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Abdullah, Wani KI, Naeem M, Jha PK, Jha UC, Aftab T, Prasad PVV. Systems biology of chromium-plant interaction: insights from omics approaches. FRONTIERS IN PLANT SCIENCE 2024; 14:1305179. [PMID: 38259926 PMCID: PMC10800501 DOI: 10.3389/fpls.2023.1305179] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/30/2023] [Accepted: 12/15/2023] [Indexed: 01/24/2024]
Abstract
Plants are frequently subjected to heavy metal (HM) stress that impedes their growth and productivity. One of the most common harmful trace metals and HM discovered is chromium (Cr). Its contamination continues to increase in the environment due to industrial or anthropogenic activities. Chromium is severely toxic to plant growth and development and acts as a human carcinogen that enters the body by inhaling or taking Cr-contaminated food items. Plants uptake Cr via various transporters, such as sulfate and phosphate transporters. In nature, Cr is found in various valence states, commonly Cr (III) and Cr (VI). Cr (VI) is soil's most hazardous and pervasive form. Cr elevates reactive oxygen species (ROS) activity, impeding various physiological and metabolic pathways. Plants have evolved various complex defense mechanisms to prevent or tolerate the toxic effects of Cr. These defense mechanisms include absorbing and accumulating Cr in cell organelles such as vacuoles, immobilizing them by forming complexes with organic chelates, and extracting them by using a variety of transporters and ion channels regulated by various signaling cascades and transcription factors. Several defense-related proteins including, metallothioneins, phytochelatins, and glutathione-S-transferases aid in the sequestration of Cr. Moreover, several genes and transcriptional factors, such as WRKY and AP2/ERF TF genes, play a crucial role in defense against Cr stress. To counter HM-mediated stress stimuli, OMICS approaches, including genomics, proteomics, transcriptomics, and metallomics, have facilitated our understanding to improve Cr stress tolerance in plants. This review discusses the Cr uptake, translocation, and accumulation in plants. Furthermore, it provides a model to unravel the complexities of the Cr-plant interaction utilizing system biology and integrated OMICS approach.
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Affiliation(s)
- Abdullah
- Department of Botany, Aligarh Muslim University, Aligarh, India
| | | | - M. Naeem
- Department of Botany, Aligarh Muslim University, Aligarh, India
| | - Prakash Kumar Jha
- Department of Plant and Soil Sciences, Mississippi State University, Starkville, MS, United States
| | - Uday Chand Jha
- Indian Institute of Pulses Research (IIPR), Indian Council of Agricultural Research (ICAR), Kanpur, India
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
| | - Tariq Aftab
- Department of Botany, Aligarh Muslim University, Aligarh, India
| | - P. V. Vara Prasad
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
- Department of Agronomy; and Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification, Kansas State University, Manhattan, KS, United States
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Li J, Ge L, Liu P, Huang Z, Tan S, Wu W, Chen T, Xi J, Huang X, Yi K, Chen H. Exploring cadmium stress responses in sisal roots: Insights from biochemical and transcriptome analysis. PLoS One 2023; 18:e0288476. [PMID: 38019757 PMCID: PMC10686430 DOI: 10.1371/journal.pone.0288476] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2022] [Accepted: 06/27/2023] [Indexed: 12/01/2023] Open
Abstract
Sisal is a leaf fiber crop with a high integrated value and a wide range of uses in the application of soil remediation of heavy metal contamination. This study provides a preliminary understanding of how sisal responds to Cd stress and presents a theoretical basis for exploring the potential of sisal in the remediation of Cd-contaminated soils. In this work, the activities of the antioxidant enzymes (SOD, POD, and CAT) of sisal were measured by hydroponics with the addition of CdCl2·2.5H2O and different concentrations of Cd stress. Whole transcriptome sequencing (RNA-Seq) analysis was performed with lllumina sequencing technology, and qRT-PCR was conducted to verify the differential genes. The results obtained were as follows: (1) Short-term low concentration of Cd stress (20 mg/kg) had a transient promotion effect on the growth of sisal roots, but Cd showed a significant inhibitory effect on the growth of sisal roots over time. (2) Under different concentrations of Cd stress, the Cd content in sisal root was greater than that in sisal leaf, and Cd accumulated mainly in sisal roots. (3) With the increase of Cd stress concentration, the antioxidant enzyme catalase activity increased, peroxidase activity showed a decreasing trend, and superoxide dismutase showed a trend of increasing and then decreasing. (4) Transcriptome sequencing analysis detected 123 differentially expressed genes (DEGs), among which 85 genes were up-regulated and 38 genes were down-regulated. The DEGs were mainly concentrated in flavonoid biosynthesis and glutathione metabolism, and both processes had some regulatory effects on the Cd tolerance characteristics of sisal. This study elucidated the physiological, biochemical and transcriptomic responses of sisal under cadmium stress, and provided a theoretical basis for the ecological restoration function of sisal.
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Affiliation(s)
- Jing Li
- National Key Laboratory of Green Pesticide, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for R&D of Fine Chemicals of Guizhou University, Guiyang, China
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Lifang Ge
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Ping Liu
- National Key Laboratory of Green Pesticide, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for R&D of Fine Chemicals of Guizhou University, Guiyang, China
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Zhaoxue Huang
- National Key Laboratory of Green Pesticide, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for R&D of Fine Chemicals of Guizhou University, Guiyang, China
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Shibei Tan
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Weihuai Wu
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Tao Chen
- Guangxi Subtropical Crops Research Institute, Nanning, PR China
| | - Jingen Xi
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Xing Huang
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
| | - Kexian Yi
- National Key Laboratory of Green Pesticide, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for R&D of Fine Chemicals of Guizhou University, Guiyang, China
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
- Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Helong Chen
- National Key Laboratory of Green Pesticide, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for R&D of Fine Chemicals of Guizhou University, Guiyang, China
- Environment and Plant Protection Institute, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, Hainan, PR China
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Ni WJ, Mubeen S, Leng XM, He C, Yang Z. Molecular-Assisted Breeding of Cadmium Pollution-Safe Cultivars. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023. [PMID: 37923701 DOI: 10.1021/acs.jafc.3c04967] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2023]
Abstract
Cadmium (Cd) contamination in edible agricultural products, especially in crops intended for consumption, has raised worldwide concerns regarding food safety. Breeding of Cd pollution-safe cultivars (Cd-PSCs) is an effective solution to preventing the entry of Cd into the food chain from contaminated agricultural soil. Molecular-assisted breeding methods, based on molecular mechanisms for cultivar-dependent Cd accumulation and bioinformatic tools, have been developed to accelerate and facilitate the breeding of Cd-PSCs. This review summarizes the recent progress in the research of the low Cd accumulation traits of Cd-PSCs in different crops. Furthermore, the application of molecular-assisted breeding methods, including transgenic approaches, genome editing, marker-assisted selection, whole genome-wide association analysis, and transcriptome, has been highlighted to outline the breeding of Cd-PSCs by identifying critical genes and molecular biomarkers. This review provides a comprehensive overview of the development of Cd-PSCs and the potential future for breeding Cd-PSC using modern molecular technologies.
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Affiliation(s)
- Wen-Juan Ni
- School of Life Science, Sun Yat-sen University, Guangzhou 510275, China
- School of Basic Medicine, Gannan Medical University, Ganzhou 341000, China
| | - Samavia Mubeen
- School of Life Science, Sun Yat-sen University, Guangzhou 510275, China
| | - Xiao-Min Leng
- School of Basic Medicine, Gannan Medical University, Ganzhou 341000, China
| | - Chuntao He
- School of Life Science, Sun Yat-sen University, Guangzhou 510275, China
- School of Agriculture, Sun Yat-sen University, Guangzhou 510275, China
| | - Zhongyi Yang
- School of Life Science, Sun Yat-sen University, Guangzhou 510275, China
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Dong Q, Wu Y, Li B, Chen X, Peng L, Sahito ZA, Li H, Chen Y, Tao Q, Xu Q, Huang R, Luo Y, Tang X, Li Q, Wang C. Multiple insights into lignin-mediated cadmium detoxification in rice (Oryza sativa). JOURNAL OF HAZARDOUS MATERIALS 2023; 458:131931. [PMID: 37379605 DOI: 10.1016/j.jhazmat.2023.131931] [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: 04/13/2023] [Revised: 06/06/2023] [Accepted: 06/23/2023] [Indexed: 06/30/2023]
Abstract
Cadmium (Cd) is readily absorbed by rice and enters the food chain, posing a health risk to humans. A better understanding of the mechanisms of Cd-induced responses in rice will help in developing solutions to reduce Cd uptake in rice. Therefore, this research attempted to reveal the detoxification mechanisms of rice in response to Cd through physiological, transcriptomic and molecular approaches. The results showed that Cd stress restricted rice growth, led to Cd accumulation and H2O2 production, and resulted cell death. Transcriptomic sequencing revealed glutathione and phenylpropanoid were the major metabolic pathways under Cd stress. Physiological studies showed that antioxidant enzyme activities, glutathione and lignin contents were significantly increased under Cd stress. In response to Cd stress, q-PCR results showed that genes related to lignin and glutathione biosynthesis were upregulated, whereas metal transporter genes were downregulated. Further pot experiment with rice cultivars with increased and decreased lignin content confirmed the causal relationship between increased lignin and reduced Cd in rice. This study provides a comprehensive understanding of lignin-mediated detoxification mechanism in rice under Cd stress and explains the function of lignin in production of low-Cd rice to ensure human health and food safety.
