A BAC-based physical map of the Drosophila buzzatii genome
| Autor: | Ian Bosdet, Heesun Shin, Michael Nefedov, Carrie Mathewson, Josefa González, Ferran Casals, Oriol Calvete, Natasja Wye, Readman Chiu, Alfredo Ruiz, Pieter J. de Jong, Jacqueline E. Schein, Roger A. Hoskins, Alejandra Delprat |
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| Jazyk: | angličtina |
| Rok vydání: | 2005 |
| Předmět: |
Genetics
Bacterial artificial chromosome Genome evolution Chromosomes Artificial Bacterial Genomic Library Polytene chromosome Contig Life Sciences food and beverages Genes Insect Sequence Analysis DNA Biology Genome Contig Mapping Resources BAC Drosophila physical map Animals Restriction digest Genomic library Drosophila Genetics (clinical) |
| Zdroj: | Gonzalez, Josefa; Nefedov, Michael; Bosdet, Ian; Casals, Ferran; Calvete, Oriol; Delprat, Alejandra; et al.(2005). A BAC-based physical map of the Drosophila buzzatii genome. Lawrence Berkeley National Laboratory. Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/4qs1q0q7 |
| Popis: | Large-insert genomic libraries facilitate cloning of large genomic regions, allow the construction of clone-based physical maps, and provide useful resources for sequencing entire genomes. Drosophila buzzatii is a representative species of the repleta group in the Drosophila subgenus, which is being widely used as a model in studies of genome evolution, ecological adaptation, and speciation. We constructed a Bacterial Artificial Chromosome (BAC) genomic library of D. buzzatii using the shuttle vector pTARBAC2.1. The library comprises 18,353 clones with an average insert size of 152 kb and an ∼18× expected representation of the D. buzzatii euchromatic genome. We screened the entire library with six euchromatic gene probes and estimated the actual genome representation to be ∼23×. In addition, we fingerprinted by restriction digestion and agarose gel electrophoresis a sample of 9555 clones, and assembled them using FingerPrint Contigs (FPC) software and manual editing into 345 contigs (mean of 26 clones per contig) and 670 singletons. Finally, we anchored 181 large contigs (containing 7788 clones) to the D. buzzatii salivary gland polytene chromosomes by in situ hybridization of 427 representative clones. The BAC library and a database with all the information regarding the high coverage BAC-based physical map described in this paper are available to the research community. |
| Databáze: | OpenAIRE |
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