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Cheng P, Kong F, Han Y, Liu X, Xia J. Transcriptome Analysis Reveals Genes and Pathways Associated with Drought Tolerance of Early Stages in Sweet Potato ( Ipomoea batatas (L.) Lam.). Genes (Basel) 2024; 15:948. [PMID: 39062727 DOI: 10.3390/genes15070948] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2024] [Revised: 07/14/2024] [Accepted: 07/17/2024] [Indexed: 07/28/2024] Open
Abstract
The yield of sweet potato [Ipomoea batatas (L.) Lam] can be easily threatened by drought stress. Typically, early stages like the seedling stage and tuber-root expansion stage are more vulnerable to drought stress. In this study, a highly drought-tolerant sweet potato cultivar "WanSu 63" was subjected to drought stress at both the seedling stage (15 days after transplanting, 15 DAT) and the tuber-root expansion stage (45 DAT). Twenty-four cDNA libraries were constructed from leaf segments and root tissues at 15 and 45 DAT for Next-Generation Sequencing. A total of 663, 063, and 218 clean reads were obtained and then aligned to the reference genome with a total mapped ratio greater than 82.73%. A sum of 7119, 8811, 5463, and 930 differentially expressed genes were identified from leaves in 15 days (L15), roots in 15 days (R15), leaves in 45 days (L45), and roots in 45 days (R45), respectively, in drought stress versus control. It was found that genes encoding heat shock proteins, sporamin, LEA protein dehydrin, ABA signaling pathway protein gene NCED1, as well as a group of receptor-like protein kinases genes were enriched in differentially expressed genes. ABA content was significantly higher in drought-treated tissues than in the control. The sweet potato biomass declined sharply to nearly one-quarter after drought stress. In conclusion, this study is the first to identify the differentially expressed drought-responsive genes and signaling pathways in the leaves and roots of sweet potato at the seedling and root expansion stages. The results provide potential resources for drought resistance breeding of sweet potato.
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Affiliation(s)
- Peng Cheng
- Key Laboratory of Crop Quality Improvement of Anhui Province, Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230001, China
| | - Fanna Kong
- Key Laboratory of Crop Quality Improvement of Anhui Province, Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230001, China
| | - Yang Han
- Key Laboratory of Crop Quality Improvement of Anhui Province, Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230001, China
| | - Xiaoping Liu
- Key Laboratory of Crop Quality Improvement of Anhui Province, Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230001, China
| | - Jiaping Xia
- Key Laboratory of Crop Quality Improvement of Anhui Province, Crop Research Institute, Anhui Academy of Agricultural Sciences, Hefei 230001, China
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Wang C, Lei J, Jin X, Chai S, Jiao C, Yang X, Wang L. A Sweet Potato MYB Transcription Factor IbMYB330 Enhances Tolerance to Drought and Salt Stress in Transgenic Tobacco. Genes (Basel) 2024; 15:693. [PMID: 38927629 PMCID: PMC11202548 DOI: 10.3390/genes15060693] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2024] [Revised: 05/22/2024] [Accepted: 05/23/2024] [Indexed: 06/28/2024] Open
Abstract
MYB transcription factors (TFs) play vital roles in plant growth, development, and response to adversity. Although the MYB gene family has been studied in many plant species, there is still little known about the function of R2R3 MYB TFs in sweet potato in response to abiotic stresses. In this study, an R2R3 MYB gene, IbMYB330 was isolated from sweet potato (Ipomoea batatas). IbMYB330 was ectopically expressed in tobacco and the functional characterization was performed by overexpression in transgenic plants. The IbMYB330 protein has a 268 amino acid sequence and contains two highly conserved MYB domains. The molecular weight and isoelectric point of IbMYB330 are 29.24 kD and 9.12, respectively. The expression of IbMYB330 in sweet potato is tissue-specific, and levels in the root were significantly higher than that in the leaf and stem. It showed that the expression of IbMYB330 was strongly induced by PEG-6000, NaCl, and H2O2. Ectopic expression of IbMYB330 led to increased transcript levels of stress-related genes such as SOD, POD, APX, and P5CS. Moreover, compared to the wild-type (WT), transgenic tobacco overexpression of IbMYB330 enhanced the tolerance to drought and salt stress treatment as CAT activity, POD activity, proline content, and protein content in transgenic tobacco had increased, while MDA content had decreased. Taken together, our study demonstrated that IbMYB330 plays a role in enhancing the resistance of sweet potato to stresses. These findings lay the groundwork for future research on the R2R3-MYB genes of sweet potato and indicates that IbMYB330 may be a candidate gene for improving abiotic stress tolerance in crops.
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Affiliation(s)
- Chong Wang
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
- Crop Institute of Jiangxi Academy Agricultural Sciences, Nanchang 330200, China
| | - Jian Lei
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
| | - Xiaojie Jin
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
| | - Shasha Chai
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
| | - Chunhai Jiao
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
| | - Xinsun Yang
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
- College of Agriculture, Yangtze University, Jingzhou 434025, China
| | - Lianjun Wang
- Institute of Food Crops, Hubei Academy of Agricultural Sciences, Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Key Laboratory of Crop Molecular Breeding, Ministry of Agriculture and Rural Affairs, Wuhan 430064, China; (C.W.); (J.L.); (X.J.); (S.C.); (C.J.)