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Affiliation(s)
- Qin Dong
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Yingjie Wu
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China.
| | - Bing Li
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Xi Chen
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Lu Peng
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Zulfiqar Ali Sahito
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Huanxiu Li
- College of Horticulture, Sichuan Agricultural University, Chengdu 611130, China
| | - Yulan Chen
- Sichuan tobacco company, Liangshanzhou company, Xichang 615000, China
| | - Qi Tao
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Qiang Xu
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Rong Huang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Youlin Luo
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Xiaoyan Tang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Qiquan Li
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Changquan Wang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China.
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Li X, Liu L, Sun S, Li Y, Jia L, Ye S, Yu Y, Dossa K, Luan Y. Physiological and transcriptional mechanisms associated with cadmium stress tolerance in Hibiscus syriacus L. BMC PLANT BIOLOGY 2023; 23:286. [PMID: 37248551 PMCID: PMC10226262 DOI: 10.1186/s12870-023-04268-x] [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: 10/29/2022] [Accepted: 05/06/2023] [Indexed: 05/31/2023]
Abstract
BACKGROUND Cadmium (Cd) pollution of soils is a global concern because its accumulation in plants generates severe growth retardation and health problems. Hibiscus syriacus is an ornamental plant that can tolerate various abiotic stresses, including Cd stress. Therefore, it is proposed as a plant material in Cd-polluted areas. However, the molecular mechanisms of H. syriacus tolerance to Cd are not yet understood. RESULTS This study investigated the physiological and transcriptional response of "Hongxing", a Cd2+-tolerant H. syriacus variety, grown on a substrate containing higher concentration of Cd (400 mg/kg). The Cd treatment induced only 28% of plant mortality, but a significant decrease in the chlorophyll content was observed. Malondialdehyde content and activity of the antioxidant enzymes catalase, peroxidase, and superoxide dismutase were significantly increased under Cd stress. Transcriptome analysis identified 29,921 differentially expressed genes (DEGs), including 16,729 down-regulated and 13,192 up-regulated genes, under Cd stress. Functional enrichment analyses assigned the DEGs mainly to plant hormone signal transduction, transport, nucleosome and DNA processes, mitogen-activated protein kinase signaling pathway, antioxidant process, fatty acid metabolism, and biosynthesis of secondary metabolites. Many MYB, EP2/ERF, NAC, WRKY family genes, and genes containing metal binding domains were up-regulated, implying that they are essential for the Cd-stress response in H. syriacus. The most induced genes were filtered out, providing valuable resources for future studies. CONCLUSIONS Our findings provide insights into the molecular responses to Cd stress in H. syriacus. Moreover, this study offers comprehensive and important resources for future studies toward improving the plant Cd tolerance and its valorization in phytoremediation.
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Affiliation(s)
- Xiang Li
- The First Affiliated Hospital of Yunnan University of Traditional Chinese Medicine, Kunming, 650021, China
| | - Lanlan Liu
- Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, 650224, China
| | - Shixian Sun
- Yunnan Key Laboratory of Plateau Wetland Conservation, Restoration and Ecological Services, Southwest Forestry University, Kunming, 650224, China
| | - Yanmei Li
- Department of Life Technology Teaching and Research, School of Life Science, Southwest Forestry University, Kunming, 650224, China
| | - Lu Jia
- Department of Life Technology Teaching and Research, School of Life Science, Southwest Forestry University, Kunming, 650224, China
| | - Shili Ye
- Faculty of Mathematics and Physics, Southwest Forestry University, Kunming, 650224, China
| | - Yanxuan Yu
- Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, 650224, China
| | - Komivi Dossa
- CIRAD, UMR AGAP Institut, 34398, Montpellier, France
| | - Yunpeng Luan
- The First Affiliated Hospital of Yunnan University of Traditional Chinese Medicine, Kunming, 650021, China.
- Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming, 650224, China.
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Cui L, Chen Y, Liu J, Zhang Q, Xu L, Yang Z. Spraying Zinc Sulfate to Reveal the Mechanism through the Glutathione Metabolic Pathway Regulates the Cadmium Tolerance of Seashore Paspalum ( Paspalum vaginatum Swartz). PLANTS (BASEL, SWITZERLAND) 2023; 12:1982. [PMID: 37653899 PMCID: PMC10221796 DOI: 10.3390/plants12101982] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Revised: 04/30/2023] [Accepted: 05/09/2023] [Indexed: 09/02/2023]
Abstract
Cadmium (Cd) is considered to be one of the most toxic metals, causing serious harm to plants' growth and humans' health. Therefore, it is necessary to study simple, practical, and environmentally friendly methods to reduce its toxicity. Until now, people have applied zinc sulfate to improve the Cd tolerance of plants. However, related studies have mainly focused on physiological and biochemical aspects, with a lack of in-depth molecular mechanism research. In this study, we sprayed high (40 mM) and low (2.5 mM) concentrations of zinc sulfate on seashore paspalum (Paspalum vaginatum Swartz) plants under 0.5 mM Cd stress. Transcriptome sequencing and physiological indicators were used to reveal the mechanism of Cd tolerance. Compared with the control treatment, we found that zinc sulfate decreased the content of Cd2+ by 57.03-73.39%, and that the transfer coefficient of Cd decreased by 58.91-75.25% in different parts of plants. In addition, our results indicate that the antioxidant capacity of plants was improved, with marked increases in the glutathione content and the activity levels of glutathione reductase (GR), glutathione S-transferase (GST), and other enzymes. Transcriptome sequencing showed that the differentially expressed genes in both the 0.5 Zn and 40 Zn treatments were mainly genes encoding GST. This study suggests that genes encoding GST in the glutathione pathway may play an important role in regulating the Cd tolerance of seashore paspalum. Furthermore, the present study provides a theoretical reference for the regulation mechanism caused by zinc sulfate spraying to improve plants' Cd tolerance.
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Affiliation(s)
- Liwen Cui
- College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
| | | | | | | | | | - Zhimin Yang
- College of Agro-Grassland Science, Nanjing Agricultural University, Nanjing 210095, China
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Ghouri F, Shahid MJ, Liu J, Lai M, Sun L, Wu J, Liu X, Ali S, Shahid MQ. Polyploidy and zinc oxide nanoparticles alleviated Cd toxicity in rice by modulating oxidative stress and expression levels of sucrose and metal-transporter genes. JOURNAL OF HAZARDOUS MATERIALS 2023; 448:130991. [PMID: 36860085 DOI: 10.1016/j.jhazmat.2023.130991] [Citation(s) in RCA: 35] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 02/04/2023] [Accepted: 02/09/2023] [Indexed: 06/18/2023]
Abstract
The Cd toxicity causes severe perturbations to the plant's growth and development. Here, polyploid and diploid rice lines were treated with zinc-oxide nanoparticles (ZnO-NPs) and Cd, and physiological, cytological and molecular changes were observed. The Cd toxicity significantly reduced plant's growth attributes (such as shoot length, biological yield, dry matter, and chlorophyll contents, which decreased by 19%, 18%, 16%, 19% in polyploid and 35%, 43%, 45% and 43% in diploid rice, respectively), and disturbed the sugar level through the production of electrolytes, hydrogen peroxide, and malondialdehyde. The application of ZnO-NPs significantly alleviated the Cd toxicity in both lines by improving the antioxidant enzymes activities and physiochemical attributes. Semi-thin sections and transmission electron microscope revealed more and different types of abnormalities in diploid rice compared to polyploid rice under Cd stress. Moreover, RNA-seq analysis identified several differentially expressed genes between polyploid and diploid rice, especially metal and sucrose transporter genes. The GO, COG, and KEGG analyses revealed ploidy-specific pathways associated with plant growth and development. In conclusion, ZnO-NPs application to both rice lines significantly improved plant growth and decreased Cd accumulation in plants. We inferred that polyploid rice is more resistant to Cd stress than diploid rice.
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Affiliation(s)
- Fozia Ghouri
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Munazzam Jawad Shahid
- Department of Environmental Sciences, Government College University, Faisalabad 38000, Pakistan
| | - Jingwen Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Mingyu Lai
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Lixia Sun
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Jinwen Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China
| | - Xiangdong Liu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China.
| | - Shafaqat Ali
- Department of Environmental Sciences, Government College University, Faisalabad 38000, Pakistan; Department of Biological Sciences and Technology, China Medical University, Taichung 40402, Taiwan.
| | - Muhammad Qasim Shahid
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China; College of Agriculture, South China Agricultural University, Guangzhou 510642, China.
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Zaid IU, Faheem M, Zia MA, Abbas Z, Noor S, Ali GM, Haider Z. Temporal Comparative Transcriptome Analysis on Wheat Response to Acute Cd Toxicity at the Seedling Stage. PLANTS (BASEL, SWITZERLAND) 2023; 12:642. [PMID: 36771731 PMCID: PMC9921683 DOI: 10.3390/plants12030642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Revised: 01/05/2023] [Accepted: 01/14/2023] [Indexed: 06/18/2023]
Abstract
Cadmium (Cd) is a non-essential and toxic metal that accumulates in plant's tissues and diminishes plant growth and productivity. In the present study, differential root transcriptomic analysis was carried out to identify Cd stress-responsive gene networks and functional annotation under Cd stress in wheat seedlings. For this purpose, the Yannong 0428 wheat cultivar was incubated with 40 µm/L of CdCl2·2.5H2O for 6 h at three different seedling growth days. After the quality screening, using the Illumina Hiseq 2000 platform, more than 2482 million clean reads were retrieved. Following this, 84.8% to 89.3% of the clean reads at three time points under normal conditions and 86.5% to 89.1% of the reads from the Cd stress condition were mapped onto the wheat reference genome. In contrast, at three separate seedling growth days, the data analysis revealed a total of 6221 differentially expressed genes (DEGs), including 1543 (24.8%) up-regulated genes and 4678 (75.8%) down-regulated genes. In total, 120 DEGs were co-expressed throughout all the growth days, whereas 1096, 1088, and 2265 DEGs were found to be selectively up-/down-regulated at 7d, 14d, and 30d, respectively. However, the clustering of DEGs, through utilizing the Kyoto Encyclopedia of Genes and Genomes (KEGG), revealed that the DEGs in the metabolic category were frequently annotated for phenylpropanoid biosynthesis. In comparison, a considerable number of DEGs were linked to protein processing in the endoplasmic reticulum under the process of genetic information processing. Similarly, in categories in organismal systems and cellular processes, DEGs were found in plant hormone signal transduction pathways, and DEGs were identified in the plant-pathogen interaction pathway, respectively. However, DEGs in "endocytosis pathways" were enriched in environmental information processing. In addition, in-depth annotations of roughly specific heavy metal stress-response genes and pathways were also mined, and the expression patterns of eight DEGs were studied using quantitative real-time PCR. The results were congruent with the findings of RNA sequencing regarding transcript abundance in the studied wheat cultivar.
