Characterization of a BAC Library from Channel Catfish <Emphasis Type="Italic">Ictalurus punctatus</Emphasis>: Indications of High Levels of Chromosomal Reshuffling Among Teleost Genomes |
| |
Authors: | Shaolin Wang Peng Xu Jim Thorsen Baoli Zhu Pieter J de Jong Geoff Waldbieser Huseyin Kucuktas Zhanjiang Liu |
| |
Institution: | (1) The Fish Molecular Genetics and Biotechnology Laboratory, Department of Fisheries and Allied Aquacultures and Program of Cell and Molecular Biosciences, Aquatic Genomics Unit, Auburn University, Auburn, AL 36849, USA;(2) BACPAC Resources, Children’s Hospital Oakland Research Institute, Oakland, CA 94609, USA;(3) Department of Basic Sciences and Aquatic Medicine, Section of Genetics, Norwegian School of Veterinary Science, N-0033 Oslo, Norway;(4) USDA, ARS, Catfish Genetics Research Unit, 141 Experiment Station Road, Stoneville, MS 38776, USA |
| |
Abstract: | The CHORI-212 bacterial artificial chromosome (BAC) library was constructed by cloning EcoRI/EcoRI partially digested DNA into the pTARBAC2.1 vector. The library has an average insert size of 161 kb, and provides 10.6-fold
coverage of the channel catfish haploid genome. Screening of 32 genes using overgo or cDNA probes indicated that this library
had a good representation of the genome as all tested genes existed in the library. We previously reported sequencing of approximately
25,000 BAC ends that generated 20,366 high-quality BAC end sequences (BES) and identified a large number of sequences similar
to known genes using BLASTX searches. In this work, particular attention was given to identification of BAC mate pairs with
known genes from both ends. When identified, comparative genome analysis was conducted to determine syntenic regions of the
catfish genome with the genomes of zebrafish and Tetraodon. Of the 141 mate pairs with known genes from channel catfish, conserved syntenies were identified in 34 (24.1%), with 30
conserved in the zebrafish genome and 14 conserved in the Tetraodon genome. Additional analysis of three of the 34 conserved syntenic groups by direct sequencing indicated conserved gene contents
in all three species. This indicates that comparative genome analysis may provide shortcuts to genome analysis in catfish,
especially for short genomic regions once the conserved syntenies are identified.
Shaolin Wang and Peng Xu contributed equally to the article. |
| |
Keywords: | BAC catfish comparative mapping genome synteny |
本文献已被 PubMed SpringerLink 等数据库收录! |
|