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Ahmed S, Khan MSS, Xue S, Islam F, Ikram AU, Abdullah M, Liu S, Tappiban P, Chen J. A comprehensive overview of omics-based approaches to enhance biotic and abiotic stress tolerance in sweet potato. HORTICULTURE RESEARCH 2024; 11:uhae014. [PMID: 38464477 PMCID: PMC10923648 DOI: 10.1093/hr/uhae014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Accepted: 01/09/2024] [Indexed: 03/12/2024]
Abstract
Biotic and abiotic stresses negatively affect the yield and overall plant developmental process, thus causing substantial losses in global sweet potato production. To cope with stresses, sweet potato has evolved numerous strategies to tackle ever-changing surroundings and biological and environmental conditions. The invention of modern sequencing technology and the latest data processing and analysis instruments has paved the way to integrate biological information from different approaches and helps to understand plant system biology more precisely. The advancement in omics technologies has accumulated and provided a great source of information at all levels (genome, transcript, protein, and metabolite) under stressful conditions. These latest molecular tools facilitate us to understand better the plant's responses to stress signaling and help to process/integrate the biological information encoded within the biological system of plants. This review briefly addresses utilizing the latest omics strategies for deciphering the adaptive mechanisms for sweet potatoes' biotic and abiotic stress tolerance via functional genomics, transcriptomics, proteomics, and metabolomics. This information also provides a powerful reference to understand the complex, well-coordinated stress signaling genetic regulatory networks and better comprehend the plant phenotypic responses at the cellular/molecular level under various environmental stimuli, thus accelerating the design of stress-resilient sweet potato via the latest genetic engineering approaches.
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Affiliation(s)
- Sulaiman Ahmed
- International Genome Center, Jiangsu University, Zhenjiang 212013, China
| | | | - Songlei Xue
- Jiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224000, China
| | - Faisal Islam
- International Genome Center, Jiangsu University, Zhenjiang 212013, China
| | - Aziz Ul Ikram
- International Genome Center, Jiangsu University, Zhenjiang 212013, China
| | - Muhammad Abdullah
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Minghang, 200240, Shanghai, China
| | - Shan Liu
- International Genome Center, Jiangsu University, Zhenjiang 212013, China
| | - Piengtawan Tappiban
- Institute of Molecular Biosciences, Mahidol University, Nakhon Pathom, 73170, Thailand
| | - Jian Chen
- International Genome Center, Jiangsu University, Zhenjiang 212013, China
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Liu S, Cai C, Li L, Yu L, Wang Q, Wang X. Transcriptome Analysis Reveals the Molecular Mechanisms of BR Negative Regulatory Factor StBIN2 Maintaining Tuber Dormancy. Int J Mol Sci 2024; 25:2244. [PMID: 38396922 PMCID: PMC10889842 DOI: 10.3390/ijms25042244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Revised: 02/08/2024] [Accepted: 02/09/2024] [Indexed: 02/25/2024] Open
Abstract
Potato is an important food crop. After harvest, these tubers will undergo a period of dormancy. Brassinosteroids (BRs) are a new class of plant hormones that regulate plant growth and seed germination. In this study, 500 nM of BR was able to break the dormancy of tubers. Additionally, exogenous BR also upregulated BR signal transduction genes, except for StBIN2. StBIN2 is a negative regulator of BR, but its specific role in tuber dormancy remains unclear. Transgenic methods were used to regulate the expression level of StBIN2 in tubers. It was demonstrated that the overexpression of StBIN2 significantly prolonged tuber dormancy while silencing StBIN2 led to premature sprouting. To further investigate the effect of StBIN2 on tuber dormancy, RNA-Seq was used to analyze the differentially expressed genes in OE-StBIN2, RNAi-StBIN2, and WT tubers. The results showed that StBIN2 upregulated the expression of ABA signal transduction genes but inhibited the expression of lignin synthesis key genes. Meanwhile, it was also found that StBIN2 physically interacted with StSnRK2.2 and StCCJ9. These results indicate that StBIN2 maintains tuber dormancy by mediating ABA signal transduction and lignin synthesis. The findings of this study will help us better understand the molecular mechanisms underlying potato tuber dormancy and provide theoretical support for the development of new varieties using related genes.
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Affiliation(s)
- Shifeng Liu
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
| | - Chengcheng Cai
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
| | - Liqin Li
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
| | - Liping Yu
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
| | - Qiang Wang
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiyao Wang
- College of Agronomy, Sichuan Agriculture University, Chengdu 611130, China; (S.L.); (C.C.); (L.L.); (L.Y.); (Q.W.)
