New Oligonucleotide Probes for ND-FISH Analysis to Identify Barley Chromosomes and to Investigate Polymorphisms of Wheat Chromosomes

Shuyao Tang; Ling Qiu; Zhiqiang Xiao; Shulan Fu; Zongxiang Tang

doi:10.3390/genes7120118

New Oligonucleotide Probes for ND-FISH Analysis to Identify Barley Chromosomes and to Investigate Polymorphisms of Wheat Chromosomes

Genes (Basel). 2016 Dec 5;7(12):118. doi: 10.3390/genes7120118.

Authors

Shuyao Tang^{1

2}, Ling Qiu³, Zhiqiang Xiao⁴, Shulan Fu⁵, Zongxiang Tang^{6

7}

Affiliations

¹ Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agriculture University, Wenjiang, Chengdu 611130, China. tangshuyao705708@sina.com.
² Institute of Ecological Agriculture, Sichuan Agricultural University, Wenjiang, Chengdu 611130, China. tangshuyao705708@sina.com.
³ Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agriculture University, Wenjiang, Chengdu 611130, China. qiuling705@sina.com.
⁴ Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agriculture University, Wenjiang, Chengdu 611130, China. xiaozq705@sina.com.
⁵ Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agriculture University, Wenjiang, Chengdu 611130, China. fushulan@sicau.edu.cn.
⁶ Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agriculture University, Wenjiang, Chengdu 611130, China. zxtang@sicau.edu.cn.
⁷ Institute of Ecological Agriculture, Sichuan Agricultural University, Wenjiang, Chengdu 611130, China. zxtang@sicau.edu.cn.

Abstract

Oligonucleotide probes that can be used for non-denaturing fluorescence in situ hybridization (ND-FISH) analysis are convenient tools for identifying chromosomes of wheat (Triticum aestivum L.) and its relatives. New oligonucleotide probes, Oligo-HvT01, Oligo-pTa71-1, Oligo-s120.1, Oligo-s120.2, Oligo-s120.3, Oligo-275.1, Oligo-275.2, Oligo-k566 and Oligo-713, were designed based on the repetitive sequences HVT01, pTa71, pTa-s120, pTa-275, pTa-k566 and pTa-713. All these probes can be used for ND-FISH analysis and some of them can be used to detect polymorphisms of wheat chromosomes. Probes Oligo-HvT01, Oligo-pTa71-1, Oligo-s120.3, Oligo-275.1, Oligo-k566 and Oligo-713 can, respectively, replace the roles of their original sequences to identify chromosomes of some barley (Hordeum vulgare ssp. vulgare) and the common wheat variety Chinese Spring. Oligo-s120.1, Oligo-s120.2 and Oligo-275.2 produced different hybridization patterns from the ones generated by their original sequences. In addition, Oligo-s120.1, Oligo-s120.2 and Oligo-s120.3, which were derived from pTa-s120, revealed different signal patterns. Likewise, Oligo-275.1 and Oligo-275.2, which were derived from pTa-275, also displayed different hybridization patterns. These results imply that differently arranged or altered structural statuses of tandem repeats might exist on different chromosome regions. These new oligonucleotide probes provide extra convenience for identifying some wheat and barley chromosomes, and they can display polymorphisms of wheat chromosomes.

Keywords: ND-FISH; barley; chromosomal polymorphism; tandem repeats; wheat.