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Wu L, Meng F, Su X, Chen N, Peng D, Xing S. Transcriptomic responses to cold stress in Dendrobium huoshanense C.Z. Tang et S.J. Cheng. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2023; 29:1633-1646. [PMID: 38162923 PMCID: PMC10754796 DOI: 10.1007/s12298-023-01385-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2023] [Revised: 10/27/2023] [Accepted: 10/31/2023] [Indexed: 01/03/2024]
Abstract
Dendrobium huoshanense C.Z. Tang et S.J. Cheng is a perennial epiphytic herb of the family Orchidaceae. The main metabolites of D. huoshanense include polysaccharides and flavonoids. Low temperature is the main environmental factor that limits the growth and development of plants. However, changes that occur at the molecular level in response to low temperatures in D. huoshanense are poorly understood. We performed a transcriptome analysis at two time points of 0 d (control group) and 7 d (cold stress group) under culture of D. huoshanense at 4 °C. A total of 37.63 Gb transcriptomic data were generated using the MGI 2000 platform. These reads were assembled into 170,754 transcripts and 23,724 differentially expressed genes (DEGs) were obtained. Pathway analysis indicated that "flavonoid biosynthesis," "anthocyanin biosynthesis," "flavone and flavonol biosynthesis," and "plant hormone signal transduction" might play a vital role in the response of D. huoshanense to cold stress. Several important pathway genes were identified to be altered under cold stress, such as genes encoding polysaccharides, flavonoids, and plant hormone-signaling transduction kinase. In addition, the content of mannose and total flavonoids increased under cold stress. Twelve DEGs related to polysaccharides, flavonoid, and hormone pathways were selected from the transcriptome data for validation with real-time quantitative PCR (RT-qPCR). Our results provide a transcriptome database and candidate genes for further study of the response of D. huoshanense to cold stress. Supplementary Information The online version contains supplementary material available at 10.1007/s12298-023-01385-7.
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Affiliation(s)
- Liping Wu
- College of Pharmacy, Anhui University of Chinese Medicine, Hefei, 230012 China
- Department of Pharmacy, Tongling Municipal Hospital, Tongling, 244000 China
| | - Fei Meng
- College of Pharmacy, Anhui University of Chinese Medicine, Hefei, 230012 China
- Institute of Traditional Chinese Medicine Resources Protection and Development, Anhui Academy of Chinese Medicine, Hefei, 230012 China
| | - Xinglong Su
- College of Pharmacy, Anhui University of Chinese Medicine, Hefei, 230012 China
| | - Na Chen
- Institute of Health and Medicine, Joint Research Center for Chinese Herbal Medicine of Anhui, Hefei Comprehensive National Science Center, Bozhou, 236800 China
| | - Daiyin Peng
- College of Pharmacy, Anhui University of Chinese Medicine, Hefei, 230012 China
- Institute of Traditional Chinese Medicine Resources Protection and Development, Anhui Academy of Chinese Medicine, Hefei, 230012 China
- MOE-Anhui Joint Collaborative Innovation Center for Quality Improvement of Anhui Genuine Chinese Medicinal Materials, Hefei, 230038 China
| | - Shihai Xing
- College of Pharmacy, Anhui University of Chinese Medicine, Hefei, 230012 China
- Institute of Traditional Chinese Medicine Resources Protection and Development, Anhui Academy of Chinese Medicine, Hefei, 230012 China
- Anhui Province Key Laboratory of Research & Development of Chinese Medicine, Hefei, 230012 China
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Lu L, Yang W, Dong Z, Tang L, Liu Y, Xie S, Yang Y. Integrated Transcriptomic and Metabolomics Analyses Reveal Molecular Responses to Cold Stress in Coconut ( Cocos nucifera L.) Seedlings. Int J Mol Sci 2023; 24:14563. [PMID: 37834015 PMCID: PMC10572742 DOI: 10.3390/ijms241914563] [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: 08/29/2023] [Revised: 09/20/2023] [Accepted: 09/22/2023] [Indexed: 10/15/2023] Open
Abstract
Coconut is an important tropical and subtropical fruit and oil crop severely affected by cold temperature, limiting its distribution and application. Thus, studying its low-temperature reaction mechanism is required to expand its cultivation range. We used growth morphology and physiological analyses to characterize the response of coconuts to 10, 20, and 30 d of low temperatures, combined with transcriptome and metabolome analysis. Low-temperature treatment significantly reduced the plant height and dry weight of coconut seedlings. The contents of soil and plant analyzer development (SPAD), soluble sugar (SS), soluble protein (SP), proline (Pro), and malondialdehyde (MDA) in leaves were significantly increased, along with the activities of superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT), and the endogenous hormones abscisic acid (ABA), auxin (IAA), zeatin (ZR), and gibberellin (GA) contents. A large number of differentially expressed genes (DEGs) (9968) were detected under low-temperature conditions. Most DEGs were involved in mitogen-activated protein kinase (MAPK) signaling pathway-plant, plant hormone signal transduction, plant-pathogen interaction, biosynthesis of amino acids, amino sugar and nucleotide sugar metabolism, carbon metabolism, starch and sucrose metabolism, purine metabolism, and phenylpropanoid biosynthesis pathways. Transcription factors (TFs), including WRKY, AP2/ERF, HSF, bZIP, MYB, and bHLH families, were induced to significantly differentially express under cold stress. In addition, most genes associated with major cold-tolerance pathways, such as the ICE-CBF-COR, MAPK signaling, and endogenous hormones and their signaling pathways, were significantly up-regulated. Under low temperatures, a total of 205 differentially accumulated metabolites (DAMs) were enriched; 206 DAMs were in positive-ion mode and 97 in negative-ion mode, mainly including phenylpropanoids and polyketides, lipids and lipid-like molecules, benzenoids, organoheterocyclic compounds, organic oxygen compounds, organic acids and derivatives, nucleosides, nucleotides, and analogues. Comprehensive metabolome and transcriptome analysis revealed that the related genes and metabolites were mainly enriched in amino acid, flavonoid, carbohydrate, lipid, and nucleotide metabolism pathways under cold stress. Together, the results of this study provide important insights into the response of coconuts to cold stress, which will reveal the underlying molecular mechanisms and help in coconut screening and breeding.
