lepbase Edit

Citations: 2

z-index: 2

Basic information
Short name lepbase
Full name The Lepidopteran genome database
Description Lepbase is a Tier 2 genomic resource for the Lepidoptera, supporting a research community using genomic approaches to understand evolution, speciation, olfaction, behaviour and pesticide resistance in a wide range of target species. Lepbase offers a core set of tools to make genomic data widely accessible including an Ensembl genome browser, text and sequence homology searches and bulk downloads of consistently presented and formatted datasets. publication: https://www.biorxiv.org/content/early/2016/06/06/056994
URL http://ensembl.lepbase.org/index.html
Year founded
Last update & version
Availability Free to academic users only
Contact information
University/Institution hosted The University of Edinburgh
Address ­ Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, EH9 3FL, UK
City Edinburgh
Province/State
Country/Region United Kingdom
Contact name Richard J Challis
Contact email richard.challis@ed.ac.uk
Data information
Object(s)
  • Animal
Data type(s)
  • DNA
  • Protein
  • Other
Data Category/Categories
  • Raw bio-data
  • Metadata
Major organism(s)
  • Heliconius cydno
  • Agraulis vanillae
  • Dryas iulia
  • Amyelois transitella
  • Chilo suppressalis
Keyword(s)
  • Ensembl
  • Genome database
Publications
  • A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana.[PMID: 28486658]
    Reuben W Nowell, Ben Elsworth, Vicencio Oostra, Bas J Zwaan, Christopher W Wheat, Marjo Saastamoinen, Ilik J Saccheri, Arjen E Van't Hof, Bethany R Wasik, Heidi Connahs, Muhammad L Aslam, Sujai Kumar, Richard J Challis, Antónia Monteiro, Paul M Brakefield, Mark Blaxter,

    The mycalesine butterfly Bicyclus anynana, the "Squinting bush brown," is a model organism in the study of lepidopteran ecology, development, and evolution. Here, we present a draft genome sequence for B. anynana to serve as a genomics resource for current and future studies of this important model species. Seven libraries with insert sizes ranging from 350 bp to 20 kb were constructed using DNA from an inbred female and sequenced using both Illumina and PacBio technology; 128 Gb of raw Illumina data was filtered to 124 Gb and assembled to a final size of 475 Mb (∼×260 assembly coverage). Contigs were scaffolded using mate-pair, transcriptome, and PacBio data into 10 800 sequences with an N50 of 638 kb (longest scaffold 5 Mb). The genome is comprised of 26% repetitive elements and encodes a total of 22 642 predicted protein-coding genes. Recovery of a BUSCO set of core metazoan genes was almost complete (98%). Overall, these metrics compare well with other recently published lepidopteran genomes. We report a high-quality draft genome sequence for Bicyclus anynana. The genome assembly and annotated gene models are available at LepBase (http://ensembl.lepbase.org/index.html).

    Gigascience 2017:6(7)

    2 Citations (from Europe PMC, 2018-07-06)

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A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana. lepbase lepbase lepbase lepbase lepbase lepbase lepbase lepbase lepbase lepbase lepbase"/>

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Record metadata

  • Created on: 2018-01-27
    • Aziz Aniza [2018-04-17]
    • Aziz Aniza [2018-04-06]
    • yang zhang [2018-01-27]

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