Common bean as a potential crop for future food security: an overview of past, current and future contributions in genomics, transcriptomics, transgenics and proteomics

Nadeem, Muhammad Azhar; Yeken, Mehmet Zahit; Shahid, Muhammad Qasim; Habyarimana, Ephrem; Yılmaz, Hilal; Alsaleh, Ahmad; Hatipoğlu, Rüştü; Çilesiz, Yeter; Khawar, Khalid Mahmood; Ludidi, Ndiko; Erċışlı, Sezai; Aasım, Muhammad; Karaköy, Tolga; Baloch, Faheem Shehzad

doi:10.1080/13102818.2021.1920462

Cited by 47 publications

(41 citation statements)

References 277 publications

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“…Common bean is one of the most important legume crops used frequently in the diets of the human populations of the developing and least developed countries, and therefore crops like common bean are considered as “poor man’s meat”. Moreover, common bean is referred to as a “grain of hope” as its seeds are rich sources of various mineral elements crucial for human health ( Nadeem et al, 2021a ). The present work was done with an objective of characterizing the mini core collection of common bean germplasms from Turkey, an important area of diversity for common bean, to find the promising accessions with high Mg contents in the common bean seeds and also to unlock the chromosomal region associated with this mineral element and to discuss whether the genomic regions identified here are novel QTLs or whether they fall into the same genetic region reported earlier.…”

Section: Discussionmentioning

confidence: 99%

“…Currently, this crop is cultivated all over the world and a total of 34 mha area was under common bean cultivation globally during 2020, resulting in a production of 27.5 mtones ( FAO, 2022 ). Earlier studies confirmed that common bean was originated and domesticated in Mesoamerica and arrived in Europe through Columbian exchange ( Rodiño et al, 2006 ; Gioia et al, 2013 ; Nadeem et al, 2021a ), and then to Turkey through Ottoman traders. Turkey is considered a hotspot for agricultural biodiversity for most of the crops we use in our kitchen today ( Nadeem et al, 2018 ; Nadeem et al, 2020a ).…”

Section: Introductionmentioning

confidence: 93%

“…These benefits have increased the importance of legumes for sustainable agriculture under a changing climate ( Stagnari et al, 2017 ). Among various legumes, common bean is considered as a “grain of hope” due to its nutritional potential ( Nadeem et al, 2021a ). Currently, this crop is cultivated all over the world and a total of 34 mha area was under common bean cultivation globally during 2020, resulting in a production of 27.5 mtones ( FAO, 2022 ).…”

Section: Introductionmentioning

confidence: 99%

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Magnesium- a Forgotten Element: Phenotypic Variation and Genome Wide Association Study in Turkish Common Bean Germplasm

et al. 2022

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Magnesium (Mg) is the fourth most abundant element in the human body and plays the role of cofactor for more than 300 enzymatic reactions. In plants, Mg is involved in various key physiological and biochemical processes like growth, development, photophosphorylation, chlorophyll formation, protein synthesis, and resistance to biotic and abiotic stresses. Keeping in view the importance of this element, the present investigation aimed to explore the Mg contents diversity in the seeds of Turkish common bean germplasm and to identify the genomic regions associated with this element. A total of 183 common bean accessions collected from 19 provinces of Turkey were used as plant material. Field experiments were conducted according to an augmented block design during 2018 in two provinces of Turkey, and six commercial cultivars were used as a control group. Analysis of variance depicted that Mg concentration among common bean accessions was statistically significant (p < 0.05) within each environment, however genotype × environment interaction was non-significant. A moderate level (0.60) of heritability was found in this study. Overall mean Mg contents for both environments varied from 0.33 for Nigde-Dermasyon to 1.52 mg kg−1 for Nigde-Derinkuyu landraces, while gross mean Mg contents were 0.92 mg kg−1. At the province level, landraces from Bolu were rich while the landraces from Bitlis were poor in seed Mg contents respectively. The cluster constellation plot divided the studied germplasm into two populations on the basis of their Mg contents. Marker-trait association was performed using a mixed linear model (Q + K) with a total of 7,900 DArTseq markers. A total of six markers present on various chromosomes (two at Pv01, and one marker at each chromosome i.e., Pv03, Pv07, Pv08, Pv11) showed statistically significant association for seed Mg contents. Among these identified markers, the DArT-3367607 marker present on chromosome Pv03 contributed to maximum phenotypic variation (7.5%). Additionally, this marker was found within a narrow region of previously reported markers. We are confident that the results of this study will contribute significantly to start common bean breeding activities using marker assisted selection regarding improved Mg contents.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 93%