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Affiliation(s)
- Lilan Lu
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Weibo Yang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Zhiguo Dong
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Longxiang Tang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
| | - Yingying Liu
- School of Earth Sciences, China University of Geosciences, Wuhan 430074, China;
| | - Shuyun Xie
- School of Earth Sciences, China University of Geosciences, Wuhan 430074, China;
| | - Yaodong Yang
- Hainan Key Laboratory of Tropical Oil Crops Biology/Coconut Research Institute, Chinese Academy of Tropical Agricultural Sciences, Wenchang 571339, China; (L.L.); (W.Y.); (Z.D.); (L.T.)
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3
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A Flashforward Look into Solutions for Fruit and Vegetable Production. Genes (Basel) 2022; 13:genes13101886. [PMID: 36292770 PMCID: PMC9602186 DOI: 10.3390/genes13101886] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2022] [Revised: 09/26/2022] [Accepted: 10/13/2022] [Indexed: 12/02/2022] Open
Abstract
One of the most important challenges facing current and future generations is how climate change and continuous population growth adversely affect food security. To address this, the food system needs a complete transformation where more is produced in non-optimal and space-limited areas while reducing negative environmental impacts. Fruits and vegetables, essential for human health, are high-value-added crops, which are grown in both greenhouses and open field environments. Here, we review potential practices to reduce the impact of climate variation and ecosystem damages on fruit and vegetable crop yield, as well as highlight current bottlenecks for indoor and outdoor agrosystems. To obtain sustainability, high-tech greenhouses are increasingly important and biotechnological means are becoming instrumental in designing the crops of tomorrow. We discuss key traits that need to be studied to improve agrosystem sustainability and fruit yield.
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Barnhart MH, Masalia RR, Mosley LJ, Burke JM. Phenotypic and transcriptomic responses of cultivated sunflower seedlings (Helianthus annuus L.) to four abiotic stresses. PLoS One 2022; 17:e0275462. [PMID: 36178944 PMCID: PMC9524668 DOI: 10.1371/journal.pone.0275462] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Accepted: 09/18/2022] [Indexed: 11/19/2022] Open
Abstract
Plants encounter and respond to numerous abiotic stresses during their lifetimes. These stresses are often related and could therefore elicit related responses. There are, however, relatively few detailed comparisons between multiple different stresses at the molecular level. Here, we investigated the phenotypic and transcriptomic response of cultivated sunflower (Helianthus annuus L.) seedlings to three water-related stresses (i.e., dry-down, an osmotic challenge, and salt stress), as well as a generalized low-nutrient stress. All four stresses negatively impacted seedling growth, with the nutrient stress having a more divergent response from control as compared to the water-related stresses. Phenotypic responses were consistent with expectations for growth in low-resource environments, including increased (i.e., less negative) carbon fractionation values and leaf C:N ratios, as well as increased belowground biomass allocation. The number of differentially expressed genes (DEGs) under stress was greater in leaf tissue, but roots exhibited a higher proportion of DEGs unique to individual stresses. Overall, the three water-related stresses had a more similar transcriptomic response to each other vs. nutrient stress, though this pattern was more pronounced in root vs. leaf tissue. In contrast to our DEG analyses, co-expression network analysis revealed that there was little indication of a shared response between the four stresses in despite the majority of DEGs being shared between multiple stresses. Importantly, osmotic stress, which is often used to simulate drought stress in experimental settings, had little transcriptomic resemblance to true water limitation (i.e., dry-down) in our study, calling into question its utility as a means for simulating drought.
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Affiliation(s)
- Max H. Barnhart
- Department of Plant Biology, University of Georgia, Athens, GA, United States of America
- * E-mail:
| | - Rishi R. Masalia
- Department of Plant Biology, University of Georgia, Athens, GA, United States of America
| | - Liana J. Mosley
- Department of Plant Biology, University of Georgia, Athens, GA, United States of America
| | - John M. Burke
- Department of Plant Biology, University of Georgia, Athens, GA, United States of America
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Song Y, Feng J, Liu D, Long C. Different Phenylalanine Pathway Responses to Cold Stress Based on Metabolomics and Transcriptomics in Tartary Buckwheat Landraces. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2022; 70:687-698. [PMID: 34989558 DOI: 10.1021/acs.jafc.1c06915] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Tartary buckwheat (Fagopyrum tataricum) is strongly adapted to growth in adverse environments. In Liangshan, the Yi people cultivate different Tartary buckwheat landraces in different habitats. In this study, we aimed to understand the molecular differences in transcriptomic and metabolomic responses underlying cold tolerance between two Tartary buckwheat landraces (TM and RG) cultivated at different altitudes. After cold treatment, TM showed normal growth in the seedling stage and had significantly higher total flavonoids (16.53 mg/g, 1.47 times), rutin (5.73 mg/g, 1.32 times), and quercetin (0.08 mg/g, 2.67 times), which were higher than those in RG. In addition, TM showed higher-level changes in carbon and nitrogen metabolism than RG. Combined transcriptome and metabolomic analyses showed that phenylpropanoid biosynthesis was upregulated after cold treatment, and in TM, rutin synthesis was upregulated with a higher-level response to cold stress. RG showed higher expression in anthocyanins in response to cold stress. In addition, 24 structural genes involved in flavonoid synthesis, including 6 PAL, 3 C4H, 2 4CL, 2 CHS, 1 CHI, 3 F3H, 3 DFR, 1 FLS, 1 F3'H, and 4 GTR genes, were identified. These results will provide sufficient information for breeding Tartary buckwheat with high cold tolerance and constructing rutin high-yield varieties based on genetic engineering.
