Assessment of genetic diversity of wheat genotypes by resistance gene analog-EST markers

Plant disease resistance gene analog (RGA) markers were designed according to the conserved sequence of known RGAs and used to map resistance genes. We used genome-wide RGA markers for genetic analyses of structure and diversity in a global rice germplasm collection. Of the 472 RGA markers, 138 were polymorphic and these were applied to 178 entries selected from the USDA rice core collection. Results from the RGA markers were similar between two methods, UPGMA and STRUCTURE. Additionally, the results from RGA markers in our study were agreeable with those previously reported from SSR markers, including cluster of ancestral classification, genetic diversity estimates, genetic relatedness, and cluster of geographic origins. These results suggest that RGA markers are applicable for analyses of genetic structure and diversity in rice. However, unlike SSR markers, the RGA markers failed to differentiate temperate japonica, tropical japonica, and aromatic subgroups. The restricted way for developing RGA markers from the cDNA sequence might limit the polymorphism of RGA markers in the genome, thus limiting the discriminatory power in comparison with SSR markers. Genetic differentiation obtained using RGA markers may be useful for defining genetic diversity of a suite of random R genes in plants, as many studies show a differentiation of resistance to a wide array of pathogens. They could also help to characterize the genetic structure and geographic distribution in crops, including rice, wheat, barley, and banana.

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Genetic variation of populations of Pinus oocarpa revealed by resistance gene analog polymorphism (RGAP)

Genome ◽

10.1139/g03-023 ◽

2003 ◽

Vol 46 (3) ◽

pp. 404-410 ◽

Cited By ~ 7

Author(s):

V Díaz ◽

E Ferrer

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Molecular Markers ◽

Resistance Gene ◽

Population Diversity ◽

Resistance Gene Analog ◽

Resistance Gene Analogs ◽

Analysis Of Molecular Variance ◽

Molecular Variance ◽

Pinus Oocarpa

Primers based on conserved motifs of plant resistance genes were used to generate multilocus molecular markers referred to as resistance gene analog polymorphisms (RGAPs) in Pinus oocarpa subsp. oocarpa. Ten populations from three regions of Nicaragua were analyzed with 53 RGAPs. The aim of this study was to determine the levels of within- and between-population diversity with this kind of marker, and to compare estimates with previously obtained results based on RAPD and AFLP. All populations showed high levels of diversity. GST values and the analysis of molecular variance (AMOVA) revealed most variation to be within populations, although significant differences between populations and regions were also detected. This pattern of genetic diversity was similar to that obtained for RAPD and AFLP, which suggests that variation at RGAP loci as detected in this work is mostly influence by non-selective forces.Key words: resistance gene analogs, molecular markers, genetic diversity, population structure, Pinus oocarpa.

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Genetic Diversity Analysis Using Resistance Gene Analog-Based Markers to Support Morphological Characterization of Shallots

Jurnal AgroBiogen ◽

10.21082/jbio.v14n2.2018.p65-74 ◽

2018 ◽

Vol 14 (2) ◽

pp. 65

Author(s):

Lina Herlina ◽

Reflinur Reflinur ◽

Kristianto Nugroho ◽

Rerenstradika T. Terryana ◽

Sobir Sobir ◽

...

Keyword(s):

Genetic Diversity ◽

Molecular Markers ◽

Resistance Gene ◽

Molecular Breeding ◽

Morphological Characterization ◽

Resistance Gene Analog ◽

Phenotypic Variance ◽

Vegetable Crops ◽

Conserved Domain

<p>Shallot (Allium cepa var. aggregatum) is one of the most important vegetable crops grown in Indonesia. The limited knowledge available on the genetic diversity and the threat of plant disease have been major problems to maintain high shallot production in Indonesia. Development of molecular markers linked to disease resistance is required for molecular breeding activity in this crop. This study aimed to assess the genetic diversity at conserved domain of resistance gene analog (RGA) in a set of 36 Indonesian shallot genotypes to complement morphological characterization. Twelve morphological and fifteen molecular markers traits were investigated in an attempt to characterize and to discriminate the Indonesian shallots genotypes. Characterization at orphological level indicated that phenotypic variance was highest for total bulb weight (TWB, cv = 99.39%) and the least for the plant height (PH, cv = 28.16%). The correlation analysis between traits showed that TWB and number of bulb (NB), TWB and bulb weight per plant (WB), NB and WB, and WB and PH were positively correlated. Molecular analysis revealed a total of 1,512 alleles with an average of 1.946 alleles per locus. The Polymorphism Information Content (PIC) values ranged from 0.253 to 0.676 and six out of 15 RGA markers were highly informative with PIC values ≥0.50. Based on cluster analysis, the 36 Indonesian shallot genotypes were clearly discriminated into six major groups. These results revealed that the RGA-based markers could support the morphological characterization in evaluating the genetic diversity of shallots. </p>

