scholarly journals Identification of introgressed rice lines of Binadhan-7×FL-378 under salt stress through SSR markers

2012 ◽  
Vol 10 (1) ◽  
pp. 49-54 ◽  
Author(s):  
M A Haque ◽  
M A Mahmud ◽  
M M Islam ◽  
S N Begum
Keyword(s):  
Salt Tolerance ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Salt Tolerant ◽  
Bc1f1 Population ◽  
Backcross Population ◽  
Ssr Loci ◽  
Salt Susceptible ◽  
Pattern Of Variation ◽  
Positive Correlations

Thirty two rice lines of BC1F1 population (Binadhan-7/FL 378) were used to identify introgressed rice lines for salt tolerance using SSR markers at the Plant Breeding and Biotechnology Divisions of Bangladesh Institute of Nuclear Agriculture (BINA), Mymensingh. Seeds of BC1F1 population of Binadhan-7/FL-378 were collected from backcross population of F1 (Binadhan-7/FL 378). Salt tolerant genotype, FL-378 was crossed with high yielding variety, Binadhan-7. Randomly selected 32 BC1F1 progenies along with their two parents (Binadhan-7, FL-378) were genotyped with microsatellite or SSR markers for identification of introgressed rice lines. Parental polymorphism survey was assayed by 8 SSR markers and three polymorphic SSR markers viz., RM296, RM585 and OSR30 were selected to evaluate BC1F1 rice lines for salt tolerance. Primer RM585 indicated 16 lines as introgressed and 16 lines as susceptible in comparison with salt tolerant parent FL-378 and salt susceptible parent Binadhan-7. Primer RM296 identified 13 introgressed, and 19 susceptible lines. Nine introgressed and 23 susceptible lines were identified when BC1F1 lines were evaluated with marker OSR30. Line BC1F1-30, BC1F1-40, BC1F1-2, BC1F1-16 and BC1F1-34 were identified as introgressed in comparison with parent FL-378 (salt tolerant) when RM585 and RM296 markers were used but line BC1F1-1 and BC1F1-3 were identified as introgressed incase of 3 primers (RM585, RM296 and OSR30). Again the lines BC1F1-5, BC1F1-24, BC1F1-26, BC1F1-27, BC1F1-29, BC1F11F1-37 and BC1F1(PIC) values ranged from 0.3290 to 0.3671 with an average of 0.3544. The overall gene diversity of SSR loci for the 32 BC1F1 rice lines along with two parents was 0.4614, ranging from 0.4152 to 0.4844. Positive correlations were found between the genetic diversity and the maximum number of repeats. Among the lines, all the loci were polymorphic and clearly distinct and the cluster analysis (NJ tree and UPGMA) showed nearly similar pattern of variation which could be used for improvement of salt tolerant rice lines of rice through SSR markers.DOI: http://dx.doi.org/10.3329/jbau.v10i1.12039J. Bangladesh Agril. Univ. 10(1): 49–54, 2012

scholarly journals Identification of introgressed rice lines of Binadhan-7×FL-378 under salt stress through SSR markers

2013 ◽  
Vol 10 (2) ◽  
pp. 185-190
Author(s):  
MA Haque ◽  
MA Mahmud ◽  
MM Islam ◽  
SN Begum
Keyword(s):  
Salt Tolerance ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Salt Tolerant ◽  
Bc1f1 Population ◽  
Backcross Population ◽  
Ssr Loci ◽  
Salt Susceptible ◽  
Pattern Of Variation ◽  
Positive Correlations

