Pencarian Alel untuk Identifikasi Gen Ketahanan Penyakit Hawar Daun Bakteri, Xa7 pada Plasma Nutfah Padi Lokal Indonesia

Dwinita W Utami, Endang M Septiningsih, Triny S Kadir, Fatimah W Fatimah, Siti W Yuriyah

Abstract


Allele Mining of Bacterial Blight Resistance Gene, Xa7 on
Indonesian Local Rice Germplasm. Dwinita W. Utami,
Endang M. Septiningsih, Trini S. Kadir, Fatimah, and Siti
Yuriyah. The abundance of novel genetic variation existing
in germplasm collections is the foundation for variety
improvement in plant breeding program. Nevertheless,
studies on Indonesian genetic diversity rice germplasm
using molecular markers are still poorly. Recent advances in
utilizing of simple sequence repeat (SSR) in QTL mapping
and whole rice genome sequences were positive support on
genetic diversity of rice germplasm research. Based on these
advance technology, we developed the research to discover
new alleles at important gene loci that can be used for rice
improvement. This approach is recognized as allele mining
technology. On this study the target genes for allele mining
research is the resistance gene for bacterial leaf blight
pathogen, Xa7. This point was introduced by identify the
genetic diversity of 96 accessions Indonesian local rice
germplasm. The Xa7 allele mining was done by SNP (single
nucleotide polymorphism) designing primers based on DNA
sequence around the gene target. The significant LD map
was detected by association mapping between phenotype
and SNP genotyping data of the selected germplasm which
having superior performance on BLB resistance and
representing on genetic diversity clustering. The results
shown that Xa7 allele variation were found in Parekaligolara
(Indica, 15141), and Gajah Mada (Indica, 5856), which
resistant to BLB races IV and VIII on generative stage and
field condition. The significant Xa7-SNP8 and Xa7-SNP11
markers were associating with the LD map position of Xa7
gene on 28, 05-28,1Mb of chromosome 6 in rice genome.


Keywords


Xa7; allele mining; Indonesian rice local

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DOI: http://dx.doi.org/10.21082/jbio.v6n1.2010.p1-9

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