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Affiliation(s)
- Imdad Ullah Zaid
- National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Centre, Islamabad 45500, Pakistan
| | | | - Muhammad Amir Zia
- National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Centre, Islamabad 45500, Pakistan
| | - Zaheer Abbas
- National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Centre, Islamabad 45500, Pakistan
| | - Sabahat Noor
- National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Centre, Islamabad 45500, Pakistan
| | - Ghulam Muhammad Ali
- National Institute for Genomics and Advanced Biotechnology (NIGAB), National Agricultural Research Centre, Islamabad 45500, Pakistan
| | - Zeeshan Haider
- Hebei Key Laboratory of Soil Ecology, Centre for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
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9
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Anani OA, Abel I, Olomukoro JO, Onyeachu IB. Insights to proteomics and metabolomics metal chelation in food crops. JOURNAL OF PROTEINS AND PROTEOMICS 2022; 13:159-173. [PMID: 35754947 PMCID: PMC9208750 DOI: 10.1007/s42485-022-00090-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 05/02/2022] [Accepted: 05/30/2022] [Indexed: 11/24/2022]
Affiliation(s)
- Osikemekha Anthony Anani
- Laboratory for Ecotoxicology and Forensic Biology, Department of Biological Science, Faculty of Science, Edo State University, Uzairue, Edo State Nigeria
| | - Inobeme Abel
- Department of Chemistry, Faculty of Science, Edo State University, Uzairue, Auchi, Edo State Nigeria
| | - John Ovie Olomukoro
- Department of Animal and Environmental Biology, University of Benin, Benin City, Edo State Nigeria
| | - Ikenna Benedict Onyeachu
- Department of Chemistry, Faculty of Science, Edo State University, Uzairue, Auchi, Edo State Nigeria
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Fu Y, Zhatova H, Li Y, Liu Q, Trotsenko V, Li C. Physiological and Transcriptomic Comparison of Two Sunflower ( Helianthus annuus L.) Cultivars With High/Low Cadmium Accumulation. FRONTIERS IN PLANT SCIENCE 2022; 13:854386. [PMID: 35615138 PMCID: PMC9125308 DOI: 10.3389/fpls.2022.854386] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/13/2022] [Accepted: 03/15/2022] [Indexed: 06/15/2023]
Abstract
The toxic heavy metal cadmium (Cd) is easily absorbed and accumulated in crops and affects human health through the food chains. Sunflower (Helianthus annuus L.) is a globally important oil crop. In this study, two sunflower cultivars 62\3 (high Cd) and JB231AC (low Cd), were chosen to compare physiological and transcriptomic responses at different Cd concentrations (0, 25, 50, and 100 μM). The results showed that JB231AC had better Cd tolerance than 62\3. The contents of H2O2 and MDA (malondialdehyde) in 62\3 were lower than that in JB231AC under Cd stress, but the activities of SOD (superoxide dismutase) and POD (peroxidase) in JB231AC were higher than in 62\3, which indicated that JB231AC had a strong ability to remove reactive oxygen species (ROS)-induced toxic substances. Many deferentially expressed ABC (ATP-binding cassette) and ZIP (Zn-regulated transporter, Iron-regulated transporter-like protein) genes indicated that the two gene families might play important roles in different levels of Cd accumulation in the two cultivars. One up-regulated NRAMP (Natural resistance-associated macrophage protein) gene was identified and had a higher expression level in 62\3. These results provide valuable information to further understand the mechanism of Cd accumulation and provide insights into breeding new low Cd sunflower cultivars.
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Affiliation(s)
- Yuanzhi Fu
- School of Life Science and Technology, Henan Institute of Science and Technology, Xinxiang, China
- Faculty of Agrotechnologies and Natural Resource Management, Sumy National Agrarian University, Sumy, Ukraine
| | - Halyna Zhatova
- Faculty of Agrotechnologies and Natural Resource Management, Sumy National Agrarian University, Sumy, Ukraine
| | - Yuqing Li
- School of Life Science and Technology, Henan Institute of Science and Technology, Xinxiang, China
| | - Qiao Liu
- School of Life Science and Technology, Henan Institute of Science and Technology, Xinxiang, China
| | - Volodymyr Trotsenko
- Faculty of Agrotechnologies and Natural Resource Management, Sumy National Agrarian University, Sumy, Ukraine
| | - Chengqi Li
- Life Science College, Yuncheng University, Yuncheng, China
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11
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Quadros IPS, Madeira NN, Loriato VAP, Saia TFF, Silva JC, Soares FAF, Carvalho JR, Reis PAB, Fontes EPB, Clarindo WR, Fontes RLF. Cadmium-mediated toxicity in plant cells is associated with the DCD/NRP-mediated cell death response. PLANT, CELL & ENVIRONMENT 2022; 45:556-571. [PMID: 34719793 DOI: 10.1111/pce.14218] [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] [Received: 11/23/2020] [Revised: 09/08/2021] [Accepted: 09/16/2021] [Indexed: 05/13/2023]
Abstract
Cadmium (Cd2+ ) is highly harmful to plant growth. Although Cd2+ induces programmed cell death (PCD) in plant cells, Cd2+ stress in whole plants during later developmental stages and the mechanism underlying Cd2+ -mediated toxicity are poorly understood. Here, we showed that Cd2+ limits plant growth, causes intense redness in leaf vein, leaf yellowing, and chlorosis during the R1 reproductive stage of soybean (Glycine max). These symptoms were associated with Cd2+ -induced PCD, as Cd2+ -stressed soybean leaves displayed decreased number of nuclei, enhanced cell death, DNA damage, and caspase 1 activity compared to unstressed leaves. Accordingly, Cd2+ -induced NRPs, GmNAC81, GmNAC30 and VPE, the DCD/NRP-mediated cell death signalling components, which execute PCD via caspase 1-like VPE activity. Furthermore, overexpression of the positive regulator of this cell death signalling GmNAC81 enhanced sensitivity to Cd2+ stress and intensified the hallmarks of Cd2+ -mediated PCD. GmNAC81 overexpression enhanced Cd2+ -induced H2 O2 production, cell death, DNA damage, and caspase-1-like VPE expression. Conversely, BiP overexpression negatively regulated the NRPs/GmNACs/VPE signalling module, conferred tolerance to Cd2+ stress and reduced Cd2+ -mediated cell death. Collectively, our data indicate that Cd2+ induces PCD in plants via activation of the NRP/GmNAC/VPE regulatory circuit that links developmentally and stress-induced cell death.
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Affiliation(s)
- Iana Pedro Silva Quadros
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
| | | | - Virgílio Adriano Pereira Loriato
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Biochemistry and Molecular Biology Department/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Thaina Fernanda Fillietaz Saia
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Jéssica Coutinho Silva
- Cytogenetics and Cytometry Laboratory, Department of General Biology, Universidade Federal de Viçosa, Viçosa, Brazil
| | | | | | - Pedro Augusto Braga Reis
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Biochemistry and Molecular Biology Department/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Elizabeth P B Fontes
- National Institute of Science and Technology in Plant-Pest Interactions, Bioagro, Universidade Federal de Viçosa, Viçosa, Brazil
- Biochemistry and Molecular Biology Department/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Brazil
| | - Wellington Ronildo Clarindo
- Cytogenetics and Cytometry Laboratory, Department of General Biology, Universidade Federal de Viçosa, Viçosa, Brazil
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Feki K, Tounsi S, Mrabet M, Mhadhbi H, Brini F. Recent advances in physiological and molecular mechanisms of heavy metal accumulation in plants. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:64967-64986. [PMID: 34599711 DOI: 10.1007/s11356-021-16805-y] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 09/24/2021] [Indexed: 05/27/2023]
Abstract
Among abiotic stress, the toxicity of metals impacts negatively on plants' growth and productivity. This toxicity promotes various perturbations in plants at different levels. To withstand stress, plants involve efficient mechanisms through the implication of various signaling pathways. These pathways enhance the expression of many target genes among them gene coding for metal transporters. Various metal transporters which are localized at the plasma membrane and/or at the tonoplast are crucial in metal stress response. Furthermore, metal detoxification is provided by metal-binding proteins like phytochelatins and metallothioneins. The understanding of the molecular basis of metal toxicities signaling pathways and tolerance mechanisms is crucial for genetic engineering to produce transgenic plants that enhance phytoremediation. This review presents an overview of the recent advances in our understanding of metal stress response. Firstly, we described the effect of metal stress on plants. Then, we highlight the mechanisms involved in metal detoxification and the importance of the regulation in the response to heavy metal stress. Finally, we mentioned the importance of genetic engineering for enhancing the phytoremediation technique. In the end, the response to heavy metal stress is complex and implicates various components. Thus, further studies are needed to better understand the mechanisms involved in response to this abiotic stress.