Thirty two rice lines of BC1F1 population (Binadhan-7/FL 378) were used to identify introgressed rice lines for salt tolerance using SSR markers at the Plant Breeding and Biotechnology Divisions of Bangladesh Institute of Nuclear Agriculture (BINA), Mymensingh. Seeds of BC1F1 population of Binadhan-7/FL-378 were collected from backcross population of F1 (Binadhan-7/FL 378). Salt tolerant genotype, FL-378 was crossed with high yielding variety, Binadhan-7. Randomly selected 32 BC1F1 progenies along with their two parents (Binadhan-7, FL-378) were genotyped with microsatellite or SSR markers for identification of introgressed rice lines. Parental polymorphism survey was assayed by 8 SSR markers and three polymorphic SSR markers viz., RM296, RM585 and OSR30 were selected to evaluate BC1F1 rice lines for salt tolerance. Primer RM585 indicated 16 lines as introgressed and 16 lines as susceptible in comparison with salt tolerant parent FL-378 and salt susceptible parent Binadhan-7. Primer RM296 identified 13 introgressed, and 19 susceptible lines. Nine introgressed and 23 susceptible lines were identified when BC1F1 lines were evaluated with marker OSR30. Line BC1F1-30, BC1F1-40, BC1F1-2, BC1F1-16 and BC1F1-34 were identified as introgressed in comparison with parent FL-378 (salt tolerant) when RM585 and RM296 markers were used but line BC1F1-1 and BC1F1-3 were identified as introgressed incase of 3 primers (RM585, RM296 and OSR30). Again the lines BC1F1-5, BC1F1-24, BC1F1-26, BC1F1-27, BC1F1-29, BC1F1-31, BC1F1-37 and BC1F1-38 were found susceptible as compared with parent Binadhan-7 when marker RM585, RM296 and OSR30 were used. The polymorphism information content (PIC) values ranged from 0.3290 to 0.3671 with an average of 0.3544. The overall gene diversity of SSR loci for the 32 BC1F1 rice lines along with two parents was 0.4614, ranging from 0.4152 to 0.4844. Positive correlations were found between the genetic diversity and the maximum number of repeats. Among the lines, all the loci were polymorphic and clearly distinct and the cluster analysis (NJ tree and UPGMA) showed nearly similar pattern of variation which could be used for improvement of salt tolerant rice lines of rice through SSR markers. DOI: http://dx.doi.org/10.3329/jbau.v10i2.14680 J. Bangladesh Agril. Univ. 10(2): 185–190, 2012

Application of SSR Technique for the Identification of Markers Linked to Salinity Tolerance in Rice

2013 ◽  
Vol 19 (2) ◽  
pp. 57-65
Author(s):  
MH Kabir ◽  
MM Islam ◽  
SN Begum ◽  
AC Manidas
Keyword(s):  
Salt Tolerance ◽  
Ssr Markers ◽  
Salinity Tolerance ◽  
Seedling Stage ◽  
Phenotypic Screening ◽  
Salt Tolerant ◽  
Marker Assisted Breeding ◽  
Hydroponic System ◽  
Rice Landrace ◽  
Salt Susceptible

A cross was made between high yielding salt susceptible BINA variety (Binadhan-5) with salt tolerant rice landrace (Harkuch) to identify salt tolerant rice lines. Thirty six F3 rice lines of Binadhan-5 x Harkuch were tested for salinity tolerance at the seedling stage in hydroponic system using nutrient solution. In F3 population, six lines were found as salt tolerant and 10 lines were moderately tolerant based on phenotypic screening at the seedling stage. Twelve SSR markers were used for parental survey and among them three polymorphic SSR markers viz., OSR34, RM443 and RM169 were selected to evaluate 26 F3 rice lines for salt tolerance. With respect to marker OSR34, 15 lines were identified as salt tolerant, 9 lines were susceptible and 2 lines were heterozygous. While RM443 identified 3 tolerant, 14 susceptible and 9 heterozygous rice lines. Eight tolerant, 11 susceptible and 7 heterozygous lines were identified with the marker RM169. Thus the tested markers could be efficiently used for tagging salt tolerant genes in marker-assisted breeding programme.DOI: http://dx.doi.org/10.3329/pa.v19i2.16929 Progress. Agric. 19(2): 57 - 65, 2008

scholarly journals Evaluation of Rice Germplasm under Salt Stress at the Seedling Stage through SSR Markers

