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Dechkrong P, Srima S, Sukkhaeng S, Utkhao W, Thanomchat P, de Jong H, Tongyoo P. Mutation mapping of a variegated EMS tomato reveals an FtsH-like protein precursor potentially causing patches of four phenotype classes in the leaves with distinctive internal morphology. BMC PLANT BIOLOGY 2024; 24:265. [PMID: 38600480 PMCID: PMC11005157 DOI: 10.1186/s12870-024-04973-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Accepted: 04/01/2024] [Indexed: 04/12/2024]
Abstract
BACKGROUND Leaf variegation is an intriguing phenomenon observed in many plant species. However, questions remain on its mechanisms causing patterns of different colours. In this study, we describe a tomato plant detected in an M2 population of EMS mutagenised seeds, showing variegated leaves with sectors of dark green (DG), medium green (MG), light green (LG) hues, and white (WH). Cells and tissues of these classes, along with wild-type tomato plants, were studied by light, fluorescence, and transmission electron microscopy. We also measured chlorophyll a/b and carotene and quantified the variegation patterns with a machine-learning image analysis tool. We compared the genomes of pooled plants with wild-type-like and mutant phenotypes in a segregating F2 population to reveal candidate genes responsible for the variegation. RESULTS A genetic test demonstrated a recessive nuclear mutation caused the variegated phenotype. Cross-sections displayed distinct anatomy of four-leaf phenotypes, suggesting a stepwise mesophyll degradation. DG sectors showed large spongy layers, MG presented intercellular spaces in palisade layers, and LG displayed deformed palisade cells. Electron photomicrographs of those mesophyll cells demonstrated a gradual breakdown of the chloroplasts. Chlorophyll a/b and carotene were proportionally reduced in the sectors with reduced green pigments, whereas white sectors have hardly any of these pigments. The colour segmentation system based on machine-learning image analysis was able to convert leaf variegation patterns into binary images for quantitative measurements. The bulk segregant analysis of pooled wild-type-like and variegated progeny enabled the identification of SNP and InDels via bioinformatic analysis. The mutation mapping bioinformatic pipeline revealed a region with three candidate genes in chromosome 4, of which the FtsH-like protein precursor (LOC100037730) carries an SNP that we consider the causal variegated phenotype mutation. Phylogenetic analysis shows the candidate is evolutionary closest to the Arabidopsis VAR1. The synonymous mutation created by the SNP generated a miRNA binding site, potentially disrupting the photoprotection mechanism and thylakoid development, resulting in leaf variegation. CONCLUSION We described the histology, anatomy, physiology, and image analysis of four classes of cell layers and chloroplast degradation in a tomato plant with a variegated phenotype. The genomics and bioinformatics pipeline revealed a VAR1-related FtsH mutant, the first of its kind in tomato variegation phenotypes. The miRNA binding site of the mutated SNP opens the way to future studies on its epigenetic mechanism underlying the variegation.
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Affiliation(s)
- Punyavee Dechkrong
- Central Laboratory and Greenhouse Complex, Research and Academic Service Center, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Kamphaeng Saen, Nakhon Pathom, 73140, Thailand
| | - Sornsawan Srima
- Central Laboratory and Greenhouse Complex, Research and Academic Service Center, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Kamphaeng Saen, Nakhon Pathom, 73140, Thailand
| | - Siriphan Sukkhaeng
- Central Laboratory and Greenhouse Complex, Research and Academic Service Center, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Kamphaeng Saen Campus, Kamphaeng Saen, Nakhon Pathom, 73140, Thailand
| | - Winai Utkhao
- Center of Excellence On Agricultural Biotechnology: (AG-BIO/MHESRI), Bangkok, 10900, Thailand
- Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand
| | - Piyanan Thanomchat
- Scientific Equipment and Research Division, Kasetsart University Research and Development Institute (KURDI), Kasetsart University, Bangkok, 10900, Thailand
| | - Hans de Jong
- Center of Excellence On Agricultural Biotechnology: (AG-BIO/MHESRI), Bangkok, 10900, Thailand
- Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand
- Wageningen University, Plant Sciences Group, Laboratory of Genetics, Droevendaalsesteeg 1, 6708 PB, Wageningen, the Netherlands
| | - Pumipat Tongyoo
- Center of Excellence On Agricultural Biotechnology: (AG-BIO/MHESRI), Bangkok, 10900, Thailand.
- Center for Agricultural Biotechnology, Kasetsart University, Kamphaeng Saen Campus, Nakhon Pathom, 73140, Thailand.
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Mohanta TK, Mohanta YK, Kaushik P, Kumar J. Physiology, genomics, and evolutionary aspects of desert plants. J Adv Res 2024; 58:63-78. [PMID: 37160225 PMCID: PMC10982872 DOI: 10.1016/j.jare.2023.04.019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2022] [Revised: 04/28/2023] [Accepted: 04/29/2023] [Indexed: 05/11/2023] Open
Abstract
BACKGROUND Despite the exposure to arid environmental conditions across the globe ultimately hampering the sustainability of the living organism, few plant species are equipped with several unique genotypic, biochemical, and physiological features to counter such harsh conditions. Physiologically, they have evolved with reduced leaf size, spines, waxy cuticles, thick leaves, succulent hydrenchyma, sclerophyll, chloroembryo, and photosynthesis in nonfoliar and other parts. At the biochemical level, they are evolved to perform efficient photosynthesis through Crassulacean acid metabolism (CAM) and C4 pathways with the formation of oxaloacetic acid (Hatch-Slack pathway) instead of the C3 pathway. Additionally, comparative genomics with existing data provides ample evidence of the xerophytic plants' positive selection to adapt to the arid environment. However, adding more high-throughput sequencing of xerophyte plant species is further required for a comparative genomic study toward trait discovery related to survival. Learning from the mechanism to survive in harsh conditions could pave the way to engineer crops for future sustainable agriculture. AIM OF THE REVIEW The distinct physiology of desert plants allows them to survive in harsh environments. However, the genomic composition also contributes significantly to this and requires great attention. This review emphasizes the physiological and genomic adaptation of desert plants. Other important parameters, such as desert biodiversity and photosynthetic strategy, are also discussed with recent progress in the field. Overall, this review discusses the different features of desert plants, which prepares them for harsh conditions intending to translate knowledge to engineer plant species for sustainable agriculture. KEY SCIENTIFIC CONCEPTS OF REVIEW This review comprehensively presents the physiology, molecular mechanism, and genomics of desert plants aimed towards engineering a sustainable crop.
