Genetic Diversity Inaus Rice Landraces of Bangladesh Using SSR Markers

Khalequzzaman, M; Islam, Mohammad Zahidul; Siddique, MA; Prince, M. F. R. K.; Rashid, Esmh; Ahamed, Md. Sabbir

doi:10.3329/bjpbg.v30i1.36529

Cited by 4 publications

(4 citation statements)

References 19 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Most of the advanced breeding lines were clustered into IA and IIA. Similar results were reported by Khalequzzaman et al (2022) in assessing the genetic diversity of boro rice landraces.…”

Section: Discussionsupporting

confidence: 89%

Unlocking the Potential of Rice for Thermotolerance using SSR Marker- Based Assessment of Genetic Variability and Population Structure

SEELAM,

Puram,

Nallamothu

et al. 2024

Preprint

View full text Add to dashboard Cite

Climate change due to global warming is causing an increase in heat stress in rice (Oryza sativa L.). Heat stress reduces the yield of rice, which is one of the major staple crop for half of the world's population. Therefore, there is a dire need to breed heat-tolerant rice cultivars. In any crop improvement program, the presence of genetic diversity and evaluation of the structural association are crucial for developing the breeding strategies. This study was conducted to examine the genetic variability and population structure of 49 rice genotypes, including both released rice varieties and advanced breeding lines using 75 SSR markers linked to thermotolerance located across the 12 rice chromosomes. A total of 113 alleles, with the number of alleles ranging from 2 to 4 and a mean of 2.31 alleles per locus. The average values for polymorphic information content (PIC), genetic diversity and major allele frequency were 0.36, 0.35 and 0.71 respectively. Among the markers evaluated, RM4108 exhibited highest PIC value (0.65) and gene diversity (0.64), indicating that it is highly polymorphic marker and an ideal choice for characterizing Thermotolerance rice cultivars. Both genetic distance-based clustering analysis and population structure revealed that the 49 cultivars formed three significant clusters. Cluster 1 comprised a mixture of 7 released varieties and 12 breeding lines, followed by cluster 2, which included 11 released varieties and 8 breeding lines. Cluster 3 consisted a total of 11 released varieties. Furthermore, the principal coordinate analysis demonstrated cumulative genetic variations of 15.60%, 14.17%, 8.03% and 7.02% among the mixed populations. Most of the released varieties were placed in coordinate 1, while breeding lines were found in coordinate 3. The analysis of Maruteru rice cultivars revealed a diverse genetic composition and the obtained information will be valuable for establishing an association panel and selecting suitable parents for future rice development programs.

show abstract

“…Most of the advanced breeding lines were clustered into IA and IIA. Similar results were reported by Khalequzzaman et al (2022) in assessing the genetic diversity of boro rice landraces.…”

Section: Discussionsupporting

confidence: 89%

Unlocking the Potential of Rice for Thermotolerance using SSR Marker- Based Assessment of Genetic Variability and Population Structure

SEELAM,

Puram,

Nallamothu

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…Analysis of genetic diversity of 31 Aus rice landraces [35] with 36 SSR markers where UPGMA-cluster-analysis based on genetic distance coefficients clearly separated all the landraces into five main distinct clusters. Islam et al [36] also determined the grouping of rice restorer lines into five clusters, in another study.…”

Section: Discussionmentioning

confidence: 99%

Molecular Diversity Analysis in Boro Rice (Oryza sativa L.) Landraces using SSR Markers

