Genome-wide association mapping of seed oligosaccharides in chickpea
Chickpea (Cicer arietinum L.) is one of the major pulse crops, rich in protein, and widely consumed all over the world. Most legumes, including chickpeas, possess noticeable amounts of raffinose family oligosaccharides (RFOs) in their seeds. RFOs are seed oligosaccharides abundant in nature, which a...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2022.1024543/full |
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| author | Dinakaran Elango Dinakaran Elango Wanyan Wang Mahender Thudi Mahender Thudi Mahender Thudi Sheelamary Sebastiar Bharathi Raja Ramadoss Rajeev K. Varshney Rajeev K. Varshney |
| author_facet | Dinakaran Elango Dinakaran Elango Wanyan Wang Mahender Thudi Mahender Thudi Mahender Thudi Sheelamary Sebastiar Bharathi Raja Ramadoss Rajeev K. Varshney Rajeev K. Varshney |
| author_sort | Dinakaran Elango |
| collection | DOAJ |
| description | Chickpea (Cicer arietinum L.) is one of the major pulse crops, rich in protein, and widely consumed all over the world. Most legumes, including chickpeas, possess noticeable amounts of raffinose family oligosaccharides (RFOs) in their seeds. RFOs are seed oligosaccharides abundant in nature, which are non-digestible by humans and animals and cause flatulence and severe abdominal discomforts. So, this study aims to identify genetic factors associated with seed oligosaccharides in chickpea using the mini-core panel. We have quantified the RFOs (raffinose and stachyose), ciceritol, and sucrose contents in chickpea using high-performance liquid chromatography. A wide range of variations for the seed oligosaccharides was observed between the accessions: 0.16 to 15.13 mg g-1 raffinose, 2.77 to 59.43 mg g-1 stachyose, 4.36 to 90.65 mg g-1 ciceritol, and 3.57 to 54.12 mg g-1 for sucrose. Kabuli types showed desirable sugar profiles with high sucrose, whereas desi types had high concentrations RFOs. In total, 48 single nucleotide polymorphisms (SNPs) were identified for all the targeted sugar types, and nine genes (Ca_06204, Ca_04353, and Ca_20828: Phosphatidylinositol N-acetylglucosaminyltransferase; Ca_17399 and Ca_22050: Remorin proteins; Ca_11152: Protein-serine/threonine phosphatase; Ca_10185, Ca_14209, and Ca_27229: UDP-glucose dehydrogenase) were identified as potential candidate genes for sugar metabolism and transport in chickpea. The accessions with low RFOs and high sucrose contents may be utilized in breeding specialty chickpeas. The identified candidate genes could be exploited in marker-assisted breeding, genomic selection, and genetic engineering to improve the sugar profiles in legumes and other crop species. |
| first_indexed | 2024-04-11T19:45:42Z |
| format | Article |
| id | doaj.art-20031ba39a4842f79bb193af1fa80dc5 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-11T19:45:42Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-20031ba39a4842f79bb193af1fa80dc52022-12-22T04:06:30ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2022-10-011310.3389/fpls.2022.10245431024543Genome-wide association mapping of seed oligosaccharides in chickpeaDinakaran Elango0Dinakaran Elango1Wanyan Wang2Mahender Thudi3Mahender Thudi4Mahender Thudi5Sheelamary Sebastiar6Bharathi Raja Ramadoss7Rajeev K. Varshney8Rajeev K. Varshney9Department of Agronomy, Iowa State University, Ames, IA, United StatesDepartment of Plant Science, Penn State University, University Park, PA, United StatesEcosystem Science and Management, Penn State University, University Park, PA, United StatesDepartment of Agricultural Biotechnology and Molecular Biology, Dr. Rajendra Prasad Central Agricultural University, Samastipur, IndiaCentre for Crop Health, University of Southern Queensland (USQ), Toowoomba, QLD, AustraliaGenetics Gains Research Program, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, IndiaDivision of Crop Improvement, Indian Council of Agricultural Research (ICAR)-Sugarcane Breeding Institute, Coimbatore, IndiaSaskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, SK, CanadaGenetics Gains Research Program, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, IndiaState Agricultural Biotechnology Centre, Crop Research Innovation Centre, Food Futures Institute, Murdoch University, Murdoch, WA, AustraliaChickpea (Cicer arietinum L.) is one of the major pulse crops, rich in protein, and widely consumed all over the world. Most legumes, including chickpeas, possess noticeable amounts of raffinose family oligosaccharides (RFOs) in their seeds. RFOs are seed oligosaccharides abundant in nature, which are non-digestible by humans and animals and cause flatulence and severe abdominal discomforts. So, this study aims to identify genetic factors associated with seed oligosaccharides in chickpea using the mini-core panel. We have quantified the RFOs (raffinose and stachyose), ciceritol, and sucrose contents in chickpea using high-performance liquid chromatography. A wide range of variations for the seed oligosaccharides was observed between the accessions: 0.16 to 15.13 mg g-1 raffinose, 2.77 to 59.43 mg g-1 stachyose, 4.36 to 90.65 mg g-1 ciceritol, and 3.57 to 54.12 mg g-1 for sucrose. Kabuli types showed desirable sugar profiles with high sucrose, whereas desi types had high concentrations RFOs. In total, 48 single nucleotide polymorphisms (SNPs) were identified for all the targeted sugar types, and nine genes (Ca_06204, Ca_04353, and Ca_20828: Phosphatidylinositol N-acetylglucosaminyltransferase; Ca_17399 and Ca_22050: Remorin proteins; Ca_11152: Protein-serine/threonine phosphatase; Ca_10185, Ca_14209, and Ca_27229: UDP-glucose dehydrogenase) were identified as potential candidate genes for sugar metabolism and transport in chickpea. The accessions with low RFOs and high sucrose contents may be utilized in breeding specialty chickpeas. The identified candidate genes could be exploited in marker-assisted breeding, genomic selection, and genetic engineering to improve the sugar profiles in legumes and other crop species.https://www.frontiersin.org/articles/10.3389/fpls.2022.1024543/fullanti-nutritional factors (ANF)flatus potentialmarker trait associationsprebioticsraffinose family oligosaccharides (RFOs)specialty chickpeas |
| spellingShingle | Dinakaran Elango Dinakaran Elango Wanyan Wang Mahender Thudi Mahender Thudi Mahender Thudi Sheelamary Sebastiar Bharathi Raja Ramadoss Rajeev K. Varshney Rajeev K. Varshney Genome-wide association mapping of seed oligosaccharides in chickpea Frontiers in Plant Science anti-nutritional factors (ANF) flatus potential marker trait associations prebiotics raffinose family oligosaccharides (RFOs) specialty chickpeas |
| title | Genome-wide association mapping of seed oligosaccharides in chickpea |
| title_full | Genome-wide association mapping of seed oligosaccharides in chickpea |
| title_fullStr | Genome-wide association mapping of seed oligosaccharides in chickpea |
| title_full_unstemmed | Genome-wide association mapping of seed oligosaccharides in chickpea |
| title_short | Genome-wide association mapping of seed oligosaccharides in chickpea |
| title_sort | genome wide association mapping of seed oligosaccharides in chickpea |
| topic | anti-nutritional factors (ANF) flatus potential marker trait associations prebiotics raffinose family oligosaccharides (RFOs) specialty chickpeas |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2022.1024543/full |
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