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Affiliation(s)
- Kaouthar Feki
- Laboratory of Legumes and Sustainable Agrosystem (L2AD), Center of Biotechnology of Borj-Cédria, BP901, 2050, Hammam-Lif, Tunisia
| | - Sana Tounsi
- Biotechnology and Plant Improvement Laboratory, Center of Biotechnology of Sfax (CBS), University of Sfax, B.P "1177", 3018, Sfax, Tunisia
| | - Moncef Mrabet
- Laboratory of Legumes and Sustainable Agrosystem (L2AD), Center of Biotechnology of Borj-Cédria, BP901, 2050, Hammam-Lif, Tunisia
| | - Haythem Mhadhbi
- Laboratory of Legumes and Sustainable Agrosystem (L2AD), Center of Biotechnology of Borj-Cédria, BP901, 2050, Hammam-Lif, Tunisia
| | - Faiçal Brini
- Biotechnology and Plant Improvement Laboratory, Center of Biotechnology of Sfax (CBS), University of Sfax, B.P "1177", 3018, Sfax, Tunisia.
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13
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Identification of NRAMP4 from Arabis paniculata enhance cadmium tolerance in transgenic Arabidopsis. J Genet 2021. [DOI: 10.1007/s12041-021-01339-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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14
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Khan MIR, Chopra P, Chhillar H, Ahanger MA, Hussain SJ, Maheshwari C. Regulatory hubs and strategies for improving heavy metal tolerance in plants: Chemical messengers, omics and genetic engineering. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 164:260-278. [PMID: 34020167 DOI: 10.1016/j.plaphy.2021.05.006] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Accepted: 05/03/2021] [Indexed: 05/28/2023]
Abstract
Heavy metal (HM) accumulation in the agricultural soil and its toxicity is a major threat for plant growth and development. HMs disrupt functional integrity of the plants, induces altered phenological and physiological responses and slashes down qualitative crop yield. Chemical messengers such as phytohormones, plant growth regulators and gasotransmitters play a crucial role in regulating plant growth and development under metal toxicity in plants. Understanding the intricate network of these chemical messengers as well as interactions of genes/metabolites/proteins associated with HM toxicity in plants is necessary for deciphering insights into the regulatory circuit involved in HM tolerance. The present review describes (a) the role of chemical messengers in HM-induced toxicity mitigation, (b) possible crosstalk between phytohormones and other signaling cascades involved in plants HM tolerance and (c) the recent advancements in biotechnological interventions including genetic engineering, genome editing and omics approaches to provide a step ahead in making of improved plant against HM toxicities.
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Affiliation(s)
| | | | | | | | - Sofi Javed Hussain
- Department of Botany, Government Degree College, Kokernag, Jammu & Kashmir, India
| | - Chirag Maheshwari
- Agricultural Energy and Power Division, ICAR-Central Institute of Agricultural Engineering, Bhopal, India
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Kaewcheenchai R, Vejchasarn P, Hanada K, Shirai K, Jantasuriyarat C, Juntawong P. Genome-Wide Association Study of Local Thai Indica Rice Seedlings Exposed to Excessive Iron. PLANTS 2021; 10:plants10040798. [PMID: 33921675 PMCID: PMC8073664 DOI: 10.3390/plants10040798] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Revised: 04/11/2021] [Accepted: 04/15/2021] [Indexed: 11/16/2022]
Abstract
Excess soluble iron in acidic soil is an unfavorable environment that can reduce rice production. To better understand the tolerance mechanism and identify genetic loci associated with iron toxicity (FT) tolerance in a highly diverse indica Thai rice population, a genome-wide association study (GWAS) was performed using genotyping by sequencing and six phenotypic data (leaf bronzing score (LBS), chlorophyll content, shoot height, root length, shoot biomass, and root dry weight) under both normal and FT conditions. LBS showed a high negative correlation with the ratio of chlorophyll content and shoot biomass, indicating the FT-tolerant accessions can regulate cellular homeostasis when encountering stress. Sixteen significant single nucleotide polymorphisms (SNPs) were identified by association mapping. Validation of candidate SNP using other FT-tolerant accessions revealed that SNP:2_21262165 might be associated with tolerance to FT; therefore, it could be used for SNP marker development. Among the candidate genes controlling FT tolerance, RAR1 encodes an innate immune responsive protein that links to cellular redox homeostasis via interacting with abiotic stress-responsive Hsp90. Future research may apply the knowledge obtained from this study in the molecular breeding program to develop FT-tolerant rice varieties.
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Affiliation(s)
- Reunreudee Kaewcheenchai
- Department of Genetics, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand; (R.K.); (C.J.)
- Rice Department, Chatuchak Bangkok, 10900, Thailand;
| | | | - Kousuke Hanada
- Department of Bioscience and Bioinformatics, Faculty of Computer Science and Systems Engineering, Kyushu Institute of Technology, Fukuoka 820-8502, Japan; (K.H.); (K.S.)
| | - Kazumasa Shirai
- Department of Bioscience and Bioinformatics, Faculty of Computer Science and Systems Engineering, Kyushu Institute of Technology, Fukuoka 820-8502, Japan; (K.H.); (K.S.)
| | - Chatchawan Jantasuriyarat
- Department of Genetics, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand; (R.K.); (C.J.)
- Omics Center for Agriculture, Bioresources, Food and Health, Kasetsart University (OmiKU), Bangkok 10900, Thailand
| | - Piyada Juntawong
- Department of Genetics, Faculty of Science, Kasetsart University, Bangkok 10900, Thailand; (R.K.); (C.J.)
- Omics Center for Agriculture, Bioresources, Food and Health, Kasetsart University (OmiKU), Bangkok 10900, Thailand
- Correspondence:
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Chen P, Li Z, Luo D, Jia R, Lu H, Tang M, Hu Y, Yue J, Huang Z. Comparative transcriptomic analysis reveals key genes and pathways in two different cadmium tolerance kenaf (Hibiscus cannabinus L.) cultivars. CHEMOSPHERE 2021; 263:128211. [PMID: 33297170 DOI: 10.1016/j.chemosphere.2020.128211] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2020] [Revised: 08/19/2020] [Accepted: 08/29/2020] [Indexed: 05/19/2023]
Abstract
Soil cadmium (Cd) contamination has become a massive environmental problem. Kenaf is an industrial fiber crop with high tolerance to heavy metals and could be potentially used for soil phytoremediation. However, the molecular mechanism of Cd in kenaf tolerance remains largely unknown. In the present study, using two contrasting Cd sensitive kenaf (GH and YJ), the key factors accounting for differential Cd tolerance were investigated. GH has a stronger Cd transport and accumulation ability than YJ. In addition, physiological index investigation on malondialdehyde (MDA) contents and antioxidant enzyme (SOD, POD, and CAT) activities showed GH has a stronger detoxification capacity than YJ. Furthermore, the cell ultrastructure of GH is more stable than that of YJ under Cd stress. Transcriptome analysis revealed 2221 (689 up and 1532 down) and 3321 (2451 up and 870 down) genes were differentially expressed in GH and YJ, respectively. More DEGs (differentially expressed genes) were characterized as up-regulated in GH, indicating GH is inclined to activate gene expression to cope with cadmium stress. GO and KEGG analyses indicate that DEGs were assigned and enriched in different pathways. Plenty of critical Cd-induced DEGs such as SOD2, PODs, MT1, DTXs, NRT1, ABCs, CES, AP2/ERF, MYBs, NACs, and WRKYs were identified. The DEGs involved pathways, including antioxidant, heavy metal transport or detoxification, substance transport, plant hormone and calcium signals, ultrastructural component, and a wide range of transcription factors were suggested to play crucial roles in kenaf Cd tolerance, and accounting for the difference in Cd stress sensitivities.
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Affiliation(s)
- Peng Chen
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China.
| | - Zengqiang Li
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Dengjie Luo
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Ruixing Jia
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Hai Lu
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Meiqiong Tang
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Yali Hu
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Jiao Yue
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
| | - Zhen Huang
- Key Laboratory of Plant Genetics and Breeding, College of Agriculture, Guangxi University, Nanning, China
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Zhu H, Ai H, Hu Z, Du D, Sun J, Chen K, Chen L. Comparative transcriptome combined with metabolome analyses revealed key factors involved in nitric oxide (NO)-regulated cadmium stress adaptation in tall fescue. BMC Genomics 2020; 21:601. [PMID: 32867669 PMCID: PMC7457814 DOI: 10.1186/s12864-020-07017-8] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Accepted: 08/20/2020] [Indexed: 01/20/2023] Open
Abstract
BACKGROUND It has been reported that nitric oxide (NO) could ameliorate cadmium (Cd) toxicity in tall fescue; however, the underlying mechanisms of NO mediated Cd detoxification are largely unknown. In this study, we investigated the possible molecular mechanisms of Cd detoxification process by comparative transcriptomic and metabolomic approaches. RESULTS The application of Sodium nitroprusside (SNP) as NO donor decreased the Cd content of tall fescue by 11% under Cd stress (T1 treatment), but the Cd content was increased by 24% when treated with Carboxy-PTIO (c-PTIO) together with Nitro-L-arginine methyl ester (L-NAME) (T2 treatment). RNA-seq analysis revealed that 904 (414 up- and 490 down-regulated) and 118 (74 up- and 44 down-regulated) DEGs were identified in the T1 vs Cd (only Cd treatment) and T2 vs Cd comparisons, respectively. Moreover, metabolite profile analysis showed that 99 (65 up- and 34-down- regulated) and 131 (45 up- and 86 down-regulated) metabolites were altered in the T1 vs Cd and T2 vs Cd comparisons, respectively. The integrated analyses of transcriptomic and metabolic data showed that 81 DEGs and 15 differentially expressed metabolites were involved in 20 NO-induced pathways. The dominant pathways were antioxidant activities such as glutathione metabolism, arginine and proline metabolism, secondary metabolites such as flavone and flavonol biosynthesis and phenylpropanoid biosynthesis, ABC transporters, and nitrogen metabolism. CONCLUSIONS In general, the results revealed that there are three major mechanisms involved in NO-mediated Cd detoxification in tall fescue, including (a) antioxidant capacity enhancement; (b) accumulation of secondary metabolites related to cadmium chelation and sequestration; and (c) regulation of cadmium ion transportation, such as ABC transporter activation. In conclusion, this study provides new insights into the NO-mediated cadmium stress response.
