Linkage disequilibrium based association mapping of micronutrients in common bean (Phaseolus vulgaris L.): a collection of Jammu &amp; Kashmir, India

Mahajan, Reetika; Zargar, Sajad Majeed; Salgotra, Romesh Kumar; Singh, Ravinder; Wani, Aijaz A.; Nazir, Muslima; Sofi, Parvaze A.

doi:10.1007/s13205-017-0928-x

Cited by 19 publications

(17 citation statements)

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“…The explanatory power of QTNs from all studies is relatively low; there are just a few of them that could explain more than 10% of total phenotypic variability. The single exception is the study of Mahajan et al (2017) , who reported much higher explanatory power of the discovered QTLs, but is not comparable with the others, because it was based on different type of markers (SSRs).…”

Section: Discussionmentioning

confidence: 80%

“…Common bean ( Phaseolus vulgaris L.) is a species of great interest for human diet worldwide, gaining attention as functional food offering benefits for human health ( Câmara et al, 2013 ). It provides macro- and micronutrients (especially Fe and Zn) and because of high protein content, together with other pulses common bean is known as poor man’s meat ( Gouveia et al, 2014 ; Mahajan et al, 2017 ; Nwadike et al, 2018 ). The nutritional composition of common bean landraces depends on factors like origin, genotype and environmental conditions ( Gouveia et al, 2014 ).…”

Section: Introductionmentioning

confidence: 99%

“…Over the last decade, genome-wide association study (GWAS) has become a popular approach for studying traits of agricultural importance and has gained popularity particularly for screening a great number of accessions to gain insight into understanding the genetic basis of complex traits ( Yu et al, 2006 ). In common bean, GWAS has been used to identify genes controlling traits such as disease resistance ( Shi et al, 2011 ; Perseguini et al, 2016 ; Zuiderveen et al, 2016 ; Tock et al, 2017 , Fritsche-Neto et al, 2019 ), drought-tolerance related traits ( Galeano et al, 2012 ; Hoyos-Villegas et al, 2017 ), agronomic traits in general ( Nemli et al, 2014 ; Kamfwa et al, 2015b ; Moghaddam et al, 2016 ; Ates et al, 2018 ; Nascimento et al, 2018 ; Resende et al, 2018 ), nitrogen fixation ( Kamfwa et al, 2015a ), cooking time ( Cichy et al, 2015 ), flooding tolerance ( Soltani et al, 2017 ; Soltani et al, 2018 ), content of micronutrients ( Mahajan et al, 2017 ; Katuuramu et al, 2018 ; Myers et al, 2019 ; Diaz et al, 2020 ; Erdogmus et al, 2020 ), and pod shattering ( Rau et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Association Studies of Mineral Content in Common Bean

et al. 2021

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Micronutrient malnutrition is one of the main public health problems in many parts of the world. This problem raises the attention of all valuable sources of micronutrients for the human diet, such as common bean (Phaseolus vulgaris L.). In this research, a panel of 174 accessions representing Croatian common bean landraces was phenotyped for seed content of eight nutrients (N, P, K, Ca, Mg, Fe, Zn, and Mn), and genotyped using 6,311 high-quality DArTseq-derived SNP markers. A genome-wide association study (GWAS) was then performed to identify new genetic sources for improving seed mineral content. Twenty-two quantitative trait nucleotides (QTN) associated with seed nitrogen content were discovered on chromosomes Pv01, Pv02, Pv03, Pv05, Pv07, Pv08, and Pv10. Five QTNs were associated with seed phosphorus content, four on chromosome Pv07, and one on Pv08. A single significant QTN was found for seed calcium content on chromosome Pv09 and for seed magnesium content on Pv08. Finally, two QTNs associated with seed zinc content were identified on Pv06 while no QTNs were found to be associated with seed potassium, iron, or manganese content. Our results demonstrate the utility of GWAS for understanding the genetic architecture of seed nutritional traits in common bean and have utility for future enrichment of seed with macro– and micronutrients through genomics-assisted breeding.

