Speciation in Cloudless Sulphurs Gleaned from Complete Genomes

Skipper genome sheds light on unique phenotypic traits and phylogeny

(2015) Qian Cong et al.   BMC GENOMICS

A genetic mechanism for female-limited Batesian mimicry in Papilio butterfly

(2015) Hideki Nishikawa et al.   NATURE GENETICS

Evidence for archaic adaptive introgression in humans

(2015) Fernando Racimo et al.   NATURE REVIEWS GENETICS

Tiger Swallowtail Genome Reveals Mechanisms for Speciation and Caterpillar Chemical Defense

(2015) Qian Cong et al.   Cell Reports

The complete mitochondrial genome of Colias erate (Lepidoptera: pieridae)

(2015) Yunhe Wu et al.   Mitochondrial DNA Part A

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets

(2014) Anil Raj et al.   GENETICS

Population genomics of parallel hybrid zones in the mimetic butterflies,H. melpomeneandH. erato

(2014) Nicola J. Nadeau et al.   GENOME RESEARCH

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads

(2014) Rei Kajitani et al.   GENOME RESEARCH

The complete mitochondrial genomes of the Fenton′s wood white, Leptidea morsei, and the lemon emigrant, Catopsilia pomona

(2014) Juan-Juan Hao et al.   JOURNAL OF INSECT SCIENCE

The complete mitochondrial genome ofGonepteryx mahaguru(Lepidoptera: Pieridae)

(2014) Jianing Yang et al.   Mitochondrial DNA

Estimation of the Spontaneous Mutation Rate in Heliconius melpomene

(2014) Peter D. Keightley et al.   MOLECULAR BIOLOGY AND EVOLUTION

The genetics of monarch butterfly migration and warning colouration

(2014) Shuai Zhan et al.   NATURE

Phylogenomics provides strong evidence for relationships of butterflies and moths

(2014) A. Y. Kawahara et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Resurrecting Surviving Neandertal Lineages from Modern Human Genomes

(2014) B. Vernot et al.   SCIENCE

The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera

(2014) Virpi Ahola et al.   Nature Communications

DBM-DB: the diamondback moth genome database

(2014) W. Tang et al.   Database-The Journal of Biological Databases and Curation

Extensive mitochondrial introgression in North American Great Black-backed Gulls (Larus marinus) from the American Herring Gull (Larus smithsonianus) with little nuclear DNA impact

(2013) J-M Pons et al.   HEREDITY

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

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

A heterozygous moth genome provides insights into herbivory and detoxification

(2013) Minsheng You et al.   NATURE GENETICS

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

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

Activities at the Universal Protein Resource (UniProt)

(2013)   NUCLEIC ACIDS RESEARCH

FlyBase 102—advanced approaches to interrogating FlyBase

(2013) Susan E. St. Pierre et al.   NUCLEIC ACIDS RESEARCH

DNA barcoding of Dutch birds

(2013) Mansour Aliabadian et al.   ZooKeys

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

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Male-killing Wolbachia and mitochondrial selective sweep in a migratory African insect

(2012) Robert I Graham et al.   BMC EVOLUTIONARY BIOLOGY

Rapid Establishment of Genetic Incompatibility through Natural Epigenetic Variation

(2012) Stéphanie Durand et al.   CURRENT BIOLOGY

Butterfly genome reveals promiscuous exchange of mimicry adaptations among species

(2012) Kanchon K. Dasmahapatra et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

MonarchBase: the monarch butterfly genome database

(2012) Shuai Zhan et al.   NUCLEIC ACIDS RESEARCH

genBlastG: using BLAST searches to build homologous gene models

(2011) Rong She et al.   BIOINFORMATICS

Identification of novel transcripts in annotated genomes using RNA-Seq

(2011) A. Roberts et al.   BIOINFORMATICS

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

(2011) Guillaume Marçais et al.   BIOINFORMATICS

The Monarch Butterfly Genome Yields Insights into Long-Distance Migration

(2011) Shuai Zhan et al.   CELL

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Illumina mate-paired DNA sequencing-library preparation using Cre-Lox recombination

(2011) Filip Van Nieuwerburgh et al.   NUCLEIC ACIDS RESEARCH

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Phenotypic connections in surprising places

(2010) Bolan Linghu et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The erratic mitochondrial clock: variations of mutation rate, not population size, affect mtDNA diversity across birds and mammals

(2009) Benoit Nabholz et al.   BMC EVOLUTIONARY BIOLOGY

SilkDB v2.0: a platform for silkworm (Bombyx mori) genome biology

(2009) Jun Duan et al.   NUCLEIC ACIDS RESEARCH

The genome of a lepidopteran model insect, the silkworm Bombyx mori

(2008) The International Silkworm Genome   INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

A Mouse Speciation Gene Encodes a Meiotic Histone H3 Methyltransferase

(2008) O. Mihola et al.   SCIENCE

Genomic Outposts Serve the Phylogenomic Pioneers: Designing Novel Nuclear Markers for Genomic DNA Extractions of Lepidoptera

(2008) Niklas Wahlberg et al.   SYSTEMATIC BIOLOGY

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

(2008) Brian J Haas et al.   GENOME BIOLOGY