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Affiliation(s)
- Huihui Zhu
- College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, P.R. China
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, P.R. China
| | - Honglian Ai
- College of Pharmacy, South-Central University for Nationalities, Wuhan, P.R. China
| | - Zhengrong Hu
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, P.R. China
| | - Dongyun Du
- College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, P.R. China
| | - Jie Sun
- College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, P.R. China
| | - Ke Chen
- College of Resources and Environmental Science, South-Central University for Nationalities, Wuhan, P.R. China
| | - Liang Chen
- CAS Key Laboratory of Plant Germplasm Enhancement and Specialty Agriculture, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, P.R. China
- Center of Economic Botany, Core Botanical Gardens, Chinese Academy of Sciences, Wuhan, P.R. China
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18
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Gallo-Franco JJ, Sosa CC, Ghneim-Herrera T, Quimbaya M. Epigenetic Control of Plant Response to Heavy Metal Stress: A New View on Aluminum Tolerance. FRONTIERS IN PLANT SCIENCE 2020; 11:602625. [PMID: 33391313 PMCID: PMC7772216 DOI: 10.3389/fpls.2020.602625] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2020] [Accepted: 11/23/2020] [Indexed: 05/05/2023]
Abstract
High concentrations of heavy metal (HM) ions impact agronomic staple crop production in acid soils (pH ≤ 5) due to their cytotoxic, genotoxic, and mutagenic effects. Among cytotoxic ions, the trivalent aluminum cation (Al3+) formed by solubilization of aluminum (Al) into acid soils, is one of the most abundant and toxic elements under acidic conditions. In recent years, several studies have elucidated the different signal transduction pathways involved in HM responses, identifying complementary genetic mechanisms conferring tolerance to plants. Although epigenetics has become more relevant in abiotic stress studies, epigenetic mechanisms underlying plant responses to HM stress remain poorly understood. This review describes the main epigenetic mechanisms related to crop responses during stress conditions, specifically, the molecular evidence showing how epigenetics is at the core of plant adaptation responses to HM ions. We highlight the epigenetic mechanisms that induce Al tolerance. Likewise, we analyze the pivotal relationship between epigenetic and genetic factors associated with HM tolerance. Finally, using rice as a study case, we performed a general analysis over previously whole-genome bisulfite-seq published data. Specific genes related to Al tolerance, measured in contrasting tolerant and susceptible rice varieties, exhibited differences in DNA methylation frequency. The differential methylation patterns could be associated with epigenetic regulation of rice responses to Al stress, highlighting the major role of epigenetics over specific abiotic stress responses.
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Affiliation(s)
- Jenny Johana Gallo-Franco
- Departamento de Ciencias Naturales y Matemáticas, Pontificia Universidad Javeriana, Cali, Cali, Colombia
| | - Chrystian Camilo Sosa
- Departamento de Ciencias Naturales y Matemáticas, Pontificia Universidad Javeriana, Cali, Cali, Colombia
- Grupo de Investigación en Evolución, Ecología y Conservación EECO, Programa de Biología, Facultad de Ciencias Básicas y Tecnologías, Universidad del Quindío, Armenia, Colombia
| | | | - Mauricio Quimbaya
- Departamento de Ciencias Naturales y Matemáticas, Pontificia Universidad Javeriana, Cali, Cali, Colombia
- *Correspondence: Mauricio Quimbaya,
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Chaudhary J, Khatri P, Singla P, Kumawat S, Kumari A, R V, Vikram A, Jindal SK, Kardile H, Kumar R, Sonah H, Deshmukh R. Advances in Omics Approaches for Abiotic Stress Tolerance in Tomato. BIOLOGY 2019; 8:biology8040090. [PMID: 31775241 PMCID: PMC6956103 DOI: 10.3390/biology8040090] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/30/2019] [Revised: 11/11/2019] [Accepted: 11/19/2019] [Indexed: 12/21/2022]
Abstract
Tomato, one of the most important crops worldwide, has a high demand in the fresh fruit market and processed food industries. Despite having considerably high productivity, continuous supply as per the market demand is hard to achieve, mostly because of periodic losses occurring due to biotic as well as abiotic stresses. Although tomato is a temperate crop, it is grown in almost all the climatic zones because of widespread demand, which makes it challenge to adapt in diverse conditions. Development of tomato cultivars with enhanced abiotic stress tolerance is one of the most sustainable approaches for its successful production. In this regard, efforts are being made to understand the stress tolerance mechanism, gene discovery, and interaction of genetic and environmental factors. Several omics approaches, tools, and resources have already been developed for tomato growing. Modern sequencing technologies have greatly accelerated genomics and transcriptomics studies in tomato. These advancements facilitate Quantitative trait loci (QTL) mapping, genome-wide association studies (GWAS), and genomic selection (GS). However, limited efforts have been made in other omics branches like proteomics, metabolomics, and ionomics. Extensive cataloging of omics resources made here has highlighted the need for integration of omics approaches for efficient utilization of resources and a better understanding of the molecular mechanism. The information provided here will be helpful to understand the plant responses and the genetic regulatory networks involved in abiotic stress tolerance and efficient utilization of omics resources for tomato crop improvement.
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Affiliation(s)
- Juhi Chaudhary
- Department of Biology, Oberlin College, Oberlin, OH 44074, USA;
| | - Praveen Khatri
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Pankaj Singla
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Surbhi Kumawat
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Anu Kumari
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
| | - Vinaykumar R
- Department of Vegetable Science, Dr. Yashwant Singh Parmar University of Horticulture and Forestry, Solan, Himachal Pradesh 173230, India; (V.R.); (A.V.)
| | - Amit Vikram
- Department of Vegetable Science, Dr. Yashwant Singh Parmar University of Horticulture and Forestry, Solan, Himachal Pradesh 173230, India; (V.R.); (A.V.)
| | - Salesh Kumar Jindal
- Department of Vegetable Science, Punjab Agricultural University, Ludhiana, Punjab 141004, India;
| | - Hemant Kardile
- Division of Crop Improvement, ICAR-Central Potato Research Institute (CPRI), Shimla, Himachal Pradesh 171001, India;
| | - Rahul Kumar
- Department of Plant Science, University of Hyderabad, Hyderabad 500046, India;
| | - Humira Sonah
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
- Correspondence: (H.S.); (R.D.)
| | - Rupesh Deshmukh
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab 140306, India; (P.K.); (P.S.); (S.K.); (A.K.)
- Correspondence: (H.S.); (R.D.)
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Sun L, Wang J, Song K, Sun Y, Qin Q, Xue Y. Transcriptome analysis of rice (Oryza sativa L.) shoots responsive to cadmium stress. Sci Rep 2019; 9:10177. [PMID: 31308454 PMCID: PMC6629703 DOI: 10.1038/s41598-019-46684-w] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2019] [Accepted: 07/03/2019] [Indexed: 12/18/2022] Open
Abstract
Cadmium (Cd) is highly toxic to living organisms. This study aimed to elucidate the regulation of gene expression in rice shoots under Cd stress. Rice plants were exposed to 0, 50, 75, 100 μmol/L CdCl2 in hydroponic culture for 7 d. Transcriptional changes in rice shoots were examined by transcriptome sequencing techniques. A total of 2197 DEGs (987 up-regulated and 1210 down-regulated) were detected in rice shoots under the exposure of 75 μmol/L CdCl2. GO and KEGG enrichment analyses showed that genes encoding auxin-responsive protein IAA and peroxidase were up-regulated, while genes encoding proteins involved in signal transduction, including TIFY family, ERF and bZIP were down-regulated. Abundant ROS related terms were also identified and grouped into significantly differentially expressed GO terms, including oxidoreductase activity, catalytic activity, oxidation-reduction process, confirming the enhanced oxidative stress of Cd. Genes encoding photosystem I reaction center subunit and photosynthetic NDH subunit of luminal location were up-regulated in pathway of energy metabolism, suggesting an interference of photosynthesis by Cd stress. Our results improve the understanding of the complex molecular responsive mechanisms of rice shoots under Cd stress.
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Affiliation(s)
- Lijuan Sun
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China
- Shanghai Scientific Observation and Experimental Station for Agricultural Environment and Land Conservation, Shanghai, 201403, China
- Shanghai Environmental Protection Monitoring Station of Agriculture, Shanghai, 201403, China
- Shanghai Engineering Research Centre of Low-carbon Agriculture (SERLA), Shanghai, 201403, China
- Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai, 201403, China
| | - Jun Wang
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China
- College of Resources and Environmental Sciences, Nanjing Agricultural University, No. 1, Weigang, Xuanwu District, Nanjing, 210095, China
| | - Ke Song
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China
- Shanghai Scientific Observation and Experimental Station for Agricultural Environment and Land Conservation, Shanghai, 201403, China
- Shanghai Environmental Protection Monitoring Station of Agriculture, Shanghai, 201403, China
- Shanghai Engineering Research Centre of Low-carbon Agriculture (SERLA), Shanghai, 201403, China
- Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai, 201403, China
| | - Yafei Sun
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China
- Shanghai Scientific Observation and Experimental Station for Agricultural Environment and Land Conservation, Shanghai, 201403, China
- Shanghai Environmental Protection Monitoring Station of Agriculture, Shanghai, 201403, China
- Shanghai Engineering Research Centre of Low-carbon Agriculture (SERLA), Shanghai, 201403, China
- Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai, 201403, China
| | - Qin Qin
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China.
