Development of specific STS markers for the sixth homologous group of Thinopyrum intermedium

doi:10.11686/cyxb2018723

Abstract

Abstract: Thinopyrum intermedium (2n=6x=42, JJJ^sJ^sStSt) is one of the important wild resources for wheat genetic improvement. However, as the Th. intermedium genome has not yet been sequenced, the numbers of reported Thinopyrum-specific molecular markers are insufficient for the purpose of identification of the small aline fragments or genes in the offspring of wheat-Th. intermedium hybrids in wheat breeding research. In this study, a total of 5877409 Contigs (overlapping DNA sequences) were obtained by assembling the probe sequences of a Th. intermedium genotyping-by-sequencing chip downloaded from a database. Through informatics analysis, 5452 non-redundant Contigs with chromosome location information and a similarity less than 80% with the wheat genome were screened out, and 2019 sequence-tagged site (STS) molecular markers were developed. The distribution numbers of markers from Thinopyrum homologous groups 1 (G1) to G7 were 250, 215, 323, 253, 323, 253 and 402, respectively. Then, 160 Thinopyrum-G6 specific markers were selected based on amplification of five Th. intermedium plants and five wheat landraces, 53 of which were of “+/-” specificity and were distributed on the three G6 chromosomes: G6-Chr1 (32), G6-Chr2 (13) and G6-Chr3 (8). Next, G6-Chr2 was deduced to be the 6St chromosome by using three progenitor species of Th. intermedium, including Th. elongatum (2n=2x=14, J^eJ^e), Th. bessarabicum (2n=2x=14, J^bJ^b) and Pseudoroegneiria strigosa (2n=2x=14, StSt), as well as 6J^e substitution lines of Chinese spring-Th. elongatum. Finally, the 13 “+/-” specific markers developed that were located on Thinopyrum-6St were used to verify the exogenous chromosome in wheat-Thinopyrum substitution line F881-6St/6D at the molecular level. These results will provide a more convenient and economical method for the identification of chromosomes or chromosome fragments of Th. intermedium.

Key words: Thinopyrum intermedium, genomic specific, STS molecular marker

LIU Shu-juan, ZHANG Xiao-jun, LI Xin, LIU Cheng, BAI Jian-rong, REN Yong-kang, ZHENG Jun, LI Shi-jiao, GUO Hui-juan, MEI Chao, ZHANG Shu-wei, CHANG Zhi-jian, QIAO Lin-yi. Development of specific STS markers for the sixth homologous group of Thinopyrum intermedium[J]. Acta Prataculturae Sinica, 2019, 28(4): 139-145.

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