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Karle SB, Kumar K. Rice tonoplast intrinsic protein member OsTIP1;2 confers tolerance to arsenite stress. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133078. [PMID: 38056278 DOI: 10.1016/j.jhazmat.2023.133078] [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: 09/07/2023] [Revised: 10/23/2023] [Accepted: 11/22/2023] [Indexed: 12/08/2023]
Abstract
The International Agency for Research on Cancer categorizes arsenic (As) as a group I carcinogen. Arsenic exposure significantly reduces growth, development, metabolism, and crop yield. Tonoplast intrinsic proteins (TIPs) belong to the major intrinsic protein (MIP) superfamily and transport various substrates, including metals/metalloids. Our study aimed to characterize rice OsTIP1;2 in As[III] stress response. The gene expression analysis showed that the OsTIP1;2 expression was enhanced in roots on exposure to As[III] treatment. The heterologous expression of OsTIP1;2 in S. cerevisiae mutant lacking YCF1 (ycf1∆) complemented the As[III] transport function of the YCF1 transporter but not for boron (B) and arsenate As[V], indicating its substrate selective nature. The ycf1∆ mutant expressing OsTIP1;2 accumulated more As than the wild type (W303-1A) and ycf1∆ mutant strain carrying the pYES2.1 vector. OsTIP1;2 activity was partially inhibited in the presence of the aquaporin (AQP) inhibitors. The subcellular localization studies confirmed that OsTIP1;2 is localized to the tonoplast. The transient overexpression of OsTIP1;2 in Nicotiana benthamiana leaves resulted in increased activities of enzymatic and non-enzymatic antioxidants, suggesting a potential role in mitigating oxidative stress induced by As[III]. The transgenic N. tabacum overexpressing OsTIP1;2 displayed an As[III]-tolerant phenotype, with increased fresh weight and root length than the wild-type (WT) and empty vector (EV line). The As translocation factor (TF) for WT and EV was around 0.8, while that of OE lines was around 0.4. Moreover, the OE line bioconcentration factor (BCF) was more than 1. Notably, the reduced TF and increased BCF in the OE line imply the potential of OsTIP1;2 for phytostabilization.
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Affiliation(s)
- Suhas Balasaheb Karle
- Birla Institute of Technology and Science, Pilani, K K Birla Goa Campus, Goa 403726, India
| | - Kundan Kumar
- Birla Institute of Technology and Science, Pilani, K K Birla Goa Campus, Goa 403726, India.
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Paliwal S, Tripathi MK, Tiwari S, Tripathi N, Payasi DK, Tiwari PN, Singh K, Yadav RK, Asati R, Chauhan S. Molecular Advances to Combat Different Biotic and Abiotic Stresses in Linseed ( Linum usitatissimum L.): A Comprehensive Review. Genes (Basel) 2023; 14:1461. [PMID: 37510365 PMCID: PMC10379177 DOI: 10.3390/genes14071461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 07/11/2023] [Accepted: 07/14/2023] [Indexed: 07/30/2023] Open
Abstract
Flax, or linseed, is considered a "superfood", which means that it is a food with diverse health benefits and potentially useful bioactive ingredients. It is a multi-purpose crop that is prized for its seed oil, fibre, nutraceutical, and probiotic qualities. It is suited to various habitats and agro-ecological conditions. Numerous abiotic and biotic stressors that can either have a direct or indirect impact on plant health are experienced by flax plants as a result of changing environmental circumstances. Research on the impact of various stresses and their possible ameliorators is prompted by such expectations. By inducing the loss of specific alleles and using a limited number of selected varieties, modern breeding techniques have decreased the overall genetic variability required for climate-smart agriculture. However, gene banks have well-managed collectionns of landraces, wild linseed accessions, and auxiliary Linum species that serve as an important source of novel alleles. In the past, flax-breeding techniques were prioritised, preserving high yield with other essential traits. Applications of molecular markers in modern breeding have made it easy to identify quantitative trait loci (QTLs) for various agronomic characteristics. The genetic diversity of linseed species and the evaluation of their tolerance to abiotic stresses, including drought, salinity, heavy metal tolerance, and temperature, as well as resistance to biotic stress factors, viz., rust, wilt, powdery mildew, and alternaria blight, despite addressing various morphotypes and the value of linseed as a supplement, are the primary topics of this review.