Vabna

Islam

Prince

et al. 2021

AJOB

View full text Add to dashboard Cite

Aims: The aim of the study was to determine the genetic diversity of twenty four Boro rice landraces using rice genome specific twelve well known SSR markers. Study Design: Genomic DNA extraction, PCR amplification, Polyacrylamide gel electrophoresis (PAGE) and data analysis-these steps were followed to perform the research work. Data was analysed with the help of following software; POWERMAKER version 3.25, AlphaEaseFC (Alpha Innotech Corporation) version 4.0. UPGMA dendrogram was constructed using MEGA 5.1 software. Place and Duration of Study: The study was conducted at the Genetic Resources and Seed Division (GRSD), Bangladesh Rice Research Institute (BRRI), Joydebpur, Gazipur, Bangladesh during the period of November 2017 to March 2018. Methodology: Simple Sequence Repeat (SSR) markers were used to assay 24 landraces of Boro rice collected from the Gene Bank of Bangladesh Rice Research Institute (BRRI). Results: A total fifty four (54) alleles were detected, out of which forty five (45) polymorphic alleles were identified. The Polymorphic Information Content (PIC) of SSR markers ranged from 0.08 (RM447) to 0.84 (RM206) with an average value of PIC = 0.49. Gene diversity ranges from 0.08 (RM447) to 0.86 (RM206) with an average value of 0.52. The RM206 marker can be considered as the best marker among the studied markers for 24 rice landraces. Dendrogram based on Nei’s genetic distance using Unweighted Pair Group Method of Arithmetic Mean (UPGMA) indicated the segregation of 24 genotypes into three main clusters. Conclusion: The result revealed that SSR markers are very effective tools in the study of genetic diversity and genetic relationships and this result can be conveniently used for further molecular diversity analysis of rice genotypes to identify diverse parent for the development of high yielding variety in rice.

show abstract

“…The UPGMA dendogram formed four clusters which is similar to other studies. Khalequzzaman et al (2022) studied diversity and population structure of 48 Boro rice landraces showed four major groups. Pachauri et al (2013) made the UPGMA dendogram based on molecular marker analysis and clustered the 41 genotypes into four major clusters.…”

Section: Principal Coordinate Analysismentioning

confidence: 99%

“…However, assessment of genetic diversity and molecular characterization among elite rice varieties of BRRI is important for varietal identification. The use of DNA markers has been suggested for precise and reliable characterization and discrimination of rice genotypes (Khalequzzaman et al, 2022). For genetic variability assessment, DNA markers are extensively used, because these are not affected by environmental factors.…”

Section: Introductionmentioning

confidence: 99%

Molecular Diversity Analysis of Some Selected Brri Developed Rice Varieties Using Ssr Markers

Islam,

Siddique,

Prince

et al. 2023

SAARC J Agric

View full text Add to dashboard Cite

Molecular characterization of 26 modern rice varieties of Bangladesh was performed using 52 simple sequence repeat markers (SSRs) to estimate the genetic diversity and to reveal genetic relationships among rice cultivars. A total of 156 alleles were detected where the number of alleles per locus generated by each marker varied from 2 to 7, with an average of 3. The band size for a given microsatellite locus ranged from 79 to 278 bp. The polymorphism information content (PIC) for the SSR loci ranged from 0.08 to 0.79, with an average of 0.35. RM566 was the best marker for identification and variability assessment of varieties as revealed by PIC values. A UPGMA dendrogram generated using the NTSYS-pc revealed four clusters with a similarity coefficient of 0.55, whereas phylogenetic cluster analysis of the SSR data based on Nei-genetic distance divided the varieties into three groups. Two- and three-dimensional graphical views of principal coordinate analysis showed the spatial distribution of the varieties and revealed that BRRI dhan56, BRRI dhan51, BRRI dhan52, BRRI dhan61, BRRI dhan62 and BRRI dhan66 were found far away from the centroid of the cluster. The findings of this study are helpful for varietal identification, background selection during backcross breeding and for selecting the suitable genetically diverse parents for crossing programs. SAARC J. Agric., 21(2): 1-14 (2023)

show abstract

Genetic Diversity Inaus Rice Landraces of Bangladesh Using SSR Markers

Cited by 4 publications

References 19 publications

Unlocking the Potential of Rice for Thermotolerance using SSR Marker- Based Assessment of Genetic Variability and Population Structure

Unlocking the Potential of Rice for Thermotolerance using SSR Marker- Based Assessment of Genetic Variability and Population Structure

Molecular Diversity Analysis in Boro Rice (Oryza sativa L.) Landraces using SSR Markers

Molecular Diversity Analysis of Some Selected Brri Developed Rice Varieties Using Ssr Markers

Contact Info

Product

Resources

About