Theoretical and Applied Genetics

, Volume 97, Issue 3, pp 370-380

First online:

Integrated map of AFLP, SSLP and RFLP markers using a recombinant inbred population of rice (Oryza sativa L.)

  • Y. G. ChoAffiliated withDepartment of Agronomy, Chungbuk National University, Cheongju, 361-763, Korea Fax: 82-431-273-2242 E-mail: ygcho@cbucc.chungbuk.ac.kr
  • , S. R. McCouchAffiliated withDepartment of Plant Breeding, Cornell University, Ithaca, NY 14853-1901, USA Fax: 607-255-6683 E-mail: srm4@cornell.edu
  • , M. KuiperAffiliated withKeyGene N.V., Agro Business Park 90, 6708 PW Wageningen, The Netherlands
  • , M.-R. KangAffiliated withNational Institute of Agricultural Science and Technology, Suwon 441-707, Korea
  • , J. PotAffiliated withKeyGene N.V., Agro Business Park 90, 6708 PW Wageningen, The Netherlands
  • , J. T. M. GroenenAffiliated withKeyGene N.V., Agro Business Park 90, 6708 PW Wageningen, The Netherlands
  • , M. Y. EunAffiliated withNational Institute of Agricultural Science and Technology, Suwon 441-707, Korea

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Abstract

 A molecular map of rice consisting of 231 amplified fragment length polymorphisms (AFLPs), 212 restriction fragment length polymorphisms (RFLPs), 86 simple-sequence length polymorphisms (SSLPs), five isozyme loci, and two morphological mutant loci [phenol staining of grain (Ph), semi-dwarf habit (sd-1)] has been constructed using an F11 recombinant inbred (RI) population. The mapping population consisted of 164 RI lines and was developed via single-seed descent from an intercross between the genetically divergent parents Milyang 23 (M) (tongil type) and Gihobyeo (G) ( japonica type). A subset of previously mapped RFLP and SSLP markers were used to construct the map framework. The AFLP markers were derived from ten EcoRI(+2) and MseI(+3) primer combinations. All marker types were well distributed throughout the 12 chromosomes. The integrated map covered 1814 cM, with an average interval size of 3.4 cM. The MG map is a cornerstone of the Korean Rice Genome Research Program (KRGRP) and is being continuously refined through the addition of partially sequenced cDNA markers derived from an immature-seed cDNA library developed in Korea, and microsatellite markers developed at Cornell. The population is also being used for quantitative trait locus (QTL) analysis and as the basis for marker-assisted variety development.

Key words Amplified fragment length polymorphism (AFLP) Simple-sequence length polymorphism (SSLP) Restriction fragment length polymorphism (RFLP) Rice (Oryza sativa L.) Molecular map