2013 ◽  
Vol 3 (1) ◽  
pp. 52-59 ◽  
Author(s):  
M Al-Amin ◽  
MM Islam ◽  
SN Begum ◽  
MS Alam ◽  
M Moniruzzaman ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Salinity Tolerance ◽  
Dry Matter ◽  
Growth Parameters ◽  
Seedling Stage ◽  
Salt Tolerant ◽  
Marker Assisted Breeding ◽  
Hydroponic System ◽  
Rice Genotypes ◽  
Salt Susceptible

Twenty eight rice germplasms were used for identification of salt tolerant rice genotypes at the seedling stage at the experimental farm and Biotechnology laboratory of the Bangladesh Institute of Nuclear Agriculture (BINA), Mymensingh during February 2009 to October 2009. Phenotyping for salinity screening of the rice genotypes was done using salinized (EC level 12 dS m-1) nutrient solution in hydroponic system. Genotypes were evaluated for salinity tolerance on 1-9 scale based on seedling growth parameters following modified Standard Evaluation Scoring (SES) of IRRI. Phenotypically, on the basis of SES and % total dry matter (TDM) reduction of the genotypes viz. PBSAL-614, PBSAL-613, PBSAL-730, Horkuch, S-478/3 Pokkali and PBSAL (STL)-15 were found to be salt tolerant; on the other hand Iratom-24, S-653/32, S-612/32, S-604/32, S-633/32, Charnock (DA6), BINA Dhan-6 and S-608/32 were identified as salt susceptible. For genotyping, ten SSR markers were used for polymorphism, where 3 primers (RM127, RM443 and RM140) were selected for evaluation of salt tolerance. In respect of Primer RM127, 7 lines were found salt tolerant and 11 lines were moderately tolerant and 10 lines were susceptible. Nine tolerant, 9 moderately tolerant and 10 susceptible lines were found when the primer RM140 was used and primer RM443 identified 8 lines as tolerant, 9 lines as moderately tolerant and 11 lines as susceptible. Thus, the salt tolerant lines can be used in further evaluation for salinity tolerance and the SSR markers used in this study are proving valuable for identifying salt tolerant genes in marker assisted breeding. Int. J. Agril. Res. Innov. & Tech. 3 (1): 52-59, June, 2013 DOI: http://dx.doi.org/10.3329/ijarit.v3i1.16093

scholarly journals Advances and Challenges in the Breeding of Salt-Tolerant Rice

2020 ◽  
Vol 21 (21) ◽  
pp. 8385
Author(s):  
Hua Qin ◽  
Yuxiang Li ◽  
Rongfeng Huang
Keyword(s):  
Food Security ◽  
Salt Tolerance ◽  
Quantitative Trait ◽  
Molecular Mechanisms ◽  
Soil Salinization ◽  
Ecological Environment ◽  
Salt Tolerant ◽  
Salt Stress Tolerance ◽  
Rice Varieties ◽  
Salt Susceptible

Soil salinization and a degraded ecological environment are challenging agricultural productivity and food security. Rice (Oryza sativa), the staple food of much of the world’s population, is categorized as a salt-susceptible crop. Improving the salt tolerance of rice would increase the potential of saline-alkali land and ensure food security. Salt tolerance is a complex quantitative trait. Biotechnological efforts to improve the salt tolerance of rice hinge on a detailed understanding of the molecular mechanisms underlying salt stress tolerance. In this review, we summarize progress in the breeding of salt-tolerant rice and in the mapping and cloning of genes and quantitative trait loci (QTLs) associated with salt tolerance in rice. Furthermore, we describe biotechnological tools that can be used to cultivate salt-tolerant rice, providing a reference for efforts aimed at rapidly and precisely cultivating salt-tolerance rice varieties.

scholarly journals Marker-assisted Backcrossing for Identification of Salt Tolerant Rice Lines