- Potato Research and Development Center, Sichuan Agricultural University, Chengdu 611130, China
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5
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Mathura SR, Sutton F, Bowrin V. Characterization and expression analysis of SnRK2, PYL, and ABF/ AREB/ ABI5 gene families in sweet potato. PLoS One 2023; 18:e0288481. [PMID: 37922280 PMCID: PMC10624305 DOI: 10.1371/journal.pone.0288481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Accepted: 06/27/2023] [Indexed: 11/05/2023] Open
Abstract
Abscisic acid (ABA) signaling in plants is essential to several aspects of plant development, such as tolerance to environmental stresses and growth. ABA signaling is also important for storage organ formation in crops, such as sweet potato. However, the repertoire of I. batatas ABA signaling gene families has not yet been fully characterized, so that it is unclear which members of these families are necessary for tuberization. Therefore, genome-wide identification of the sweet potato ABF/ AREB/ ABI5, SnRK2, and PYL gene families was performed, along with phylogenetic, motif, cis-regulatory element (CRE), and expression analyses. Nine ABF, eight SnRK2, and eleven PYL gene family members were identified, and there was high sequence conservation among these proteins that were revealed by phylogenetic and motif analyses. The promoter sequences of these genes had multiple CREs that were involved in hormone responses and stress responses. In silico and qRT-PCR expression analyses revealed that these genes were expressed in various tissues and that IbABF3, IbABF4, IbDPBF3, IbDPBF4, IbPYL4, IbSnRK2.1, and IbSnRK2.2 were significantly expressed during storage root development. These results are an important reference that can be used for functional validation studies to better understand how ABA signaling elicits storage root formation at the molecular level.
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Affiliation(s)
- Sarah R. Mathura
- Biochemistry Research Laboratory (Rm 216), Department of Life Sciences, The University of the West Indies, St. Augustine, Trinidad and Tobago
| | - Fedora Sutton
- ScienceVisions Inc., Brookings, South Dakota, United States of America
| | - Valerie Bowrin
- Biochemistry Research Laboratory (Rm 216), Department of Life Sciences, The University of the West Indies, St. Augustine, Trinidad and Tobago
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6
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Kitavi M, Gemenet DC, Wood JC, Hamilton JP, Wu S, Fei Z, Khan A, Buell CR. Identification of genes associated with abiotic stress tolerance in sweetpotato using weighted gene co-expression network analysis. PLANT DIRECT 2023; 7:e532. [PMID: 37794882 PMCID: PMC10546384 DOI: 10.1002/pld3.532] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/28/2023] [Revised: 04/22/2023] [Accepted: 08/31/2023] [Indexed: 10/06/2023]
Abstract
Sweetpotato, Ipomoea batatas (L.), a key food security crop, is negatively impacted by heat, drought, and salinity stress. The orange-fleshed sweetpotato cultivar "Beauregard" was exposed to heat, salt, and drought treatments for 24 and 48 h to identify genes responding to each stress condition in leaves. Analysis revealed both common (35 up regulated, 259 down regulated genes in the three stress conditions) and unique sets of up regulated (1337 genes by drought, 516 genes by heat, and 97 genes by salt stress) and down regulated (2445 genes by drought, 678 genes by heat, and 204 genes by salt stress) differentially expressed genes (DEGs) suggesting common, yet stress-specific transcriptional responses to these three abiotic stressors. Gene Ontology analysis of down regulated DEGs common to both heat and salt stress revealed enrichment of terms associated with "cell population proliferation" suggestive of an impact on the cell cycle by the two stress conditions. To identify shared and unique gene co-expression networks under multiple abiotic stress conditions, weighted gene co-expression network analysis was performed using gene expression profiles from heat, salt, and drought stress treated 'Beauregard' leaves yielding 18 co-expression modules. One module was enriched for "response to water deprivation," "response to abscisic acid," and "nitrate transport" indicating synergetic crosstalk between nitrogen, water, and phytohormones with genes encoding osmotin, cell expansion, and cell wall modification proteins present as key hub genes in this drought-associated module. This research lays the groundwork for exploring to a further degree, mechanisms for abiotic stress tolerance in sweetpotato.
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Affiliation(s)
- Mercy Kitavi
- Research Technology Support Facility (RTSF)Michigan State UniversityEast LansingMichiganUSA
- Center for Applied Genetic TechnologiesUniversity of GeorgiaAthensGeorgiaUSA
| | - Dorcus C. Gemenet
- International Potato CenterLimaPeru
- International Maize and Wheat Improvement Center (CIMMYT), ICRAF HouseNairobiKenya
| | - Joshua C. Wood
- Center for Applied Genetic TechnologiesUniversity of GeorgiaAthensGeorgiaUSA
| | - John P. Hamilton
- Center for Applied Genetic TechnologiesUniversity of GeorgiaAthensGeorgiaUSA
- Department of Crop & Soil SciencesUniversity of GeorgiaAthensGeorgiaUSA
| | - Shan Wu
- Boyce Thompson InstituteCornell UniversityIthacaNew YorkUSA
| | - Zhangjun Fei
- Boyce Thompson InstituteCornell UniversityIthacaNew YorkUSA
| | - Awais Khan
- International Potato CenterLimaPeru
- Present address:
Plant Pathology and Plant‐Microbe Biology Section, School of Integrative Plant ScienceCornell UniversityGenevaNew YorkUSA
| | - C. Robin Buell
- Center for Applied Genetic TechnologiesUniversity of GeorgiaAthensGeorgiaUSA
- Department of Crop & Soil SciencesUniversity of GeorgiaAthensGeorgiaUSA
- Institute of Plant Breeding, Genetics, & GenomicsUniversity of GeorgiaAthensGeorgiaUSA
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Sapakhova Z, Raissova N, Daurov D, Zhapar K, Daurova A, Zhigailov A, Zhambakin K, Shamekova M. Sweet Potato as a Key Crop for Food Security under the Conditions of Global Climate Change: A Review. PLANTS (BASEL, SWITZERLAND) 2023; 12:2516. [PMID: 37447081 DOI: 10.3390/plants12132516] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2023] [Revised: 06/27/2023] [Accepted: 06/28/2023] [Indexed: 07/15/2023]
Abstract
Sweet potato is one of the most economically important crops for addressing global food security and climate change issues, especially under conditions of extensive agriculture, such as those found in developing countries. However, osmotic stress negatively impacts the agronomic and economic productivity of sweet potato cultivation by inducing several morphological, physiological, and biochemical changes. Plants employ many signaling pathways to respond to water stress by modifying their growth patterns, activating antioxidants, accumulating suitable solutes and chaperones, and making stress proteins. These physiological, metabolic, and genetic modifications can be employed as the best indicators for choosing drought-tolerant genotypes. The main objective of sweet potato breeding in many regions of the world, especially those affected by drought, is to obtain varieties that combine drought tolerance with high yields. In this regard, the study of the physiological and biochemical features of certain varieties is important for the implementation of drought resistance measures. Adapted genotypes can be selected and improved for particular growing conditions by using suitable tools and drought tolerance-related selection criteria. By regulating genetics in this way, the creation of drought-resistant varieties may become cost-effective for smallholder farmers. This review focuses on the drought tolerance mechanisms of sweet potato, the effects of drought stress on its productivity, its crop management strategies for drought mitigation, traditional and molecular sweet potato breeding methods for drought tolerance, and the use of biotechnological methods to increase the tolerance of sweet potato to drought.