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Affiliation(s)
- Yingjie Song
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100088, China
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518000, China
| | - Jinchao Feng
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100088, China
| | - Dongmei Liu
- State Environmental Protection Key Laboratory of Regional Eco-process and Function Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Chunlin Long
- College of Life and Environmental Sciences, Minzu University of China, Beijing 100088, China
- Key Laboratory of Ethnomedicine (Minzu University of China), Ministry of Education, Beijing 100081, China
- Key Laboratory of Ecology and Environment in Minority Areas (Minzu University of China), National Ethnic Affairs Commission, Beijing 100081, China
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6
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Dash A, Ghag SB. Genome-wide in silico characterization and stress induced expression analysis of BcL-2 associated athanogene (BAG) family in Musa spp. Sci Rep 2022; 12:625. [PMID: 35022483 PMCID: PMC8755836 DOI: 10.1038/s41598-021-04707-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Accepted: 12/21/2021] [Indexed: 11/23/2022] Open
Abstract
Programmed cell death (PCD) is a genetically controlled process for the selective removal of damaged cells. Though understanding about plant PCD has improved over years, the mechanisms are yet to be fully deciphered. Among the several molecular players of PCD in plants, B cell lymphoma 2 (Bcl-2)-associated athanogene (BAG) family of co-chaperones are evolutionary conserved and regulate cell death, growth and development. In this study, we performed a genome-wide in silico analysis of the MusaBAG gene family in a globally important fruit crop banana. Thirteen MusaBAG genes were identified, out of which MusaBAG1, 7 and 8 genes were found to have multiple copies. MusaBAG genes were distributed on seven out of 11 chromosomes in banana. Except for one paralog of MusaBAG8 all the other 12 proteins have characteristic BAG domain. MusaBAG1, 2 and 4 have an additional ubiquitin-like domain whereas MusaBAG5-8 have a calmodulin binding motif. Most of the MusaBAG proteins were predicted to be localized in the nucleus and mitochondria or chloroplast. The in silico cis-regulatory element analysis suggested regulation associated with photoperiodic control, abiotic and biotic stress. The phylogenetic analysis revealed 2 major clusters. Digital gene expression analysis and quantitative real-time RT-PCR depicted the differential expression pattern of MusaBAG genes under abiotic and biotic stress conditions. Further studies are warranted to uncover the role of each of these proteins in growth, PCD and stress responses so as to explore them as candidate genes for engineering transgenic banana plants with improved agronomic traits.
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Affiliation(s)
- Ashutosh Dash
- School of Biological Sciences, UM-DAE Centre for Excellence in Basic Sciences, University of Mumbai Campus, Kalina, Santacruz (East), Mumbai, 400 098, India
| | - Siddhesh B Ghag
- School of Biological Sciences, UM-DAE Centre for Excellence in Basic Sciences, University of Mumbai Campus, Kalina, Santacruz (East), Mumbai, 400 098, India.
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7
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Zhang X, Fan X, Wang Y, Xu D, Zhang J, Ye N. Exploring Core Response Mechanisms to Multiple Environmental Stressors Via A Genome-Wide Study in the Brown Alga Saccharina japonica (Laminariales, Phaeophyceae). JOURNAL OF PHYCOLOGY 2021; 57:345-354. [PMID: 33211355 DOI: 10.1111/jpy.13108] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2020] [Revised: 09/22/2020] [Accepted: 10/23/2020] [Indexed: 06/11/2023]
Abstract
Saccharina japonica is an important large brown alga and a major component of productive beds on the northwest coast of the Pacific Ocean. Abiotic stress response mechanisms are receiving considerable attention because global climate change is increasing their abiotic stress levels. However, our knowledge of how S. japonica broadly responds to stress is limited. In this study, we investigated the S. japonica responsive genes underlying acclimation to diverse stressors of acidification, high light, high temperature, hypersalinity, and hyposalinity and identified 408 core genes constantly and differentially expressed in response to all stressors. Our results confirm that stressors had strong effects on genes participating in photosynthesis, amino acid metabolism, carbohydrate metabolism, halogen metabolism, and reactive oxygen species defense. These findings will improve our understanding of brown algal response mechanisms linked to environmental stress and provide a list of candidate genes for improving algal stress tolerance in light of environmental stress in future studies.
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Affiliation(s)
- Xiaowen Zhang
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
| | - Xiao Fan
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
| | - Yitao Wang
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
| | - Dong Xu
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
| | - Jian Zhang
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
| | - Naihao Ye
- Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, 266071, China
- Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, Qingdao, 266200, China
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Đurić MJ, Subotić AR, Prokić LT, Trifunović-Momčilov MM, Cingel AD, Dragićević MB, Simonović AD, Milošević SM. Molecular Characterization and Expression of Four Aquaporin Genes in Impatiens walleriana During Drought Stress and Recovery. PLANTS (BASEL, SWITZERLAND) 2021; 10:154. [PMID: 33466920 PMCID: PMC7829780 DOI: 10.3390/plants10010154] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Revised: 12/23/2020] [Accepted: 01/06/2021] [Indexed: 12/19/2022]
Abstract
Aquaporins comprise a large group of transmembrane proteins responsible for water transport, which is crucial for plant survival under stress conditions. Despite the vital role of aquaporins, nothing is known about this protein family in Impatiens walleriana, a commercially important horticultural plant, which is sensitive to drought stress. In the present study, attention is given to the molecular characterization of aquaporins in I. walleriana and their expression during drought stress and recovery. We identified four I. walleriana aquaporins: IwPIP1;4, IwPIP2;2, IwPIP2;7 and IwTIP4;1. All of them had conserved NPA motifs (Asparagine-Proline-Alanine), transmembrane helices (TMh), pore characteristics, stereochemical properties and tetrameric structure of holoprotein. Drought stress and recovery treatment affected the aquaporins expression in I. walleriana leaves, which was up- or downregulated depending on stress intensity. Expression of IwPIP2;7 was the most affected of all analyzed I. walleriana aquaporins. At 15% and 5% soil moisture and recovery from 15% and 5% soil moisture, IwPIP2;7 expression significantly decreased and increased, respectively. Aquaporins IwPIP1;4 and IwTIP4;1 had lower expression in comparison to IwPIP2;7, with moderate expression changes in response to drought and recovery, while IwPIP2;2 expression was of significance only in recovered plants. Insight into the molecular structure of I. walleriana aquaporins expanded knowledge about plant aquaporins, while its expression during drought and recovery contributed to I. walleriana drought tolerance mechanisms and re-acclimation.
