Evaluation of inter-simple sequence repeat (ISSR) markers for genetic mapping of an oil palm interspecific hybrid mapping population

H. M N Nordiana, T. Ngoot-Chin, R. Singh, M. M. Clyde, M. Madon

    Research output: Contribution to journalArticle

    Abstract

    Inter-simple sequence repeat (ISSR) markers were evaluated for mapping onto the genetic linkage map of an oil palm interspecific hybrid mapping population (Elaeis oleifera × E. guineensis). The genetic linkage of the markers was determined using the two-way pseudo-testcross strategy and the parental map was constructed using JoinMap 4.0. A total of 36 informative ISSR markers consisting of 20 singleprimers and 16 double-primers were genotyped and generated 41 scorable polymorphic bands. Of these 41 polymorphic markers, 39 segregated in the E. guineensis male parent (T128) and only two segregated in the E. oleifera female parent (UP1026). As there were insufficient number of markers generated for UP1026, only the linkage map for T128 could be constructed. Twenty-eight of the ISSR markers were successfully mapped on the T128 parental map together with the existing RFLP, AFLP and SSR markers. Overall, 25 linkage groups covering a total map length of 2402.6 cM with an average interval of 7.1 cM were constructed in this study. Eight ISSR markers were incorporated into six of the 18 linkage groups, while 20 ISSR formed seven small groups separately. The ISSR markers were mostly mapped at the distal ends of linkage groups, regions which were generally not accessible by the other marker systems. This study demonstrated that ISSR markers are useful in combination with other markers for genetic mapping in oil palm. The ISSR primers with CT repeats developed from the dinucleotide 3'- anchored sites also showed the highest level of polymorphism. Furthermore, the development of ISSR markers is comparatively simple, fast, cost-effective and shows reproducibility, thus revealing its potential for genetic analyses of oil palm.

    Original languageEnglish
    Pages (from-to)214-225
    Number of pages12
    JournalJournal of Oil Palm Research
    Volume26
    Issue number3
    Publication statusPublished - 1 Sep 2014

    Fingerprint

    Palm oil
    Elaeis guineensis
    Genetic Markers
    Microsatellite Repeats
    chromosome mapping
    Oils
    microsatellite repeats
    Population
    Elaeis oleifera
    linkage groups
    Genetic Linkage
    Polymorphism
    Dinucleotide Repeats
    testcrosses
    Restriction Fragment Length Polymorphisms
    reproducibility
    amplified fragment length polymorphism
    linkage (genetics)
    restriction fragment length polymorphism
    Costs

    Keywords

    • Genetic linkage map
    • Inter-simple sequence repeat (ISSR)
    • Oil palm interspecific hybrid

    ASJC Scopus subject areas

    • Agronomy and Crop Science
    • Food Science
    • Renewable Energy, Sustainability and the Environment
    • Biomaterials

    Cite this

    Evaluation of inter-simple sequence repeat (ISSR) markers for genetic mapping of an oil palm interspecific hybrid mapping population. / Nordiana, H. M N; Ngoot-Chin, T.; Singh, R.; Clyde, M. M.; Madon, M.

    In: Journal of Oil Palm Research, Vol. 26, No. 3, 01.09.2014, p. 214-225.

    Research output: Contribution to journalArticle

    Nordiana, H. M N ; Ngoot-Chin, T. ; Singh, R. ; Clyde, M. M. ; Madon, M. / Evaluation of inter-simple sequence repeat (ISSR) markers for genetic mapping of an oil palm interspecific hybrid mapping population. In: Journal of Oil Palm Research. 2014 ; Vol. 26, No. 3. pp. 214-225.
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    AU - Singh, R.

    AU - Clyde, M. M.

    AU - Madon, M.

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