title: Construction and characterization of a BAC library for functional genomics in Xenopus tropicalis.
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 110kbp 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.
authors.affiliation: Institute of Systems and Synthetic Biology, CNRS, Université d'Evry Val d'Essonne, Evry, France; Department of Cell Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic.
authors.forename: P
authors.initials: P
authors.lastname: Spirhanzlova
authors.affiliation: Institute of Systems and Synthetic Biology, CNRS, Université d'Evry Val d'Essonne, Evry, France; GABI, INRA, AgroParisTech, Université Paris-Saclay, 78350 Jouy-en-Josas, France.
authors.forename: S
authors.initials: S
authors.lastname: Dhorne-Pollet
authors.affiliation: Sorbonne Universités, UPMC Univ Paris 06, IBPS, UMR7622, Laboratoire de Biologie du Développement, 75005 Paris, France; CNRS, INSERM U1156, IBPS, UMR 7622, Laboratoire de Biologie du Développement, 75005 Paris, France.
authors.forename: J S
authors.initials: JS
authors.lastname: Fellah
authors.affiliation: CEA, Institut de Génomique, Genoscope, Evry, France.
authors.forename: C
authors.initials: C
authors.lastname: Da Silva
authors.affiliation: Department of Cell Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic.
authors.forename: T
authors.initials: T
authors.lastname: Tlapakova
authors.affiliation: CEA, Institut de Génomique, Genoscope, Evry, France.
authors.forename: K
authors.initials: K
authors.lastname: Labadie
authors.affiliation: CEA, Institut de Génomique, Genoscope, Evry, France.
authors.forename: J
authors.initials: J
authors.lastname: Weissenbach
authors.affiliation: CEA, Institut de Génomique, Genoscope, Evry, France.
authors.forename: J
authors.initials: J
authors.lastname: Poulain
authors.affiliation: Sorbonne Universités, UPMC Univ Paris 06, IBPS, UMR7622, Laboratoire de Biologie du Développement, 75005 Paris, France; CNRS, INSERM U1156, IBPS, UMR 7622, Laboratoire de Biologie du Développement, 75005 Paris, France.
authors.forename: T
authors.initials: T
authors.lastname: Jaffredo
authors.affiliation: CEA, Institut de Génomique, Genoscope, Evry, France.
authors.forename: P
authors.initials: P
authors.lastname: Wincker
authors.affiliation: Department of Cell Biology, Faculty of Science, Charles University in Prague, Prague, Czech Republic.
authors.forename: V
authors.initials: V
authors.lastname: Krylov
authors.affiliation: Institute of Systems and Synthetic Biology, CNRS, Université d'Evry Val d'Essonne, Evry, France; Evolution, Génomes, Comportement & Ecologie, CNRS, IRD, Universite Paris-Sud, Université Paris-Saclay, 91198 Gif-sur-Yvette, France. Electronic address: Nicolas.Pollet@egce.cnrs-gif.fr.
authors.forename: N
authors.initials: N
authors.lastname: Pollet
mesh_terms: D000818:Animals; D002874:Chromosome Mapping; D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D005260:Female; D015723:Gene Library; D023281:Genomics / Q000379:methods*; D017404:In Situ Hybridization, Fluorescence; D008099:Liver / Q000737:chemistry; D017422:Sequence Analysis, DNA; D014981:Xenopus / Q000235:genetics*; D029867:Xenopus Proteins / Q000235:genetics*
chemical_list: D029867:Xenopus Proteins
keywords: Amphibian; BAC library; Genomics; Xenopus tropicalis