1
|
Wu ZY, Chapman MA, Liu J, Milne RI, Zhao Y, Luo YH, Zhu GF, Cadotte MW, Luan MB, Fan PZ, Monro AK, Li ZP, Corlett RT, Li DZ. Genomic variation, environmental adaptation, and feralization in ramie, an ancient fiber crop. PLANT COMMUNICATIONS 2024:100942. [PMID: 38720463 DOI: 10.1016/j.xplc.2024.100942] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/19/2023] [Revised: 12/20/2023] [Accepted: 05/06/2024] [Indexed: 06/29/2024]
Abstract
Feralization is an important evolutionary process, but the mechanisms behind it remain poorly understood. Here, we use the ancient fiber crop ramie (Boehmeria nivea (L.) Gaudich.) as a model to investigate genomic changes associated with both domestication and feralization. We first produced a chromosome-scale de novo genome assembly of feral ramie and investigated structural variations between feral and domesticated ramie genomes. Next, we gathered 915 accessions from 23 countries, comprising cultivars, major landraces, feral populations, and the wild progenitor. Based on whole-genome resequencing of these accessions, we constructed the most comprehensive ramie genomic variation map to date. Phylogenetic, demographic, and admixture signal detection analyses indicated that feral ramie is of exoferal or exo-endo origin, i.e., descended from hybridization between domesticated ramie and the wild progenitor or ancient landraces. Feral ramie has higher genetic diversity than wild or domesticated ramie, and genomic regions affected by natural selection during feralization differ from those under selection during domestication. Ecological analyses showed that feral and domesticated ramie have similar ecological niches that differ substantially from the niche of the wild progenitor, and three environmental variables are associated with habitat-specific adaptation in feral ramie. These findings advance our understanding of feralization, providing a scientific basis for the excavation of new crop germplasm resources and offering novel insights into the evolution of feralization in nature.
Collapse
Affiliation(s)
- Zeng-Yuan Wu
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Mark A Chapman
- School of Biological Sciences, University of Southampton, Southampton SO17 1BJ, UK
| | - Jie Liu
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China; CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China.
| | - Richard I Milne
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JH, UK
| | - Ying Zhao
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Ya-Huang Luo
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Guang-Fu Zhu
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Marc W Cadotte
- Department of Biological Sciences, University of Toronto-Scarborough, Toronto, Ontario, Canada
| | - Ming-Bao Luan
- Institute of Bast Fiber Crops, Chinese Academy of Agricultural Sciences, Changsha, Hunan 410205, China.
| | - Peng-Zhen Fan
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Alex K Monro
- Royal Botanic Gardens Kew, Richmond, Surrey TW9 3AE, UK
| | - Zhi-Peng Li
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China
| | - Richard T Corlett
- Royal Botanic Gardens Kew, Richmond, Surrey TW9 3AE, UK; Center for Integrative Conservation and Yunnan Key Laboratory for the Conservation of Tropical Rainforests and Asian Elephants, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, Yunnan 666303, China
| | - De-Zhu Li
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China; CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650201, China.
| |
Collapse
|
2
|
Ur Rahman S, Qin A, Zain M, Mushtaq Z, Mehmood F, Riaz L, Naveed S, Ansari MJ, Saeed M, Ahmad I, Shehzad M. Pb uptake, accumulation, and translocation in plants: Plant physiological, biochemical, and molecular response: A review. Heliyon 2024; 10:e27724. [PMID: 38500979 PMCID: PMC10945279 DOI: 10.1016/j.heliyon.2024.e27724] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Revised: 02/17/2024] [Accepted: 03/06/2024] [Indexed: 03/20/2024] Open
Abstract
Lead (Pb) is a highly toxic contaminant that is ubiquitously present in the ecosystem and poses severe environmental issues, including hazards to soil-plant systems. This review focuses on the uptake, accumulation, and translocation of Pb metallic ions and their toxicological effects on plant morpho-physiological and biochemical attributes. We highlight that the uptake of Pb metal is controlled by cation exchange capacity, pH, size of soil particles, root nature, and other physio-chemical limitations. Pb toxicity obstructs seed germination, root/shoot length, plant growth, and final crop-yield. Pb disrupts the nutrient uptake through roots, alters plasma membrane permeability, and disturbs chloroplast ultrastructure that triggers changes in respiration as well as transpiration activities, creates the reactive oxygen species (ROS), and activates some enzymatic and non-enzymatic antioxidants. Pb also impairs photosynthesis, disrupts water balance and mineral nutrients, changes hormonal status, and alters membrane structure and permeability. This review provides consolidated information concentrating on the current studies associated with Pb-induced oxidative stress and toxic conditions in various plants, highlighting the roles of different antioxidants in plants mitigating Pb-stress. Additionally, we discussed detoxification and tolerance responses in plants by regulating different gene expressions, protein, and glutathione metabolisms to resist Pb-induced phytotoxicity. Overall, various approaches to tackle Pb toxicity have been addressed; the phytoremediation techniques and biochar amendments are economical and eco-friendly remedies for improving Pb-contaminated soils.