- Shanghai Scientific Observation and Experimental Station for Agricultural Environment and Land Conservation, Shanghai, 201403, China.
- Shanghai Environmental Protection Monitoring Station of Agriculture, Shanghai, 201403, China.
- Shanghai Engineering Research Centre of Low-carbon Agriculture (SERLA), Shanghai, 201403, China.
- Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai, 201403, China.
| | - Yong Xue
- Institute of ECO-Environment and Plant Protection, Shanghai Academy of Agricultural Sciences, Shanghai, 201403, China.
- Shanghai Scientific Observation and Experimental Station for Agricultural Environment and Land Conservation, Shanghai, 201403, China.
- Shanghai Environmental Protection Monitoring Station of Agriculture, Shanghai, 201403, China.
- Shanghai Engineering Research Centre of Low-carbon Agriculture (SERLA), Shanghai, 201403, China.
- Shanghai Key Laboratory of Protected Horticultural Technology, Shanghai, 201403, China.
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Genome-wide identification and expression analysis of Hsp70, Hsp90, and Hsp100 heat shock protein genes in barley under stress conditions and reproductive development. Funct Integr Genomics 2019; 19:1007-1022. [PMID: 31359217 DOI: 10.1007/s10142-019-00695-y] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Revised: 03/19/2019] [Accepted: 06/10/2019] [Indexed: 10/26/2022]
Abstract
Abiotic stress including extreme temperature disturbs the plant cellular homeostasis consequently limiting the yield potential of crop plants. Heat shock proteins (Hsps) are part of major rescue machinery of plants which aid to combat these stressed conditions by re-establishing protein homeostasis. Hsps with their chaperone and co-chaperone mechanisms regulate the activity of their substrate proteins in an ATP-dependent manner. In the present investigation, a genome-wide identification, evolutionary relationship, and comprehensive expression analysis of Hsp70, Hsp90, and Hsp100 gene families have been done in barley. The barley genome possesses 13 members of the Hsp70 gene family, along with 4 members of the Hsp110 subfamily, and 6 members of Hsp90 and 8 members of the Hsp100 gene family. Hsp genes are distributed on all 7 chromosomes of barley, and their encoded protein members are predicted to be localized to cell organelles such as cytosol, mitochondria, chloroplast, and ER. Despite a larger genome size, there are lesser members of these Hsp genes in barley, owing to less duplication events. The variable expression pattern obtained for genes encoding proteins localized to the same subcellular compartment suggests their diverse roles and involvement in different cellular responses. Expression profiling of these genes was performed by qRT-PCR in an array of 32 tissues, which showed a differential and tissue-specific expression of various members of Hsp gene families. We found the upregulation of HvHspc70-4, HvHsp70Mt70-2, HvHspc70-5a, HvHspc70-5b, HvHspc70-N1, HvHspc70-N2, HvHsp110-3, HvHsp90-1, HvHsp100-1, and HvHsp100-2 upon exposure to heat stress during reproductive development. Furthermore, their higher expression during heat stress, heavy metal stress, drought, and salinity stress was also observed in a tissue-specific manner.
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22
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Cong W, Miao Y, Xu L, Zhang Y, Yuan C, Wang J, Zhuang T, Lin X, Jiang L, Wang N, Ma J, Sanguinet KA, Liu B, Rustgi S, Ou X. Transgenerational memory of gene expression changes induced by heavy metal stress in rice (Oryza sativa L.). BMC PLANT BIOLOGY 2019; 19:282. [PMID: 31248374 PMCID: PMC6598230 DOI: 10.1186/s12870-019-1887-7] [Citation(s) in RCA: 78] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2018] [Accepted: 06/13/2019] [Indexed: 05/22/2023]
Abstract
BACKGROUND Heavy metal toxicity has become a major threat to sustainable crop production worldwide. Thus, considerable interest has been placed on deciphering the mechanisms that allow plants to combat heavy metal stress. Strategies to deal with heavy metals are largely focused on detoxification, transport and/or sequestration. The P1B subfamily of the Heavy Metal-transporting P-type ATPases (HMAs) was shown to play a crucial role in the uptake and translocation of heavy metals in plants. Here, we report the locus-specific expression changes in the rice HMA genes together with several low-copy cellular genes and transposable elements upon the heavy metal treatment and monitored the transgenerational inheritance of the altered expression states. We reveal that plants cope with heavy metal stress by making heritable changes in gene expression and further determined gene-specific responses to heavy metal stress. RESULTS We found most HMA genes were upregulated in response to heavy metal stress, and furthermore found evidence of transgenerational memory via changes in gene regulation even after the removal of heavy metals. To explore whether DNA methylation was also altered in response to the heavy metal stress, we selected a Tos17 retrotransposon for bisulfite sequencing and studied its methylation state across three generations. We found the DNA methylation state of Tos17 was altered in response to the heavy metal stress and showed transgenerational inheritance. CONCLUSIONS Collectively, the present study elucidates heritable changes in gene expression and DNA methylation in rice upon exposure to heavy metal stress and discusses implications of this knowledge in breeding for heavy metal tolerant crops.
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Affiliation(s)
- Weixuan Cong
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Yiling Miao
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Lei Xu
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Yunhong Zhang
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Chunlei Yuan
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Junmeng Wang
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Tingting Zhuang
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Xiuyun Lin
- Jilin Academy of Agricultural Sciences, Changchun, 130033 China
| | - Lili Jiang
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Ningning Wang
- Jilin Agriculture University, Changchun, 130000 China
| | - Jian Ma
- Jilin Agriculture University, Changchun, 130000 China
| | - Karen A. Sanguinet
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164 USA
| | - Bao Liu
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
| | - Sachin Rustgi
- Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164 USA
- Department of Plant and Environmental Sciences, Clemson University, Pee Dee Research and Education Center, Florence, SC 29506 USA
| | - Xiufang Ou
- Key Laboratory of Molecular Epigenetics of MOE and Institute of Genetics & Cytology, Northeast Normal University, Changchun, 130024 China
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23
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Shu H, Zhang J, Liu F, Bian C, Liang J, Liang J, Liang W, Lin Z, Shu W, Li J, Shi Q, Liao B. Comparative Transcriptomic Studies on a Cadmium Hyperaccumulator Viola baoshanensis and Its Non-Tolerant Counterpart V. inconspicua. Int J Mol Sci 2019; 20:E1906. [PMID: 30999673 PMCID: PMC6515270 DOI: 10.3390/ijms20081906] [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: 03/03/2019] [Revised: 04/14/2019] [Accepted: 04/16/2019] [Indexed: 12/29/2022] Open
Abstract
Many Viola plants growing in mining areas exhibit high levels of cadmium (Cd) tolerance and accumulation, and thus are ideal organisms for comparative studies on molecular mechanisms of Cd hyperaccumulation. However, transcriptomic studies of hyperaccumulative plants in Violaceae are rare. Viola baoshanensis is an amazing Cd hyperaccumulator in metalliferous areas of China, whereas its relative V. inconspicua is a non-tolerant accumulator that resides at non-metalliferous sites. Here, comparative studies by transcriptome sequencing were performed to investigate the key pathways that are potentially responsible for the differential levels of Cd tolerance between these two Viola species. A cascade of genes involved in the ubiquitin proteosome system (UPS) pathway were observed to have constitutively higher transcription levels and more activation in response to Cd exposure in V. baoshanensis, implying that the enhanced degradation of misfolded proteins may lead to high resistance against Cd in this hyperaccumulator. Many genes related to sucrose metabolism, especially those involved in callose and trehalose biosynthesis, are among the most differentially expressed genes between the two Viola species, suggesting a crucial role of sucrose metabolism not only in cell wall modification through carbon supply but also in the antioxidant system as signaling molecules or antioxidants. A comparison among transcriptional patterns of some known transporters revealed that several tonoplast transporters are up-regulated in V. baoshanensis under Cd stress, suggesting more efficient compartmentalization of Cd in the vacuoles. Taken together, our findings provide valuable insight into Cd hypertolerance in V. baoshanensis, and the corresponding molecular mechanisms will be useful for future genetic engineering in phytoremediation.
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Affiliation(s)
- Haoyue Shu
- State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.
| | - Jun Zhang
- School of Biosciences and Biopharmaceutics, Guangdong Province Key Laboratory for Biotechnology Drug Candidates, Guangdong Pharmaceutical University, Guangzhou 510006, China.
| | - Fuye Liu
- State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.
| | - Chao Bian
- Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Academy of Marine Sciences, BGI Marine, BGI, Shenzhen 518083, China.
| | - Jieliang Liang
- School of Life Sciences, South China Normal University, Guangzhou 510631, China.
| | - Jiaqi Liang
- School of Biosciences and Biopharmaceutics, Guangdong Province Key Laboratory for Biotechnology Drug Candidates, Guangdong Pharmaceutical University, Guangzhou 510006, China.
| | - Weihe Liang
- School of Biosciences and Biopharmaceutics, Guangdong Province Key Laboratory for Biotechnology Drug Candidates, Guangdong Pharmaceutical University, Guangzhou 510006, China.
| | - Zhiliang Lin
- State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.
| | - Wensheng Shu
- School of Life Sciences, South China Normal University, Guangzhou 510631, China.
| | - Jintian Li
- School of Life Sciences, South China Normal University, Guangzhou 510631, China.
| | - Qiong Shi
- Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Academy of Marine Sciences, BGI Marine, BGI, Shenzhen 518083, China.
| | - Bin Liao
- State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.
