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Plant J. 2015 Sep;83(6):1114-22. doi: 10.1111/tpj.12949.

The Arabidopsis TAC Position Viewer: a high-resolution map of transformation-competent artificial chromosome (TAC) clones aligned with the Arabidopsis thaliana Columbia-0 genome.

Author information

1
Honda Research Institute Japan Co., Ltd., 8-1 Honcho, Wako-shi, Saitama, 351-0188, Japan.
2
Kazusa DNA Research Institute, 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba, 292-0818, Japan.
3
Laboratory of Genetic Engineering, South China Agricultural University, Gungzhou, 510642, China.
4
State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Gungzhou, 510642, China.
5
Graduate School of Life Sciences, Tohoku University, Aoba-ku, Sendai, 980-8577, Japan.
6
Bioinformatics Laboratory, Department of Life Sciences, School of Agriculture, Meiji University, 1-1-1 Higashimita, Tama-ku, Kanagawa, Kawasaki, 214-8571, Japan.

Abstract

We present a high-resolution map of genomic transformation-competent artificial chromosome (TAC) clones extending over all Arabidopsis thaliana (Arabidopsis) chromosomes. The Arabidopsis genomic TAC clones have been valuable genetic tools. Previously, we constructed an Arabidopsis genomic TAC library consisting of more than 10,000 TAC clones harboring large genomic DNA fragments extending over the whole Arabidopsis genome. Here, we determined 13,577 end sequences from 6987 Arabidopsis TAC clones and mapped 5937 TAC clones to precise locations, covering approximately 90% of the Arabidopsis chromosomes. We present the large-scale data set of TAC clones with high-resolution mapping information as a Java application tool, the Arabidopsis TAC Position Viewer, which provides ready-to-go transformable genomic DNA clones corresponding to certain loci on Arabidopsis chromosomes. The TAC clone resources will accelerate genomic DNA cloning, positional walking, complementation of mutants and DNA transformation for heterologous gene expression.

KEYWORDS:

Arabidopsis TAC clones; Arabidopsis TAC library; Arabidopsis genome; Arabidopsis thaliana; GBrowse; bioinformatics; genomics; transformation-competent artificial chromosome

PMID:
26227242
DOI:
10.1111/tpj.12949
[Indexed for MEDLINE]
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