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Affiliation(s)
- Marija J. Đurić
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Angelina R. Subotić
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Ljiljana T. Prokić
- Department for Agrochemistry and Plant Physiology, Faculty of Agriculture, University of Belgrade, Nemanjina 6, 11080 Belgrade, Serbia;
| | - Milana M. Trifunović-Momčilov
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Aleksandar D. Cingel
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Milan B. Dragićević
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Ana D. Simonović
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
| | - Snežana M. Milošević
- Institute for Biological Research “Siniša Stanković”, National Institute of Republic of Serbia, Department of Plant Physiology, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia; (A.R.S.); (M.M.T.-M.); (A.D.C.); (M.B.D.); (A.D.S.); (S.M.M.)
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Huang X, Song X, Chen R, Zhang B, Li C, Liang Y, Qiu L, Fan Y, Zhou Z, Zhou H, Lakshmanan P, Li Y, Wu J. Genome-Wide Analysis of the DREB Subfamily in Saccharum spontaneum Reveals Their Functional Divergence During Cold and Drought Stresses. Front Genet 2020; 10:1326. [PMID: 32117408 PMCID: PMC7013043 DOI: 10.3389/fgene.2019.01326] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2019] [Accepted: 12/05/2019] [Indexed: 01/24/2023] Open
Abstract
Drought and cold stresses are the main environmental factors that affect the yield of sugarcane, and DREB genes play very important roles in tolerance to drought, cold, and other environmental stresses. In this study, bioinformatics analysis was performed to characterize Saccharum spontaneum SsDREB genes. RNA sequencing (RNA-seq) was used to detect the expression profiles of SsDREBs induced by cold and drought stresses. According to our results, there are 110 SsDREB subfamily proteins in S. spontaneum, which can be classified into six groups; 106 of these genes are distributed among 29 chromosomes. Inter- and intraspecies synteny analyses suggested that all DREB groups have undergone gene duplication, highlighting the polyploid events that played an important role in the expansion of the DREB subfamily. Furthermore, RNA-seq results showed that 45 SsDREBs were up- or downregulated under cold stress; 35 of them were found to be involved in responding to drought stress. According to protein–protein interaction analysis, SsDREB100, SsDREB102, and SsDREB105 play key roles during the response to cold stress. These results reveal that functional divergence exists between collinear homologous genes or among common origin genes in the DREB subfamily of S. spontaneum. This study presents a comprehensive analysis and systematic understanding of the precise mechanism of SsDREBs in response to abiotic stress and will lead to improvements in sugarcane.
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Affiliation(s)
- Xing Huang
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Xiupeng Song
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Rongfa Chen
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Baoqing Zhang
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Changning Li
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Yongsheng Liang
- Nanning Institute of Agricultural Sciences, Guangxi Academy of Agricultural Science, Nanning, China
| | - Lihang Qiu
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Yegeng Fan
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Zhongfeng Zhou
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Huiwen Zhou
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Prakash Lakshmanan
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Yangrui Li
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
| | - Jianming Wu
- Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Ministry of Agriculture Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Nanning, China
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Xu Y, Hu W, Liu J, Song S, Hou X, Jia C, Li J, Miao H, Wang Z, Tie W, Xu B, Jin Z. An aquaporin gene MaPIP2-7 is involved in tolerance to drought, cold and salt stresses in transgenic banana (Musa acuminata L.). PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 147:66-76. [PMID: 31841963 DOI: 10.1016/j.plaphy.2019.12.011] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2019] [Revised: 11/30/2019] [Accepted: 12/10/2019] [Indexed: 06/10/2023]
Abstract
Aquaporins (AQPs) transport water and other small molecules; however, their precise role in abiotic stress responses is not fully understood. In this study, we cloned and characterized the PIP2 group AQP gene, MaPIP2-7, in banana. MaPIP2-7 expression was upregulated after osmotic (mannitol), cold, and salt treatments. Overexpression of MaPIP2-7 in banana improved tolerance to multiple stresses such as drought, cold, and salt. MaPIP2-7 transgenic plants showed lower levels of malondialdehyde (MDA) and ion leakage (IL), but higher contents of chlorophyll, proline, soluble sugar, and abscisic acid (ABA) compared with wild type (WT) plants under stress and recovery conditions. Additionally, MaPIP2-7 overexpression decreased cellular contents of Na+ and K+ under salt and recovery conditions, and produced an elevated K+/Na+ ratio under recovery conditions. Finally, ABA biosynthetic and responsive genes exhibited higher expression levels in transgenic lines relative to WT under stress conditions. Taken together, our results demonstrate that MaPIP2-7 confers tolerance to drought, cold, and salt stresses by maintaining osmotic balance, reducing membrane injury, and improving ABA levels.
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Affiliation(s)
- Yi Xu
- Key Laboratory of Genetic Improvement of Bananas, Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China.
| | - Wei Hu
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Juhua Liu
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Shun Song
- Key Laboratory of Genetic Improvement of Bananas, Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China.
| | - Xiaowan Hou
- Key Laboratory of Hainan Province for Postharvest Physiology and Technology of Tropical Horticultural Products, South Subtropical Crops Research Institute, Chinese Academy of Tropical Agricultural Sciences, Zhanjiang, Guangdong, 524091, China.
| | - Caihong Jia
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Jingyang Li
- Key Laboratory of Genetic Improvement of Bananas, Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China.
| | - Hongxia Miao
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Zhuo Wang
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Weiwei Tie
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Biyu Xu
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
| | - Zhiqiang Jin
- Key Laboratory of Genetic Improvement of Bananas, Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Key Laboratory of Biology and Genetic Resources of Tropical Crops, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China; Hainan Academy of Tropical Agricultural Resource, Haikou, Hainan, 571101, China.
