINOLOGY

Two insulin receptors determine alternative wing morphs in planthoppers

(2015) Hai-Jun Xu et al.   NATURE

Outbred genome sequencing and CRISPR/Cas9 gene editing in butterflies

(2015) Xueyan Li et al.   Nature Communications

Towards the identification of the loci of adaptive evolution

(2015) Carolina Pardo-Diaz et al.   Methods in Ecology and Evolution

Genome Engineering with CRISPR-Cas9 in the Mosquito Aedes aegypti

(2015) Kathryn E. Kistler et al.   Cell Reports

Challenges and prospects in genome-wide quantitative trait loci mapping of standing genetic variation in natural populations

(2014) Holger Schielzeth et al.   Annals of the New York Academy of Sciences

Emergence of tissue sensitivity to Hox protein levels underlies the evolution of an adaptive morphological trait

(2014) Peter Nagui Refki et al.   DEVELOPMENTAL BIOLOGY

Efficient and Heritable Gene Targeting in Tilapia by CRISPR/Cas9

(2014) Minghui Li et al.   GENETICS

Epigenetics and the Evolution of Darwin’s Finches

(2014) Michael K. Skinner et al.   Genome Biology and Evolution

The genetics of monarch butterfly migration and warning colouration

(2014) Shuai Zhan et al.   NATURE

Double-Stranded RNA Uptake through Topical Application, Mediates Silencing of Five CYP4 Genes and Suppresses Insecticide Resistance in Diaphorina citri

(2014) Nabil Killiny et al.   PLoS One

Functional genetics for all: engineered nucleases, CRISPR and the gene editing revolution

(2014) Anna F Gilles et al.   EvoDevo

Comparative RNAi Screens in C. elegans and C. briggsae Reveal the Impact of Developmental System Drift on Gene Function

(2014) Adrian J. Verster et al.   PLoS Genetics

Molecular Mechanisms of RNA Interference

(2013) Ross C. Wilson et al.   Annual Review of Biophysics

Detecting Natural Selection in Genomic Data

(2013) Joseph J. Vitti et al.   Annual Review of Genetics

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

Dynamic Imaging of Genomic Loci in Living Human Cells by an Optimized CRISPR/Cas System

(2013) Baohui Chen et al.   CELL

Highly efficient CRISPR/Cas9-mediated knock-in in zebrafish by homology-independent DNA repair

(2013) T. O. Auer et al.   GENOME RESEARCH

RNA-guided gene activation by CRISPR-Cas9–based transcription factors

(2013) Pablo Perez-Pinera et al.   NATURE METHODS

Chromosomal deletions and inversions mediated by TALENs and CRISPR/Cas in zebrafish

(2013) An Xiao et al.   NUCLEIC ACIDS RESEARCH

An RNAi Screen Reveals Intestinal Regulators of Branching Morphogenesis, Differentiation, and Stem Cell Proliferation in Planarians

(2012) David J. Forsthoefel et al.   DEVELOPMENTAL CELL

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Targeting genes in living mammals by RNA interference

(2011) K. Podolska et al.   Briefings in Functional Genomics

Negative results are disappearing from most disciplines and countries

(2011) Daniele Fanelli   SCIENTOMETRICS

Evolutionary novelties

(2010) Günter P. Wagner et al.   CURRENT BIOLOGY

RNA interference in Lepidoptera: An overview of successful and unsuccessful studies and implications for experimental design

(2010) Olle Terenius et al.   JOURNAL OF INSECT PHYSIOLOGY

Ingested double-stranded RNAs can act as species-specific insecticides

(2009) Steven Whyard et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Maintaining the silence: reflections on long-term RNAi

(2008) Koen Raemdonck et al.   DRUG DISCOVERY TODAY

Origins and evolution of eukaryotic RNA interference

(2008) S SHABALINA et al.   TRENDS IN ECOLOGY & EVOLUTION