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Amplified fragment length polymorphism-based genetic diversity among cultivated and weedy rye (Secale cereale L.) accessions

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Abstract

Amplified fragment length polymorphism markers were evaluated to determine the genetic diversity and relationships among cultivated and weedy ryes (Secale cereale L.) using a large global set of accessions. On the basis of 395 polymorphic bands resulted from nine PstI-MseI primer combinations, cultivated rye exhibited higher average genetic diversity (Ht = 0.34) than that of the weedy rye (Ht = 0.27), however, it had lower genetic differentiation (Fst = 0.16). The average genetic diversity of cultivated rye varied from region to region ranging from 0.21 to 0.31. As expected, all cultivated accessions clustered together both in dendrogram and principal coordinate diagram indicating common breeding program selection criteria based on similar value-added agronomic characteristics. A clustering of cultivated rye accessions into groups based strictly on geographical origin was not found. The relationships among cultivated, weedy and wild ryes were discussed.

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Acknowledgments

We would like to thank several individuals for their generous shared materials: to Dr.Bockelman from Germplasm Resources Information Network (GRIN) of the United States Department of Agriculture, to Dr. M. Niedzielski and Dr. W. Podyma from Plant Breeding and Acclimatization Institute (IHAR), Poland, for providing seed materials, and to International Maize and Wheat Center (CIMMYT), Mexico for providing us DNA materials. We are grateful to Kathleen Ross for her continuous technical help and advice during preparing materials.

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Authors and Affiliations

  1. Department of Biology, Faculty of Mathematics and Sciences, Bogor Agricultural University, Darmaga Campus, Bogor, 16680, Indonesia

    T. Chikmawati & M. Miftahudin

  2. The Nordic Gene Bank, P.O. 41, 230 53, Alnarp, Sweden

    B. Skovmand

  3. Department of Agronomy, University of Missouri, Columbia, MO, 65211, USA

    J. Perry Gustafson

  4. USDA-ARS, Plant Genetics Research Unit, University of Missouri, Columbia, MO, 65201, USA

    J. Perry Gustafson

Authors
  1. T. Chikmawati
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  2. M. Miftahudin
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  3. B. Skovmand
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  4. J. Perry Gustafson
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Correspondence to T. Chikmawati.

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We deeply regret the death of Dr. B. Skovmand during the development of this manuscript. We would like to dedicate this manuscript in his memory.

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10722_2012_9796_MOESM1_ESM.jpg

Phylogenetic tree of 114 cultivated, 9 weedy and 2 wild rye accessions using the the neighbor-joining method, 1-114= cultivated, we1-we9=weedy, and wi1-wi2 = wild rye (JPEG 184 kb)

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Chikmawati, T., Miftahudin, M., Skovmand, B. et al. Amplified fragment length polymorphism-based genetic diversity among cultivated and weedy rye (Secale cereale L.) accessions. Genet Resour Crop Evol 59, 1743–1752 (2012). https://doi.org/10.1007/s10722-012-9796-8

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  • DOI: https://doi.org/10.1007/s10722-012-9796-8

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