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Section: Discussionmentioning

confidence: 80%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Association Studies of Mineral Content in Common Bean

et al. 2021

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“…Some minerals including Zn and Fe were found in recombinant inbred lines (RILs) of the bean [17]. Common bean genotypes that were collected from various regions of India were evaluated for Fe, Zn and protein contents [18]. Furthermore, Mg, K, Fe, Zn, Mn, Cu and Se of some pulses including the common bean were determined [19].…”

Section: Introductionmentioning

confidence: 99%

The Nutritional Content of Common Bean (Phaseolus vulgaris L.) Landraces in Comparison to Modern Varieties

et al. 2018

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In terms of safe food and a healthy food supply, beans (Phaseolus spp.) are a significant source of protein, carbohydrates, vitamins and minerals especially for poor populations throughout the world. They are also rich in unsaturated fatty acids, such as linoleic and oleic acids. From the past to the present, a large number of breeding studies to increase bean yield, especially the common bean (P. vulgaris L.), have resulted in the registration of many modern varieties, although quality and flavor traits in the modern varieties have been mostly ignored. The aim of the present study, therefore, was to compare protein, fat, fatty acid, and some mineral content such as selenium (Se), zinc (Zn) and iron (Fe) of landraces to modern varieties. The landrace LR05 had higher mineral contents, particularly Se and Zn, and protein than the modern varieties. The landrace LR11 had the highest linoleic acid. The landraces are grown by farmers in small holdings for dual uses, such as both dry seed and snap bean production, and are commercialized with a higher cash price. The landraces of the common bean are, not only treasures that need to be guarded for the future, but also important genetic resources that can be used in bean breeding programs. The results of this study suggest that landraces are essential sources of important nutritional components for food security and a healthy food supply.

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“…A previous study demonstrated that QTLs related to the concentration levels of Fe and Zn were identi ed on Pv02, Pv06, Pv07 and Pv08 by utilizing microsatellite and RAPD markers [32]. Another study reported that SSRs markers associated to the Fe concentration level on Pv02, Pv05, Pv06, Pv07, Pv09 and Pv10, while markers associated with Zn on Pv01, Pv03, Pv05, Pv07 and Pv10 with one marker in Pv04 [33]. In this study, probable cyclic nucleotidegated ion channel 20 (CNGC20) locus was observed nearby the signi cant SNP associated with the Zn concentration on Pv04.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Association Study of Multi-Traits in Common Bean (Phaseolus Vulgaris L.)

Binagwa¹,

Bonsi²,

He³

et al. 2020

Preprint

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Background: Micronutrient deficiencies caused by lack of Iron (Fe), Zinc (Zn) and Vitamin A have negative effects on human health worldwide. Even though common bean meets Fe and Zn deficiencies based on recommended dietary allowances, the cooking time remains an important challenge. Understanding the genome organization, the loci and genes localization controlling multiple traits is crucial for developing enhanced micronutrient content and improved common bean with short cooking time. Results: In this study, GWAS method was used to determine SNPs associated with four traits studied, including water uptake, cooking time, Fe and Zn concentration level, using ~5,000 SNPs for a panel of 206 genotypes. By the analysis of population structure, 206 common bean genotypes were formed in three groups, the Mesoamerican gene pool, the Andean gene pool, and the admixture gene pool using the Bayesian method. With the significance levels between p = 2.94 x 10-08 to p = 8.33 x 10-03 and phenotypic variation of 8.26% to 18.19%, total of 10 SNPs was found to be significantly associated with traits on chromosomes Pv03, Pv04 and Pv10. Among of these SNPs, four SNPs were associated with water uptake, another four SNPs with the cooking time, one SNP with Zn concentration and one of less significant SNP associated with Fe concentration. Within the range or nearby the peak of significant SNP, putative loci encoding pectin degradation, cell structure and cellular exchange/transport were identified, suggesting these loci may play important roles in modulating expression of traits.Conclusion: The resultant data in this study contributed on deciphering the molecular mechanisms associated with water uptake, cooking time and micronutrient contents in common bean. The investigation of association between phenotypic and genotypic data has showed that GWAS approach is a powerful tool to dissect genetic architecture of complex traits and cooperate molecular breeding for advanced genotypes with enhanced micronutrients and short cooking time.

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Linkage disequilibrium based association mapping of micronutrients in common bean (Phaseolus vulgaris L.): a collection of Jammu & Kashmir, India

Abstract: Micronutrient deficiencies are of major concern in human health and plant metabolism. Iron (Fe), zinc (Zn

Cited by 19 publications

References 73 publications

Genome-Wide Association Studies of Mineral Content in Common Bean

Genome-Wide Association Studies of Mineral Content in Common Bean

The Nutritional Content of Common Bean (Phaseolus vulgaris L.) Landraces in Comparison to Modern Varieties

Genome-Wide Association Study of Multi-Traits in Common Bean (Phaseolus Vulgaris L.)

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