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Fine mapping of shattering locus Br2 reveals a putative chromosomal inversion polymorphism between the two lineages of Aegilops tauschii

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Abstract

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This work laid the foundation for cloning of shattering gene Br2 and provided first line of evidence that two major Aegilops tauschii lineages are differentiated by an inversion polymorphism.

Abstract

Chromosome inversions often accompany population differentiation and capture local adaptation during speciation. Aegilops tauschii, the D-genome donor species of hexaploid wheat, consists of two genetically isolated lineages, L1 and L2, but little is known about the genetic mechanisms underlying the population differentiation in this diploid species. During fine mapping of the shattering gene Br2 using a large F2 population derived from a cross between TA1604 (an L1 accession) and AL8/78 (an L2 accession), we found contrasting patterns of crossover distribution in the Br2 interval and neighboring regions despite the high local gene synteny with Brachypodium distachyon and rice. Br2 was localized in a 0.08-cM interval, and 13 marker loci formed a block, where single-crossovers were completely suppressed, but double-crossovers were enriched with a recombination rate of ~11 cM/Mb. In contrast, in a neighboring region no double-crossover was recovered, but single-crossover rate reached 24 cM/Mb, which is much higher than the genome-wide average. This result suggests a putative inversion polymorphism between the parental lines in the Br2 region. Genotyping using the markers from the Br2 region divided a collection of 55 randomly sampled A. tauschii accessions into two major groups, and they are largely genetically isolated. The two groups correspond to the L1 and L2 lineages based on their geographic distribution patterns. This provides first evidence that inversions may underlie the evolution of A. tauschii lineages. The presence of inter-lineage inversions may complicate map-based cloning in A. tauschii and transfer of useful traits to wheat.

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Abbreviations

asl:

Above sea level

BP:

Before present

BAC:

Bacterial artificial chromosome

CAPS:

Cleaved amplified polymorphic sequence

cM:

Centimorgan

dCAPS:

Derived CAPS

indel:

Small insertion/deletion

MTP:

Minimal tiling path

RFLP:

Restriction fragment length polymorphism

SNP:

Single nucleotide polymorphism

UPGMA:

Unweighted pair group method with arithmetic means

UTR:

Untranslated region

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Acknowledgments

We thank Dr. Jan Dvorak for supplying the BAC clones and the seeds of A. tauschii accession AL8/78. This project was supported by USDA Hatch program through South Dakota Agricultural Experiment Station (WL) and NSF WGRC I/UCRC Award Number 1338897 (BSG).

Conflict of interest

The authors declare that they have no conflict of interest.

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Authors and Affiliations

  1. Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA

    Zhengzhi Zhang, Huilan Zhu & Wanlong Li

  2. Department of Plant Pathology, Wheat Genetics Resource Center, Kansas State University, Manhattan, KS, 66506, USA

    Bikram S. Gill

  3. Department of Plant Science, South Dakota State University, Brookings, SD, 57007, USA

    Wanlong Li

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  1. Zhengzhi Zhang
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  2. Huilan Zhu
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  4. Wanlong Li
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Correspondence to Wanlong Li.

Additional information

Communicated by M. J. Sillanpaa.

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Zhang, Z., Zhu, H., Gill, B.S. et al. Fine mapping of shattering locus Br2 reveals a putative chromosomal inversion polymorphism between the two lineages of Aegilops tauschii . Theor Appl Genet 128, 745–755 (2015). https://doi.org/10.1007/s00122-015-2469-1

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