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IDENTIFICATION OF A MAJOR QUANTITATIVE TRAIT LOCUS CONFERRING RICE BLAST RESISTANCE USING RECOMBINANT INBRED LINES Sobrizal, Sobrizal; Bustamam, Masdiar; Carkum, Carkum; Warsun, Ahmad; Human, Soeranto; Fukuta, Yoshimichi
Indonesian Journal of Agricultural Science Vol 11, No 1 (2010): April 2010
Publisher : Indonesian Agency for Agricultural Research and Development - MOA

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Abstract

Blast disease caused by Pyricularia oryzae is one of the limitingfactors for rice production world wide. The use of resistantvarieties for managing blast disease is considered as the mosteco-friendly approaches. However, their resistances may bebroken down within a few years due to the appearance of newvirulent blast races in the field. The objective of the presentstudy was to identify the quantitative trait locus (QTL) conferringresistance to blast disease using 126 recombinant inbred(RI) lines originated from a crossing of a durably resistant uplandrice genotype (Laka) and a highly susceptible rice accessioncultivar (Kencana Bali). The RI population was developedthrough a single seed descent method from 1997 to 2004.Resistance of the RI lines was evaluated for blast in an endemicarea of Sukabumi, West Java, in 2005. Disease intensity of theblast was examined following the standard evaluation systemdeveloped by the International Rice Research Institute (IRRI).At the same year the RI lines were analyzed with 134 DNAmarkers. Results of the study showed that one major QTL wasfound to be associated with blast resistance, and this QTL waslocated near RM2136 marker on the long arm of chromosome11. This QTL explained 87% of the phenotypic variation with37% additive effect. The map position of this QTL differedfrom that of a partial resistant gene, Pi34, identified previouslyon chromosome 11 in the Japanese durably resistant variety,Chubu 32. The QTL, however, was almost at the same positionas that of the multiple allele-resistant gene, Pik. Therefore, anallelic test should be conducted to clarify the allelic relationshipbetween QTL identified in this study and the Pik. The RI linesare the permanent segregating population that could be veryuseful for analysing phenotypic variations of important agronomictraits possibly owned by the RI lines. The major QTLidentified in this study could be used as a genetic resource inimprovement of rice varieties for blast resistance in Indonesia
Identifikasi Marka Polimorfik untuk Pemuliaan Padi Toleran Defisiensi Fosfor Prasetiyono, Joko; Aswidinoor, Hajrial; Moeljopawiro, Sugiono; Sopandie, Didy; Bustamam, Masdiar
Jurnal AgroBiogen Vol 4, No 2 (2008): Oktober
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

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Information on polymorphismsamong rice parents are very important in ricebreeding for tolerance to phosphorus defficiency. A studywas conducted at the Molecular Biology Laboratory,Indonesian Center Agricultural Biotechnology and GeneticResources (ICABIOGRAD) from October 2006 to July 2007 toidentify polymorphism markers from 6 rice genotypes. Therice genotypes, i.e., Dodokan, Situ Bagendit, Batur, Kasalath,NIL-C443, dan K36-5-1-1 were analyzed for polymorphismsusing 496 SSR markers, which cover the rice genomes.Seven of the 496 markers were used as foreground andrecombinant selection markers, and the rests (489 markers)were used as background selection markers. PCR amplificationswere separated on a 5% polyacrylamide gel andcolored by the silver staining method. Three different markersamong the seven foreground and recombinant selectionmarkers were selected from each crossing, which aretightly linked with Pup1 gene and have a distance less than 5cM. These markers are Dodokan vs Kasalath (RM277, SSR3,RM519), Dodokan vs NIL-C443 (RM277, SSR3, RM519),Dodokan vs K36-5-1-1 (RM277, SSR3, RM519), Situ Bagenditvs Kasalath (RM28102, SSR3, RM519), Situ Bagendit vs NILC443(RM28102, SSR3, RM519), Situ Bagendit vs K36-5-1-1(RM511, SSR3, RM519), Batur vs Kasalath (RM277, RM1261,RM519), Batur vs NIL-C443 (RM277, RM1261, RM519), andBatur vs K36-5-1-1 (RM28102, SSR3). Variations in backgroundselection primers were found in each chromosomeand in each parent combinations. Primers on chromosome4, 5, and 12 showed the lowest polymorphisms; moreprimers are needed for these chromosomes.
Keragaman Genetik Isolat Cendawan Pyricularia oryzae Menggunakan Primer Pot-2 (Rep-PCR) Tasliah, Tasliah; Reflinur, Reflinur; Bustamam, Masdiar
Jurnal AgroBiogen Vol 4, No 2 (2008): Oktober
Publisher : Balai Besar Penelitian dan Pengembangan Bioteknologi dan Sumber Daya Genetik Pertanian