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11
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Tak H, Negi S, Rajpurohit YS, Misra HS, Ganapathi TR. MusaMPK5, a mitogen activated protein kinase is involved in regulation of cold tolerance in banana. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2020; 146:112-123. [PMID: 31739146 DOI: 10.1016/j.plaphy.2019.11.012] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Revised: 11/06/2019] [Accepted: 11/06/2019] [Indexed: 06/10/2023]
Abstract
Mitogen activated protein kinases (MAPKs) are known to play important functions in stress responses of plants. We have functionally characterized a MAPK, MusaMPK5 from banana and demonstrated its function in cold tolerance response of banana plants. Expression of MusaMPK5 showed positive response to cold, methyl-jasmonate and salicylic acid treatment. Transgenic banana plants harbouring PMusaMPK5::GUS after exposure to cold stress (8 °C) showed strong induction of GUS in cells surrounding central vascular cylinder of corm and cortical cells of pseudostem. Transgenic banana lines overexpressing MusaMPK5 were regenerated and four different transgenic lines were confirmed for T-DNA insertions by Southern blot and PCR analysis. In an in-vitro growth assay transgenic lines gained better shoot length and fresh weight during recovery from cold stress indicating improved cold tolerance ability of transgenic lines than control plants. Leaf discs of transgenic lines bleached less and retain lower MDA content than leaf discs of control plants after cold stress (4 °C and 8 °C). Cold stress tolerance analysis using two month old plants suggested that improved cold tolerance ability of transgenic lines might be associated with increased level of proline and reduced MDA content. MusaMPK5 gets localized in cytoplasm as observed in onion epidermal cells transiently overexpressing either MusaMPK5-GFP or MusaMPK5-GUS fusion protein. MusaMPK5 is a functional kinase as it autophosphorylate itself and phosphorylate myelin basic protein (MBP) in an in vitro reaction. Purified MusaMPK5 can phosphorylate NAC042 and SNAC67 transcription factors of banana which are important regulators of stress tolerance in banana plants.
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Affiliation(s)
- Himanshu Tak
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Trombay, Mumbai, 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai, 400094, India
| | - Sanjana Negi
- Department of Biotechnology, University of Mumbai, Mumbai, 400098, India
| | - Yogendra S Rajpurohit
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai, 400094, India
| | - Hari S Misra
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai, 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai, 400094, India
| | - T R Ganapathi
- Plant Cell Culture Technology Section, Nuclear Agriculture and Biotechnology Division, Trombay, Mumbai, 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai, 400094, India.
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12
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Buti M, Baldoni E, Formentin E, Milc J, Frugis G, Lo Schiavo F, Genga A, Francia E. A Meta-Analysis of Comparative Transcriptomic Data Reveals a Set of Key Genes Involved in the Tolerance to Abiotic Stresses in Rice. Int J Mol Sci 2019; 20:E5662. [PMID: 31726733 PMCID: PMC6888222 DOI: 10.3390/ijms20225662] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Revised: 11/05/2019] [Accepted: 11/10/2019] [Indexed: 12/16/2022] Open
Abstract
Several environmental factors, such as drought, salinity, and extreme temperatures, negatively affect plant growth and development, which leads to yield losses. The tolerance or sensitivity to abiotic stressors are the expression of a complex machinery involving molecular, biochemical, and physiological mechanisms. Here, a meta-analysis on previously published RNA-Seq data was performed to identify the genes conferring tolerance to chilling, osmotic, and salt stresses, by comparing the transcriptomic changes between tolerant and susceptible rice genotypes. Several genes encoding transcription factors (TFs) were identified, suggesting that abiotic stress tolerance involves upstream regulatory pathways. A gene co-expression network defined the metabolic and signalling pathways with a prominent role in the differentiation between tolerance and susceptibility: (i) the regulation of endogenous abscisic acid (ABA) levels, through the modulation of genes that are related to its biosynthesis/catabolism, (ii) the signalling pathways mediated by ABA and jasmonic acid, (iii) the activity of the "Drought and Salt Tolerance" TF, involved in the negative regulation of stomatal closure, and (iv) the regulation of flavonoid biosynthesis by specific MYB TFs. The identified genes represent putative key players for conferring tolerance to a broad range of abiotic stresses in rice; a fine-tuning of their expression seems to be crucial for rice plants to cope with environmental cues.
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Affiliation(s)
- Matteo Buti
- Department of Life Sciences, Centre BIOGEST-SITEIA, University of Modena and Reggio Emilia, Via Amendola 2, 42124 Reggio Emilia, Italy; (M.B.); (J.M.); (E.F.)
- Present address: Department of Agriculture, Food, Environment and Forestry, University of Florence, 50144 Florence, Italy
| | - Elena Baldoni
- National Research Council (CNR), Institute of Agricultural Biology and Biotechnology (IBBA), Via Bassini 15, 20133 Milano, Italy;
- CNR-IBBA, Rome Unit, via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy;
| | - Elide Formentin
- Department of Biology, University of Padova, 35131 Padova, Italy; (E.F.); (F.L.S.)
- Botanical Garden, University of Padova, 35123 Padova, Italy
| | - Justyna Milc
- Department of Life Sciences, Centre BIOGEST-SITEIA, University of Modena and Reggio Emilia, Via Amendola 2, 42124 Reggio Emilia, Italy; (M.B.); (J.M.); (E.F.)
| | - Giovanna Frugis
- CNR-IBBA, Rome Unit, via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy;
| | - Fiorella Lo Schiavo
- Department of Biology, University of Padova, 35131 Padova, Italy; (E.F.); (F.L.S.)