Collapse
Affiliation(s)
- Shafeeq Ur Rahman
- Water Science and Environmental Engineering Research Center, College of Chemical and Environmental Engineering, Shenzhen University, Shenzhen, 518060, China
| | - Anzhen Qin
- Institute of Farmland Irrigation, Chinese Academy of Agricultural Sciences/Key Laboratory of Crop Water Use and Regulation, Ministry of Agriculture and Rural Affairs, Xinxiang, 453002, China
| | - Muhammad Zain
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province, Key Laboratory of Crop Cultivation and Physiology of Jiangsu Province, College of Agriculture, Yangzhou University, Yangzhou, 225009, China
| | - Zain Mushtaq
- Department of Soil Science, Faculty of Agricultural Sciences, University of the Punjab, Lahore, Pakistan
| | - Faisal Mehmood
- Department of Land and Water Management, Faculty of Agricultural Engineering, Sindh Agriculture University, Tandojam, 70060, Pakistan
| | - Luqman Riaz
- Department of Environmental Sciences, Kohsar University Murree, 47150, Punjab, Pakistan
| | - Sadiq Naveed
- Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, China
| | - Mohammad Javed Ansari
- Department of Botany, Hindu College Moradabad (Mahatma Jyotiba Phule Rohilkhand University Bareilly), 244001, India
| | - Mohd Saeed
- Department of Biology, College of Science, University of Hail, Hail, P.O. Box 2240, Saudi Arabia
| | - Irfan Ahmad
- Department of Clinical Laboratory Sciences, College of Applied Medical Sciences, King Khalid University, Abha, Saudi Arabia
| | - Muhammad Shehzad
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, Henan, China
| |
Collapse
|
3
|
Zhang Y, Song Z, Zhao H, Chen H, Zhao B. Integrative physiological, transcriptomic and metabolomic analysis reveals how the roots of two ornamental Hydrangea macrophylla cultivars cope with lead (Pb) toxicity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 910:168615. [PMID: 37984650 DOI: 10.1016/j.scitotenv.2023.168615] [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: 08/13/2023] [Revised: 11/12/2023] [Accepted: 11/14/2023] [Indexed: 11/22/2023]
Abstract
Lead (Pb) soil contamination has caused serious ecological and environmental issues. Hydrangea macrophylla is a potential Pb-contaminated soil remediation plant, however, their Pb stress defense mechanism is largely unknown. Here, the physiology, transcriptomic and metabolome of two H. macrophylla cultivars (ML, Pb-sensitive cultivar; JC, Pb-resistant cultivar) under Pb stress were investigated. The results demonstrated that JC performed superiorly, with activities of the antioxidant enzymes superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT) were 1.25, 2.84, and 1.67 times higher than those of ML after Pb treatment, respectively, and the amount of soluble sugar in JC increased by 231.34 % compared with that in ML. The electrical conductivity (EC) value of the root exudates of JC was 43.71 % lower than that of ML under Pb stress. The non-targeted metabolomics analysis revealed 193 metabolites grouped into nine categories. Pb stress-induced differential expression of the 37 metabolites, among which the major metabolites up-regulated in ML were organic acids, while in JC, these were carbohydrates, fatty acids, organic acids and lipids. The transcriptomic analysis revealed that Pb exposure induced 1075 and 1314 differentially expressed genes (DEGs) in JC and ML, respectively. According to the functional annotation results, hub genes were primarily enriched in carbohydrate metabolism, root growth, and plant resistance to external stresses. A conjoint analysis of the two omics indicated that the cutin, suberine and wax biosynthesis pathway in JC played an essential role in Pb detoxification. These findings clarify the resistance mechanism of H. macrophylla to Pb stress and open up a new avenue for breeding H. macrophylla Pb-resistant cultivars.
