Phylogenomic relationships of bioluminescent elateroids define the ‘lampyroid’ clade with clicking Sinopyrophoridae as its earliest member

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

Conflicting signal in transcriptomic markers leads to a poorly resolved backbone phylogeny of chalcidoid wasps

(2020) Junxia Zhang et al.   SYSTEMATIC ENTOMOLOGY

Phylogenomics of the superfamily Dytiscoidea (Coleoptera: Adephaga) with an evaluation of phylogenetic conflict and systematic error

(2019) Alexandros Vasilikopoulos et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The mitochondrial genome of the first luminous click-beetle (Coleoptera: Elateridae) recorded in Asia

(2019) Jinwu He et al.   Mitochondrial DNA Part B-Resources

Phylogenomic analysis resolves the relationships among net‐winged beetles (Coleoptera: Lycidae) and reveals the parallel evolution of morphological traits

(2019) Dominik Kusy et al.   SYSTEMATIC ENTOMOLOGY

Sinopyrophorinae, a new subfamily of Elateridae (Coleoptera, Elateroidea) with the first record of a luminous click beetle in Asia and evidence for multiple origins of bioluminescence in Elateridae

(2019) Wen-Xuan Bi et al.   ZooKeys

The Prevalence and Impact of Model Violations in Phylogenetic Analysis

(2019) Suha Naser-Khdour et al.   Genome Biology and Evolution

The evolution and genomic basis of beetle diversity

(2019) Duane D. McKenna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Versatile genome assembly evaluation with QUAST-LG

(2018) Alla Mikheenko et al.   BIOINFORMATICS

OUP accepted manuscript

(2018)   BIOINFORMATICS

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees

(2018) Chao Zhang et al.   BMC BIOINFORMATICS

Genome sequencing of Rhinorhipus Lawrence exposes an early branch of the Coleoptera

(2018) Dominik Kusy et al.   Frontiers in Zoology

DiscoVista: Interpretable visualizations of gene tree discordance

(2018) Erfan Sayyari et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

RNA-sequencing analysis of fungi-induced transcripts from the bamboo wireworm Melanotus cribricollis (Coleoptera: Elateridae) larvae

(2018) Bi-huan Ye et al.   PLoS One

Targeted Sampling and Target Capture: Assessing Phylogeographic Concordance with Genome-wide Data

(2018) Lisa N. Barrow et al.   SYSTEMATIC BIOLOGY

Evolutionary history of Coleoptera revealed by extensive sampling of genes and species

(2018) Shao-Qian Zhang et al.   Nature Communications

New Zealand glowworm (Arachnocampa luminosa) bioluminescence is produced by a firefly-like luciferase but an entirely new luciferin

(2018) Oliver C. Watkins et al.   Scientific Reports

The contribution of mitochondrial metagenomics to large-scale data mining and phylogenetic analysis of Coleoptera

(2018) Benjamin Linard et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genome sequences identify three families of Coleoptera as morphologically derived click beetles (Elateridae)

(2018) Dominik Kusy et al.   Scientific Reports

Firefly genomes illuminate parallel origins of bioluminescence in beetles

(2018) Timothy R Fallon et al.   eLife

RNA-Seq analysis of the bioluminescent and non-bioluminescent species of Elateridae (Coleoptera): Comparison to others photogenic and non-photogenic tissues of Elateroidea species

(2018) Danilo T. Amaral et al.   Comparative Biochemistry and Physiology D-Genomics & Proteomics

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics

(2017) Robert M Waterhouse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Total evidence phylogeny and the evolution of adult bioluminescence in fireflies (Coleoptera: Lampyridae)

(2017) Gavin J. Martin et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Transcriptome sequencing and phylogenetic analysis of four species of luminescent beetles

(2017) Kai Wang et al.   Scientific Reports

High Rates of Species Accumulation in Animals with Bioluminescent Courtship Displays

(2016) Emily A. Ellis et al.   CURRENT BIOLOGY

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

(2016) Danilo T. Amaral et al.   GENE

Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies

(2016) Erfan Sayyari et al.   MOLECULAR BIOLOGY AND EVOLUTION

OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs

(2016) Evgeny M. Zdobnov et al.   NUCLEIC ACIDS RESEARCH

The discovery of Iberobaeniidae (Coleoptera: Elateroidea): a new family of beetles from Spain, with immatures detected by environmental DNA sequencing

