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Inheritance Studies of Ssr and Issr Molecular Markers and Phylogenetic Relationship of Rice Genotypes Resistant to Tungro Virus

Md. Abdul Latif
Principal Scientific Officer
Plant Pathology Division, Bangladesh Rice Research Institute, Gazipur-1701, Bangladesh.

Mohammad Mahfuzur Rahman
Plant Pathology Division, Bangladesh Agricultural Research Institute, Gazipur-1701, Bangladesh.

Abstract/ Executive Summary:

Multivariate analyses were performed using 13 morphological traits and 13 molecular markers (10 SSRs and three ISSRs) to assess the phylogenetic relationship among tungro resistant genotypes. For morphological traits, the genotypes were grouped into six clusters, according to D2 statistic and Canonical vector analysis. Plant height, days to flowering, days to maturity, panicle length, number of spikelet per panicle, number of unfilled grain per panicle and yield were important contributors to genetic divergence in 14 rice genotypes. Based on Nei’s genetic distance for molecular studies, seven clusters were formed among the tungro resistant and susceptible genotypes. Mantel’s test revealed a significant correlation (r = 0.834*) between the morphological and molecular data. To develop high yielding tungro resistant varieties based on both morphological and molecular analyses, crosses could be made with susceptible (BR10 and BR11) genotypes with low yielding but highly resistant genotypes, Sonahidemota, Kumragoir, Nakuchimota, Khaiyamota, Khairymota and Kachamota. The chi-square analysis for seven alleles (RM11, RM17, RM20, RM23, RM80, RM108 and RM531) of SSR and five loci (RY1, MR1, MR2, MR4 and GF5) of three ISSR markers in F2 population of cross, BR11 _ Sonahidemota, showed a good fit to the expected segregation ratio (1:2:1) for a single gene model. _ 2013 Acade´mie des sciences. Published by Elsevier Masson SAS. All rights reserved.

Keywords: Tungro, Resistant genotypes, Genetic diversity, Morphological traits, Molecular markers, Inheritance study.

Location: BRRI Farm, Gazipur

Start Date: 00-00-2006

End Date: 00-00-2007

Program Area: Pest Management

Commodity: Rice

Objectives:

To know the genetic diversity based on phenotypic traits and molecular markers in tungro resistant genotypes

2. To know inheritance patterns of SSR and ISSR markers in F2 populations.

Methodology:

The studies were conducted at the experimental field and laboratory of Plant Pathology Division, Bangladesh Rice Research Institute (BRRI), Gazipur, during the period of 2006–2007. A total of 14, including six highly resistant, three resistant, three moderately resistant and two susceptible genotypes, were used in this study. The seeds for all the genotypes were obtained from Genetic Resources and Seed Division, BRRI, Gazipur, Bangladesh. 2.1.3. Germination of seed and seedling transplantation The seeds of all collected rice genotypes were soaked separately for 48 h in cloth’s bag. The soaked seeds were picked out from water and wrapped with straw and gunny bag to increase the temperature for facilitating germination. The seedlings of 14 genotypes were raised in pots. Thirty-day-old seedlings were transplanted in the field. Recommended doses of fertilizers and cultural practices were done as recommended by Latif et al. [21]. Data were recorded on quantitative characters namely, plant height (cm), number of tiller per hill, tillering ability, phenotypic acceptability, days to flowering, days to maturity, panicle length (cm), number of spikelet per panicle, number of filled grain per panicle, number of unfilled grain per panicle, 1000 grain weight (g), yield per hill (g) and disease index. 2.2.4. Molecular data analysis Molecular weight for each band was measured by using Alfa Imager software version 5.5. SSR marker alleles and ISSR marker loci were scored as present (1) or absent (0). Pair wise comparisons between genotypes were calculated using the Nei’s genetic distance, using the program Free Tree [24]. A dendrogram representing the genetic relationships between genotypes, based on the un-weighted pair group method with arithmetic averages (UPGMA), was constructed using the web-based version of the Drawgram program, which is part of the Phylogeny Inference Package (PHYLIP 3.5). To determine the correlation between two similarity matrices of morphological traits and molecular data, Mantel test was performed using NTSYS-Pc software. A total of 260 progenies of F2 generation were derived from a cross between a local rice variety, Sonahidemota (highly resistant variety), and a susceptible rice cultivar, BR11. The Mendelian inheritance studies of ISSR and SSR markers were examined by analysis of the banding patterns of the family. Segregation data was analyzed with a chi-square (x2) test using a probability level of 0.05. Chi-square analysis for the genotypic ratio was calculated by using the formula, x2 = (O-E)2 / E, where for O is an observed value, and E is expected value.

Source of Information: C. R. Biologies 336 (2013) 125–133

Article Link (Online Journal):

Funding Source:

1. Government

Budget:

Total Budget (Tk.) :

Achievement/Findings:

In order to the development of high yielding tungro resistant varieties based on both morphological and molecular analyses, crosses could be done with susceptible (BR10 and BR11) genotypes with local low yielding but highly tungro resistant genotypes, Sonahidemota, Kumragoir, Nakuchimota, Khaiyamota, Khairymota and Kachamota. The chi-square (x2) analysis for seven SSR alleles and five ISSR loci, showed a good fit to the expected segregation ratio (1:2:1) for a single gene model.

Knowledge Management: Journal