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24
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Han M, Lu X, Yu J, Chen X, Wang X, Malik WA, Wang J, Wang D, Wang S, Guo L, Chen C, Cui R, Yang X, Ye W. Transcriptome Analysis Reveals Cotton ( Gossypium hirsutum) Genes That Are Differentially Expressed in Cadmium Stress Tolerance. Int J Mol Sci 2019; 20:ijms20061479. [PMID: 30909634 PMCID: PMC6470502 DOI: 10.3390/ijms20061479] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Revised: 03/18/2019] [Accepted: 03/19/2019] [Indexed: 12/24/2022] Open
Abstract
High concentrations of heavy metals in the soil should be removed for environmental safety. Cadmium (Cd) is a heavy metal that pollutes the soil when its concentration exceeds 3.4 mg/kg. Although the potential use of cotton to remediate heavy Cd-polluted soils is known, little is understood about the molecular mechanisms of Cd tolerance. In this study, transcriptome analysis was used to identify Cd tolerance genes and their potential mechanisms in cotton. We exposed cotton plants to excess Cd and identified 4627 differentially expressed genes (DEGs) in the root, 3022 DEGs in the stem and 3854 DEGs in the leaves through RNA-Seq analysis. Among these genes were heavy metal transporter coding genes (ABC, CDF, HMA, etc.), annexin genes and heat shock genes (HSP), amongst others. Gene ontology (GO) analysis showed that the DEGs were mainly involved in the oxidation–reduction process and metal ion binding. The DEGs were mainly enriched in two pathways, the influenza A and pyruvate pathway. GhHMAD5, a protein containing a heavy-metal binding domain, was identified in the pathway to transport or to detoxify heavy metal ions. We constructed a GhHMAD5 overexpression system in Arabidopsis thaliana that showed longer roots compared to control plants. GhHMAD5-silenced cotton plants showed more sensitivity to Cd stress. The results indicate that GhHMAD5 is involved in Cd tolerance, which gives a preliminary understanding of the Cd tolerance mechanism in upland cotton. Overall, this study provides valuable information for the use of cotton to remediate soils polluted with Cd and potentially other heavy metals.
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Affiliation(s)
- Mingge Han
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Xuke Lu
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - John Yu
- USDA-ARS Southern Plains Agricultural Research Center, College Station, TX 77845, USA.
| | - Xiugui Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Xiaoge Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Waqar Afzal Malik
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Junjuan Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Delong Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Shuai Wang
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Lixue Guo
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Chao Chen
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Ruifeng Cui
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Xiaoming Yang
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
| | - Wuwei Ye
- Institute of Cotton Research of Chinese Academy of Agricultural Science, State Key Laboratory of Cotton Biology, Key Laboratory for Cotton Genetic Improvement, Anyang 455000, Henan, China.
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25
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Aprile A, Sabella E, Vergine M, Genga A, Siciliano M, Nutricati E, Rampino P, De Pascali M, Luvisi A, Miceli A, Negro C, De Bellis L. Activation of a gene network in durum wheat roots exposed to cadmium. BMC PLANT BIOLOGY 2018; 18:238. [PMID: 30326849 PMCID: PMC6192290 DOI: 10.1186/s12870-018-1473-4] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Accepted: 10/05/2018] [Indexed: 05/04/2023]
Abstract
BACKGROUND Among cereals, durum wheat (Triticum turgidum L. subsp. durum) accumulates cadmium (Cd) at higher concentration if grown in Cd-polluted soils. Since cadmium accumulation is a risk for human health, the international trade organizations have limited the acceptable concentration of Cd in edible crops. Therefore, durum wheat cultivars accumulating low cadmium in grains should be preferred by farmers and consumers. To identify the response of durum wheat to the presence of Cd, the transcriptomes of roots and shoots of Creso and Svevo cultivars were sequenced after a 50-day exposure to 0.5 μM Cd in hydroponic solution. RESULTS No phytotoxic effects or biomass reduction was observed in Creso and Svevo plants at this Cd concentration. Despite this null effect, cadmium was accumulated in root tissues, in shoots and in grains suggesting a good cadmium translocation rate among tissues. The mRNA sequencing revealed a general transcriptome rearrangement after Cd treatment and more than 7000 genes were found differentially expressed in root and shoot tissues. Among these, the up-regulated genes in roots showed a clear correlation with cadmium uptake and detoxification. In particular, about three hundred genes were commonly up-regulated in Creso and Svevo roots suggesting a well defined molecular strategy characterized by the transcriptomic activation of several transcription factors mainly belonging to bHLH and WRKY families. bHLHs are probably the activators of the strong up-regulation of three NAS genes, responsible for the synthesis of the phytosiderophore nicotianamine (NA). Moreover, we found the overall up-regulation of the methionine salvage pathway that is tightly connected with NA synthesis and supply the S-adenosyl methionine necessary for NA biosynthesis. Finally, several vacuolar NA chelating heavy metal transporters were vigorously activated. CONCLUSIONS In conclusion, the exposure of durum wheat to cadmium activates in roots a complex gene network involved in cadmium translocation and detoxification from heavy metals. These findings are confident with a role of nicotianamine and methionine salvage pathway in the accumulation of cadmium in durum wheat.
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Affiliation(s)
- Alessio Aprile
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Erika Sabella
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Marzia Vergine
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Alessandra Genga
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Maria Siciliano
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Eliana Nutricati
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Patrizia Rampino
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Mariarosaria De Pascali
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Andrea Luvisi
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Antonio Miceli
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Carmine Negro
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
| | - Luigi De Bellis
- Department of Biological and Environmental Sciences and Technologies, University of Salento, via Prov.le Monteroni 165, 73100 Lecce, Italy
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26
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Bhatta M, Morgounov A, Belamkar V, Baenziger PS. Genome-Wide Association Study Reveals Novel Genomic Regions for Grain Yield and Yield-Related Traits in Drought-Stressed Synthetic Hexaploid Wheat. Int J Mol Sci 2018; 19:E3011. [PMID: 30279375 PMCID: PMC6212811 DOI: 10.3390/ijms19103011] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Revised: 09/27/2018] [Accepted: 09/29/2018] [Indexed: 01/09/2023] Open
Abstract
Synthetic hexaploid wheat (SHW; 2n = 6x = 42, AABBDD, Triticum aestivum L.) is produced from an interspecific cross between durum wheat (2n = 4x = 28, AABB, T. turgidum L.) and goat grass (2n = 2x = 14, DD, Aegilops tauschii Coss.) and is reported to have significant novel alleles-controlling biotic and abiotic stresses resistance. A genome-wide association study (GWAS) was conducted to unravel these loci [marker⁻trait associations (MTAs)] using 35,648 genotyping-by-sequencing-derived single nucleotide polymorphisms in 123 SHWs. We identified 90 novel MTAs (45, 11, and 34 on the A, B, and D genomes, respectively) and haplotype blocks associated with grain yield and yield-related traits including root traits under drought stress. The phenotypic variance explained by the MTAs ranged from 1.1% to 32.3%. Most of the MTAs (120 out of 194) identified were found in genes, and of these 45 MTAs were in genes annotated as having a potential role in drought stress. This result provides further evidence for the reliability of MTAs identified. The large number of MTAs (53) identified especially on the D-genome demonstrate the potential of SHWs for elucidating the genetic architecture of complex traits and provide an opportunity for further improvement of wheat under rapidly changing climatic conditions.
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Affiliation(s)
- Madhav Bhatta
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE 68583, USA.
| | - Alexey Morgounov
- International Maize and Wheat Improvement Center (CIMMYT), 06511 Emek, Ankara, Turkey.
| | - Vikas Belamkar
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE 68583, USA.
| | - P Stephen Baenziger
- Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE 68583, USA.
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27
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Yuan J, Bai Y, Chao Y, Sun X, He C, Liang X, Xie L, Han L. Genome-wide analysis reveals four key transcription factors associated with cadmium stress in creeping bentgrass ( Agrostis stolonifera L.). PeerJ 2018; 6:e5191. [PMID: 30083437 PMCID: PMC6071620 DOI: 10.7717/peerj.5191] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2018] [Accepted: 06/13/2018] [Indexed: 11/22/2022] Open
Abstract
Cadmium (Cd) toxicity seriously affects the growth and development of plants, so studies on uptake, translocation, and accumulation of Cd in plants are crucial for phytoremediation. However, the molecular mechanism of the plant response to Cd stress remains poorly understood. The main objective of this study was to reveal differentially expressed genes (DEGs) under lower (BT2_5) and higher (BT43) Cd concentration treatments in creeping bentgrass. A total of 463,184 unigenes were obtained from creeping bentgrass leaves using RNA sequencing technology. Observation of leaf tissue morphology showed that the higher Cd concentration damages leaf tissues. Four key transcription factor (TF) families, WRKY, bZIP, ERF, and MYB, are associated with Cd stress in creeping bentgrass. Our findings revealed that these four TFs play crucial roles during the creeping bentgrass response to Cd stress. This study is mainly focused on the molecular characteristics of DEGs under Cd stress using transcriptomic analysis in creeping bentgrass. These results provide novel insight into the regulatory mechanisms of respond to Cd stress and enrich information for phytoremediation.