Collapse
Affiliation(s)
- Yuyu Zhang
- The College of Landscape Architecture and Arts, Northwest A&F University, Yangling 712100, China
| | - Ziyi Song
- The College of Landscape Architecture and Arts, Northwest A&F University, Yangling 712100, China
| | - Huiqi Zhao
- The College of Landscape Architecture and Arts, Northwest A&F University, Yangling 712100, China
| | - Huan Chen
- The College of Landscape Architecture and Arts, Northwest A&F University, Yangling 712100, China
| | - Bing Zhao
- The College of Landscape Architecture and Arts, Northwest A&F University, Yangling 712100, China.
| |
Collapse
|
4
|
Ilyas MZ, Sa KJ, Ali MW, Lee JK. Toxic effects of lead on plants: integrating multi-omics with bioinformatics to develop Pb-tolerant crops. PLANTA 2023; 259:18. [PMID: 38085368 DOI: 10.1007/s00425-023-04296-9] [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: 06/11/2023] [Accepted: 11/15/2023] [Indexed: 12/18/2023]
Abstract
MAIN CONCLUSION Lead disrupts plant metabolic homeostasis and key structural elements. Utilizing modern biotechnology tools, it's feasible to develop Pb-tolerant varieties by discovering biological players regulating plant metabolic pathways under stress. Lead (Pb) has been used for a variety of purposes since antiquity despite its toxic nature. After arsenic, lead is the most hazardous heavy metal without any known beneficial role in the biological system. It is a crucial inorganic pollutant that affects plant biochemical and morpho-physiological attributes. Lead toxicity harms plants throughout their life cycle and the extent of damage depends on the concentration and duration of exposure. Higher levels of lead exposure disrupt numerous key metabolic activities of plants including oxygen-evolving complex, organelles integrity, photosystem II connectivity, and electron transport chain. This review summarizes the detrimental effects of lead toxicity on seed germination, crop growth, and yield, oxidative and ultra-structural alterations, as well as nutrient absorption, transport, and assimilation. Further, it discusses the Pb-induced toxic modulation of stomatal conductance, photosynthesis, respiration, metabolic-enzymatic activity, osmolytes accumulation, and antioxidant activity. It is a comprehensive review that reports on omics-based studies along with morpho-physiological and biochemical modifications caused by lead stress. With advances in DNA sequencing technologies, genomics and transcriptomics are gradually becoming popular for studying Pb stress effects in plants. Proteomics and metabolomics are still underrated and there is a scarcity of published data, and this review highlights both their technical and research gaps. Besides, there is also a discussion on how the integration of omics with bioinformatics and the use of the latest biotechnological tools can aid in developing Pb-tolerant crops. The review concludes with core challenges and research directions that need to be addressed soon.
Collapse
Affiliation(s)
- Muhammad Zahaib Ilyas
- Department of Applied Plant Sciences, College of Bio-Resource Sciences, Kangwon National University, Chuncheon, 24341, South Korea
| | - Kyu Jin Sa
- Department of Crop Science, College of Ecology & Environmental Sciences, Kyungpook National University, Sangju, 37224, Korea
| | - Muhammad Waqas Ali
- School of Biosciences, University of Birmingham, Birmingham, B15 2TT, UK
- Department of Crop Genetics, John Innes Center, Norwich Research Park, Norwich, NR4 7UH, UK
| | - Ju Kyong Lee
- Department of Applied Plant Sciences, College of Bio-Resource Sciences, Kangwon National University, Chuncheon, 24341, South Korea.
- Interdisciplinary Program in Smart Agriculture, Kangwon National University, Chuncheon, 24341, South Korea.
| |
Collapse
|
5
|
Liu Z, Zhou L, Gan C, Hu L, Pang B, Zuo D, Wang G, Wang H, Liu Y. Transcriptomic analysis reveals key genes and pathways corresponding to Cd and Pb in the hyperaccumulator Arabis paniculata. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 254:114757. [PMID: 36950987 DOI: 10.1016/j.ecoenv.2023.114757] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 02/15/2023] [Accepted: 03/07/2023] [Indexed: 06/18/2023]
Abstract
Soil and water are increasingly at risk of contamination from the toxic heavy metals lead (Pb) and cadmium (Cd). Arabis paniculata (Brassicaceae) is a hyperaccumulator of heavy metals (HMs) found widely distributed in areas impacts by mining activities. However, the mechanism by which A. paniculata tolerates HMs is still uncharacterized. For this experiment, we employed RNA sequencing (RNA-seq) in order to find Cd (0.25 mM)- and Pb (2.50 mM)-coresponsive genes A. paniculata. In total, 4490 and 1804 differentially expressed genes (DEGs) were identified in root tissue, and 955 and 2209 DEGs were identified in shoot tissue, after Cd and Pb exposure, respectively. Interestingly in root tissue, gene expression corresponded similarly to both Cd and Pd exposure, of which 27.48% were co-upregulated and 41.00% were co-downregulated. Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) analyses showed that the co-regulated genes were predominantly involved in transcription factors (TFs), cell wall biosynthesis, metal transport, plant hormone signal transduction, and antioxidant enzyme activity. Many critical Pb/Cd-induced DEGs involved in phytohormone biosynthesis and signal transduction, HM transport, and transcription factors were also identified. Especially the gene ABCC9 was co-downregulated in root tissues but co-upregulated in shoot tissues. The co-downregulation of ABCC9 in the roots prevented Cd and Pb from entering the vacuole rather than the cytoplasm for transporting HMs to shoots. While in shoots, the ABCC9 co-upregulated results in vacuolar Cd and Pb accumulation, which may explain why A. paniculata is a hyperaccumulator. These results will help to reveal the molecular and physiological processes underlying tolerance to HM exposure in the hyperaccumulator A. paniculata, and aid in future efforts to utilize this plant in phytoremediation.