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Affiliation(s)
- Zagipa Sapakhova
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Nurgul Raissova
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Dias Daurov
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Kuanysh Zhapar
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Ainash Daurova
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Andrey Zhigailov
- M. Aitkhozhin Institute of Molecular Biology and Biochemistry, Almaty 050012, Kazakhstan
| | - Kabyl Zhambakin
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
| | - Malika Shamekova
- Institute of Plant Biology and Biotechnology, Almaty 050040, Kazakhstan
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Liu E, Xu L, Luo Z, Li Z, Zhou G, Gao H, Fang F, Tang J, Zhao Y, Zhou Z, Jin P. Transcriptomic analysis reveals mechanisms for the different drought tolerance of sweet potatoes. FRONTIERS IN PLANT SCIENCE 2023; 14:1136709. [PMID: 37008495 PMCID: PMC10060965 DOI: 10.3389/fpls.2023.1136709] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Accepted: 02/13/2023] [Indexed: 06/19/2023]
Abstract
Drought is a common environmental stress with great negative impacts on plant growth, development and geographical distribution as well as agriculture and food production. Sweet potato is characterized by starchy, fresh and pigmented tuber, and is regarded as the seventh most important food crop. However, there has been no comprehensive study of the drought tolerance mechanism of different sweet potato cultivars to date. Here, we studied the mechanism for drought response of seven sweet potato drought-tolerant cultivars using the drought coefficients, physiological indicators and transcriptome sequencing. The seven sweet potato cultivars were classified into four groups of drought tolerance performance. A large number of new genes and transcripts were identified, with an average of about 8000 new genes per sample. Alternative splicing events in sweet potato, which were dominated by first exon and last exon alternative splicing, were not conserved among different cultivars and not significantly affected by drought stress. Furthermore, different drought-tolerance mechanisms were revealed through differentially expressed gene analysis and functional annotation. Two drought-sensitive cultivars, Shangshu-9 and Xushu-22, mainly resisted drought stress by up-regulating plant signal transduction. The other drought-sensitive cultivar Jishu-26 responded to drought stress by down-regulating isoquinoline alkaloid biosynthesis and nitrogen/carbohydrate metabolism. In addition, the drought-tolerant cultivar Chaoshu-1 and drought-preferred cultivar Z15-1 only shared 9% of differentially expressed genes, as well as many opposite metabolic pathways in response to drought. They mainly regulated flavonoid and carbohydrate biosynthesis/metabolism in response to drought, while Z15-1 increased photosynthesis and carbon fixation capacity. The other drought-tolerant cultivar Xushu-18 responded to drought stress by regulating the isoquinoline alkaloid biosynthesis and nitrogen/carbohydrate metabolism. The extremely drought-tolerant cultivar Xuzi-8 was almost unaffected by drought stress and responded to drought environment only by regulating the cell wall. These findings provide important information for the selection of sweet potatoes for specific purposes.