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Affiliation(s)
- Jianbo Yuan
- School of Applied Chemistry and Biotechnology, Shenzhen Polytechnic, Shenzhen, China.,Turfgrass Research Institute, College of Forestry, Beijing Forestry University, Beijing, China
| | - Yuqing Bai
- Administrative Office, Wutong Mountain National Park, Shenzhen, China
| | - Yuehui Chao
- Turfgrass Research Institute, College of Forestry, Beijing Forestry University, Beijing, China
| | - Xinbo Sun
- Key laboratory of crop growth regulation of Hebei Province, Hebei Agricultrual University, China
| | - Chunyan He
- Turfgrass Research Institute, College of Forestry, Beijing Forestry University, Beijing, China
| | - Xiaohong Liang
- Turfgrass Research Institute, College of Forestry, Beijing Forestry University, Beijing, China
| | - Lijuan Xie
- School of Applied Chemistry and Biotechnology, Shenzhen Polytechnic, Shenzhen, China
| | - Liebao Han
- Turfgrass Research Institute, College of Forestry, Beijing Forestry University, Beijing, China
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28
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Neeraja CN, Kulkarni KS, Madhu Babu P, Sanjeeva Rao D, Surekha K, Ravindra Babu V. Transporter genes identified in landraces associated with high zinc in polished rice through panicle transcriptome for biofortification. PLoS One 2018; 13:e0192362. [PMID: 29394277 PMCID: PMC5796704 DOI: 10.1371/journal.pone.0192362] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2017] [Accepted: 01/21/2018] [Indexed: 11/27/2022] Open
Abstract
Polished rice is poor source of micronutrients, however wide genotypic variability exists for zinc uptake and remobilization and zinc content in brown and polished grains in rice. Two landraces (Chittimutyalu and Kala Jeera Joha) and one popular improved variety (BPT 5204) were grown under zinc sufficient soil and their analyses showed high zinc in straw of improved variety, but high zinc in polished rice in landraces suggesting better translocation ability of zinc into the grain in landraces. Transcriptome analyses of the panicle tissue showed 41182 novel transcripts across three samples. Out of 1011 differentially expressed exclusive transcripts by two landraces, 311 were up regulated and 534 were down regulated. Phosphate transporter-exporter (PHO), proton-coupled peptide transporters (POT) and vacuolar iron transporter (VIT) showed enhanced and significant differential expression in landraces. Out of 24 genes subjected to quantitative real time analyses for confirmation, eight genes showed significant differential expression in landraces. Through mapping, six rice microsatellite markers spanning the genomic regions of six differentially expressed genes were validated for their association with zinc in brown and polished rice using recombinant inbred lines (RIL) of BPT 5204/Chittimutyalu. Thus, this study reports repertoire of genes associated with high zinc in polished rice and a proof concept for deployment of transcriptome information for validation in mapping population and its use in marker assisted selection for biofortification of rice with zinc.
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Affiliation(s)
- C. N. Neeraja
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
| | - Kalyani S. Kulkarni
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
| | - P. Madhu Babu
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
| | - D. Sanjeeva Rao
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
| | - K. Surekha
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
| | - V Ravindra Babu
- Department of Crop Improvement, ICAR-Indian Institute of Rice Research, Rajendranagar, Telangana, Hyderabad, India
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Hasan MK, Cheng Y, Kanwar MK, Chu XY, Ahammed GJ, Qi ZY. Responses of Plant Proteins to Heavy Metal Stress-A Review. FRONTIERS IN PLANT SCIENCE 2017; 8:1492. [PMID: 28928754 PMCID: PMC5591867 DOI: 10.3389/fpls.2017.01492] [Citation(s) in RCA: 192] [Impact Index Per Article: 27.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2017] [Accepted: 08/11/2017] [Indexed: 05/17/2023]
Abstract
Plants respond to environmental pollutants such as heavy metal(s) by triggering the expression of genes that encode proteins involved in stress response. Toxic metal ions profoundly affect the cellular protein homeostasis by interfering with the folding process and aggregation of nascent or non-native proteins leading to decreased cell viability. However, plants possess a range of ubiquitous cellular surveillance systems that enable them to efficiently detoxify heavy metals toward enhanced tolerance to metal stress. As proteins constitute the major workhorses of living cells, the chelation of metal ions in cytosol with phytochelatins and metallothioneins followed by compartmentalization of metals in the vacuoles as well as the repair of stress-damaged proteins or removal and degradation of proteins that fail to achieve their native conformations are critical for plant tolerance to heavy metal stress. In this review, we provide a broad overview of recent advances in cellular protein research with regards to heavy metal tolerance in plants. We also discuss how plants maintain functional and healthy proteomes for survival under such capricious surroundings.
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Affiliation(s)
- Md. Kamrul Hasan
- Department of Horticulture, Zhejiang UniversityHangzhou, China
- Department of Agricultural Chemistry, Sylhet Agricultural UniversitySylhet, Bangladesh
| | - Yuan Cheng
- State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Institute of Vegetables, Zhejiang Academy of Agricultural SciencesHangzhou, China
| | | | - Xian-Yao Chu
- Zhejiang Institute of Geological Survey, Geological Research Center for Agricultural Applications, China Geological SurveyBeijing, China
| | | | - Zhen-Yu Qi
- Agricultural Experiment Station, Zhejiang UniversityHangzhou, China
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Lin T, Yang W, Lu W, Wang Y, Qi X. Transcription Factors PvERF15 and PvMTF-1 Form a Cadmium Stress Transcriptional Pathway. PLANT PHYSIOLOGY 2017; 173:1565-1573. [PMID: 28073984 PMCID: PMC5338663 DOI: 10.1104/pp.16.01729] [Citation(s) in RCA: 45] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2016] [Accepted: 01/08/2017] [Indexed: 05/20/2023]
Abstract
In plants, cadmium (Cd)-responsive transcription factors are key downstream effectors of Cd stress transcriptional pathways, which are capable of converging Cd stress signals through triggering the expression of Cd detoxification genes. However, the upstream transcriptional regulatory pathways that modulate their responses to Cd are less clear. Previously, we identified the bean (Phaseolus vulgaris) METAL RESPONSE ELEMENT-BINDING TRANSCRIPTION FACTOR1 (PvMTF-1) that responds to Cd and confers Cd tolerance in planta. Here, we demonstrate an upstream transcriptional regulation of the PvMTF-1 response to Cd Using a yeast one-hybrid system, we cloned the bean ETHYLENE RESPONSE FACTOR15 (PvERF15) that binds to the PvMTF-1 promoter. PvERF15 was strongly induced by Cd stress, and its overexpression resulted in the up-regulation of PvMTF-1 DNA-protein interaction assays further revealed that PvERF15 binds directly to a 19-bp AC-rich element in the PvMTF-1 promoter. The AC-rich element serves as a positive element bound by PvERF15 to activate gene expression. More importantly, knockdown of PvERF15 by RNA interference resulted in reduced Cd-induced expression of PvMTF-1PvERF15 seems to be involved in Cd tolerance, since knockdown of PvERF15 by RNA interference in bean leaf discs decreased Cd tolerance in a transient assay. Since PvERF15 is a component of the Cd stress transcriptional pathway in beans and PvMTF-1 is one of its downstream targets, our findings provide a PvERF15/PvMTF-1 transcriptional pathway and thereby contribute to the understanding of Cd stress transcriptional regulatory pathways in plants.
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Affiliation(s)
- Tingting Lin
- College of Life Science, Capital Normal University, Beijing 100048, China
| | - Wanning Yang
- College of Life Science, Capital Normal University, Beijing 100048, China
| | - Wen Lu
- College of Life Science, Capital Normal University, Beijing 100048, China
| | - Ying Wang
- College of Life Science, Capital Normal University, Beijing 100048, China
| | - Xiaoting Qi
- College of Life Science, Capital Normal University, Beijing 100048, China
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Yue R, Lu C, Qi J, Han X, Yan S, Guo S, Liu L, Fu X, Chen N, Yin H, Chi H, Tie S. Transcriptome Analysis of Cadmium-Treated Roots in Maize (Zea mays L.). FRONTIERS IN PLANT SCIENCE 2016; 7:1298. [PMID: 27630647 PMCID: PMC5006096 DOI: 10.3389/fpls.2016.01298] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2016] [Accepted: 08/15/2016] [Indexed: 05/05/2023]
Abstract
Cadmium (Cd) is a heavy metal and is highly toxic to all plant species. However, the underlying molecular mechanism controlling the effects of auxin on the Cd stress response in maize is largely unknown. In this study, the transcriptome produced by maize 'Zheng 58' root responses to Cd stress was sequenced using Illumina sequencing technology. In our study, six RNA-seq libraries yielded a total of 244 million clean short reads and 30.37 Gb of sequence data. A total of 6342 differentially expressed genes (DEGs) were grouped into 908 Gene Ontology (GO) categories and 198 Kyoto Encyclopedia of Genes and Genomes terms. GO term enrichment analysis indicated that various auxin signaling pathway-related GO terms were significantly enriched in DEGs. Comparison of the transcript abundances for auxin biosynthesis, transport, and downstream response genes revealed a universal expression response under Cd treatment. Furthermore, our data showed that free indole-3-acetic acid (IAA) levels were significantly reduced; but IAA oxidase activity was up-regulated after Cd treatment in maize roots. The analysis of Cd activity in maize roots under different Cd and auxin conditions confirmed that auxin affected Cd accumulation in maize seedlings. These results will improve our understanding of the complex molecular mechanisms underlying the response to Cd stress in maize roots.
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Affiliation(s)
- Runqing Yue
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Caixia Lu
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Jianshuang Qi
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Xiaohua Han
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Shufeng Yan
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Shulei Guo
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Lu Liu
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Xiaolei Fu
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Nana Chen
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Haiyan Yin
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Haifeng Chi
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
| | - Shuanggui Tie
- Food Crops Research Institute, Henan Academy of Agricultural SciencesZhengzhou, China
- The Henan Provincial Key Laboratory of Maize BiologyZhengzhou, China
- *Correspondence: Shuanggui Tie,
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