Elsevier

Developmental Biology

Volume 426, Issue 2, 15 June 2017, Pages 255-260
Developmental Biology

Construction and characterization of a BAC library for functional genomics in Xenopus tropicalis

https://doi.org/10.1016/j.ydbio.2016.05.015Get rights and content
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Highlights

  • Community resource: A BAC library for functional genomics in Xenopus tropicalis.

  • BAC end sequences mapped to the X. tropicalis genome enabling the identification of BAC clones covering specific loci.

  • Large cloned DNA fragments covering most of the X. tropicalis genome.

Abstract

Large insert genomic DNA libraries are useful resources for genomic studies. Although the genome of Xenopus tropicalis stands as the amphibian reference genome because it benefitted from large-scale sequencing studies, physical mapping resources such as BAC libraries are lagging behind. Here we present the construction and characterization of a BAC library that covers the whole X. tropicalis genome. We prepared this BAC library from the genomic DNA of X. tropicalis females of the Adiopodoume strain. We characterized BAC clones by screening for specific loci, by chromosomal localization using FISH and by systematic BAC end sequencing. The median insert size is about 110 kbp and the library coverage is around six genome equivalents. We obtained a total of 163,787 BAC end sequences with mate pairs for 77,711 BAC clones. We mapped all BAC end sequences to the reference X. tropicalis genome assembly to enable the identification of BAC clones covering specific loci. Overall, this BAC library resource complements the knowledge of the X. tropicalis genome and should further promote its use as a reference genome for developmental biology studies and amphibian comparative genomics.

Keywords

Xenopus tropicalis
Genomics
BAC library
Amphibian

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