Validation of Fiber Quality Linked SSR Markers Derived from Allotetraploid (Gossypium hirsutum) in Diploid (Gossypium arboreum)

Mishra, Kundan K.; Fougat, R. S.; Ballani, Amit

doi:10.12983/ijsrk-2013-p349-357

Cited by 6 publications

(5 citation statements)

References 18 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…A number of markers including SSRs have been used extensively to study genetic diversity and also the development of genetic linkage maps in cotton (Mishra et al, 2013 ; Li et al, 2016a ; Zhao et al, 2016 ). In this study, a total of 382 SSRs were used to survey the genome of 10 diverse genotypes of G. hirsutum .…”

Section: Discussionmentioning

confidence: 99%

Identification of Marker-Trait Associations for Lint Traits in Cotton

Iqbal

Rahman

2017

Front. Plant Sci.

View full text Add to dashboard Cite

Harvesting high quality lint, a long-awaited breeding goal—accomplished partly, can be achieved by identifying DNA markers which could be used for diagnosing cotton plants containing the desired traits. In the present studies, a total of 185 cotton genotypes exhibiting diversity for lint traits were selected from a set of 546 genotypes evaluated for fiber traits in 2009. These genotypes were extensively studied for three consecutive years (2011–2013) at three different locations. Significant genetic variations were found for average boll weight, ginning out turn (GOT), micronaire value, staple length, fiber bundle strength, and uniformity index. IR-NIBGE-3701 showed maximum GOT (43.63%). Clustering of genotypes using Ward's method was found more informative than that of the clusters generated by principal component analysis. A total of 382 SSRs were surveyed on 10 Gossypium hirsutum genotypes exhibiting contrasting fiber traits. Out of these, 95 polymorphic SSR primer pairs were then surveyed on 185 genotypes. The gene diversity averaged 0.191 and the polymorphic information content (PIC) averaged 0.175. Unweighted pair group method with arithmetic mean (UPGMA), principal coordinate analysis (PCoA), and STRUCTURE software grouped these genotypes into four major clusters each. Genetic distance within the clusters ranged from 0.0587 to 0.1030. A total of 47 (25.41%) genotypes exhibited shared ancestry. In total 6.8% (r2 ≥ 0.05) and 4.4% (r2 ≥ 0.1) of the marker pairs showed significant linkage disequilibrium (LD). A number of marker-trait associations (in total 75) including 13 for average boll weight, 18 for GOT percentage, eight for micronaire value, 18 for staple length, three for fiber bundle strength, and 15 for uniformity index were calculated. Out of these, MGHES-51 was associated with all the traits. Most of the marker-trait associations were novel while few validated the associations reported in the previous studies. High frequency of favorable alleles in cultivated varieties is possibly due to fixation of desirable alleles by domestication. These favorable alleles can be used in marker assisted breeding or for gene cloning using next generation sequencing tools. The present studies would set a stage for harvesting high quality lint without compromising the yield potential—ascertaining natural fiber security.

show abstract

Section: Discussionmentioning

confidence: 99%

Identification of Marker-Trait Associations for Lint Traits in Cotton

Iqbal

Rahman

2017

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…Earlier, Mishra et al (2013) observed a mean heterozygosity of 0.60 upon using 35 EST-SSR markers in 24 genotypes involving tetraploid and diploid genotypes while Ali et al (2019) noticed an Ho up to 0.74 with a mean Ho of 0.57 based on 22 SSR markers, who mentioned that the higher Ho is due to the differences in the ploidy level of the genotypes included in the study.…”

Section: Resultsmentioning

confidence: 88%

Genetic diversity among coloured cotton genotypes in relation to their fibre colour and ploidy level based on SSR markers

Revanasiddayya,

Mohan Nidagundi,

Fakrudin

et al. 2023

Czech J. Genet. Plant Breed.