Collapse
Affiliation(s)
- Zhaochao Liu
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Lizhou Zhou
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Chenchen Gan
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Lijuan Hu
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Biao Pang
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Dan Zuo
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Guangyi Wang
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China
| | - Hongcheng Wang
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China.
| | - Yingliang Liu
- School of Life Science, Guizhou Normal University, Guiyang 550025, Guizhou, China.
| |
Collapse
|
6
|
Li X, Sun HF, Fan JH, Li YY, Ma LJ, Wang LL, Li XM. Transcriptome modulation by endophyte drives rice seedlings response to Pb stress. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 254:114740. [PMID: 36907094 DOI: 10.1016/j.ecoenv.2023.114740] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 02/09/2023] [Accepted: 03/05/2023] [Indexed: 06/18/2023]
Abstract
This study investigated the growth, SPAD value, chlorophyll fluorescence and transcriptome response of endophyte uninoculated and inoculated rice seedlings under Pb stress after treatment of 1 d and 5 d. Inoculation of endophytes significantly improved the plant height, SPAD value, Fv/F0, Fv/Fm and PIABS by 1.29, 1.73, 0.16, 1.25 and 1.90 times on the 1 d, by 1.07, 2.45, 0.11, 1.59 and 7.90 times on the 5 d, respectively, however, decreased the root length by 1.11 and 1.65 times on the 1 d and 5 d, respectively under Pb stress. Analysis of rice seedlings leaves by RNA-seq, there were 574 down-regulated and 918 up-regulated genes after treatment of 1 d, 205 down-regulated and 127 up-regulated genes after treatment of 5 d, of which 20 genes (11 up-regulated and 9 down-regulated) exhibited the same changing pattern after treatment of 1 d and 5 d. Using Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) to annotate these DEGs, and it was found that many of DEGs involved in photosynthesis, oxidative detoxification, hormone synthesis and signal transduction, protein phosphorylation/kinase and transcription factors. These findings provide new insights into the molecular mechanism of interaction between endophyte and plants under heavy metal stress, and contribute to agricultural production in limited environments.
Collapse
Affiliation(s)
- Xin Li
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - He-Fei Sun
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - Jia-Hui Fan
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - Yue-Ying Li
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - Lian-Ju Ma
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - Lan-Lan Wang
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China
| | - Xue-Mei Li
- College of Life Science, Shenyang Normal University, No. 253 Huanghe North Street, Shenyang, Liaoning 110034, China.
| |
Collapse
|
7
|
Usman K, Souchelnytskyi S, Al-Ghouti MA, Zouari N, Abu-Dieyeh MH. Proteomic analysis of T. qataranse exposed to lead (Pb) stress reveal new proteins with potential roles in Pb tolerance and detoxification mechanism. FRONTIERS IN PLANT SCIENCE 2022; 13:1009756. [PMID: 36340352 PMCID: PMC9630582 DOI: 10.3389/fpls.2022.1009756] [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: 09/26/2022] [Indexed: 06/16/2023]
Abstract
Soil lead (Pb) contamination is one of the environmental problems facing the modern world. Sources of Pb in soil include industrial activities such as mining and smelting processes, agricultural activities such as application of insecticide and municipal sewage sludges, and urban activities such as use of lead in gasoline, paints, and other materials. Phytoremediation is the direct use of living green plants and is an effective, cheap, non-invasive, and environmentally friendly technique used to transfer or stabilize all the toxic metals and environmental pollutants in polluted soil or groundwater. Current work in this area is invested in elucidating mechanisms that underpin toxic-metal tolerance and detoxification mechanisms. The present study aims to gain insight into the mechanisms of Pb tolerance in T. qataranse by comparative proteomics. MALDI-TOF/MS and in silico proteome analysis showed differential protein expression between treated (50 mg kg⎯1 Pb) and untreated (0 mg kg⎯1 Pb) T. qataranse. A total of eighty-six (86) differentially expressed proteins, most of which function in ion and protein binding, antioxidant activity, transport, and abiotic response stress, were identified. In addition, essential stress-regulating metabolic pathways, including glutathione metabolism, cellular response to stress, and regulation of HSF1-mediated heat shock response, were also enriched. Also, at 52- and 49-kDa MW band areas, up to six hypothetical proteins with unknown functions were identified. Of these, protein AXX17_AT2G26660 is highly rich in glycine amino acid residues (up to 76%), suggesting that it is a probable glycine-rich protein (GRP) member. Although GRPs are known to be involved in plant defense against abiotic stress, including salinity and drought, there is no report on their role on Pb tolerance and or detoxification in plants. Further enrichment analysis in the current study reveals that the hypothetical proteins do not interact with known proteins and are not part of any enriched pathway. However, additional research is needed to functionally validate the role of the identified proteins in Pb detoxification mechanism.