2013 ◽  
Vol 2 (2) ◽  
pp. 1-8 ◽  
Author(s):  
M Moniruzzaman ◽  
MS Islam ◽  
JA Rashid ◽  
SN Begum ◽  
MM Islam
Keyword(s):  
Genetic Diversity ◽  
Salt Tolerance ◽  
Ssr Markers ◽  
Marker Assisted Selection ◽  
Genetic Maps ◽  
Salt Tolerant ◽  
High Yielding Variety ◽  
Marker Assisted Backcrossing ◽  
Tolerant Genotype ◽  
New Cultivars

SSR or microsatellite markers are proved to be ideal for making genetic maps, assisting selection and studying genetic diversity in germplasm. SSR markers are playing important role to identify gene for salt tolerance that can be helpful for plant breeders to develop new cultivars. The experiment was conducted during the period from July 2009 to November 2010 in the experimental field and Biotechnology Laboratory of Plant Breeding Division, Bangladesh Institute of Nuclear Agriculture (BINA), Mymensingh to identify salt tolerant rice line of BC1F1 progenies of Binadhan-5 x FL-478 using SSR markers. Salt tolerant genotype, FL-478 was crossed with high yielding variety, Binadhan-5. Randomly selected 40 BC1F1 progenies along with their two parents (Binadhan-5, FL-478 and F1) were genotyped with microsatellite or SSR markers for identification of salt tolerant rice lines. Parental polymorphism survey was assayed by 10 SSR markers and three polymorphic SSR markers viz., RM 336, RM 510, and RM 585 were selected to evaluate BC1F1 rice lines for salt tolerance. In respect of Primer RM 336, 11 lines were found as salt tolerant and 25 lines were heterozygous and 3 lines were susceptible. Primer RM 510 identified two tolerant, 14 heterozygous and 22 susceptible lines. And primer RM 585 identified 4 lines as tolerant and 35 lines as susceptible. Thus, these markers could be efficiently used in tagging salt tolerant genes, in marker-assisted selection and quantitative trait loci (QTL) mapping. The selected BC1F1 could be used for developing BC2F1 and BC2F2 and mapping genes for salinity tolerance. DOI: http://dx.doi.org/10.3329/ijarit.v2i2.14008 Int. J. Agril. Res. Innov. & Tech. 2 (2): 1-8, December, 2012

scholarly journals Analysis of Genetic Diversity and Population Structure of Some Bangladeshi Rice Landraces and HYV

2012 ◽  
Vol 4 (3) ◽  
pp. 757-767 ◽  
Author(s):  
M. M. Hassan ◽  
A. K. M. Shamsuddin ◽  
M. M. Islam ◽  
K. Khatun ◽  
J. Halder
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Distance ◽  
Gene Diversity ◽  
Allele Number ◽  
Rice Landraces ◽  
Efficient Management ◽  
Ssr Loci ◽  
Pattern Of Variation ◽  
Rice Improvement

Information on the patterns of genetic variation and population structure is essential for rational use and efficient management of germplasms. It helps in monitoring germplasm and can also be used to predict potential genetic gains. Therefore, in the present study genetic diversity of 59 rice genotypes were assessed using 8 simple sequence repeat (SSR) primers. By the DNA profiling, a total of 114 alleles were detected. Allele number per/locus ranged from 9 to 27, with an average of 14.25. Average polymorphism information content (PIC) value was 0.857 with lowest 0.767 to highest 0.857. Mean gene diversity over all SSR loci was 0.870 with a range from 0.792 to 0.948. Fst values for each locus varied from 0.071 to 0.262. Genetic distance between the variety pair ranged from 0.33 to 1.0. The lowest genetic distance was found between Rajashili and Kumragori (2). Cluster and principal coordinate analysis (PCoA) analysis revealed similar pattern of variation. Marker RM11300 was found most polymorphic and robust among the accessions and can be widely used for rice germplasm characterization. The exclusive variability and unique feature of germplasm found in this study can be a gateway for both domestic and global rice improvement.© 2012 JSR Publications. ISSN: 2070-0237 (Print); 2070-0245 (Online). All rights reserved.doi: http://dx.doi.org/10.3329/jsr.v4i3.10416 J. Sci. Res. 4 (3), 757-767 (2012)