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Affiliation(s)
- Shruti Paliwal
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Manoj Kumar Tripathi
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
- Department of Plant Molecular Biology and Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Sushma Tiwari
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
- Department of Plant Molecular Biology and Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Niraj Tripathi
- Directorate of Research Services, Jawaharlal Nehru Krishi Vishwa Vidyalaya, Jabalpur 482004, India
| | - Devendra K Payasi
- All India Coordinated Research Project on Linseed, Jawaharlal Nehru Krishi Vishwa Vidyalaya, Regional Agricultural Research Station, Sagar 470001, India
| | - Prakash N Tiwari
- Department of Plant Molecular Biology and Biotechnology, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Kirti Singh
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Rakesh Kumar Yadav
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Ruchi Asati
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
| | - Shailja Chauhan
- Department of Genetics and Plant Breeding, College of Agriculture, Rajmata Vijayaraje Scindia Krishi Vishwa Vidyalaya, Gwalior 474002, India
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Carey S, Zenchyzen B, Deneka AJ, Hall JC. Nectary development in Cleome violacea. FRONTIERS IN PLANT SCIENCE 2023; 13:1085900. [PMID: 36844906 PMCID: PMC9949531 DOI: 10.3389/fpls.2022.1085900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Accepted: 12/22/2022] [Indexed: 06/18/2023]
Abstract
Nectaries are a promising frontier for plant evo-devo research, and are particularly fascinating given their diversity in form, position, and secretion methods across angiosperms. Emerging model systems permit investigations of the molecular basis for nectary development and nectar secretion across a range of taxa, which addresses fundamental questions about underlying parallelisms and convergence. Herein, we explore nectary development and nectar secretion in the emerging model taxa, Cleome violacea (Cleomaceae), which exhibits a prominent adaxial nectary. First, we characterized nectary anatomy and quantified nectar secretion to establish a foundation for quantitative and functional gene experiments. Next, we leveraged RNA-seq to establish gene expression profiles of nectaries across three key stages of development: pre-anthesis, anthesis, and post-fertilization. We then performed functional studies on five genes that were putatively involved in nectary and nectar formation: CvCRABSCLAW (CvCRC), CvAGAMOUS (CvAG), CvSHATTERPROOF (CvSHP), CvSWEET9, and a highly expressed but uncharacterized transcript. These experiments revealed a high degree of functional convergence to homologues from other core Eudicots, especially Arabidopsis. CvCRC, redundantly with CvAG and CvSHP, are required for nectary initiation. Concordantly, CvSWEET9 is essential for nectar formation and secretion, which indicates that the process is eccrine based in C. violacea. While demonstration of conservation is informative to our understanding of nectary evolution, questions remain. For example, it is unknown which genes are downstream of the developmental initiators CvCRC, CvAG, and CvSHP, or what role the TCP gene family plays in nectary initiation in this family. Further to this, we have initiated a characterization of associations between nectaries, yeast, and bacteria, but more research is required beyond establishing their presence. Cleome violacea is an excellent model for continued research into nectary development because of its conspicuous nectaries, short generation time, and close taxonomic distance to Arabidopsis.