Collapse
Affiliation(s)
- Kamal Usman
- Agricultural Research Station (ARS), Office of VP for Research & Graduate Studies, Doha, Qatar
| | | | - Mohammad A. Al-Ghouti
- Environmental Science Program, Department of Biological and Environmental Sciences, College of Arts and Science, Qatar University, Doha, Qatar
| | - Nabil Zouari
- Environmental Science Program, Department of Biological and Environmental Sciences, College of Arts and Science, Qatar University, Doha, Qatar
| | - Mohammed H. Abu-Dieyeh
- Biological Science Program, Department of Biological and Environmental Sciences, College of Arts and Science, Qatar University, Doha, Qatar
| |
Collapse
|
8
|
Proteomic Changes in Paspalum fasciculatum Leaves Exposed to Cd Stress. PLANTS 2022; 11:plants11192455. [PMID: 36235321 PMCID: PMC9573290 DOI: 10.3390/plants11192455] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/11/2022] [Revised: 09/03/2022] [Accepted: 09/05/2022] [Indexed: 11/17/2022]
Abstract
(1) Background: Cadmium is a toxic heavy metal that is widely distributed in water, soil, and air. It is present in agrochemicals, wastewater, battery waste, and volcanic eruptions. Thus, it can be absorbed by plants and enter the trophic chain. P. fasciculatum is a plant with phytoremediation capacity that can tolerate Cd stress, but changes in its proteome related to this tolerance have not yet been identified. (2) Methods: We conducted a quantitative analysis of the proteins present in P. fasciculatum leaves cultivated under greenhouse conditions in mining soils doped with 0 mg kg−1 (control), 30 mg kg−1, or 50 mg kg−1. This was carried out using the label-free shotgun proteomics technique. In this way, we determined the changes in the proteomes of the leaves of these plants, which allowed us to propose some tolerance mechanisms involved in the response to Cd stress. (3) Results: In total, 329 variable proteins were identified between treatments, which were classified into those associated with carbohydrate and energy metabolism; photosynthesis; structure, transport, and metabolism of proteins; antioxidant stress and defense; RNA and DNA processing; and signal transduction. (4) Conclusions: Based on changes in the differences in the leaf protein profiles between treatments, we hypothesize that some proteins associated with signal transduction (Ras-related protein RABA1e), HSPs (heat shock cognate 70 kDa protein 2), growth (actin-7), and cellular development (actin-1) are part of the tolerance response to Cd stress.
Collapse
|
9
|
Munsif F, Kong X, Khan A, Shah T, Arif M, Jahangir M, Akhtar K, Tang D, Zheng J, Liao X, Faisal S, Ali I, Iqbal A, Ahmad P, Zhou R. Identification of differentially expressed genes and pathways in isonuclear kenaf genotypes under salt stress. PHYSIOLOGIA PLANTARUM 2021; 173:1295-1308. [PMID: 33135207 DOI: 10.1111/ppl.13253] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2020] [Revised: 05/27/2020] [Accepted: 10/21/2020] [Indexed: 06/11/2023]
Abstract
Salinity is a potential abiotic stress and globally threatens crop productivity. However, the molecular mechanisms underlying salt stress tolerance with respect to cytoplasmic effect, gene expression, and metabolism pathway under salt stress have not yet been reported in isonuclear kenaf genotypes. To fill this knowledge gap, growth, physiological, biochemical, transcriptome, and cytoplasm changes in kenaf cytoplasmic male sterile (CMS) line (P3A) and its iso-nuclear maintainer line (P3B) under 200 mM sodium chloride (NaCl) stress and control conditions were analyzed. Salt stress significantly reduced leaf soluble protein, soluble sugars, proline, chlorophyll content, antioxidant enzymatic activity, and induced oxidative damage in terms of higher MDA contents in both genotypes. The reduction of these parameters resulted in a reduced plant growth compared with control. However, P3A was relatively more tolerant to salt stress than P3B. This tolerance of P3A was further confirmed by improved physio-biochemical traits under salt stress conditions. Transcriptome analysis showed that 4256 differentially expressed genes (DEGs) between the two genotypes under salt stress were identified. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis indicated that photosynthesis, photosynthesis antenna-protein, and plant hormone signal transduction pathways might be associated with the improved NaCl stress tolerance in P3A. Conclusively, P3A cytoplasmic male sterile could be a potential salt-tolerant material for future breeding program of kenaf and can be used for phytoremediation of salt-affected soils. These data provide a valuable resource on the cytoplasmic effect of salt-responsive genes in kenaf and salt stress tolerance in kenaf.