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Abstract

Rice blast (Pyriculariaoryzae) is one of the most important diseases of rice. It canbe very destructive in the field, when the environmentalconditions are favourable. Information on genetic diversity ofthis pathogen could assist plant breeders in determiningstrategy for a successful control of the disease. This studywas conducted to analyze genetic diversity in P. oryzaeisolates by a pair of Pot-2 primers using the rep-PCRtechnique. These primers were designed from a transposonelement of the entire blast fungus genomic DNA. DNAsamples were extracted from 212 isolates of P. oryzaecollected from two endemic areas of the disease inIndonesia, i.e., Tamanbogo, Lampung, and Sukabumi, WestJava, as well as from some non-endemic areas in NorthSumatra and West Sumatra). Results of the study indicatedthat the 212 isolates could clustered into 21 haplotypes. Themost dominant haplotypes as indicated by their highestfrequency of haplotypes were haplotype Pot 2-019 (54.46%)followed by haplotype Pot 2-021 (14.73%) and haplotipe Pot2-016 (6.25%). Regardless of origins of the P. oryzae isolates,we found 6 haplotypes from Tamanbogo (out of 117samples), 13 haplotypes from Sukabumi (out of 77 samples),and 11 haplotypes from North Sumatra and West Sumatra(out of 18 isolates). It seems that genetic diversity of the P.oryzae isolates was not affected by the total number ofsamples/isolates, but rather by place of the origin and ricegenotypes from which the isolates were collected.
EVALUATION OF SEVERAL PUP1-LINES OF RICE (ORYZA SATIVA L.) ON NUTRIENT SOLUTION AND AT THE FIELD Prasetiyono, Joko; Suhartini, Tintin; Soemantri, Ida Hanarida; Tasliah, ,; Moeljopawiro, Sugiono; Aswidinnoor, Hajrial; Sopandie, Didy; Bustamam, Masdiar
Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Vol. 40 No. 2 (2012): Jurnal Agronomi Indonesia
Publisher : Indonesia Society of Agronomy (PERAGI) and Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Bogor, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (385.883 KB) | DOI: 10.24831/jai.v40i2.13200

Abstract

Phosphorus (P) deficiency is one of major problems in rice cultivation. Development of a tolerant variety to P deficient soil is expected to reduce the needs of P fertilizer. The aim of this research was to evaluate the agronomic performance of Pup1-introgression rice lines. This research consisted of two separate experiments, an evaluation on rice grown in nutrient solution in the greenhouse of ICABIOGRAD, Bogor; and field evaluation at upland rice screening site Taman Bogo, Lampung. The rice lines used were BC2 F3 derived from crossing of Situ Bagendit with Kasalath and NIL-C443, and from crossing of Batur with Kasalath and NIL-C443. Molecular analysis was conducted to verifiy the Pup1 introgression in the lines used and successfully confirmed the occurance of homozygote Pup1 segment in those lines. Evaluation of rice lines grown in nutrient solution was performed in a split plot factorial design, using the dose of Al (0 and 45 ppm Al3+) as main plots and dose of P (0.5 and 10 ppm P) as subplots. Field evaluation was performed in split plot design, with P fertilization (0 and 500 kg SP-18 ha-1) as main plots and BC2 F3 lines as the subplots. Evaluation using Yoshida nutrient solution showed that the BC2 F3 lines had greater total dry weight under low-P condition (37.5-112.5%), especially under Al-toxicity, compared to the respective parental varieties (Situ Bagendit and Batur). Field evaluation showed that the Pup1-introgression lines had greater shoot dry weight than the respective parental lines (10.5-74.82%). However there was no significnant effect of Pup1 introgression in terms of weight of filled grain.
PERBEDAAN GENETIK TANAMAN PADI KULTIVAR ASAHAN, KENCANA BALI DAN LAKA BERDASAR DARI 127 MARKA RFLP Sobrizal, ,; Warsun, Ahmad; Human, Soeranto; Bustamam, Masdiar
Zuriat Vol 13, No 2 (2002)
Publisher : Breeding Science Society of Indonesia (BSSI) / PERIPI

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/zuriat.v13i2.6733

Abstract

Perbedaan genetik tanaman padi kultivar Asahan, Kencana Bali dan Laka telah dianalisa dengan menggunakan 127 marka RFLP (Restriction Fragment Length Polimorphism) yang tersebar di 12 kromosom padi. Asahan dan Laka adalah Kultivar yang tahan dan Kencana Bali rentan terhadap serangan cendawan blas, Pyricularia grisea di Indonesia. Pada kombinasi 127 marka RFLP dengan 4 macam enzim restriksi, terdeteksi lebih dari 800 fragment DNA untuk tiap kultivar yang diuji. Berdasarkan pola penampilan fragmen DNA, dihitung jarak genetik (genetic distance) antara ketiga kultivar tersebut. Hasilnya menunjukkan bahwa jarak genetic antara Laka dan Kencana Bali lebih besar daripada jarak genetic antara Asahan dan Kencana Bali. Data ini mengindikasikan bahwa kombinasi atau persilangan antara Laka dengan Kencana Bali akan lebih memberikan kemudahan dalam analisis gen ketahanan blas dengan teknik RFLP dibandingkan dengan kombinasi antara Asahan dengan Kencana Bali.