Chromosomal-level reference genome of Chinese peacock butterfly (Papilio bianor) based on third-generation DNA sequencing and Hi-C analysis

Unprecedented reorganization of holocentric chromosomes provides insights into the enigma of lepidopteran chromosome evolution

(2019) Jason Hill et al.   Science Advances

Chromosomal-level reference genome of Chinese peacock butterfly (Papilio bianor) based on third-generation DNA sequencing and Hi-C analysis

(2019) Sihan Lu et al.   GigaScience

A Comprehensive and Dated Phylogenomic Analysis of Butterflies

(2018) Marianne Espeland et al.   CURRENT BIOLOGY

Parallel evolution of Batesian mimicry supergene in twoPapiliobutterflies,P. polytesandP. memnon

(2018) Takuro Iijima et al.   Science Advances

The evolutionary road from wild moth to domestic silkworm

(2018) Hui Xiang et al.   Nature Ecology & Evolution

A high-quality chromosome-level genome assembly of a generalist herbivore, Trichoplusia ni

(2018) Wenbo Chen et al.   Molecular Ecology Resources

The Bear Giant-Skipper genome suggests genetic adaptations to living inside yucca roots

(2018) Qian Cong et al.   MOLECULAR GENETICS AND GENOMICS

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

Fast and accurate de novo genome assembly from long uncorrected reads

(2017) Robert Vaser et al.   GENOME RESEARCH

The first complete genomes of Metalmarks and the classification of butterfly families

(2017) Qian Cong et al.   GENOMICS

Hi-C 2.0: An optimized Hi-C procedure for high-resolution genome-wide mapping of chromosome conformation

(2017) Houda Belaghzal et al.   METHODS

TimeTree: A Resource for Timelines, Timetrees, and Divergence Times

(2017) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Hidden genetic variation shapes the structure of functional elements in Drosophila

(2017) Mahul Chakraborty et al.   NATURE GENETICS

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

Tracing the origin and evolution of supergene mimicry in butterflies

(2017) Wei Zhang et al.   Nature Communications

A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana

(2017) Reuben W. Nowell et al.   GigaScience

Genome sequence of Phormia regina Meigen (Diptera: Calliphoridae): implications for medical, veterinary and forensic research

(2016) Anne A. Andere et al.   BMC GENOMICS

Accurate Transposable Element Annotation Is Vital When Analyzing New Genome Assemblies

(2016) Roy N. Platt et al.   Genome Biology and Evolution

Speciation in Cloudless Sulphurs Gleaned from Complete Genomes

(2016) Qian Cong et al.   Genome Biology and Evolution

Genome editing in butterflies reveals that spalt promotes and Distal-less represses eyespot colour patterns

(2016) Linlin Zhang et al.   Nature Communications

Complete genomes of Hairstreak butterflies, their speciation and nucleo-mitochondrial incongruence

(2016) Qian Cong et al.   Scientific Reports

Genomic Access to Monarch Migration Using TALEN and CRISPR/Cas9-Mediated Targeted Mutagenesis

(2016) Matthew J. Markert et al.   G3-Genes Genomes Genetics

Major Improvements to the Heliconius melpomene Genome Assembly Used to Confirm 10 Chromosome Fusion Events in 6 Million Years of Butterfly Evolution

(2016) John W. Davey et al.   G3-Genes Genomes Genetics

Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

(2016) Neva C. Durand et al.   Cell Systems

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Skipper genome sheds light on unique phenotypic traits and phylogeny

(2015) Qian Cong et al.   BMC GENOMICS

Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum

(2015) Robert VanBuren et al.   NATURE

New genomes clarify mimicry evolution

(2015) James Mallet   NATURE GENETICS

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

(2015) Hideki Nishikawa et al.   NATURE GENETICS

Outbred genome sequencing and CRISPR/Cas9 gene editing in butterflies

(2015) Xueyan Li et al.   Nature Communications

Tiger Swallowtail Genome Reveals Mechanisms for Speciation and Caterpillar Chemical Defense

(2015) Qian Cong et al.   Cell Reports

Repbase Update, a database of repetitive elements in eukaryotic genomes

(2015) Weidong Bao et al.   Mobile DNA

Repeated Reticulate Evolution in North American Papilio machaon Group Swallowtail Butterflies

(2015) Julian R. Dupuis et al.   PLoS One

ASTRAL: genome-scale coalescent-based species tree estimation

(2014) S. Mirarab et al.   BIOINFORMATICS

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

The complete mitochondrial genome ofPapilio bianor(Lepidoptera: Papilionidae), and its phylogenetic position within Papilionidae

(2014) Li-Xia Hou et al.   Mitochondrial DNA

Evolutionary biology: Sex, lies and butterflies

(2014) David W. Loehlin et al.   NATURE

The genetics of monarch butterfly migration and warning colouration

(2014) Shuai Zhan et al.   NATURE

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Phylogenomics provides strong evidence for relationships of butterflies and moths

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

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

(2014) Virpi Ahola et al.   Nature Communications

The complete mitochondrial genome of the Chinese peacock,Papilio bianor(Insecta: Lepidoptera: Papilionidae)

(2013) Yan Dong et al.   Mitochondrial DNA

Transposable element evolution in Heliconius suggests genome diversity within Lepidoptera

(2013) Christine A Lavoie et al.   Mobile DNA

Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory

(2012) Mark J Chaisson et al.   BMC BIOINFORMATICS

Butterfly genome reveals promiscuous exchange of mimicry adaptations among species

(2012) Kanchon K. Dasmahapatra et al.   NATURE

Phylogenetic evaluation ofPapilio bianorandP. polyctor(Lepidoptera: Papilionidae)

(2012) Zhu Lixin et al.   ORIENTAL INSECTS

The Monarch Butterfly Genome Yields Insights into Long-Distance Migration

(2011) Shuai Zhan et al.   CELL

Inference of human population history from individual whole-genome sequences

(2011) Heng Li et al.   NATURE

Cretaceous origin and repeated tertiary diversification of the redefined butterflies

(2011) M. Heikkila et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

The sequence and de novo assembly of the giant panda genome

(2009) Ruiqiang Li et al.   NATURE

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

(2009) Jun Duan et al.   NUCLEIC ACIDS RESEARCH

The genome of the model beetle and pest Tribolium castaneum

(2008) Stephen Richards et al.   NATURE

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

(2008) Brian J Haas et al.   GENOME BIOLOGY