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Affiliation(s)
- Tapan Kumar Mohanta
- Natural and Medical Sciences Research Center, University of Nizwa, Nizwa 611, Oman.
| | - Yugal Kishore Mohanta
- Dept. of Applied Biology, University of Science and Technology Meghalaya, Baridua, Meghalaya 793101, India
| | - Prashant Kaushik
- Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana, 125004, India
| | - Jitesh Kumar
- Department of Plant and Microbial Biology, University of Minnesota, Saint Paul, MN 55108, United States
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Tan Z, Wu C, Xuan Z, Cheng Y, Xiong R, Su Z, Wang D. Lead exposure dose-dependently affects oxidative stress, AsA-GSH, photosynthesis, and mineral content in pakchoi ( Brassica chinensis L.). FRONTIERS IN PLANT SCIENCE 2022; 13:1007276. [PMID: 36275549 PMCID: PMC9583015 DOI: 10.3389/fpls.2022.1007276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Accepted: 09/21/2022] [Indexed: 06/16/2023]
Abstract
Lead (Pb) is a heavy metal pollutant and negatively affects agriculture and ecosystems. Pb can cause oxidative stress and abnormal plant growth. The ascorbic acid-glutathione (AsA-GSH) cycle mainly exists in chloroplasts and resists oxidative stress, scavenges reactive oxygen radicals, and maintains normal photosynthesis. However, the dosage related effects of Pb on pakchoi photosynthesis, via oxidative stress and the AsA-GSH system, remains unclear. In this study, various Pb dosage stress models were tested (low: 300 mg/kg; medium: 600 mg/kg; high: 900 mg/kg). Pb stress induced a dose-dependent increase in Pb content in pakchoi leaves (P < 0.05). Principal component analysis showed that Se, B, and Pb were significantly and negatively correlated. Pb stress also increased MDA content and decreased antioxidant enzymes SOD, GSH-Px, and T-AOC activities (P < 0.05). We also found that Vc content, as well as the GSH/GSSG ratio, decreased. Additionally, Pb stress destroyed chloroplast structure, decreased photosynthesis indicators Pn, Tr, Gs, Ci and VPD, and attenuated Fv/Fm and Fv/Fo (P < 0.05). In the high-dose group, the contents of chlorophyll a, chlorophyll b, and carotenoids decreased significantly, while the expression of chloroplast development genes (GLK, GLN2) decreased (P < 0.05). Our data suggest that Pb stress leads to dosage-dependent, aberrant photosynthesis by inhibiting the AsA-GSH system in pakchoi. This study expands the Pb toxicology research field and provides indications for screening antagonists.
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Affiliation(s)
- Zhanming Tan
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Cuiyun Wu
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Zhengying Xuan
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Yunxia Cheng
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Renci Xiong
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Zhihang Su
- College of Horticulture and Forestry Sciences, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
| | - Desheng Wang
- College of Agronomy, Tarim University, Alar, China
- The National-local Joint Engineering Laboratory for Efficient and High-quality Cultivation and Deep Processing Technology of Characteristic Fruit Tress in Southern Xinjiang, Alar, China
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Li M, Gu H, Lam SS, Sonne C, Peng W. Deposition-mediated phytoremediation of nitrogen oxide emissions. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 308:119706. [PMID: 35798191 DOI: 10.1016/j.envpol.2022.119706] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Revised: 06/06/2022] [Accepted: 06/29/2022] [Indexed: 06/15/2023]
Abstract
The growing global population and use of natural resources lead to significant air pollution. Nitrogen oxide emissions is a potential killer threatening human health requiring focus and remediation using vegetation being efficient and cheap. Here we review the mechanisms of removing nitrogen oxides by dry deposition of plants, discussing the principle of leaf absorption of pollutants and factors affecting the removal of nitrogen oxides providing a theoretical basis for the selection of urban greening vegetation.
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Affiliation(s)
- Mengzhen Li
- Henan Province International Collaboration Lab of Forest Resources Utilization, School of Forestry, Henan Agricultural University, Zhengzhou 450002, China
| | - Haping Gu
- Henan Province International Collaboration Lab of Forest Resources Utilization, School of Forestry, Henan Agricultural University, Zhengzhou 450002, China
| | - Su Shiung Lam
- Universiti Malaysia Terengganu, Higher Institution Centre of Excellence (HICoE), Institute of Tropical Aquaculture and Fisheries; 21030 Kuala Nerus, Terengganu, Malaysia
| | - Christian Sonne
- Aarhus University, Department of Bioscience, Arctic Research Centre (ARC), Frederiksborgvej 399, PO Box 358, DK-4000 Roskilde, Denmark
| | - Wanxi Peng
- Henan Province International Collaboration Lab of Forest Resources Utilization, School of Forestry, Henan Agricultural University, Zhengzhou 450002, China.
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