Collapse
Affiliation(s)
- Fazal Munsif
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
- Department of Agronomy, Faculty of Crop Production Sciences, The University of Agriculture, Peshawar, 25000, Pakistan
| | - Xiangjun Kong
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Aziz Khan
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Tariq Shah
- Department of Agronomy, Faculty of Crop Production Sciences, The University of Agriculture, Peshawar, 25000, Pakistan
| | - Muhammad Arif
- Department of Agronomy, Faculty of Crop Production Sciences, The University of Agriculture, Peshawar, 25000, Pakistan
| | - Muhammad Jahangir
- Department of Horticulture, The University of Agriculture Peshawar, Peshawar, 25000, Pakistan
| | - Kashif Akhtar
- Institute of Nuclear Agricultural Sciences, Key Laboratory of Nuclear Agricultural Sciences of Ministry of Agriculture and Zhejiang Province, Zhejiang University, Hangzhou, 310058, China
| | - Danfeng Tang
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Jie Zheng
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Xiaofang Liao
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Shah Faisal
- College of Agronomy Northwest Agriculture and Forestry University, Yangling, 71200, China
| | - Izhar Ali
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Anas Iqbal
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| | - Parvaiz Ahmad
- Botany and Microbiology Department, College of Science, King Saudi University, Riyadh, 11362, Saudi Arabia
- Department of Botany, S.P. College, Jammu and Kashmir, 190006, India
| | - Ruiyang Zhou
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, 530005, China
| |
Collapse
|
10
|
Wang T, Amee M, Wang G, Xie Y, Hu T, Xu H. FaHSP17.8-CII orchestrates lead tolerance and accumulation in shoots via enhancing antioxidant enzymatic response and PSII activity in tall fescue. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 223:112568. [PMID: 34332250 DOI: 10.1016/j.ecoenv.2021.112568] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2021] [Revised: 06/07/2021] [Accepted: 07/25/2021] [Indexed: 06/13/2023]
Abstract
Tall fescue (Festuca arundinacea Schreb.) shows huge potential for lead (Pb) phytoremediation, while little is known on the molecular mechanisms involved in Pb tolerance and accumulation. Here, genetic engineering strategy was firstly used to investigate Pb tolerance and accumulation in tall fescue. The transgenic tall fescue overexpressing a class II (CII) sHSP gene FaHSP17.8-CII was generated. After exposure to 1000 mg/L Pb(NO3)2, two FaHSP17.8-CII overexpressing lines, OE#3 and OE#7, showed higher tolerance to Pb as illustrated by the reduced levels of electrolyte leakage (EL) and malondialdehyde (MDA) as compared to the wild-type (WT) plants under Pb stress. Moreover, the FaHSP17.8-CII overexpression lines, OE#3 and OE#7, exhibited 36.3% and 46.6% higher shoot Pb accumulation relative to the WT grasses. When the grasses were exposed to Pb stress, the two OE lines had higher CAT, POD and SOD activities as compared to WT. Additionally, overexpression of FaHSP17.8-CII improved the synthesis of chlorophyll and transcript abundance of FapsbC, FapsbD and FapsbE, and alleviated the photoinhibition of PSII in tall fescue under Pb stress. This study provides an initial genetic engineering strategy to improve Pb phytoremediation efficiency in tall fescue by FaHSP17.8-CII overexpression.
Collapse
Affiliation(s)
- Tao Wang
- College of Agriculture, Henan University of Science and Technology, Luoyang, China
| | - Maurice Amee
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430074, China; Center of Economic Botany, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan 430074, China
| | - Guangyang Wang
- School of Resources and Environmental Engineering, Ludong University, Yantai, China
| | - Yan Xie
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430074, China; Center of Economic Botany, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan 430074, China
| | - Tao Hu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430074, China; Center of Economic Botany, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan 430074, China.
| | - Huawei Xu
- College of Agriculture, Henan University of Science and Technology, Luoyang, China.