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Genetic diversity of durum wheat genotypes using morpho-protein analysis

Cereal Research Communications ◽

10.1556/crc.2014.0003 ◽

2014 ◽

Vol 42 (4) ◽

pp. 677-686

Author(s):

M. Rajabi Hashjin ◽

M.H. Fotokian ◽

M. Agahee Sarbrzeh ◽

M. Mohammadi ◽

D. Talei

Keyword(s):

Genetic Diversity ◽

Durum Wheat ◽

Protein Analysis ◽

Wheat Genotypes

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Resistance Identification and Genetic Diversity among Soybean Cultivars Based on Resistance Gene Analogue

ACTA AGRONOMICA SINICA ◽

10.3724/sp.j.1006.2008.01704 ◽

2009 ◽

Vol 34 (10) ◽

pp. 1704-1711

Author(s):

Shi SUN

Keyword(s):

Genetic Diversity ◽

Resistance Gene ◽

Resistance Gene Analogue ◽

Soybean Cultivars

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Temporal Changes in Resistance Gene Analog Polymorphism of Major Rice Varieties in Guangdong Province

ACTA AGRONOMICA SINICA ◽

10.3724/sp.j.1006.2013.01206 ◽

2013 ◽

Vol 39 (7) ◽

pp. 1206

Author(s):

Zhi-Ming TANG ◽

Jian-You CHEN ◽

Yong-Fa LU ◽

Hua-Cheng ZHOU ◽

Xue-Jiao MO ◽

...

Keyword(s):

Resistance Gene ◽

Guangdong Province ◽

Temporal Changes ◽

Resistance Gene Analog ◽

Rice Varieties

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Use of RAPD markers to determine the genetic diversity of diploid, wheat genotypes

Theoretical and Applied Genetics ◽

10.1007/bf00227393 ◽

1992 ◽

Vol 84-84 (7-8) ◽

pp. 835-838 ◽

Cited By ~ 76

Author(s):

Richard A. Vierling ◽

Henry T. Nguyen

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Diploid Wheat ◽

Wheat Genotypes

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Assessment of Genetic Diversity in Durum and Bread Wheat Genotypes Based on Drought Tolerance and SSR Markers

Plant Breeding and Biotechnology ◽

10.9787/pbb.2021.9.2.89 ◽

2021 ◽

Vol 9 (2) ◽

pp. 89-103

Author(s):

Mahmoud A. El-Rawy ◽

Mohamed I. Hassan

Keyword(s):

Genetic Diversity ◽

Drought Tolerance ◽

Bread Wheat ◽

Ssr Markers ◽

Wheat Genotypes

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Assessing genetic variation for heat stress tolerance in Indian bread wheat genotypes using morpho-physiological traits and molecular markers

Plant Genetic Resources ◽

10.1017/s1479262116000241 ◽

2016 ◽

Vol 15 (6) ◽

pp. 539-547 ◽

Cited By ~ 5

Author(s):

P. Sharma ◽

S. Sareen ◽

M. Saini ◽

Shefali

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Heat Stress ◽

Molecular Markers ◽

Heat Tolerance ◽

Polymorphic Information Content ◽

Physiological Traits ◽

Phenotypic Traits ◽

Phenotypic Data ◽

Wheat Genotypes

AbstractHeat stress greatly limits the productivity of wheat in many regions. Knowledge on the degree of genetic diversity of wheat varieties along with their selective traits will facilitate the development of high yielding, stress-tolerant wheat cultivar. The objective of this study were to determine genetic variation in morpho-physiological traits associated with heat tolerance in 30 diverse wheat genotypes and to examine genetic diversity and relationship among the genotypes varying heat tolerance using molecular markers. Phenotypic data of 15 traits were evaluated for heat tolerance under non-stress and stress conditions for two consecutive years. A positive and significant correlation among cell membrane stability, canopy temperature depression, biomass, susceptibility index and grain yield was shown. Genetic diversity assessed by 41 polymorphic simple sequence repeat (SSR) markers was compared with diversity evaluated for 15 phenotypic traits averaged over stress and non-stress field conditions. The mean polymorphic information content for SSR value was 0.38 with range of 0.12–0.75. Based on morpho-physiological traits and genotypic data, three groups were obtained based on their tolerance (HHT, MHT and LHT) levels. Analysis of molecular variance explained 91.7% of the total variation could be due to variance within the heat tolerance genotypes. Genetic diversity among HHT was higher than LHT genotypes and HHT genotypes were distributed among all cluster implied that genetic basis of heat tolerance in these genotypes was different thereby enabling the wheat breeders to combine these diverse sources of genetic variation to improve heat tolerance in wheat breeding programme.

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