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Raturi G, Sharma Y, Rana V, Thakral V, Myaka B, Salvi P, Singh M, Dhar H, Deshmukh R. Exploration of silicate solubilizing bacteria for sustainable agriculture and silicon biogeochemical cycle. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 166:827-838. [PMID: 34225007 DOI: 10.1016/j.plaphy.2021.06.039] [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: 03/23/2021] [Revised: 05/22/2021] [Accepted: 06/21/2021] [Indexed: 06/13/2023]
Abstract
Silicon (Si), a quasi-essential element for plants, is abundant in the soil typically as insoluble silicate forms. However, plants can uptake Si only in the soluble form of monosilicic acid. Production of monosilicic acid by rock-weathering mostly depends on temperature, pH, redox-potential, water-content, and microbial activities. In the present review, approaches involved in the efficient exploration of silicate solubilizing bacteria (SSB), its potential applications, and available technological advances are discussed. Present understanding of Si uptake, deposition, and subsequent benefits to plants has also been discussed. In agricultural soils, pH is found to be one of the most critical factors deciding silicate solubilization and the formation of different Si compounds. Numerous studies have predicted the role of Indole-3-Acetic Acid (IAA) and organic acids produced by SSB in silicate solubilization. In this regard, approaches for the isolation and characterization of SSB, quantification of IAA, and subsequent Si solubilization mechanisms are addressed. Phylogenetic evaluation of previously reported SSB showed a highly diverse origin which provides an opportunity to study different mechanisms involved in Si solubilization. Soil biochemistry in concern of silicon availability, microbial activity and silicon mediated changes in plant physiology are addressed. In addition, SSB's role in Si-biogeochemical cycling is summarized. The information presented here will be helpful to explore the potential of SSB more efficiently to promote sustainable agriculture.
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Affiliation(s)
- Gaurav Raturi
- National Agri-Food Biotechnology Institute (NABI), Mohali, India; Department of Biotechnology, Panjab University, Chandigarh, India
| | - Yogesh Sharma
- National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Varnika Rana
- National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Vandana Thakral
- National Agri-Food Biotechnology Institute (NABI), Mohali, India; Department of Biotechnology, Panjab University, Chandigarh, India
| | - Balaraju Myaka
- National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Prafull Salvi
- National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Manish Singh
- Institute of Nano Science and Technology, Mohali, India
| | - Hena Dhar
- National Agri-Food Biotechnology Institute (NABI), Mohali, India.
| | - Rupesh Deshmukh
- National Agri-Food Biotechnology Institute (NABI), Mohali, India.
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Kumawat S, Khatri P, Ahmed A, Vats S, Kumar V, Jaswal R, Wang Y, Xu P, Mandlik R, Shivaraj SM, Deokar A, Sonah H, Sharma TR, Deshmukh R. Understanding aquaporin transport system, silicon and other metalloids uptake and deposition in bottle gourd (Lagenaria siceraria). JOURNAL OF HAZARDOUS MATERIALS 2021; 409:124598. [PMID: 33234398 DOI: 10.1016/j.jhazmat.2020.124598] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2020] [Revised: 11/01/2020] [Accepted: 11/13/2020] [Indexed: 06/11/2023]
Abstract
Aquaporins (AQPs) facilitates the transport of small solutes like water, urea, carbon dioxide, boron, and silicon (Si) and plays a critical role in important physiological processes. In this study, genome-wide characterization of AQPs was performed in bottle gourd. A total of 36 AQPs were identified in the bottle gourd, which were subsequently analyzed to understand the pore-morphology, exon-intron structure, subcellular-localization. In addition, available transcriptome data was used to study the tissue-specific expression. Several AQPs showed tissue-specific expression, more notably the LsiTIP3-1 having a high level of expression in flowers and fruits. Based on the in-silico prediction of solute specificity, LsiNIP2-1 was predicted to be a Si transporter. Silicon was quantified in different tissues, including root, young leaves, mature leaves, tendrils, and fruits of bottle gourd plants. More than 1.3% Si (d.w.) was observed in bottle gourd leaves, testified the in-silico predictions. Silicon deposition evaluated with an energy-dispersive X-ray coupled with a scanning electron microscope showed a high Si accumulation in the shaft of leaf trichomes. Similarly, co-localization of Si with arsenic and antimony was observed. Expression profiling performed with real-time quantitative PCR showed differential expression of AQPs in response to Si supplementation. The information provided in the present study will be helpful to better understand the AQP transport mechanism, particularly Si and other metalloids transport and localization in plants.