| |
Collapse
|
11
|
Xu X, Chen Q, Mo S, Qian Y, Wu X, Jin Y, Ding H. Transcriptome -wide modulation combined with morpho-physiological analyses of Typha orientalis roots in response to lead challenge. JOURNAL OF HAZARDOUS MATERIALS 2020; 384:121405. [PMID: 31629596 DOI: 10.1016/j.jhazmat.2019.121405] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2019] [Revised: 10/04/2019] [Accepted: 10/05/2019] [Indexed: 06/10/2023]
Abstract
Lead (Pb) is a common pollutant in many environments, including in the soil, water, and/or air. Typha orientalis Presl, a large emergent aquatic plant, has been reported to function as a Pb-tolerant and Pb-accumulating plant; however, very little molecular information regarding the tolerance of T. orientalis towards Pb is known. In this study, Pb accumulation and key factors involved in the Pb stress response at different Pb concentrations were investigated. Pb was primarily accumulated in the roots and was mainly located in the cell wall and membrane systems. Differentially expressed genes (DEGs) were identified in T. orientalis roots after Pb exposure via RNA-seq analyses. In the 0.10 mM and 0.25 mM Pb2+-treated groups, a total of 3275 DEGs were detected relative to the control. Many of these genes were associated with oxidation-reduction processes, metal transport, protein kinase/phosphorylation, and DNA binding transcription factors, which were shown to be Pb-responsive DEGs. Mapping Kyoto Encyclopedia of Genes and Genomes (KEGG) database, "phenylpropanoid biosynthesis" was analyzed as the major pathway of the important modules of overlapping DEGs of 0.10 mM and 0.25 mM Pb2+ treatments. Furthermore, a lead response gene named ToLR1 with unknown function was of particular interest. The full-length of ToLR1 sequence was cloned using rapid amplification of cDNA ends (RACE) and overexpressed in Arabidopsis thaliana, which resulted in enhanced resistance to Pb stress. This is the first report providing genomic information detailing Pb responsive genes in T. orientalis. Moreover, this study provides novel insights into the molecular mechanisms underlying the response of T. orientalis and other accumulators towards Pb stress. The key genes identified in this study may serve as potential targets for genetic engineering targeting phytoremediation.
Collapse
Affiliation(s)
- Xiaoying Xu
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China; Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education, Yangzhou University, Yangzhou, 225009, China
| | - Qi Chen
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China
| | - Shuangrong Mo
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China
| | - Ying Qian
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China
| | - Xiaoxia Wu
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China; Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education, Yangzhou University, Yangzhou, 225009, China
| | - Yingen Jin
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China; Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education, Yangzhou University, Yangzhou, 225009, China
| | - Haidong Ding
- Key Laboratory of Crop Genetics and Physiology of Jiangsu Province/Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Bioscience and Biotechnology, Yangzhou University, Yangzhou 225009, China; Co-Innovation Center for Modern Production Technology of Grain Crops of Jiangsu Province/Joint International Research Laboratory of Agriculture and Agri-Product Safety of the Ministry of Education, Yangzhou University, Yangzhou, 225009, China.
| |
Collapse
|
12
|
Wang L, Zheng B, Yuan Y, Xu Q, Chen P. Transcriptome profiling of Fagopyrum tataricum leaves in response to lead stress. BMC PLANT BIOLOGY 2020; 20:54. [PMID: 32013882 PMCID: PMC6998078 DOI: 10.1186/s12870-020-2265-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Accepted: 01/23/2020] [Indexed: 05/22/2023]
Abstract
BACKGROUND Lead (Pb) pollution is a widespread environmental problem that is harmful to living organisms. Tartary buckwheat (Fagopyrum tataricum), a member of the family Polygonaceae, exhibits short growth cycles and abundant biomass production, could be an ideal plant for phytoremediation due to its high Pb tolerance. Here, we aimed to explore the molecular basis underlying the responses of this plant to Pb stress. RESULTS In our study, ultrastructural localization assays revealed that Pb ions primarily accumulate in leaf vacuoles. RNA deep sequencing (RNA-Seq) of tartary buckwheat leaves was performed on two Pb-treated samples, named Pb1 (2000 mg/kg Pb (NO3)2) and Pb2 (10,000 mg/kg Pb (NO3)2), and a control (CK). A total of 88,977 assembled unigenes with 125,203,555 bases were obtained. In total, 2400 up-regulated and 3413 down-regulated differentially expressed genes (DEGs) were identified between CK and Pb1, and 2948 up-regulated DEGs and 3834 down-regulated DEGs were generated between CK and Pb2, respectively. Gene Ontology (GO) and pathway enrichment analyses showed that these DEGs were primarily associated with 'cell wall', 'binding', 'transport', and 'lipid and energy' metabolism. The results of quantitative real-time PCR (qRT-PCR) analyses of 15 randomly selected candidate DEGs and 6 regulated genes were consistent with the results of the transcriptome analysis. Heterologous expression assays in the yeast strain Δycf1 indicated that overexpressing CCCH-type zinc finger protein 14 (ZFP14) enhanced sensitivity to Pb2+, while 5 other genes, namely, metal transporter protein C2 (MTPC2), phytochelatin synthetase-like family protein (PCSL), vacuolar cation/proton exchanger 1a (VCE1a), natural resistance-associated macrophage protein 3 (Nramp3), and phytochelatin synthetase (PCS), enhanced the Pb tolerance of the mutant strain. CONCLUSION Combining our findings with those of previous studies, we generated a schematic model that shows the metabolic processes of tartary buckwheat under Pb stress. This study provides important data for further genomic analyses of the biological and molecular mechanisms of Pb tolerance and accumulation in tartary buckwheat.
