Genome analysis of Phrixothrix hirtus (Phengodidae) railroad worm shows the expansion of odorant-binding gene families and positive selection on morphogenesis and sex determination genes

Chemical Ecology, Biochemistry, and Molecular Biology of Insect Hydrocarbons

(2021) Gary J. Blomquist et al.   Annual Review of Entomology

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

(2020) Bui Quang Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Double-edged sword: The evolutionary consequences of the epigenetic silencing of transposable elements

(2020) Jae Young Choi et al.   PLoS Genetics

Twenty years of transposable element analysis in the Arabidopsis thaliana genome

(2020) Hadi Quesneville   Mobile DNA

Comparative Transcriptomics Reveals Gene Families Associated with Predatory Behavior in Photuris femme fatale Fireflies

(2020) Cheyenne N. McKinley et al.   Genes

The genome of pest Rhynchophorus ferrugineus reveals gene families important at the plant-beetle interface

(2020) Khaled Michel Hazzouri et al.   Communications Biology

Genome size evolution: towards new model systems for old questions

(2020) Julie Blommaert   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Very Bright Far-Red Bioluminescence Emitting Combination Based on Engineered Railroad Worm Luciferase and 6′-Amino-Analogs for Bioimaging Purposes

(2020) Vadim R. Viviani et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Detoxifying enzyme complements and host use phenotypes in 160 insect species

(2019) Rahul V Rane et al.   Current Opinion in Insect Science

Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila

(2019) Gabriel E. Rech et al.   PLoS Genetics

Genetic architecture and sex-specific selection govern modular, male-biased evolution of doublesex

(2019) Saurav Baral et al.   Science Advances

Phrixotrix luciferase and 6′-aminoluciferins reveal a larger luciferin phenolate binding site and provide novel far-red combinations for bioimaging purposes

(2019) V. R. Bevilaqua et al.   Scientific Reports

WEGO 2.0: a web tool for analyzing and plotting GO annotations, 2018 update

(2018) Jia Ye et al.   NUCLEIC ACIDS RESEARCH

Identification and functional analysis of the doublesex gene in the sexual development of a hemimetabolous insect, the brown planthopper

(2018) Ji-Chong Zhuo et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Antennal Transcriptome Analysis of the Chemosensory Gene Families From Trichoptera and Basal Lepidoptera

(2018) Jothi Kumar Yuvaraj et al.   Frontiers in Physiology

Firefly genomes illuminate parallel origins of bioluminescence in beetles

(2018) Timothy R Fallon et al.   eLife

Rapid Increase in Genome Size as a Consequence of Transposable Element Hyperactivity in Wood-White (Leptidea) Butterflies

(2017) Venkat Talla et al.   Genome Biology and Evolution

Genome Size in North American Fireflies: Substantial Variation Likely Driven by Neutral Processes

(2017) Sarah Sander Lower et al.   Genome Biology and Evolution

The FOXO transcription factor controls insect growth and development by regulating juvenile hormone degradation in the silkworm,Bombyx mori

(2017) Baosheng Zeng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Protein content of the Hylesia metabus egg nest setae (Cramer [1775]) (Lepidoptera: Saturniidae) and its association with the parental investment for the reproductive success and lepidopterism

(2017) Gleysin Cabrera et al.   Journal of Proteomics

Identification and characterization of the Luc2-type luciferase in the Japanese firefly, Luciola parvula , involved in a dim luminescence in immobile stages

(2017) Manabu Bessho-Uehara et al.   LUMINESCENCE

Genome-scale detection of positive selection in nine primates predicts human-virus evolutionary conflicts

(2017) Robin van der Lee et al.   NUCLEIC ACIDS RESEARCH

Long-read sequence assembly of the firefly Pyrocoelia pectoralis genome

(2017) Xinhua Fu et al.   GigaScience

Sulfoluciferin is Biosynthesized by a Specialized Luciferin Sulfotransferase in Fireflies

(2016) Timothy R. Fallon et al.   BIOCHEMISTRY

Organization and comparative analysis of the mitochondrial genomes of bioluminescent Elateroidea (Coleoptera: Polyphaga)

(2016) Danilo T. Amaral et al.   GENE

A new orange emitting luciferase from the Southern-Amazon Pyrophorus angustus (Coleoptera: Elateridae) click-beetle: structure and bioluminescence color relationship, evolutional and ecological considerations

(2016) Danilo T. Amaral et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Transcriptome analysis reveals candidate genes involved in luciferin metabolism inLuciola aquatilis(Coleoptera: Lampyridae)

(2016) Wanwipa Vongsangnak et al.   PeerJ

Binding Properties of General Odorant Binding Proteins from the Oriental Fruit Moth, Grapholita molesta (Busck) (Lepidoptera: Tortricidae)

(2016) Guangwei Li et al.   PLoS One

One-pot non-enzymatic formation of firefly luciferin in a neutral buffer from p-benzoquinone and cysteine

(2016) Shusei Kanie et al.   Scientific Reports

NxTrim: optimized trimming of Illumina mate pair reads: Table 1.