Section: Introductionmentioning

confidence: 99%

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Magnesium- a Forgotten Element: Phenotypic Variation and Genome Wide Association Study in Turkish Common Bean Germplasm

et al. 2022

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“…In addition, researchers determined genes related to improved leaf and seed mass in common bean ( Schmutz et al, 2014 ). Although successful gene transformation studies are limited in common bean, many indirect and direct gene transfer attempts have been done (reviewed by Nadeem et al (2021 )). One of those attempts involved the construction of transgenic lines that display tolerance to golden mosaic geminivirus (BgMV-BR) via transferring Rep-TrAP-REn and BC1 genes to common bean by the biolistic method ( Aragão et al, 1998 ).…”

Section: Applications In Legumesmentioning

confidence: 99%

Gene-Editing Technologies and Applications in Legumes: Progress, Evolution, and Future Prospects

et al. 2022

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Legumes are rich in protein and phytochemicals and have provided a healthy diet for human beings for thousands of years. In recognition of the important role they play in human nutrition and agricultural production, the researchers have made great efforts to gain new genetic traits in legumes such as yield, stress tolerance, and nutritional quality. In recent years, the significant increase in genomic resources for legume plants has prepared the groundwork for applying cutting-edge breeding technologies, such as transgenic technologies, genome editing, and genomic selection for crop improvement. In addition to the different genome editing technologies including the CRISPR/Cas9-based genome editing system, this review article discusses the recent advances in plant-specific gene-editing methods, as well as problems and potential benefits associated with the improvement of legume crops with important agronomic properties. The genome editing technologies have been effectively used in different legume plants including model legumes like alfalfa and lotus, as well as crops like soybean, cowpea, and chickpea. We also discussed gene-editing methods used in legumes and the improvements of agronomic traits in model and recalcitrant legumes. Despite the immense opportunities genome editing can offer to the breeding of legumes, governmental regulatory restrictions present a major concern. In this context, the comparison of the regulatory framework of genome editing strategies in the European Union and the United States of America was also discussed. Gene-editing technologies have opened up new possibilities for the improvement of significant agronomic traits in legume breeding.

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“…Association mapping is one of the modern breeding approaches used to identify genetic loci that determine desired traits ( Lewontin and Kojima, 1960 ). Association mapping has several advantages over the bi-parental QTL mapping approach ( Yu and Buckler, 2006 ; Tian et al, 2011 ; Wen et al, 2014 ; Nadeem et al, 2021 ). For example, association mapping explores the allelic diversity that exists in the diverse germplasm, while QTL mapping can examine the allele variation present in only two parental lines.…”

Section: Introductionmentioning

confidence: 99%

Identification of QTLs/ Candidate Genes for Seed Mineral Contents in Common Bean (Phaseolus vulgaris L.) Through Genotyping-by-Sequencing

et al. 2022

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Throughout the ages, the common bean has been consumed by humanity as an important food staple crop and source of nutrition on a global scale. Since its domestication, a wide spectrum of phenotypic and genotypic investigations have been carried out to unravel the potential of this crop and to understand the process of nutrient accumulation along with other desirable characteristics. The common bean is one of the essential legume crops due to its high protein and micronutrient content. The balance in micronutrients is critical for the growth and development of plants as well as humans. Iron (Fe), Zinc (Zn), Copper (Cu), Manganese (Mn), Magnesium (Mg), Calcium (Ca), and Molybdenum (Mo) are some of the important micronutrients present in legumes. Thus, we aimed to investigate the quantitative trait loci’s (QTLs)/single nucleotide polymorphisms (SNPs) to identify the candidate genes associated with micronutrients through genotyping by sequencing (GBS). In our investigation, through GBS we identified SNPs linked with traits and assessed seven micronutrients in 96 selected common bean genotypes for screening nutritionally rich genotypes. Among 96399 SNPs total identified through GBS, 113 SNPs showed significant phenotypic variance, ranging from 13.50 to 21.74%. SNPs associated with most of the seed micronutrients (Mg, Mn, Fe, Ca, Cu) were found on chr3 & chr11 (Mg, Mn, Mo, Ca, Zn). The findings from this study could be used for haplotype-based selection of nutritionally rich genotypes and for marker-assisted genetic enhancement of the common bean. Further, the identified SNPs for candidate genes/transporters associated with micronutrient content may pave the way for the enrichment of seeds by employing genomics-assisted breeding programs.

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Common bean as a potential crop for future food security: an overview of past, current and future contributions in genomics, transcriptomics, transgenics and proteomics

Cited by 47 publications

References 277 publications

Magnesium- a Forgotten Element: Phenotypic Variation and Genome Wide Association Study in Turkish Common Bean Germplasm

Magnesium- a Forgotten Element: Phenotypic Variation and Genome Wide Association Study in Turkish Common Bean Germplasm

Gene-Editing Technologies and Applications in Legumes: Progress, Evolution, and Future Prospects

Identification of QTLs/ Candidate Genes for Seed Mineral Contents in Common Bean (Phaseolus vulgaris L.) Through Genotyping-by-Sequencing

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