- Botanical Garden, University of Padova, 35123 Padova, Italy
| | - Annamaria Genga
- National Research Council (CNR), Institute of Agricultural Biology and Biotechnology (IBBA), Via Bassini 15, 20133 Milano, Italy;
| | - Enrico Francia
- Department of Life Sciences, Centre BIOGEST-SITEIA, University of Modena and Reggio Emilia, Via Amendola 2, 42124 Reggio Emilia, Italy; (M.B.); (J.M.); (E.F.)
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13
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Peng X, Wu H, Chen H, Zhang Y, Qiu D, Zhang Z. Transcriptome profiling reveals candidate flavonol-related genes of Tetrastigma hemsleyanum under cold stress. BMC Genomics 2019; 20:687. [PMID: 31472675 PMCID: PMC6717372 DOI: 10.1186/s12864-019-6045-y] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2019] [Accepted: 08/19/2019] [Indexed: 12/14/2022] Open
Abstract
Background Tetrastigma hemsleyanum Diels et Gilg is a valuable medicinal herb, whose main bioactive constituents are flavonoids. Chilling sensitivity is the dominant environmental factor limiting growth and development of the plants. But the mechanisms of cold sensitivity in this plant are still unclear. Also, not enough information on genes involved in flavonoid biosynthesis in T. hemsleyanum is available to understand the mechanisms of its physiological and pharmaceutical effects. Results The electrolyte leakage, POD activity, soluble protein, and MDA content showed a linear sustained increase under cold stress. The critical period of cold damage in T. hemsleyanum was from 12 h to 48 h. Expression profiles revealed 18,104 differentially expressed genes (DEGs) among these critical time points. Most of the cold regulated DEGs were early-response genes. A total of 114 unigenes were assigned to the flavonoid biosynthetic pathway. Fourteen genes most likely to encode flavonoid biosynthetic enzymes were identified. Flavonols of T. hemsleyanum might play a crucial role in combating cold stress. Genes encoding PAL, 4CL, CHS, ANR, FLS, and LAR were significantly up-regulated by cold stress, which could result in a significant increase in crucial flavonols (catechin, epicatechin, rutin, and quercetin) in T. hemsleyanum. Conclusions Overall, our results show that the expression of genes related to flavonol biosynthesis as well as flavonol content increased in T. hemsleyanum under cold stress. These findings provide valuable information regarding the transcriptome changes in response to cold stress and give a clue for identifying candidate genes as promising targets that could be used for improving cold tolerance via molecular breeding. The study also provides candidate genes involved in flavonoid biosynthesis and may be useful for clarifying the biosynthetic pathway of flavonoids in T. hemsleyanum. Electronic supplementary material The online version of this article (10.1186/s12864-019-6045-y) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Xin Peng
- Institute of Biopharmaceutical Technology, Zhejiang Pharmaceutical College, Ningbo, 315100, Zhejiang, People's Republic of China.,Fujian Agriculture and Forestry University, Fuzhou, 350000, Fujian, People's Republic of China
| | - Hao Wu
- Institute of Biopharmaceutical Technology, Zhejiang Pharmaceutical College, Ningbo, 315100, Zhejiang, People's Republic of China
| | - Hongjiang Chen
- Institute of Biopharmaceutical Technology, Zhejiang Pharmaceutical College, Ningbo, 315100, Zhejiang, People's Republic of China
| | - Yujiong Zhang
- Institute of Biopharmaceutical Technology, Zhejiang Pharmaceutical College, Ningbo, 315100, Zhejiang, People's Republic of China
| | - Dan Qiu
- Ningbo Engineering College, Ningbo, 315100, China
| | - Zhongyi Zhang
- Fujian Agriculture and Forestry University, Fuzhou, 350000, Fujian, People's Republic of China.
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14
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Dossa K, Mmadi MA, Zhou R, Zhang T, Su R, Zhang Y, Wang L, You J, Zhang X. Depicting the Core Transcriptome Modulating Multiple Abiotic Stresses Responses in Sesame ( Sesamum indicum L.). Int J Mol Sci 2019; 20:ijms20163930. [PMID: 31412539 PMCID: PMC6721054 DOI: 10.3390/ijms20163930] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Revised: 07/26/2019] [Accepted: 08/10/2019] [Indexed: 01/21/2023] Open
Abstract
Sesame is a source of a healthy vegetable oil, attracting a growing interest worldwide. Abiotic stresses have devastating effects on sesame yield; hence, studies have been performed to understand sesame molecular responses to abiotic stresses, but the core abiotic stress-responsive genes (CARG) that the plant reuses in response to an array of environmental stresses are unknown. We performed a meta-analysis of 72 RNA-Seq datasets from drought, waterlogging, salt and osmotic stresses and identified 543 genes constantly and differentially expressed in response to all stresses, representing the sesame CARG. Weighted gene co-expression network analysis of the CARG revealed three functional modules controlled by key transcription factors. Except for salt stress, the modules were positively correlated with the abiotic stresses. Network topology of the modules showed several hub genes predicted to play prominent functions. As proof of concept, we generated over-expressing Arabidopsis lines with hub and non-hub genes. Transgenic plants performed better under drought, waterlogging, and osmotic stresses than the wild-type plants but did not tolerate the salt treatment. As expected, the hub gene was significantly more potent than the non-hub gene. Overall, we discovered several novel candidate genes, which will fuel investigations on plant responses to multiple abiotic stresses.
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Affiliation(s)
- Komivi Dossa
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China.
| | - Marie A Mmadi
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Rong Zhou
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Tianyuan Zhang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
| | - Ruqi Su
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Yujuan Zhang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Linhai Wang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Jun You
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Xiurong Zhang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China.