Influence of NaCl Salinity on the Behaviour of Protease, Aminopeptidase and Carboxypeptidase in Rice Seedlings in Relation to Salt Tolerance

1990 ◽  
Vol 17 (2) ◽  
pp. 215 ◽  
Author(s):  
RS Dubey ◽  
M Rani
Keyword(s):  
Salt Tolerance ◽  
Protease Activity ◽  
Leucine Aminopeptidase ◽  
Growth Period ◽  
Salt Tolerant ◽  
Rice Seedlings ◽  
Salt Treatment ◽  
Nacl Salinity ◽  
Salt Susceptible ◽  
Salt Tolerant Cultivars

Activities of the enzymes protease, aminopeptidase and carboxypeptidase were determined in seedlings of rice cultivars with different salt tolerances raised under increasing levels of NaCl salinity. Salinity caused a marked increase in protease activity in roots as well as shoots, though activity was higher in roots than in shoots. Salt-tolerant cultivars possessed higher levels of protease activity in control as well as salt-stressed seedlings compared with salt-susceptible cultivars. During a growth period of 5-20 days, leucine aminopeptidase (LAP) activity increased up to days 10-15 and decreased thereafter. Salt treatment caused a sharp increase in LAP activity in roots of both sets of cultivars. The increase was larger in tolerant than in susceptible cultivars. In shoots, unlike roots, higher salinity suppressed LAP activity, and suppression was more marked in susceptible cultivars than in tolerant ones. Carboxypeptidase activity was higher in susceptible cultivars than in tolerant ones under both control as well as salt treatments. Roots maintained higher levels of carboxypeptidase activity than shoots. Results suggest an increased rate of proteolysis in salt-stressed rice seedlings and an association of salt-tolerance ability with higher protease and aminopeptidase activities and lower carboxypeptidase activity under salinisation.

scholarly journals Analysis of Genetic Diversity within Nepalese Maize Populations Using SSR Markers

1970 ◽  
Vol 11 ◽  
pp. 1-8 ◽  
Author(s):  
Dil Bahadur Gurung ◽  
Maria Luz C George ◽  
Quirino D Dela Cruz
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Gene Diversity ◽  
Genetic Distances ◽  
Maize Breeding ◽  
Maize Populations ◽  
Maize Varieties ◽  
Ssr Loci ◽  
Average Gene ◽  
Hybrid Maize

Information on genetic diversity and relationships among breeding materials is necessary for hybrid maize breeding. Four open-pollinated varieties were analyzed using SSR markers to determine the genetic diversity within the varieties. In each variety, 15 individuals were genotyped with 30 SSR markers. Average heterozygosity percentage of the varieties was 45.07%, ranging from 35.23% in Rampur Composite to 54.64% in Khumal Yellow, indicating the higher level of heterozygosity in these two varieties. An average PIC value across all the polymorphic SSR loci was 0.50; which ranged from 0.47 in Manakamana-2 to 0.52 in Khumal Yellow and Arun-4. At the genotype level, the range was from 0.07 in umc1161 to 0.84 in umc1136. The total number of alleles detected was 415 for 30 SSR markers in 60 genotypes. The unique and common alleles detected respectively were 27 and 71. The average number of alleles per locus was 3.45 among the varieties, ranging from 3.21in Manakamana-2 to 3.76 in Khumal Yellow. Average gene diversity across the varieties was 0.54 and ranged from 0.51 in Manakamana-2 to 0.56 in Khumal Yellow and Arun-4. The genetic similarity coefficient of all individuals among the varieties was seen at 0.35.The MRD values were higher between Arun-4 and Manakamana-2 (0.290) and low between Khumal Yellow and Rampur Composite (0.221). Estimate of genetic distances among the varieties showed that Rampur Composite, Khumal Yellow, and Manakamana-2 were closely related sharing the similar genetic backgrounds, whereas Arun-4 was genetically more distantly related. Efforts are being made for the development and evaluation of inbred lines from these distantly related maize varieties for developing high yielding maize hybrids. Key Words: genetic diversity; maize hybrid; SSR markers DOI: 10.3126/njst.v11i0.4082Nepal Journal of Science and Technology 11 (2010) 1-8