(2015) Jared O’Connell et al.   BIOINFORMATICS

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Genome size correlates with reproductive fitness in seed beetles

(2015) Göran Arnqvist et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Biosynthesis of Firefly Luciferin in Adult Lantern: Decarboxylation of ʟ-Cysteine is a Key Step for Benzothiazole Ring Formation in Firefly Luciferin Synthesis

(2014) Yuichi Oba et al.   PLoS One

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Informed and automated k-mer size selection for genome assembly

(2013) R. Chikhi et al.   BIOINFORMATICS

Characterization of a novel chromodomain-containing gene from the silkworm, Bombyx mori

(2013) Keisuke Shoji et al.   GENE

Estimating Gene Gain and Loss Rates in the Presence of Error in Genome Assembly and Annotation Using CAFE 3

(2013) Mira V. Han et al.   MOLECULAR BIOLOGY AND EVOLUTION

Intrinsic acyl-CoA thioesterase activity of a peroxisomal ATP binding cassette transporter is required for transport and metabolism of fatty acids

(2013) Carine De Marcos Lousa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

treePL: divergence time estimation using penalized likelihood for large phylogenies

(2012) Stephen A. Smith et al.   BIOINFORMATICS

The impact of transposable elements on eukaryotic genomes: From genome size increase to genetic adaptation to stressful environments

(2012) Benoît Chénais et al.   GENE

DrosophilaPATJ supports adherens junction stability by modulating Myosin light chain activity

(2012) Arnab Sen et al.   JOURNAL OF CELL BIOLOGY

MITOS: Improved de novo metazoan mitochondrial genome annotation

(2012) Matthias Bernt et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Asymmetrically expressed axin required for anterior development in Tribolium

(2012) J. Fu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transposable Elements, Epigenetics, and Genome Evolution

(2012) N. V. Fedoroff   SCIENCE

The correlation of genome size and DNA methylation rate in metazoans

(2012) Marcus Lechner et al.   THEORY IN BIOSCIENCES

Bioluminescent Fat Body of Larval Aspisoma lineatum (Coleoptera: Lampyridae) Firefly: Ontogenic Precursor of Lantern's Photogenic Tissue

(2011) Paulo N. Tonolli et al.   ANNALS OF THE ENTOMOLOGICAL SOCIETY OF AMERICA

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

(2011) Guillaume Marçais et al.   BIOINFORMATICS

New genome size estimates of 134 species of arthropods

(2011) Shawn Jason Hanrahan et al.   CHROMOSOME RESEARCH

Comparative analysis of the UDP-glycosyltransferase multigene family in insects

(2011) Seung-Joon Ahn et al.   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets

(2011) Robert Schmieder et al.   PLoS One

Identification and Characterization of a Luciferase Isotype in the Japanese Firefly,Luciola cruciata, Involving in the Dim Glow of Firefly Eggs

(2010) Yuichi Oba et al.   BIOCHEMISTRY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

INTERGENIC EXCHANGE, GEOGRAPHIC ISOLATION, AND THE EVOLUTION OF BIOLUMINESCENT COLOR FORPYROPHORUSCLICK BEETLES

(2009) Jeffrey L. Feder et al.   EVOLUTION

Adaptive evolution of young gene duplicates in mammals

(2009) M. V. Han et al.   GENOME RESEARCH

Representing ontogeny through ontology: A developmental biologist's guide to the gene ontology

(2009) David P. Hill et al.   MOLECULAR REPRODUCTION AND DEVELOPMENT

The evolutionary significance of ancient genome duplications

(2009) Yves Van de Peer et al.   NATURE REVIEWS GENETICS

Molecular insights on the evolution of the lateral and head lantern luciferases and bioluminescence colors in Mastinocerini railroad-worms (Coleoptera: Phengodidae)

(2009) Frederico G. C. Arnoldi et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training

(2008) V. Ter-Hovhannisyan et al.   GENOME RESEARCH

Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species

(2008) C Gissi et al.   HEREDITY

CCD imaging of basal bioluminescence in larval fireflies: clues on the anatomic origin and evolution of bioluminescence

(2008) V. R. Viviani et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

The tektin family of microtubule-stabilizing proteins

(2008) Linda A Amos   GENOME BIOLOGY