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15
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Drapal M, de Carvalho EB, Rouard M, Amah D, Sardos J, Van den Houwe I, Brown A, Roux N, Swennen R, Fraser PD. Metabolite profiling characterises chemotypes of Musa diploids and triploids at juvenile and pre-flowering growth stages. Sci Rep 2019; 9:4657. [PMID: 30874619 PMCID: PMC6420674 DOI: 10.1038/s41598-019-41037-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Accepted: 02/22/2019] [Indexed: 11/16/2022] Open
Abstract
Bananas (Musa spp.) are consumed worldwide as dessert and cooking types. Edible banana varieties are for the most part seedless and sterile and therefore vegetatively propagated. This confers difficulties for breeding approaches against pressing biotic and abiotic threats and for the nutritional enhancement of banana pulp. A panel of banana accessions, representative of the diversity of wild and cultivated bananas, was analysed to assess the range of chemotypes available globally. The focus of this assessment was banana leaves at two growth stages (juvenile and pre-flowering), to see when during the plant growth metabolic differences can be established. The metabolic data corresponded to genomic trends reported in previous studies and demonstrated a link between metabolites/pathways and the genomes of M. acuminata and M. balbisiana. Furthermore, the vigour and resistance traits of M. balbisiana was connected to the phenolic composition and showed differences with the number of B genes in the hybrid accessions. Differences in the juvenile and pre-flowering data led to low correlation between the growth stages for prediction purposes.
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Affiliation(s)
- Margit Drapal
- School of Biological Sciences, Royal Holloway, University of London, Egham Hill, Egham, Surrey, TW20 0EX, UK
| | | | - Mathieu Rouard
- Bioversity France, Parc Scientifique Agropolis II, 34397, Montpellier, Cedex 5, France
| | - Delphine Amah
- International Institute of Tropical Agriculture, Ibadan, Nigeria
| | - Julie Sardos
- Bioversity France, Parc Scientifique Agropolis II, 34397, Montpellier, Cedex 5, France
| | | | - Allan Brown
- International Institute of Tropical Agriculture, Arusha, Tanzania
| | - Nicolas Roux
- Bioversity France, Parc Scientifique Agropolis II, 34397, Montpellier, Cedex 5, France
| | - Rony Swennen
- International Institute of Tropical Agriculture, Arusha, Tanzania.,Bioversity International, W. De Croylaan 42, 3001, Heverlee, Belgium.,Department of Biosystem, KU Leuven University, Oude Markt 13 - bus 5005, 3000, Leuven, Belgium
| | - Paul D Fraser
- School of Biological Sciences, Royal Holloway, University of London, Egham Hill, Egham, Surrey, TW20 0EX, UK.
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16
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Liu XP, Hawkins C, Peel MD, Yu LX. Genetic Loci Associated with Salt Tolerance in Advanced Breeding Populations of Tetraploid Alfalfa Using Genome-Wide Association Studies. THE PLANT GENOME 2019; 12:180026. [PMID: 30951087 DOI: 10.3835/plantgenome2018.05.0026] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Many agricultural lands in the western United States consist of soil with high concentrations of salt, which is detrimental to alfalfa ( L.) growth and production, especially in the region where water resource is limited. Developing alfalfa varieties with salt tolerance is imperative for sustainable production under increasing soil salinity. In the present study, we used advanced alfalfa breeding populations and evaluated five traits related to salt tolerance including biomass dry weight (DW) and fresh weight (FW), plant height (PH), leaf relative water content (RWC), and stomatal conductance (SC) under control and salt stress. Stress susceptibility index (SSI) of each trait and single-nucleotide polymorphism (SNP) markers generated by genotyping-by-sequencing (GBS) were used for genome-wide association studies (GWAS) to identify loci associated with salt tolerance. A total of 53 significant SNPs associated with salt tolerance were identified and they were located at 49 loci through eight chromosomes. A Basic Local Alignment Search Tool (BLAST) search of the regions surrounding the SNPs revealed 21 putative candidate genes associated with salt tolerance. The genetic architecture for traits related to salt tolerance characterized in this report could help in understanding the genetic mechanism by which salt stress affects plant growth and production in alfalfa. The markers and candidate genes identified in the present study would be useful for marker-assisted selection (MAS) in breeding salt-tolerant alfalfa after validation of the markers.
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17
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Jangale BL, Chaudhari RS, Azeez A, Sane PV, Sane AP, Krishna B. Independent and combined abiotic stresses affect the physiology and expression patterns of DREB genes differently in stress-susceptible and resistant genotypes of banana. PHYSIOLOGIA PLANTARUM 2019; 165:303-318. [PMID: 30216466 DOI: 10.1111/ppl.12837] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2018] [Revised: 09/07/2018] [Accepted: 09/10/2018] [Indexed: 05/22/2023]
Abstract
In tropics, combined stresses of drought and heat often reduce crop productivity in plants like Musa acuminata L. We compared responses of two contrasting banana genotypes, namely the drought-sensitive Grand Nain (GN; AAA genome) and drought tolerant Hill banana (HB; AAB genome) to individual drought, heat and their combination under controlled and field conditions. Drought and combined drought and heat treatments caused greater reduction in leaf relative water content and greater increase in ion leakage and H2 O2 content in GN plants, especially in early stages, while the responses were more pronounced in HB at later stages. A combination of drought and heat increased the severity of responses. Real-time expression patterns of the A-1 and A-2 group DEHYDRATION-RESPONSIVE ELEMENT BINDING (DREB) genes revealed greater changes in expression in leaves of HB plants for both the individual stresses under controlled conditions compared to GN plants. A combination of heat and drought, however, activated most DREB genes in GN but surprisingly suppressed their expression in HB in controlled and field conditions. Its response seems correlated to a better stomatal control over transpiration in HB and a DREB-independent pathway for the more severe combined stresses unlike in GN. Most of the DREB genes had abscisic acid (ABA)-responsive elements in their promoters and were also activated by ABA suggesting at least partial dependence on ABA. This study provides valuable information on physiological and molecular responses of the two genotypes to individual and combined drought and heat stresses.