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Affiliation(s)
- Enliang Liu
- Grain Crops Institute, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Linli Xu
- Comprehensive Proving Ground, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Zhengqian Luo
- Comprehensive Proving Ground, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Zhiqiang Li
- Grain Crops Institute, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Guohui Zhou
- Adsen Biotechnology Co., Ltd., Urumqi, China
| | - Haifeng Gao
- Institute of Plant Protection, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Furong Fang
- Grain Crops Institute, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Jun Tang
- Xuzhou Institute of Agricultural Sciences in Xuhuai District, Xuzhou, China
| | - Yue Zhao
- Grain Crops Institute, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Zhilin Zhou
- Xuzhou Institute of Agricultural Sciences in Xuhuai District, Xuzhou, China
| | - Ping Jin
- Comprehensive Proving Ground, Xinjiang Academy of Agricultural Sciences, Urumqi, China
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9
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Xue L, Wei Z, Zhai H, Xing S, Wang Y, He S, Gao S, Zhao N, Zhang H, Liu Q. The IbPYL8-IbbHLH66-IbbHLH118 complex mediates the abscisic acid-dependent drought response in sweet potato. THE NEW PHYTOLOGIST 2022; 236:2151-2171. [PMID: 36128653 DOI: 10.1111/nph.18502] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2022] [Accepted: 09/06/2022] [Indexed: 06/15/2023]
Abstract
Drought limits crop development and yields. bHLH (basic helix-loop-helix) transcription factors play critical roles in regulating the drought response in many plants, but their roles in this process in sweet potato are unknown. Here, we report that two bHLH proteins, IbbHLH118 and IbbHLH66, play opposite roles in the ABA-mediated drought response in sweet potato. ABA treatment repressed IbbHLH118 expression but induced IbbHLH66 expression in the drought-tolerant sweet potato line Xushu55-2. Overexpressing IbbHLH118 reduced drought tolerance, whereas overexpressing IbbHLH66 enhanced drought tolerance, in sweet potato. IbbHLH118 directly binds to the E-boxes in the promoters of ABA-insensitive 5 (IbABI5), ABA-responsive element binding factor 2 (IbABF2) and tonoplast intrinsic protein 1 (IbTIP1) to suppress their transcription. IbbHLH118 forms homodimers with itself or heterodimers with IbbHLH66. Both of the IbbHLHs interact with the ABA receptor IbPYL8. ABA accumulates under drought stress, promoting the formation of the IbPYL8-IbbHLH66-IbbHLH118 complex. This complex interferes with IbbHLH118's repression of ABA-responsive genes, thereby activating ABA responses and enhancing drought tolerance. These findings shed light on the role of the IbPYL8-IbbHLH66-IbbHLH118 complex in the ABA-dependent drought response of sweet potato and identify candidate genes for developing elite crop varieties with enhanced drought tolerance.
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Affiliation(s)
- Luyao Xue
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Zihao Wei
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Hong Zhai
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Shihan Xing
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Yuxin Wang
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Shaozhen He
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Shaopei Gao
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Ning Zhao
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Huan Zhang
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
| | - Qingchang Liu
- Key Laboratory of Sweet Potato Biology and Biotechnology, Ministry of Agriculture and Rural Affairs/Beijing Key Laboratory of Crop Genetic Improvement/Laboratory of Crop Heterosis & Utilization and Joint Laboratory for International Cooperation in Crop Molecular Breeding, Ministry of Education, College of Agronomy & Biotechnology, China Agricultural University, Beijing, 100193, China
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10
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Physiological and Molecular Responses of 'Dusa' Avocado Rootstock to Water Stress: Insights for Drought Adaptation. PLANTS 2021; 10:plants10102077. [PMID: 34685886 PMCID: PMC8537572 DOI: 10.3390/plants10102077] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/01/2021] [Revised: 09/24/2021] [Accepted: 09/26/2021] [Indexed: 11/17/2022]
Abstract
Avocado consumption is increasing year by year, and its cultivation has spread to many countries with low water availability, which threatens the sustainability and profitability of avocado orchards. However, to date, there is not much information on the behavior of commercial avocado rootstocks against drought. The aim of this research was to evaluate the physiological and molecular responses of ‘Dusa’ avocado rootstock to different levels of water stress. Plants were deficit irrigated until soil water content reached 50% (mild-WS) and 25% (severe-WS) of field capacity. Leaf water potential (Ψw), net CO2 assimilation rates (AN), transpiration rate (E), stomatal conductance (gs), and plant transpiration rates significantly decreased under both WS treatments, reaching significantly lower values in severe-WS plants. After rewatering, mild- and severe-WS plants showed a fast recovery in most physiological parameters measured. To analyze root response to different levels of drought stress, a cDNA avocado stress microarray was carried out. Plants showed a wide transcriptome response linked to the higher degree of water stress, and functional enrichment of differentially expressed genes (DEGs) revealed abundance of common sequences associated with water stress, as well as specific categories for mild-WS and severe-WS. DEGs previously linked to drought tolerance showed overexpression under both water stress levels, i.e., several transcription factors, genes related to abscisic acid (ABA) response, redox homeostasis, osmoprotection, and cell-wall organization. Taken altogether, physiological and molecular data highlight the good performance of ‘Dusa’ rootstock under low-water-availability conditions, although further water stress experiments must be carried out under field conditions.
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11
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Nokihara K, Okada Y, Ohata S, Monden Y. Transcriptome Analysis Reveals Key Genes Involved in Weevil Resistance in the Hexaploid Sweetpotato. PLANTS 2021; 10:plants10081535. [PMID: 34451581 PMCID: PMC8398197 DOI: 10.3390/plants10081535] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/17/2021] [Revised: 07/12/2021] [Accepted: 07/21/2021] [Indexed: 12/13/2022]
Abstract
Because weevils are the most damaging pests of sweetpotato, the development of cultivars resistant to weevil species is considered the most important aspect in sweetpotato breeding. However, the genes and the underlying molecular mechanisms related to weevil resistance are yet to be elucidated. In this study, we performed an RNA sequencing-based transcriptome analysis using the resistant Kyushu No. 166 (K166) and susceptible Tamayutaka cultivars. The weevil resistance test showed a significant difference between the two cultivars at 30 days after the inoculation, specifically in the weevil growth stage and the suppressed weevil pupation that was only observed in K166. Differential expression and gene ontology analyses revealed that the genes upregulated after inoculation in K166 were related to phosphorylation, metabolic, and cellular processes. Because the weevil resistance was considered to be related to the suppression of larval pupation, we investigated the juvenile hormone (JH)-related genes involved in the inhibition of insect metamorphosis. We found that the expression of some terpenoid-related genes, which are classified as plant-derived JHs, was significantly increased in K166. This is the first study involving a comprehensive gene expression analysis that provides new insights about the genes and mechanisms associated with weevil resistance in sweetpotato.
