Open AccessBAC Resources for the Rat Genome Project
Author(s) -
Kazutoyo Osoegawa,
Baoli Zhu,
Chung Li Shu,
Teresa Ren,
Qing Cao,
Gery M. Vessere,
Michelle M. Lutz,
Michael I. JensenSeaman,
Shaying Zhao,
Pieter J. de Jong
Publication year - 2004
Publication title -
genome research
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 9.556
H-Index - 297
eISSN - 1549-5469
pISSN - 1088-9051
DOI - 10.1101/gr.2033904
Subject(s) - contig , biology , genome , in silico , genetics , genomic library , bacterial artificial chromosome , sequence assembly , reference genome , computational biology , dna sequencing , gene , transcriptome , base sequence , gene expression
Two 11-fold redundant bacterial artificial chromosome (BAC) libraries (RPCI-32 and CHORI-230) have been constructed to support the rat genome project. The first library was constructed using a male Brown Norway (BN/SsNHsd) rat as a DNA source long before plans for rat genome sequencing had been launched. The second library was prepared from a highly inbred female (BN/SsNHsd/MCW) rat in support of the rat genome sequencing project. The use of an inbred rat strain is essential to avoid problems with genome assembly resulting from the difficulty of distinguishing haplotype variation from variation among duplicons. We have demonstrated the suitability of the library by using a detailed quality assessment of large insert sizes, narrow size distribution, consistent redundancy for many markers, and long-range continuity of BAC contig maps. The widespread use of the two libraries as an integral part of the rat genome project has led to the database annotations for many clones, providing rat researchers with a rich resource of BAC clones that can be screened in silico for genes of interest.
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