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Affiliation(s)
- Surbhi Kumawat
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India; Department of Biotechnology, Panjab University, Chandigarh, India
| | - Praveen Khatri
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Ashique Ahmed
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India; Darrang College, Tezpur, Sonitpur, Assam, India
| | - Sanskriti Vats
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Virender Kumar
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Rajdeep Jaswal
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Ying Wang
- Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, China
| | - Pei Xu
- College of Life Sciences, China Jiliang University, Hangzhou, China
| | - Rushil Mandlik
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India; Department of Biotechnology, Panjab University, Chandigarh, India
| | - S M Shivaraj
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Amit Deokar
- Department of Plant Sciences, Crop Development Centre, University of Saskatchewan, Saskatoon, Canada
| | - Humira Sonah
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India
| | - Tilak Raj Sharma
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India; Division of Crop Science, Indian Council of Agricultural Research, New Delhi, India
| | - Rupesh Deshmukh
- National Agri-Food Biotechnology Institute (NABI), Mohali, Punjab, India.
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Mundada PS, Ahire ML, Umdale SD, Barmukh RB, Nikam TD, Pable AA, Deshmukh RK, Barvkar VT. Characterization of influx and efflux silicon transporters and understanding their role in the osmotic stress tolerance in finger millet (Eleusine coracana (L.) Gaertn.). PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 162:677-689. [PMID: 33780741 DOI: 10.1016/j.plaphy.2021.03.033] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Accepted: 03/16/2021] [Indexed: 06/12/2023]
Abstract
Over the last decade, silicon (Si) has been widely accepted as a beneficial element for plant growth. The advantages plant derives from the Si are primarily based on the uptake and transport mechanisms. In the present study, the Si uptake regime was studied in finger millet (Eleusine coracana (L). Gaertn.) under controlled and stress conditions. The finger millet can efficiently uptake Si and accumulate it by more than 1% of dry weight in the leaf tissues, thus categorized as a Si accumulator. Subsequent evaluation with the single root assay revealed a three-fold higher Si uptake under osmatic stress than control. These results suggest that Si alleviated the PEG-induced stress by regulating the levels of osmolytes and antioxidant enzymes. Further, to understand the molecular mechanism involved in Si uptake, the Si influx (EcoLsi1 and EcoLsi6) and efflux transporters (EcoLsi2 and EcoLsi3) were identified and characterized. The comparative phylogenomic analysis of the influx transporter EcoLsi1 with other monocots revealed conserved features like aromatic/arginine (Ar/R) selectivity filters and pore morphology. Similarly, Si efflux transporter EcoLsi3 is highly homologous to other annotated efflux transporters. The transcriptome data revealed that the expression of both influx and efflux Si transporters was elevated due to Si supplementation under stress conditions. These findings suggest that stress elevates Si uptake in finger millet, and its transport is also regulated by the Si transporters. The present study will be helpful to better explore Si derived benefits in finger millet.
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Affiliation(s)
- Pankaj S Mundada
- Department of Botany, Savitribai Phule Pune University, Pune, 411 007, Maharashtra, India; Department of Biotechnology, Yashavantrao Chavan Institute of Science, Satara, 415 001, Maharashtra, India
| | - Mahendra L Ahire
- Department of Botany, Yashavantrao Chavan Institute of Science, Satara, 415 001, Maharashtra, India
| | - Suraj D Umdale
- Department of Botany, Jaysingpur College, Jaysingpur, 416 101, Maharashtra, India
| | - Rajkumar B Barmukh
- Department of Botany, Modern College of Arts, Science and Commerce, Pune, 411 005, Maharashtra, India
| | - Tukaram D Nikam
- Department of Botany, Savitribai Phule Pune University, Pune, 411 007, Maharashtra, India
| | - Anupama A Pable
- Department of Microbiology, Savitribai Phule Pune University, Pune, 411 007, Maharashtra, India
| | - Rupesh K Deshmukh
- National Agri-Food Biotechnology Institute, Mohali, 140 306, Punjab, India
| | - Vitthal T Barvkar
- Department of Botany, Savitribai Phule Pune University, Pune, 411 007, Maharashtra, India.