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Affiliation(s)
- Kanoko Nokihara
- Graduate School of Environmental and Life Science, Okayama University, Okayama, Okayama 700-8530, Japan; (K.N.); (S.O.)
| | - Yoshihiro Okada
- Kyushu Okinawa Agricultural Research Center, National Agriculture and Food Research Organization, Itoman, Okinawa 901-0336, Japan;
| | - Shinichiro Ohata
- Graduate School of Environmental and Life Science, Okayama University, Okayama, Okayama 700-8530, Japan; (K.N.); (S.O.)
| | - Yuki Monden
- Graduate School of Environmental and Life Science, Okayama University, Okayama, Okayama 700-8530, Japan; (K.N.); (S.O.)
- Correspondence:
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12
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Gouveia CSS, Ganança JFT, Slaski JJ, Lebot V, Pinheiro de Carvalho MÂA. Abscisic acid phytohormone estimation in tubers and shoots of Ipomoea batatas subjected to long drought stress using competitive immunological assay. PHYSIOLOGIA PLANTARUM 2021; 172:419-430. [PMID: 32812251 DOI: 10.1111/ppl.13192] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2020] [Revised: 08/03/2020] [Accepted: 08/13/2020] [Indexed: 06/11/2023]
Abstract
Sweet potato (Ipomoea batatas L.), typically cultivated in temperate climates under low inputs, is one of the most important crops worldwide. Abscisic acid (ABA) is an important plant stress-induced phytohormone. Hitherto, few works analyzed the ABA function in sweet potato tissue growth. Very scarce information is available concerning the ABA role in sweet potato response to water scarcity conditions. Here, we show the ABA content variation in shoots and tubers of eight sweet potato accessions subjected to drought stress. ABA was also related to other resistance traits, such as chlorophyll content index (CCI), carbon isotopic discrimination (Δ13 C), oxalic acid (OA) and water use efficiency (WUE), to assess stress response mechanisms to water deficit between their organs. The most resilient drought-stressed sweet potato plants accumulated ABA-shoot, and significantly decreased the ABA-tuber content. ABA signaling was related to Δ13 C and CCI decrease and WUE increment, as an attempt to cope with water stress by partially closing the stomata. The partial closure of stomata could be in part due to the presence of OA-shoots, known to affect the intensity of the ABA-shoot signal in stomatal closure. Higher CCI content and minimal Δ13 C-shoot differences indicated good carboxylation fractionation, with higher Δ13 C-tuber content as an indicator of efficient tuber 13 C fixation and growth. Our work demonstrated that ABA could be used in conjunction with the other traits studied for the assessment of sweet potato whole-plant responses to environmental stresses, and thus aid the selection of the best drought tolerant genotypes for breeding programs.
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Affiliation(s)
- Carla S S Gouveia
- ISOPlexis Genebank, Faculty of Life Sciences, University of Madeira, Funchal, Madeira, 9020-105, Portugal
| | - José F T Ganança
- ISOPlexis Genebank, Faculty of Life Sciences, University of Madeira, Funchal, Madeira, 9020-105, Portugal
| | - Jan J Slaski
- ISOPlexis Genebank, Faculty of Life Sciences, University of Madeira, Funchal, Madeira, 9020-105, Portugal
- Ecosystems and Plant Sciences, InnoTech Alberta, Vegreville, Alberta, Canada
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13
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Zhu X, Zhang N, Liu X, Li S, Yang J, Hong X, Wang F, Si H. Mitogen-activated protein kinase 11 (MAPK11) maintains growth and photosynthesis of potato plant under drought condition. PLANT CELL REPORTS 2021; 40:491-506. [PMID: 33388892 DOI: 10.1007/s00299-020-02645-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2020] [Accepted: 11/26/2020] [Indexed: 06/12/2023]
Abstract
KEY MESSAGE StMAPK11 overexpression promotes potato growth, physiological activities and photosynthesis under drought conditions. Mitogen-activated protein kinases (MAPKs) are import regulators of MAPK pathway in plants under drought condition. However, the critical role in potato (Solanum tuberosum L.) drought resistance is not fully understood. In this study, we aimed to explore the role of StMAPK11 under drought stress. The result of RT-qPCR for assay of StMAPKs expression demonstrated that 15 StMAPKs were differentially expressed in leaves, flowers, petioles, stamens, pistils, stems, stolons, roots, tubers and tuber peels of potato. StMAPKs was dynamically modulated by abiotic stresses and plant hormone treatments, and StMAPK11 was apparently up-regulated under drought conditions. Therefore, the vectors pCPB-StMAPK11 and pCPBI121-miRmapk11 for over-expression and down-regulation of StMAPK11 were constructed, respectively, and introduced into potato cultivar Atlantic. The result showed that StMAPK11 promoted potato growth under drought conditions, as well as the physiological activities evidenced by changes in SOD, CAT and POD activity and H2O2, proline and MDA content. StMAPK11 up-regulation intensified drought resistance of potato plant by elevating antioxidant activities and photosynthesis. Moreover, we consolidated the protective role of StMAPK11 in tobacco and Arabidopsis against drought stress. The result could provide new insights into the function of StMAPK11 in drought response and its possible mechanisms.