scholarly journals Hybrid identification for Glycine max and Glycine soja with SSR markers and analysis of salt tolerance

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6483 ◽  
Author(s):  
Fayuan Li ◽  
Xun Liu ◽  
Shengyan Wu ◽  
Qingyun Luo ◽  
Bingjun Yu
Keyword(s):  
Glycine Max ◽  
Salt Tolerance ◽  
Ssr Markers ◽  
Glycine Soja ◽  
Female Parent ◽  
Tolerance Test ◽  
Dry Matter Accumulation ◽  
Salt Tolerant ◽  
Cross Combination ◽  
Hybrid Identification

Glycine max cultivars Lee68, Nannong 1138-2, and Nannong 8831 were used as the female parents, and hybrid lines (F5) 4,111, 4,076 (N23674 × BB52), 3,060 (Lee68 × N23227), and 185 (Jackson × BB52) that selected for salt tolerance generation by generation from the cross combination of G. max and G. soja were used as the male parents, 11 (A–K) backcrosses or three-way crosses were designed and 213 single hybrids were harvested. The optimized soybean simple sequence repeat (SSR)–polymerase chain reaction (PCR) system was used to analyze the SSR polymorphism of above parental lines and get the parental co-dominant SSR markers for hybrid identification, and in which 30 true hybrids were gained. The true hybrids (G1, G3, G9, G12, G13, G16) of G cross combination were chosen as the representative for the salt tolerance test, and the results showed that, as exposed to salt stress, the seedlings of G9 line displayed higher salt tolerant coefficient, relative growth rate, and dry matter accumulation, when compared with their female parent Nannong 1138-2, and even performed equally strong salt tolerance as the male parent 3,060. It provides a feasible method of the combination of molecular SSR markers and simple physiological parameters to identify the true hybrids of G. max and G. soja, and to innovate the salt-tolerant soybean germplasms.

scholarly journals Genetic Analysis of F4 Rice Lines for Salt Tolerance at the Reproductive Stage

2013 ◽  
Vol 21 (1-2) ◽  
pp. 31-38 ◽  
Author(s):  
S Akhtar ◽  
MM Islam ◽  
SN Begum ◽  
J Halder ◽  
MK Alam ◽  
...  
Keyword(s):  
Salt Tolerance ◽  
Grain Yield ◽  
Reproductive Stage ◽  
Genetic Advance ◽  
Salt Tolerant ◽  
Additive Gene ◽  
High Heritability ◽  
Selection For ◽  
Salt Susceptible ◽  
Selection Of

A total of 29 lines of F4 population of rice along with their parents Binadhan-5 (high yielding and salt susceptible) and Harkuch (salt tolerant landrace) were evaluated for salt tolerance at the reproductive stage with EC 6 dS/m following IRRI standard protocol. High heritability coupled with high genetic advance was observed in plant height in salinized and non-salinized conditions. High heritability along with high genetic advance was also found in number of filled grains/plant in saline condition. These characters were under additive gene control and selection for salt tolerance might be effective. Number of filled grains/plant showed significant positive correlation with grain yield/plant. Path analysis revealed that number of filled grains/plant had positive and maximum direct effect on grain yield/plant. Therefore, number of filled grains/plant should be given the importance in selection of rice lines under saline condition.DOI: http://dx.doi.org/10.3329/pa.v21i1-2.16746 Progress. Agric. 21(1 & 2): 31 - 38, 2010

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