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A radiation hybrid map of chromosome 1D reveals synteny conservation at a wheat speciation locus

Functional & Integrative Genomics volume 13, pages 19–32 (2013)Cite this article

Abstract

The species cytoplasm specific (scs) genes affect nuclear-cytoplasmic interactions in interspecific hybrids. A radiation hybrid (RH) mapping population of 188 individuals was employed to refine the location of the scs ae locus on Triticum aestivum chromosome 1D. “Wheat Zapper,” a comparative genomics tool, was used to predict synteny between wheat chromosome 1D, Oryza sativa, Brachypodium distachyon, and Sorghum bicolor. A total of 57 markers were developed based on synteny or literature and genotyped to produce a RH map spanning 205.2 cR. A test-cross methodology was devised for phenotyping of RH progenies, and through forward genetic, the scs ae locus was pinpointed to a 1.1 Mb-segment containing eight genes. Further, the high resolution provided by RH mapping, combined with chromosome-wise synteny analysis, located the ancestral point of fusion between the telomeric and centromeric repeats of two paleochromosomes that originated chromosome 1D. Also, it indicated that the centromere of this chromosome is likely the result of a neocentromerization event, rather than the conservation of an ancestral centromere as previously believed. Interestingly, location of scs locus in the vicinity of paleofusion is not associated with the expected disruption of synteny, but rather with a good degree of conservation across grass species. Indeed, these observations advocate the evolutionary importance of this locus as suggested by “Maan’s scs hypothesis.”

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Acknowledgments

The authors wish to thank Justin Hegstad and Allen Peckrul for their qualified technical help. This work was supported by funding from the National Science Foundation, Plant Genome Research Program (NSF-PGRP) grant No. IOS-0822100 to SFK. F.M.B was partially supported by Program Master and Back Regione Autonoma della Sardegna and Monsanto Beachell-Borlaug International Scholarship.

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Authors and Affiliations

  1. Department of Plant Sciences, North Dakota State University, Fargo, ND, 58108-6050, USA

    Monika K. Michalak de Jimenez, Filippo M. Bassi, Farhad Ghavami, Kristin Simons, Rissa Dizon, Kiran Seth & Shahryar F. Kianian

  2. Department of Computer Science, North Dakota State University, Fargo, ND, 58108-6050, USA

    Raed I. Seetan & Anne M. Denton

  3. Computer Information System Department, University of Jordan, Amman, 11942, Jordan

    Loai M. Alnemer

  4. USDA-ARS, BRL, Fargo, ND, 58102-2765, USA

    Münevver Doğramacı

  5. Center of the Region Hana for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, CZ-77200, Czech Republic

    Hana Šimková & Jaroslav Doležel

  6. Department of Plant Sciences, University of California, Davis, CA, 95616, USA

    Ming-Cheng Luo & Jan Dvorak

  7. USDA - Agricultural Research Service, Western Regional Research Center, Albany, CA, 94710, USA

    Yong Qiang Gu

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  1. Monika K. Michalak de Jimenez
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Correspondence to Shahryar F. Kianian.

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Monika K. Michalak de Jimènez and Filippo M. Bassi contributed equally to this paper.

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Michalak de Jimenez, M.K., Bassi, F.M., Ghavami, F. et al. A radiation hybrid map of chromosome 1D reveals synteny conservation at a wheat speciation locus. Funct Integr Genomics 13, 19–32 (2013). https://doi.org/10.1007/s10142-013-0318-3

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