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Affiliation(s)
- Xi Zhu
- College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Ning Zhang
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Xue Liu
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Shigui Li
- College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Jiangwei Yang
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Xusheng Hong
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Fangfang Wang
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China
| | - Huaijun Si
- College of Agronomy, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China.
- Gansu Provincial Key Laboratory of Aridland Crop Science/Gansu Key Laboratory of Crop Genetic and Germplasm Enhancement, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China.
- College of Life Science and Technology, Gansu Agricultural University, Lanzhou, 730070, People's Republic of China.
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14
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Arisha MH, Ahmad MQ, Tang W, Liu Y, Yan H, Kou M, Wang X, Zhang Y, Li Q. RNA-sequencing analysis revealed genes associated drought stress responses of different durations in hexaploid sweet potato. Sci Rep 2020; 10:12573. [PMID: 32724138 PMCID: PMC7387466 DOI: 10.1038/s41598-020-69232-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2019] [Accepted: 07/02/2020] [Indexed: 11/09/2022] Open
Abstract
Purple-fleshed sweet potato (PFSP) is an important food crop, as it is a rich source of nutrients and anthocyanin pigments. Drought has become a major threat to sustainable sweetpotato production, resulting in huge yield losses. Therefore, the present study was conducted to identify drought stress-responsive genes using next-generation (NGS) and third-generation sequencing (TGS) techniques. Five cDNA libraries were constructed from seedling leaf segments treated with a 30% solution of polyethylene glycol (PEG-6000) for 0, 1, 6, 12, and 48 h for second-generation sequencing. Leaf samples taken from upper third of sweet potato seedlings after 1, 6, 12, and 48 h of drought stress were used for the construction of cDNA libraries for third-generation sequencing; however, leaf samples from untreated plants were collected as controls. A total of 184,259,679 clean reads were obtained using second and third-generation sequencing and then assembled into 17,508 unigenes with an average length of 1,783 base pairs. Out of 17,508 unigenes, 642 (3.6%) unigenes failed to hit any homologs in any databases, which might be considered novel genes. A total of 2, 920, 1578, and 2,418 up-regulated unigenes and 3,834, 2,131, and 3,337 down-regulated unigenes from 1 h, 6 h, 12 h, and 48 h library were identified, respectively in drought stress versus control. In addition, after 6, 12, and 48 h of drought stress, 540 up-regulated unigenes, 486 down-regulated unigenes and 414 significantly differentially expressed unigenes were detected. It was found that several gene families including Basic Helix-loop-helix (bHLH), basic leucine zipper (bZIP), Cystein2/Histidine2 (C2H2), C3H, Ethylene-responsive transcription factor (ERF), Homo domain-leucine zipper (HD-ZIP), MYB, NAC (NAM, ATAF1/2, and CUC2), Thiol specific antioxidant and WRKY showed responses to drought stress. In total, 17,472 simple sequence repeats and 510,617 single nucleotide polymorphisms were identified based on transcriptome sequencing of the PFSP. About 96.55% of the obtained sequences are not available online in sweet potato genomics resources. Therefore, it will enrich annotated sweet potato gene sequences and enhance understanding of the mechanisms of drought tolerance through genetic manipulation. Moreover, it represents a sequence resource for genetic and genomic studies of sweet potato.
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Affiliation(s)
- Mohamed Hamed Arisha
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China. .,Department of Horticulture, Faculty of Agriculture, Zagazig University, Sharkia, 44511, Egypt.
| | - Muhammad Qadir Ahmad
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China.,Department of Plant Breeding and Genetics, Bahauddin Zakariya University, Multan, 60000, Pakistan
| | - Wei Tang
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Yaju Liu
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Hui Yan
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Meng Kou
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Xin Wang
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Yungang Zhang
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China
| | - Qiang Li
- Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai District/Key Laboratory of Biology and Genetic Breeding of Sweetpotato/Ministry of Agriculture and Rural Affairs/Sweetpotato Research Institute, CAAS, Xuzhou, 221131, Jiangsu, China.
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15
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Multiple QTL Mapping in Autopolyploids: A Random-Effect Model Approach with Application in a Hexaploid Sweetpotato Full-Sib Population. Genetics 2020; 215:579-595. [PMID: 32371382 PMCID: PMC7337090 DOI: 10.1534/genetics.120.303080] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Accepted: 04/26/2020] [Indexed: 11/18/2022] Open
Abstract
In developing countries, the sweetpotato, Ipomoea batatas (L.) Lam. [Formula: see text], is an important autopolyploid species, both socially and economically. However, quantitative trait loci (QTL) mapping has remained limited due to its genetic complexity. Current fixed-effect models can fit only a single QTL and are generally hard to interpret. Here, we report the use of a random-effect model approach to map multiple QTL based on score statistics in a sweetpotato biparental population ('Beauregard' × 'Tanzania') with 315 full-sibs. Phenotypic data were collected for eight yield component traits in six environments in Peru, and jointly adjusted means were obtained using mixed-effect models. An integrated linkage map consisting of 30,684 markers distributed along 15 linkage groups (LGs) was used to obtain the genotype conditional probabilities of putative QTL at every centiMorgan position. Multiple interval mapping was performed using our R package QTLpoly and detected a total of 13 QTL, ranging from none to four QTL per trait, which explained up to 55% of the total variance. Some regions, such as those on LGs 3 and 15, were consistently detected among root number and yield traits, and provided a basis for candidate gene search. In addition, some QTL were found to affect commercial and noncommercial root traits distinctly. Further best linear unbiased predictions were decomposed into additive allele effects and were used to compute multiple QTL-based breeding values for selection. Together with quantitative genotyping and its appropriate usage in linkage analyses, this QTL mapping methodology will facilitate the use of genomic tools in sweetpotato breeding as well as in other autopolyploids.
