Development of Novel SSR Markers on Wheat Chromosome 2B

doi:10.7668/hbnxb.201751761

Abstract

Abstract: In order to develop novel SSR markers for wheat breeding, simple sequence repeat(SSR) was identified from a 25 Mb region according to the Chinese Spring 2B chromosome reference sequence. In 2 852 SSR loci identified, 80.40% belonged to dinucleotides repeat.Six, thirty, seventeen, one kinds of SSR repeats were found in dinucleotide, trinucleotide, tetranucleotide, pentanucleotide repeats, respectively. For dinucleotides, GA/CT, AG/TC, AT/TA had the highest frequencies, occupying 20.44%, 19.00%, 17.15% of all SSR loci identified, respectively; for trinucleotides, CTT/GAA had the highest frequency, occupying 2.56% of all SSR loci identified; whereas the frequencies of tetranucleotide and pentanucleotide repeats were relatively low. Furthermore, the replication numbers were higher in dinucleotide than others, and 327 SSR loci which occupied 14.26% of all dinucleotides loci identified were with ≥ 10 replications. The numbers of SSR loci with ≥ 10 replications for AG/TC and AT/TA reached 98 and 97, respectively. The replication numbers in trinucleotide were relatively low, and 62 SSR loci which occupied 11.55% of all trinucleotides loci identified were with ≥ 8 replications. The number of TTC/AAG with ≥ 8 replications was the biggest, reached 12. For tetranucleotide, the numbers in ACAT/TGTA and TAGA/ATCT reached 16 and 14, respectively, and the replication numbers in other repeats of tetranucleotide varied between 5 and 7. Based on the found SSR loci, 135 SSR primer pairs were designed and synthesized. Of these, 101(74.81%) SSR primer pairs amplified clear products in wheat lines Cf5019-21 and Cf5240-41, and 17 SSR primer pairs showed polymorphism between them.

Key words: Wheat, SSR, Primer, 2B chromosome

CLC Number:

S512.1

LI Xiaojun, XU Xin, ZHANG Ziyang, LIU Mingjiu, RU Zhengang. Development of Novel SSR Markers on Wheat Chromosome 2B[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2019, 34(3): 68-74. doi: 10.7668/hbnxb.201751761.

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