Collapse
Affiliation(s)
- Lei Wang
- Department of Biochemistry & Molecular Biology, College of Life Sciences, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Bei Zheng
- Department of Biochemistry & Molecular Biology, College of Life Sciences, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Yong Yuan
- Department of Biochemistry & Molecular Biology, College of Life Sciences, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Quanle Xu
- Department of Biochemistry & Molecular Biology, College of Life Sciences, Northwest A&F University, Yangling, 712100 Shaanxi China
| | - Peng Chen
- Department of Biochemistry & Molecular Biology, College of Life Sciences, Northwest A&F University, Yangling, 712100 Shaanxi China
| |
Collapse
|
13
|
Kumar A, Prasad MNV. Plant-lead interactions: Transport, toxicity, tolerance, and detoxification mechanisms. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 166:401-418. [PMID: 30290327 DOI: 10.1016/j.ecoenv.2018.09.113] [Citation(s) in RCA: 93] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2018] [Revised: 09/18/2018] [Accepted: 09/25/2018] [Indexed: 05/18/2023]
Abstract
Natural and human activities introduced an excess level of toxic lead (Pb) to the environment. Pb has no known biological significance and its interactions with plants lead to the production of reactive oxygen species (ROS). Pb and/or ROS have the potential to cause phytotoxicity by damaging the tissue ultrastructure, cellular components, and biomolecules. These damaging effects may possibly result in the inhibition of normal cellular functioning, physiological reactions, and overall plant performances. ROS play a dual role and act as a signaling molecule in plant defense system. This system encircles enzymatic and non-enzymatic antioxidative mechanisms. Catalase, superoxide dismutase, peroxidase, and enzymes from the ascorbate-glutathione cycle are the major enzymatic antioxidants, while non-enzymatic antioxidants include phenols, flavonoids, ascorbic acid, and glutathione. Pb removal from contaminated sites using plants depend on the plant's Pb accumulation capacity, Pb-induced phytotoxicity, and tolerance and detoxification mechanisms plants adopted to combat against this phytotoxicity. However, the consolidated information discussing Pb-plant interaction including Pb uptake and its translocation within tissues, Pb-mediated phytotoxic symptoms, antioxidative mechanisms, cellular, and protein metabolisms are rather limited. Thus, we aimed to present a consolidated information and critical discussions focusing on the recent studies related to the Pb-induced toxicity and oxidative stress situations in different plants. The important functions of different antioxidants in plants during Pb stress have been reviewed. Additionally, tolerance responses and detoxification mechanisms in the plant through the regulation of gene expression, and glutathione and protein metabolisms to compete against Pb-induced phytotoxicity are also briefly discussed herein.
Collapse
Affiliation(s)
- Abhay Kumar
- Department of Plant Sciences, University of Hyderabad, Hyderabad, Telangana 500046, India.
| | | |
Collapse
|
14
|
Transcriptomic and physiological analyses of Medicago sativa L. roots in response to lead stress. PLoS One 2017; 12:e0175307. [PMID: 28388670 PMCID: PMC5384761 DOI: 10.1371/journal.pone.0175307] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2017] [Accepted: 03/23/2017] [Indexed: 12/16/2022] Open
Abstract
Lead (Pb) is one of the nonessential and toxic metals that threaten the environment and human health. Medicago sativa L. is a legume with high salt tolerance and high biomass production. It is not only a globally important forage crop but is also an ideal plant for phytoremediation. However, the biological and molecular mechanisms that respond to heavy metals are still not well defined in M. sativa. In this study, de novo and strand-specific RNA-sequencing was performed to identify genes involved in the Pb stress response in M. sativa roots. A total of 415,350 unigenes were obtained from the assembled cDNA libraries, among which 5,416 were identified as significantly differentially expressed genes (DEGs) (false discovery rate < 0.005) between cDNA libraries from control and Pb-treated plants. Gene ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses of the DEGs showed they mainly clustered with terms associated with binding, transport, membranes, and the pathways related to signal and energy metabolism. Moreover, a number of candidate genes included antioxidant enzymes, metal transporters, and transcription factors involved in heavy metal response were upregulated under Pb stress. Quantitative real-time PCR(qRT-PCR) validation of the expression patterns of 10 randomly selected candidate DEGs were consistent with the transcriptome analysis results. Thus, this study offers new information towards the investigation of biological changes and molecular mechanisms related to Pb stress response in plants.
Collapse
|