(2016) L. Bocak et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices

(2016) Olga Chernomor et al.   SYSTEMATIC BIOLOGY

Exploring Phylogenetic Relationships within Myriapoda and the Effects of Matrix Composition and Occupancy on Phylogenomic Reconstruction

(2016) Rosa Fernández et al.   SYSTEMATIC BIOLOGY

The peril of dating beetles

(2016) EMMANUEL F. A. TOUSSAINT et al.   SYSTEMATIC ENTOMOLOGY

AMAS: a fast tool for alignment manipulation and computing of summary statistics

(2016) Marek L. Borowiec   PeerJ

Family-Level Sampling of Mitochondrial Genomes in Coleoptera: Compositional Heterogeneity and Phylogenetics

(2015) Martijn J. T. N. Timmermans et al.   Genome Biology and Evolution

Variation in opsin genes correlates with signalling ecology in North American fireflies

(2015) S. E. Sander et al.   MOLECULAR ECOLOGY

The beetle tree of life reveals that Coleoptera survived end-Permian mass extinction to diversify during the Cretaceous terrestrial revolution

(2015) DUANE D. MCKENNA et al.   SYSTEMATIC ENTOMOLOGY

FASconCAT-G: extensive functions for multiple sequence alignment preparations concerning phylogenetic studies

(2014) Patrick Kück et al.   Frontiers in Zoology

The comprehensive phylogeny of the superfamily Elateroidea (Coleoptera: Elateriformia)

(2014) Robin Kundrata et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The i5k Workspace@NAL—enabling genomic data access, visualization and curation of arthropod genomes

(2014) Monica Poelchau et al.   NUCLEIC ACIDS RESEARCH

Phylogenomics resolves the timing and pattern of insect evolution

(2014) B. Misof et al.   SCIENCE

Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting

(2014) Siavash Mirarab et al.   SYSTEMATIC BIOLOGY

On taxonomy and distribution of fossil Cerophytidae (Coleoptera: Elateriformia) with description of a new Mesozoic species ofNecromeraMartynov 1926

(2013) Huali Chang et al.   ANNALES DE LA SOCIETE ENTOMOLOGIQUE DE FRANCE

Selecting informative subsets of sparse supermatrices increases the chance to find correct trees

(2013) Bernhard Misof et al.   BMC BIOINFORMATICS

Phylotranscriptomics: Saturated Third Codon Positions Radically Influence the Estimation of Trees Based on Next-Gen Data

(2013) Jesse W. Breinholt et al.   Genome Biology and Evolution

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

BaCoCa – A heuristic software tool for the parallel assessment of sequence biases in hundreds of gene and taxon partitions

(2013) Patrick Kück et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Resolving Discrepancy between Nucleotides and Amino Acids in Deep-Level Arthropod Phylogenomics: Differentiating Serine Codons in 21-Amino-Acid Models

(2012) Andreas Zwick et al.   PLoS One

Phylogeny of the Coleoptera Based on Morphological Characters of Adults and Larvae

(2011) John F. Lawrence et al.   ANNALES ZOOLOGICI

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

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Increased gene sampling strengthens support for higher-level groups within leaf-mining moths and relatives (Lepidoptera: Gracillariidae)

(2011) Akito Y Kawahara et al.   BMC EVOLUTIONARY BIOLOGY

The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell

(2010) T. Junier et al.   BIOINFORMATICS

Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees

(2010) Patrick Kück et al.   Frontiers in Zoology

Why barcode? High-throughput multiplex sequencing of mitochondrial genomes for molecular systematics

(2010) M. J. T. N. Timmermans et al.   NUCLEIC ACIDS RESEARCH

A Monte Carlo Approach Successfully Identifies Randomness in Multiple Sequence Alignments : A More Objective Means of Data Exclusion

(2009) Bernhard Misof et al.   SYSTEMATIC BIOLOGY

IS A NEW AND GENERAL THEORY OF MOLECULAR SYSTEMATICS EMERGING?

(2008) Scott V. Edwards   EVOLUTION