View full text Add to dashboard Cite

Genetic diversity is referred to as any variation at the phenotypic, DNA or genomic level of an individual, population or species. The appraisal of diversity is important to understand its pattern and evolutionary relationships between germplasms or genotypes, which will aid in sampling the genetic resources in a more systematic manner for conservation and crop improvement. The present study employed 50 simple sequence repeat (SSR) markers linked to the yield and fibre quality/colour traits for estimating the genetic diversity in 33 cotton genotypes of diploid and tetraploid species differing in fibre colour. The diversity analysis was performed in GenAlEx (Ver. 6.41) and Powermarker (Ver. 3.25) while DARwin (Ver. 6.0.21) software was used to establish the phylogenetic relationships following neighbour--joining (NJ) and unweighted pair group method with arithmetic (UPGMA) mean method. Markers generated 186 polymorphic loci as genotypic data with an average of 3.72 alleles and an average polymorphic information content (PIC) value of 0.59 per SSR locus. The NJ and UPGMA grouped 33 genotypes into three major clusters I, II and III consisting of 21 tetraploid Gossypium hirsutum, 10 G. arboreum coloured and 2 white cotton genotypes, respectively. In the PCA, the first two components (PC1 and PC2) explained 74.69% of the variation and the biplot plotted the 33 genotypes in three groups. The study established the diverse nature of 33 cotton genotypes based on their fibre colour and ploidy level. With confirmation of the prevalent genetic diversity, we suggest that hybridisation can be planned among diverse genotypes to unleash greater variation in the fibre colour or to derive superior cross combinations.

show abstract

“…malvacearum in cotton, was also associated with other bacterial blight resistance gene complexes. By contrast, Mishra et al (2013) found CIR246 to be the lowest informative marker for the validation of fiber quality linked markers in the diploid species G. arboreum. All this research indicates the importance of marker CIR246 for breeding programs through marker assisted selection (MAS) for some traits.…”

Section: Discussionmentioning

confidence: 86%

Genetic diversity of Turkish commercial cotton varieties revealed by molecular markers and fiber quality traits

Elçi¹,

Akışcan²,

Akgöl³

2014

Turk J Bot

View full text Add to dashboard Cite

To assess the genetic diversity and relationships among commercial Gossypium species released in Turkey between 1964 and 2014, 96 cotton varieties were analyzed using morphological and molecular markers. Morphological analysis was performed based on 4 fiber quality traits including fiber length, strength, fineness, and uniformity, and the mean values of each trait for each genotype were calculated using 2-year data. The results showed that most of the genotypes have long fiber length, very high fiber strength, coarse (45 genotypes) or average (50 genotypes) fiber fineness, and high uniformity. Twenty-six simple sequence repeat (SSR) markers and 14 markers linked to quantitative trait loci (QTLs) for fiber quality traits produced a total of 103 alleles, with an average of 2.57 alleles per locus ranging from 80 bp to 300 bp products, with an average polymorphism information content (PIC) value of 0.233. Markers DPL513 and DPL431 (among 26 SSR markers) and markers CIR246 and BNL4108 (among 14 molecular markers) were found to be very informative, with 0.724, 0.663, 0.749, and 0.583 PIC values, respectively. The combined morphological and molecular data analysis resulted in more than 8 clades using the unweighted pair group method with arithmetic average (UPGMA). The upland cotton varieties were distinctly separated from the lowland cotton variety Maydos Yerlisi (Gossypium herbaceum L.). Within the upland cotton varieties, the Egyptian cotton variety Giza 70 (G. barbadense L.) was distinctly separated from commercial cotton varieties of Turkey (G. hirsutum L.), as revealed by both morphological and molecular dendrograms. Principal component analysis (PCA) derived from combined data was in agreement with UPGMA analysis. It is concluded that commercial Turkish cotton varieties have a good genetic diversity with high fiber quality, considering the upland cotton's narrow genetic structure. These results can provide a useful guide for selecting specific germplasm with distinct genetic backgrounds in cotton breeding programs.

show abstract

Validation of Fiber Quality Linked SSR Markers Derived from Allotetraploid (Gossypium hirsutum) in Diploid (Gossypium arboreum)

Cited by 6 publications

References 18 publications

Identification of Marker-Trait Associations for Lint Traits in Cotton

Identification of Marker-Trait Associations for Lint Traits in Cotton

Genetic diversity among coloured cotton genotypes in relation to their fibre colour and ploidy level based on SSR markers

Genetic diversity of Turkish commercial cotton varieties revealed by molecular markers and fiber quality traits

Contact Info

Product

Resources

About