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Affiliation(s)
- Bhavesh L Jangale
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
| | - Rakesh S Chaudhari
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
| | - Abdul Azeez
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
| | - Prafullachandra V Sane
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
| | - Aniruddha P Sane
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
- Plant Gene Expression Lab, CSIR-National Botanical Research Institute, Lucknow, 226001, India
| | - Bal Krishna
- Plant Molecular Biology Lab, Jain R&D Lab, Agri Park, Jain Hills, Jain Irrigation Systems Ltd., Jalgaon, 425001, India
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18
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Zhu X, Li Q, Li J, Luo J, Chen W, Li X. Comparative Study of Volatile Compounds in the Fruit of Two Banana Cultivars at Different Ripening Stages. Molecules 2018; 23:molecules23102456. [PMID: 30257494 PMCID: PMC6222428 DOI: 10.3390/molecules23102456] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2018] [Revised: 09/22/2018] [Accepted: 09/23/2018] [Indexed: 01/06/2023] Open
Abstract
Aromatic compounds are important for fruit quality and can vary among fruit cultivars. Volatile compounds formed during the ripening of two banana cultivars, Brazilian and Fenjiao, were determined using headspace solid-phase micro-extraction (SPME) and gas chromatography coupled with mass spectrometry (GC-MS). These two cultivars exhibited different physiological characteristics during storage. Fenjiao fruit exhibited faster yellowing and softening, a higher respiration rate and greater ethylene production. Also, the soluble sugar content in Fenjiao fruit was much higher than in Brazilian fruit. In total, 62 and 59 volatile compounds were detected in Fenjiao and Brazilian fruits, respectively. The predominant volatile components isoamyl acetate, butanoic acid, 3-methyl-3-methylbutyl ester, hexanal, trans-2-hexenal and 1-hexanol varied during ripening stages. Moreover, esters were more abundant in Fenjiao, and propanoic acid 2-methylbutyl ester, and octanoic acid were only detected in Fenjiao. These compounds contribute to the unique flavors and aromas of the two cultivars.
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Affiliation(s)
- Xiaoyang Zhu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
| | - Qiumian Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
| | - Jun Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
| | - Jun Luo
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
| | - Weixin Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
| | - Xueping Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources/Guangdong Provincial Key Laboratory of Postharvest Science of Fruits and Vegetables, College of Horticulture, South China Agricultural University, Guangzhou 510642, China.
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He WD, Gao J, Dou TX, Shao XH, Bi FC, Sheng O, Deng GM, Li CY, Hu CH, Liu JH, Zhang S, Yang QS, Yi GJ. Early Cold-Induced Peroxidases and Aquaporins Are Associated With High Cold Tolerance in Dajiao ( Musa spp. 'Dajiao'). FRONTIERS IN PLANT SCIENCE 2018; 9:282. [PMID: 29568304 PMCID: PMC5852111 DOI: 10.3389/fpls.2018.00282] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2017] [Accepted: 02/19/2018] [Indexed: 05/20/2023]
Abstract
Banana is an important tropical fruit with high economic value. One of the main cultivars ('Cavendish') is susceptible to low temperatures, while another closely related specie ('Dajiao') has considerably higher cold tolerance. We previously reported that some membrane proteins appear to be involved in the cold tolerance of Dajiao bananas via an antioxidation mechanism. To investigate the early cold stress response of Dajiao, here we applied comparative membrane proteomics analysis for both cold-sensitive Cavendish and cold-tolerant Dajiao bananas subjected to cold stress at 10°C for 0, 3, and 6 h. A total of 2,333 and 1,834 proteins were identified in Cavendish and Dajiao, respectively. Subsequent bioinformatics analyses showed that 692 Cavendish proteins and 524 Dajiao proteins were predicted to be membrane proteins, of which 82 and 137 differentially abundant membrane proteins (DAMPs) were found in Cavendish and Dajiao, respectively. Interestingly, the number of DAMPs with increased abundance following 3 h of cold treatment in Dajiao (80) was seven times more than that in Cavendish (11). Gene ontology molecular function analysis of DAMPs for Cavendish and Dajiao indicated that they belong to eight categories including hydrolase activity, binding, transporter activity, antioxidant activity, etc., but the number in Dajiao is twice that in Cavendish. Strikingly, we found peroxidases (PODs) and aquaporins among the protein groups whose abundance was significantly increased after 3 h of cold treatment in Dajiao. Some of the PODs and aquaporins were verified by reverse-transcription PCR, multiple reaction monitoring, and green fluorescent protein-based subcellular localization analysis, demonstrating that the global membrane proteomics data are reliable. By combining the physiological and biochemical data, we found that membrane-bound Peroxidase 52 and Peroxidase P7, and aquaporins (MaPIP1;1, MaPIP1;2, MaPIP2;4, MaPIP2;6, MaTIP1;3) are mainly involved in decreased lipid peroxidation and maintaining leaf cell water potential, which appear to be the key cellular adaptations contributing to the cold tolerance of Dajiao. This membrane proteomics study provides new insights into cold stress tolerance mechanisms of banana, toward potential applications for ultimate genetic improvement of cold tolerance in banana.
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Affiliation(s)
- Wei-Di He
- Key Laboratory of Horticultural Plant Biology of the Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Jie Gao
- Institute of Environmental Horticulture Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Tong-Xin Dou
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Xiu-Hong Shao
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
- College of Horticulture and Landscape, Hunan Agricultural University, Changsha, China
| | - Fang-Cheng Bi
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Ou Sheng
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Gui-Ming Deng
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Chun-Yu Li
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Chun-Hua Hu
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Ji-Hong Liu
- Key Laboratory of Horticultural Plant Biology of the Ministry of Education, College of Horticulture and Forestry Sciences, Huazhong Agricultural University, Wuhan, China
| | - Sheng Zhang
- Institute of Biotechnology, Cornell University, Ithaca, NY, United States
| | - Qiao-Song Yang
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
- *Correspondence: Gan-Jun Yi, Qiao-Song Yang,
| | - Gan-Jun Yi
- Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization of the Ministry of Agriculture/Guangdong Key Laboratory of Tropical and Subtropical Fruit Tree Research, Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, China
- *Correspondence: Gan-Jun Yi, Qiao-Song Yang,
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