naa a22 4500 510730698 CHVBK 20180411082951.0 cr unu---uuuuu 180411e20130801xx s 000 0 eng 10.1007/s11295-013-0625-9 doi (NATIONALLICENCE)springer-10.1007/s11295-013-0625-9 Methylation levels of a novel genetic element, EgNB3 as a candidate biomarker associated with the embryogenic competency of oil palm [Elektronische Daten] [W. Ho, S. Ooi, S. Mayes, P. Namasivayam, M. Ong-Abdullah, C. Chin] The association between DNA methylation status and embryogenic competency in oil palm tissue culture was examined through Representational Difference Analysis (RDA) approach, using methylation-sensitive restriction endonucleases. "Difference Products” (DPs) of RDA derived from palms of similar genetic backgrounds but exhibiting different embryogenesis rates during the regeneration process were isolated. The DPs were sequenced using a pyrosequencing platform. To our knowledge, this is the first study profiling partial HpaII methylation sites in oil palm young leaf tissues which are potentially associated with embryogenic amenability through a genomic subtractive approach. Quantitative real-time PCR analysis demonstrated that the methylation status of a novel fragment, EgNB3, was higher in highly embryogenic leaf explants compared to low embryogenesis rate materials. These differences are likely to be contributed by the 5′-mCCGG-3′ and/or 5′-mCmCGG-3′ methylation patterns. Our data suggest that the differentially methylated site in EgNB3 has potential as a molecular biomarker for the screening of oil palm leaf explants for their embryogenic potentials. Springer-Verlag Berlin Heidelberg, 2013 Site-specific methylation nationallicence Embryogenic potential nationallicence Oil palm nationallicence Biomarker nationallicence RDA : representational difference analysis nationallicence DP : RDA difference product nationallicence Cq : real-time quantification cycle nationallicence PCR : polymerase chain reaction nationallicence NGS : next generation sequencing nationallicence ROC : receiver operating characteristic nationallicence AUC : area under the curve nationallicence Ho W. School of Biosciences, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia aut Ooi S. Malaysian Palm Oil Board, PO Box 10620, 50720, Kuala Lumpur, Malaysia aut Mayes S. School of Biosciences, Faculty of Science, University of Nottingham Sutton Bonington Campus, LE12 5RD, Loughborough Leics, UK aut Namasivayam P. Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, University Putra Malaysia, 43400, Serdang, Selangor, Malaysia aut Ong-Abdullah M. Malaysian Palm Oil Board, PO Box 10620, 50720, Kuala Lumpur, Malaysia aut Chin C. School of Biosciences, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia aut Tree Genetics & Genomes Springer Berlin Heidelberg 9/4(2013-08-01), 1099-1107 1614-2942 9:4<1099 2013 9 11295 https://doi.org/10.1007/s11295-013-0625-9 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11295-013-0625-9 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Ho W. School of Biosciences, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia aut NATIONALLICENCE 700 1- Ooi S. Malaysian Palm Oil Board, PO Box 10620, 50720, Kuala Lumpur, Malaysia aut NATIONALLICENCE 700 1- Mayes S. School of Biosciences, Faculty of Science, University of Nottingham Sutton Bonington Campus, LE12 5RD, Loughborough Leics, UK aut NATIONALLICENCE 700 1- Namasivayam P. Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, University Putra Malaysia, 43400, Serdang, Selangor, Malaysia aut NATIONALLICENCE 700 1- Ong-Abdullah M. Malaysian Palm Oil Board, PO Box 10620, 50720, Kuala Lumpur, Malaysia aut NATIONALLICENCE 700 1- Chin C. School of Biosciences, Faculty of Science, University of Nottingham Malaysia Campus, Jalan Broga, 43500, Semenyih, Selangor, Malaysia aut NATIONALLICENCE 773 0- Tree Genetics & Genomes Springer Berlin Heidelberg 9/4(2013-08-01), 1099-1107 1614-2942 9:4<1099 2013 9 11295 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer