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Liu L, Yahaya BS, Li J, Wu F. Enigmatic role of auxin response factors in plant growth and stress tolerance. FRONTIERS IN PLANT SCIENCE 2024; 15:1398818. [PMID: 38903418 PMCID: PMC11188990 DOI: 10.3389/fpls.2024.1398818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Accepted: 05/23/2024] [Indexed: 06/22/2024]
Abstract
Abiotic and biotic stresses globally constrain plant growth and impede the optimization of crop productivity. The phytohormone auxin is involved in nearly every aspect of plant development. Auxin acts as a chemical messenger that influences gene expression through a short nuclear pathway, mediated by a family of specific DNA-binding transcription factors known as Auxin Response Factors (ARFs). ARFs thus act as effectors of auxin response and translate chemical signals into the regulation of auxin responsive genes. Since the initial discovery of the first ARF in Arabidopsis, advancements in genetics, biochemistry, genomics, and structural biology have facilitated the development of models elucidating ARF action and their contributions to generating specific auxin responses. Yet, significant gaps persist in our understanding of ARF transcription factors despite these endeavors. Unraveling the functional roles of ARFs in regulating stress response, alongside elucidating their genetic and molecular mechanisms, is still in its nascent phase. Here, we review recent research outcomes on ARFs, detailing their involvement in regulating leaf, flower, and root organogenesis and development, as well as stress responses and their corresponding regulatory mechanisms: including gene expression patterns, functional characterization, transcriptional, post-transcriptional and post- translational regulation across diverse stress conditions. Furthermore, we delineate unresolved questions and forthcoming challenges in ARF research.
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Affiliation(s)
- Ling Liu
- Faculty of Agriculture, Forestry and Food Engineering, Yibin University, Yibin, Sichuan, China
| | - Baba Salifu Yahaya
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan, China
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture, Wenjiang, Sichuan, China
| | - Jing Li
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan, China
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture, Wenjiang, Sichuan, China
| | - Fengkai Wu
- Maize Research Institute, Sichuan Agricultural University, Wenjiang, Sichuan, China
- Key Laboratory of Biology and Genetic Improvement of Maize in Southwest Region, Ministry of Agriculture, Wenjiang, Sichuan, China
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2
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Setty J, Samant SB, Yadav MK, Manjubala M, Pandurangam V. Beneficial effects of bio-fabricated selenium nanoparticles as seed nanopriming agent on seed germination in rice (Oryza sativa L.). Sci Rep 2023; 13:22349. [PMID: 38102184 PMCID: PMC10724239 DOI: 10.1038/s41598-023-49621-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Accepted: 12/10/2023] [Indexed: 12/17/2023] Open
Abstract
Climate change and increasing population pressure have put the agriculture sector in an arduous situation. With increasing demand for agricultural production overuse of inputs have accentuated the negative impact on environment. Hence, sustainable agriculture is gaining prominence in recent times with an emphasis on judicious and optimum use of resources. The field of nanotechnology can immensely help in achieving sustainability in agriculture at various levels. Use of nutrients and plant protection chemicals in nano-form can increase their efficacy even at reduced doses thus decreasing their pernicious impact. Seed priming is one of the important agronomic practices with widely reported positive impacts on germination, seedling growth and pathogen resistance. In the current study, the effect and efficacy of selenium nanoparticles synthesized using phyto-extracts as a seed priming agent is studied. This nanopriming enhanced the germination, hastened the seedling emergence and growth with an increase in seedling vigour and nutrient status. This eco-friendly and economical method of synthesizing nanoparticles of various nutrient minerals can optimize the resource use thus helping in sustainable agriculture by reducing environment damage without compromising on efficacy.
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Affiliation(s)
- Jyotsna Setty
- Department of Plant Physiology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, Uttar Pradesh, India.
| | - Sanjib Bal Samant
- Department of Plant Physiology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, Uttar Pradesh, India
| | - Mayank Kumar Yadav
- Department of Mechanical and Industrial Engineering, Tallinn University of Technology, Tallinn, Estonia
| | - M Manjubala
- Department of Farm Engineering and Agricultural Statistics, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, Uttar Pradesh, India
| | - Vijai Pandurangam
- Department of Plant Physiology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, 221005, Uttar Pradesh, India.
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3
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Zharmukhamedov SK, Shabanova MS, Huseynova IM, Karacan MS, Karacan N, Akar H, Kreslavski VD, Alharby HF, Bruce BD, Allakhverdiev SI. Probing the Influence of Novel Organometallic Copper(II) Complexes on Spinach PSII Photochemistry Using OJIP Fluorescence Transient Measurements. Biomolecules 2023; 13:1058. [PMID: 37509094 PMCID: PMC10377486 DOI: 10.3390/biom13071058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Revised: 06/26/2023] [Accepted: 06/27/2023] [Indexed: 07/30/2023] Open
Abstract
Modern agricultural cultivation relies heavily on genetically modified plants that survive after exposure to herbicides that kill weeds. Despite this biotechnology, there is a growing need for new sustainable, environmentally friendly, and biodegradable herbicides. We developed a novel [CuL2]Br2 complex (L = bis{4H-1,3,5-triazino[2,1-b]benzothiazole-2-amine,4-(2-imidazole) that is active on PSII by inhibiting photosynthetic oxygen evolution on the micromolar level. [CuL2]Br2 reduces the FV of PSII fluorescence. Artificial electron donors do not rescind the effect of [CuL2]Br2. The inhibitory mechanism of [CuL2]Br2 remains unclear. To explore this mechanism, we investigated the effect of [CuL2]Br2 in the presence/absence of the well-studied inhibitor DCMU on PSII-containing membranes by OJIP Chl fluorescence transient measurements. [CuL2]Br2 has two effects on Chl fluorescence transients: (1) a substantial decrease of the Chl fluorescence intensity throughout the entire kinetics, and (2) an auxiliary "diuron-like" effect. The initial decrease dominates and is observed both with and without DCMU. In contrast, the "diuron-like" effect is small and is observed only without DCMU. We propose that [CuL2]Br2 has two binding sites for PSII with different affinities. At the high-affinity site, [CuL2]Br2 produces effects similar to PSII reaction center inhibition, while at the low-affinity site, [CuL2]Br2 produces effects identical to those of DCMU. These results are compared with other PSII-specific classes of herbicides.
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Affiliation(s)
| | - Mehriban S Shabanova
- Bionanotechnology Laboratory, Institute of Molecular Biology and Biotechnology, Azerbaijan National Academy of Sciences, AZ1143 Baku, Azerbaijan
| | - Irada M Huseynova
- Bionanotechnology Laboratory, Institute of Molecular Biology and Biotechnology, Azerbaijan National Academy of Sciences, AZ1143 Baku, Azerbaijan
| | - Mehmet Sayım Karacan
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | - Nurcan Karacan
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | - Hande Akar
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | | | - Hesham F Alharby
- Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Jeddah 21589, Saudi Arabia
| | - Barry D Bruce
- Departments of Biochemistry & Cellular and Molecular Biology, Chemical and Biomolecular Engineering and Microbiology, University of Tennessee, Knoxville, TN 37996, USA
| | - Suleyman I Allakhverdiev
- Institute of Basic Biological Problems, FRC PSCBR RAS, 142290 Pushchino, Russia
- K.A. Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, Botanicheskaya Street 35, 127276 Moscow, Russia
- Faculty of Engineering and Natural Sciences, Bahcesehir University, Istanbul 34349, Turkey
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4
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Ahmad N, Fatima S, Mehmood MA, Zaman QU, Atif RM, Zhou W, Rahman MU, Gill RA. Targeted genome editing in polyploids: lessons from Brassica. FRONTIERS IN PLANT SCIENCE 2023; 14:1152468. [PMID: 37409308 PMCID: PMC10318174 DOI: 10.3389/fpls.2023.1152468] [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: 01/27/2023] [Accepted: 04/11/2023] [Indexed: 07/07/2023]
Abstract
CRISPR-mediated genome editing has emerged as a powerful tool for creating targeted mutations in the genome for various applications, including studying gene functions, engineering resilience against biotic and abiotic stresses, and increasing yield and quality. However, its utilization is limited to model crops for which well-annotated genome sequences are available. Many crops of dietary and economic importance, such as wheat, cotton, rapeseed-mustard, and potato, are polyploids with complex genomes. Therefore, progress in these crops has been hampered due to genome complexity. Excellent work has been conducted on some species of Brassica for its improvement through genome editing. Although excellent work has been conducted on some species of Brassica for genome improvement through editing, work on polyploid crops, including U's triangle species, holds numerous implications for improving other polyploid crops. In this review, we summarize key examples from genome editing work done on Brassica and discuss important considerations for deploying CRISPR-mediated genome editing more efficiently in other polyploid crops for improvement.
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Affiliation(s)
- Niaz Ahmad
- National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, Pakistan
| | - Samia Fatima
- National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, Pakistan
| | - Muhammad Aamer Mehmood
- Department of Bioinformatics & Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Qamar U. Zaman
- Hainan Yazhou Bay Seed Laboratory, Sanya Nanfan Research Institute of Hainan University, Sanya, China
- College of Tropical Crops, Hainan University, Haikou, China
| | - Rana Muhammad Atif
- National Center of Genome Editing, Center of Advanced Studies, Agriculture and Food Security, University of Agriculture, Faisalabad, Pakistan
- Department of Plant Breeding and Genetics, University of Agriculture Faisalabad, Faisalabad, Pakistan
| | - Weijun Zhou
- Ministry of Agriculture and Rural Affairs Key Lab of Spectroscopy Sensing, Institute of Crop Science, Zhejiang University, Hangzhou, China
| | - Mehboob-ur Rahman
- National Institute for Biotechnology and Genetic Engineering College, Pakistan Institute of Engineering and Applied Sciences (PIEAS), Faisalabad, Pakistan
| | - Rafaqat Ali Gill
- Key Laboratory for Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture and Rural Affairs, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
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5
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Li G, Sun CP, Dong H. Geodesic path for the optimal nonequilibrium transition: Momentum-independent protocol. Phys Rev E 2023; 107:014103. [PMID: 36797908 DOI: 10.1103/physreve.107.014103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 12/15/2022] [Indexed: 01/07/2023]
Abstract
Accelerating controlled thermodynamic processes requires an auxiliary Hamiltonian to steer the system into instantaneous equilibrium states. An extra energy cost is inevitably needed in such finite-time operation. We recently developed a geodesic approach to minimize such energy cost for the shortcut to isothermal process. The auxiliary control typically contains momentum-dependent terms, which are hard to be experimentally implemented due to the requirement of constantly monitoring the speed. In this work, we employ a variational auxiliary control without the momentum-dependent force to approximate the exact control. Following the geometric approach, we obtain the optimal control protocol with variational minimum energy cost. We demonstrate the construction of such protocol via an example of Brownian motion with a controllable harmonic potential.
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Affiliation(s)
- Geng Li
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
| | - C P Sun
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China.,Beijing Computational Science Research Center, Beijing 100193, China
| | - Hui Dong
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
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6
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Wang X, Chang C. Exploring and exploiting cuticle biosynthesis for abiotic and biotic stress tolerance in wheat and barley. FRONTIERS IN PLANT SCIENCE 2022; 13:1064390. [PMID: 36438119 PMCID: PMC9685406 DOI: 10.3389/fpls.2022.1064390] [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: 10/08/2022] [Accepted: 10/24/2022] [Indexed: 06/16/2023]
Abstract
Wheat and barley are widely distributed cereal crops whose yields are adversely affected by environmental stresses such as drought, salinity, extreme temperatures, and attacks of pathogens and pests. As the interphase between aerial plant organs and their environments, hydrophobic cuticle largely consists of a cutin matrix impregnated and sealed with cuticular waxes. Increasing evidence supports that the cuticle plays a key role in plant adaptation to abiotic and biotic stresses, which could be harnessed for wheat and barley improvement. In this review, we highlighted recent advances in cuticle biosynthesis and its multifaceted roles in abiotic and biotic stress tolerance of wheat and barley. Current strategies, challenges, and future perspectives on manipulating cuticle biosynthesis for abiotic and biotic stress tolerance in wheat and barley are discussed.
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7
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Zharmukhamedov SK, Shabanova MS, Rodionova MV, Huseynova IM, Karacan MS, Karacan N, Aşık KB, Kreslavski VD, Alwasel S, Allakhverdiev SI. Effects of Novel Photosynthetic Inhibitor [CuL2]Br2 Complex on Photosystem II Activity in Spinach. Cells 2022; 11:cells11172680. [PMID: 36078088 PMCID: PMC9455146 DOI: 10.3390/cells11172680] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Revised: 08/24/2022] [Accepted: 08/25/2022] [Indexed: 11/25/2022] Open
Abstract
The effects of the novel [CuL2]Br2 complex (L = bis{4H-1,3,5-triazino [2,1-b]benzothiazole-2-amine,4-(2-imidazole)}copper(II) bromide complex) on the photosystem II (PSII) activity of PSII membranes isolated from spinach were studied. The absence of photosynthetic oxygen evolution by PSII membranes without artificial electron acceptors, but in the presence of [CuL2]Br2, has shown that it is not able to act as a PSII electron acceptor. In the presence of artificial electron acceptors, [CuL2]Br2 inhibits photosynthetic oxygen evolution. [CuL2]Br2 also suppresses the photoinduced changes of the PSII chlorophyll fluorescence yield (FV) related to the photoreduction of the primary quinone electron acceptor, QA. The inhibition of both characteristic PSII reactions depends on [CuL2]Br2 concentration. At all studied concentrations of [CuL2]Br2, the decrease in the FM level occurs exclusively due to a decrease in Fv. [CuL2]Br2 causes neither changes in the F0 level nor the retardation of the photoinduced rise in FM, which characterizes the efficiency of the electron supply from the donor-side components to QA through the PSII reaction center (RC). Artificial electron donors (sodium ascorbate, DPC, Mn2+) do not cancel the inhibitory effect of [CuL2]Br2. The dependences of the inhibitory efficiency of the studied reactions of PSII on [CuL2]Br2 complex concentration practically coincide. The inhibition constant Ki is about 16 µM, and logKi is 4.8. As [CuL2]Br2 does not change the aromatic amino acids’ intrinsic fluorescence of the PSII protein components, it can be proposed that [CuL2]Br2 has no significant effect on the native state of PSII proteins. The results obtained in the present study are compared to the literature data concerning the inhibitory effects of PSII Cu(II) aqua ions and Cu(II)-organic complexes.
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Affiliation(s)
- Sergey K. Zharmukhamedov
- Institute of Basic Biological Problems, FRC PSCBR RAS, 142290 Pushchino, Russia
- Correspondence: (S.K.Z.); (S.I.A.)
| | - Mehriban S. Shabanova
- Bionanotechnology Laboratory, Institute of Molecular Biology and Biotechnology, Azerbaijan National Academy of Sciences, AZ1073 Baku, Azerbaijan
| | - Margarita V. Rodionova
- K.A. Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, Botanicheskaya Street 35, 127276 Moscow, Russia
| | - Irada M. Huseynova
- Bionanotechnology Laboratory, Institute of Molecular Biology and Biotechnology, Azerbaijan National Academy of Sciences, AZ1073 Baku, Azerbaijan
| | - Mehmet Sayım Karacan
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | - Nurcan Karacan
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | - Kübra Begüm Aşık
- Department of Chemistry, Science Faculty, Gazi University, Teknikokullar, Ankara 06500, Turkey
| | | | - Saleh Alwasel
- College of Science, King Saud University, Riyadh 12372, Saudi Arabia
| | - Suleyman I. Allakhverdiev
- Institute of Basic Biological Problems, FRC PSCBR RAS, 142290 Pushchino, Russia
- Bionanotechnology Laboratory, Institute of Molecular Biology and Biotechnology, Azerbaijan National Academy of Sciences, AZ1073 Baku, Azerbaijan
- K.A. Timiryazev Institute of Plant Physiology, Russian Academy of Sciences, Botanicheskaya Street 35, 127276 Moscow, Russia
- Department of Plant Physiology, Faculty of Biology, M.V. Lomonosov Moscow State University, Leninskie Gory 1-12, 119991 Moscow, Russia
- Correspondence: (S.K.Z.); (S.I.A.)
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8
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Li G, Chen JF, Sun CP, Dong H. Geodesic Path for the Minimal Energy Cost in Shortcuts to Isothermality. PHYSICAL REVIEW LETTERS 2022; 128:230603. [PMID: 35749200 DOI: 10.1103/physrevlett.128.230603] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2021] [Revised: 02/23/2022] [Accepted: 05/03/2022] [Indexed: 06/15/2023]
Abstract
Shortcuts to isothermality are driving strategies to steer the system to its equilibrium states within finite time, and enable evaluating the impact of a control promptly. Finding the optimal scheme to minimize the energy cost is of critical importance in applications of this strategy in pharmaceutical drug tests, biological selection, and quantum computation. We prove the equivalence between designing the optimal scheme and finding the geodesic path in the space of control parameters. Such equivalence allows a systematic and universal approach to find the optimal control to reduce the energy cost. We demonstrate the current method with examples of a Brownian particle trapped in controllable harmonic potentials.
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Affiliation(s)
- Geng Li
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
| | - Jin-Fu Chen
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
- Beijing Computational Science Research Center, Beijing 100193, China
| | - C P Sun
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
- Beijing Computational Science Research Center, Beijing 100193, China
| | - Hui Dong
- Graduate School of China Academy of Engineering Physics, Beijing 100193, China
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9
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Adhikary S, Biswas B, Chakraborty D, Timsina J, Pal S, Chandra Tarafdar J, Banerjee S, Hossain A, Roy S. Seed priming with selenium and zinc nanoparticles modifies germination, growth, and yield of direct-seeded rice (Oryza sativa L.). Sci Rep 2022; 12:7103. [PMID: 35501374 PMCID: PMC9061837 DOI: 10.1038/s41598-022-11307-4] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Accepted: 04/14/2022] [Indexed: 11/09/2022] Open
Abstract
Direct-seeded rice (DSR) seeds are often exposed to multiple environmental stresses in the field, leading to poor emergence, growth and productivity. Appropriate seed priming agents may help to overcome these challenges by ensuring uniform seed germination, and better seedling stand establishment. To examine the effectiveness of sodium selenite (Na-selenite), sodium selenate (Na-selenate), zinc oxide nanoparticles (ZnO-NPs), and their combinations as priming agents for DSR seeds, a controlled pot experiment followed by a field experiment over two consecutive years was conducted on a sandy clay loam soil (Inceptisol) in West Bengal, India. Priming with combinations of all priming agents had advantages over the hydro-priming treatment (control). All the combinations of the three priming agents resulted in the early emergence of seedlings with improved vigour. In the field experiment, all the combinations increased the plant chlorophyll, phenol and protein contents, leaf area index and duration, crop growth rate, uptake of nutrients (N, P, K, B, Zn and Si), and yield of DSR over the control. Our findings suggest that seed priming with the combination of ZnO-NPs, Na-selenite, and Na-selenate could be a viable option for the risk mitigation in DSR.
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Affiliation(s)
- Saju Adhikary
- Department of Agronomy, Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, Nadia, West Bengal, 741 252, India
| | - Benukar Biswas
- Department of Agronomy, Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, Nadia, West Bengal, 741 252, India.
| | - Debashis Chakraborty
- Division of Agricultural Physics, Indian Agricultural Research Institute, New Delhi, 110 012, India.
| | - Jagadish Timsina
- Global Evergreening Alliance, 1 Vision Drive, East Burwood, Melbourne, VIC, 3151, Australia.
- Institute for Study and Development Worldwide, Sydney, NSW, Australia.
| | - Srikumar Pal
- Department of Agricultural Biochemistry, Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, Nadia, West Bengal, 741 252, India
| | - Jagadish Chandra Tarafdar
- Ex-Scientist, Central Arid Zone Research Institute, 17E/361A, C. H. B., Jodhpur, 342008, India
- 32/E/2/1, BanamalipurBarasat, Kolkata, West Bengal, 700124, India
| | - Saon Banerjee
- Department of Agricultural Physics and Meteorology, Bidhan Chandra Krishi Viswavidyalaya, Mohanpur, Nadia, West Bengal, 741 252, India
| | - Akbar Hossain
- Bangladesh Wheat and Maize Research Institute, Dinajpur, 5200, Bangladesh
| | - Sovan Roy
- Department of Science & Technology and Biotechnology, Vigyan Chetana Bhavan, Kolkata, West Bengal, 700064, India
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Mir RA, Bhat BA, Yousuf H, Islam ST, Raza A, Rizvi MA, Charagh S, Albaqami M, Sofi PA, Zargar SM. Multidimensional Role of Silicon to Activate Resilient Plant Growth and to Mitigate Abiotic Stress. FRONTIERS IN PLANT SCIENCE 2022; 13:819658. [PMID: 35401625 PMCID: PMC8984490 DOI: 10.3389/fpls.2022.819658] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Accepted: 01/31/2022] [Indexed: 05/16/2023]
Abstract
Sustainable agricultural production is critically antagonistic by fluctuating unfavorable environmental conditions. The introduction of mineral elements emerged as the most exciting and magical aspect, apart from the novel intervention of traditional and applied strategies to defend the abiotic stress conditions. The silicon (Si) has ameliorating impacts by regulating diverse functionalities on enhancing the growth and development of crop plants. Si is categorized as a non-essential element since crop plants accumulate less during normal environmental conditions. Studies on the application of Si in plants highlight the beneficial role of Si during extreme stressful conditions through modulation of several metabolites during abiotic stress conditions. Phytohormones are primary plant metabolites positively regulated by Si during abiotic stress conditions. Phytohormones play a pivotal role in crop plants' broad-spectrum biochemical and physiological aspects during normal and extreme environmental conditions. Frontline phytohormones include auxin, cytokinin, ethylene, gibberellin, salicylic acid, abscisic acid, brassinosteroids, and jasmonic acid. These phytohormones are internally correlated with Si in regulating abiotic stress tolerance mechanisms. This review explores insights into the role of Si in enhancing the phytohormone metabolism and its role in maintaining the physiological and biochemical well-being of crop plants during diverse abiotic stresses. Moreover, in-depth information about Si's pivotal role in inducing abiotic stress tolerance in crop plants through metabolic and molecular modulations is elaborated. Furthermore, the potential of various high throughput technologies has also been discussed in improving Si-induced multiple stress tolerance. In addition, a special emphasis is engrossed in the role of Si in achieving sustainable agricultural growth and global food security.