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16
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Gemenet DC, da Silva Pereira G, De Boeck B, Wood JC, Mollinari M, Olukolu BA, Diaz F, Mosquera V, Ssali RT, David M, Kitavi MN, Burgos G, Felde TZ, Ghislain M, Carey E, Swanckaert J, Coin LJM, Fei Z, Hamilton JP, Yada B, Yencho GC, Zeng ZB, Mwanga ROM, Khan A, Gruneberg WJ, Buell CR. Quantitative trait loci and differential gene expression analyses reveal the genetic basis for negatively associated β-carotene and starch content in hexaploid sweetpotato [Ipomoea batatas (L.) Lam.]. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2020; 133:23-36. [PMID: 31595335 PMCID: PMC6952332 DOI: 10.1007/s00122-019-03437-7] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2019] [Accepted: 09/17/2019] [Indexed: 05/10/2023]
Abstract
KEY MESSAGE β-Carotene content in sweetpotato is associated with the Orange and phytoene synthase genes; due to physical linkage of phytoene synthase with sucrose synthase, β-carotene and starch content are negatively correlated. In populations depending on sweetpotato for food security, starch is an important source of calories, while β-carotene is an important source of provitamin A. The negative association between the two traits contributes to the low nutritional quality of sweetpotato consumed, especially in sub-Saharan Africa. Using a biparental mapping population of 315 F1 progeny generated from a cross between an orange-fleshed and a non-orange-fleshed sweetpotato variety, we identified two major quantitative trait loci (QTL) on linkage group (LG) three (LG3) and twelve (LG12) affecting starch, β-carotene, and their correlated traits, dry matter and flesh color. Analysis of parental haplotypes indicated that these two regions acted pleiotropically to reduce starch content and increase β-carotene in genotypes carrying the orange-fleshed parental haplotype at the LG3 locus. Phytoene synthase and sucrose synthase, the rate-limiting and linked genes located within the QTL on LG3 involved in the carotenoid and starch biosynthesis, respectively, were differentially expressed in Beauregard versus Tanzania storage roots. The Orange gene, the molecular switch for chromoplast biogenesis, located within the QTL on LG12 while not differentially expressed was expressed in developing roots of the parental genotypes. We conclude that these two QTL regions act together in a cis and trans manner to inhibit starch biosynthesis in amyloplasts and enhance chromoplast biogenesis, carotenoid biosynthesis, and accumulation in orange-fleshed sweetpotato. Understanding the genetic basis of this negative association between starch and β-carotene will inform future sweetpotato breeding strategies targeting sweetpotato for food and nutritional security.
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Affiliation(s)
- Dorcus C Gemenet
- International Potato Center, ILRI Campus, Old Naivasha Road, P.O. Box 25171-00603, Nairobi, Kenya.
| | | | - Bert De Boeck
- International Potato Center, Av. La Molina 1895, Lima, Peru
| | - Joshua C Wood
- Michigan State University, East Lansing, MI, 48824, USA
| | | | - Bode A Olukolu
- North Carolina State University, Raleigh, NC, 27695, USA
- University of Tennessee, Knoxville, TN, 37996, USA
| | - Federico Diaz
- International Potato Center, Av. La Molina 1895, Lima, Peru
| | | | | | - Maria David
- International Potato Center, Av. La Molina 1895, Lima, Peru
| | - Mercy N Kitavi
- International Potato Center, ILRI Campus, Old Naivasha Road, P.O. Box 25171-00603, Nairobi, Kenya
| | | | | | - Marc Ghislain
- International Potato Center, ILRI Campus, Old Naivasha Road, P.O. Box 25171-00603, Nairobi, Kenya
| | | | | | - Lachlan J M Coin
- University of Queensland, St. Lucia, Brisbane, QLD, 4072, Australia
| | - Zhangjun Fei
- Boyce Thompson Institute, Cornell University, Ithaca, NY, 14853, USA
| | | | - Benard Yada
- National Crops Resources Research Institute (NaCCRI), Namulonge, P.O. Box 7084, Kampala, Uganda
| | - G Craig Yencho
- North Carolina State University, Raleigh, NC, 27695, USA
| | - Zhao-Bang Zeng
- North Carolina State University, Raleigh, NC, 27695, USA
| | | | - Awais Khan
- International Potato Center, Av. La Molina 1895, Lima, Peru
- Plant Pathology and Plant-Microbe Biology Section, Cornell University, Geneva, NY, 14456, USA
| | | | - C Robin Buell
- Michigan State University, East Lansing, MI, 48824, USA
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