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Title: A high-resolution physical map integrating an anchored chromosome with the BAC physical maps of wheat chromosome 6B
Authors: Kobayashi, Fuminori
Wu, Jianzhong
Kanamori, Hiroyuki
Tanaka, Tsuyoshi
Katagiri, Satoshi
Karasawa, Wataru
Kaneko, Satoko
Watanabe, Shota
Sakaguchi, Toyotaka
Hanawa, Yumiko
Fujisawa, Hiroko
Kurita, Kanako
Abe, Chikako
Iehisa, Julio C M
Ohno, Ryoko
Šafář, Jan  KAKEN_name
Šimková, Hana  KAKEN_name
Mukai, Yoshiyuki
Hamada, Masao
Saito, Mika
Ishikawa, Goro
Katayose, Yuichi
Endo, Takashi R.
Takumi, Shigeo
Nakamura, Toshiki
Sato, Kazuhiro
Ogihara, Yasunari
Hayakawa, Katsuyuki
Doležel, Jaroslav
Nasuda, Shuhei  kyouindb  KAKEN_id
Matsumoto, Takashi
Handa, Hirokazu
Author's alias: 那須田, 周平
Keywords: Centromere
Chromosomal rearrangement
Chromosome 6B
DNA marker
Gene order
Nucleolus organizer region
BAC physical map
RH map
Synteny
Wheat
Issue Date: 12-Aug-2015
Publisher: BioMed Central Ltd.
Journal title: BMC Genomics
Volume: 16
Thesis number: 595
Abstract: Background: A complete genome sequence is an essential tool for the genetic improvement of wheat. Because the wheat genome is large, highly repetitive and complex due to its allohexaploid nature, the International Wheat Genome Sequencing Consortium (IWGSC) chose a strategy that involves constructing bacterial artificial chromosome (BAC)-based physical maps of individual chromosomes and performing BAC-by-BAC sequencing. Here, we report the construction of a physical map of chromosome 6B with the goal of revealing the structural features of the third largest chromosome in wheat. Results: We assembled 689 informative BAC contigs (hereafter reffered to as contigs) representing 91 % of the entire physical length of wheat chromosome 6B. The contigs were integrated into a radiation hybrid (RH) map of chromosome 6B, with one linkage group consisting of 448 loci with 653 markers. The order and direction of 480 contigs, corresponding to 87 % of the total length of 6B, were determined. We also characterized the contigs that contained a part of the nucleolus organizer region or centromere based on their positions on the RH map and the assembled BAC clone sequences. Analysis of the virtual gene order along 6B using the information collected for the integrated map revealed the presence of several chromosomal rearrangements, indicating evolutionary events that occurred on chromosome 6B. Conclusions: We constructed a reliable physical map of chromosome 6B, enabling us to analyze its genomic structure and evolutionary progression. More importantly, the physical map should provide a high-quality and map-based reference sequence that will serve as a resource for wheat chromosome 6B.
Rights: © 2015 Kobayashi et al. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
URI: http://hdl.handle.net/2433/212526
DOI(Published Version): 10.1186/s12864-015-1803-y
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