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Deshmukh R, Rana N, Liu Y, Zeng S, Agarwal G, Sonah H, Varshney R, Joshi T, Patil GB, Nguyen HT. Soybean transporter database: A comprehensive database for identification and exploration of natural variants in soybean transporter genes. PHYSIOLOGIA PLANTARUM 2021; 171:756-770. [PMID: 33231322 DOI: 10.1111/ppl.13287] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2020] [Revised: 10/05/2020] [Accepted: 11/17/2020] [Indexed: 06/11/2023]
Abstract
Transporters, a class of membrane proteins that facilitate exchange of solutes including diverse molecules and ions across the cellular membrane, are vital component for the survival of all organisms. Understanding plant transporters is important to get insight of the basic cellular processes, physiology, and molecular mechanisms including nutrient uptake, signaling, response to external stress, and many more. In this regard, extensive analysis of transporters predicted in soybean and other plant species was performed. In addition, an integrated database for soybean transporter protein, SoyTD, was developed that will facilitate the identification, classification, and extensive characterization of transporter proteins by integrating expression, gene ontology, conserved domain and motifs, gene structure organization, and chromosomal distribution features. A comprehensive analysis was performed to identify highly confident transporters by integrating various prediction tools. Initially, 7541 transmembrane (TM) proteins were predicted in the soybean genome; out of these, 3306 non-redundant transporter genes carrying two or more transmembrane domains were selected for further analysis. The identified transporter genes were classified according to a standard transporter classification (TC) system. Comparative analysis of transporter genes among 47 plant genomes provided insights into expansion and duplication of transporter genes in land plants. The whole genome resequencing (WGRS) and tissue-specific transcriptome datasets of soybean were integrated to investigate the natural variants and expression profile associated with transporter(s) of interest. Overall, SoyTD provides a comprehensive interface to study genetic and molecular function of soybean transporters. SoyTD is publicly available at http://artemis.cyverse.org/soykb_dev/SoyTD/.
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Affiliation(s)
- Rupesh Deshmukh
- Agriculture Biotechnology Department, National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Nitika Rana
- Agriculture Biotechnology Department, National Agri-Food Biotechnology Institute (NABI), Mohali, India
- Department of Biotechnology, Panjab University, Chandigarh, India
| | - Yang Liu
- Christopher S. Bond Life Science Center, University of Missouri, Columbia, Missouri, USA
| | - Shuai Zeng
- Christopher S. Bond Life Science Center, University of Missouri, Columbia, Missouri, USA
- Department of Electrical Engineering and Computer Science, University of Missouri, Columbia, Missouri, USA
| | - Gaurav Agarwal
- Department of Plant Pathology, University of Georgia, Tifton, Georgia, USA
| | - Humira Sonah
- Agriculture Biotechnology Department, National Agri-Food Biotechnology Institute (NABI), Mohali, India
| | - Rajeev Varshney
- Center of Excellence in Genomics and System Biology, International Crops Research Institute for the Semi-Arid Tropics, Hyderabad, India
| | - Trupti Joshi
- Christopher S. Bond Life Science Center, University of Missouri, Columbia, Missouri, USA
- Department of Electrical Engineering and Computer Science, University of Missouri, Columbia, Missouri, USA
| | - Gunvant B Patil
- Department of Plant and Soil Sciences, Institute of Genomics for Crop Abiotic Stress Tolerance, Texas Tech University, Lubbock, Texas, USA
| | - Henry T Nguyen
- Division of Plant Science, National Center for Soybean Biotechnology, University of Missouri, Columbia, Missouri, USA
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