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Affiliation(s)
- Rakeeb Ahmad Mir
- Department of Biotechnology, School of Life Sciences, Central University of Kashmir, Ganderbal, India
| | | | - Henan Yousuf
- Department of Biotechnology, School of Biosciences and Biotechnology, Baba Ghulam Shah Badshah University, Rajouri, India
| | | | - Ali Raza
- Key Laboratory of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, Oil Crops Research Institute, Center of Legume Crop Genetics and Systems Biology/College of Agriculture, Fujian Agriculture and Forestry University (FAFU), Fuzhou, China
| | | | - Sidra Charagh
- State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Science, Hangzhou, China
| | - Mohammed Albaqami
- Department of Biology, Faculty of Applied Science, Umm Al-Qura University, Makkah, Saudi Arabia
| | - Parvaze A. Sofi
- Division of Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Srinagar, India
| | - Sajad Majeed Zargar
- Proteomics Laboratory, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir (SKUAST-K), Srinagar, India
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Yamunarani R, Ramegowda V, Senthil-Kumar M, Mysore KS. High-Throughput Analysis of Gene Function under Multiple Abiotic Stresses Using Leaf Disks from Silenced Plants. Methods Mol Biol 2022; 2408:181-189. [PMID: 35325423 DOI: 10.1007/978-1-0716-1875-2_12] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The high throughputness and affordability of "omics" technologies is leading to the identification of a large number of abiotic stress genes, with many of them responsive to multiple stresses. In vivo functional characterization of these genes under multiple stresses is challenging but essential to develop resilient crops for the changing climate. Here we describe a high-throughput Virus-Induced Gene Silencing-based methodology for functional analysis of genes under multiple abiotic stresses using leaf disks. Leaves with maximal silencing, which is localized to only a few leaves and to a short period, can be effectively used for multiple stress imposition and stress affect quantification.
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Affiliation(s)
- Ramegowda Yamunarani
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bangalore, India
| | - Venkategowda Ramegowda
- Department of Crop Physiology, University of Agricultural Sciences, GKVK, Bangalore, India.
| | | | - Kirankumar S Mysore
- Institute for Agricultural Biosciences, Oklahoma State University, Ardmore, OK, USA
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12
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Fazal A, Wen Z, Yang M, Liao Y, Fu J, He C, Wang X, Jie W, Ali F, Hu D, Yin T, Hong Z, Lu G, Qi J, Yang Y. Deciphering the rhizobacterial assemblages under the influence of genetically engineered maize carrying mcry genes. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:60154-60166. [PMID: 34151402 DOI: 10.1007/s11356-021-14901-7] [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: 03/29/2021] [Accepted: 06/10/2021] [Indexed: 06/13/2023]
Abstract
Genetically engineered (GE) maize has been thoroughly studied regarding its agro-environmental impact; however, its concerns for the soil environment remain. This work was aimed to decode rhizosphere microbe interactions and potential ecological hazards associated with GE maize. Rhizobacterial communities of field grown transgenic insect-resistant 2A5 maize carrying mcry1Ab and mcry2Ab genes were compared with control Z58 using PacBio sequencing platform. Also full-length 16S rDNA gene sequencing was used to verify the partial (V3-V4) sequencing results obtained in 2017. Measures of α-diversity displayed transgenic 2A5 to be significantly lower in species richness at the flowering stage; however, diversity remained undisturbed. β-diversity was least affected by genetic modifications where similar community profiles were shared by transgenic 2A5 and control Z58. In addition, root exudation patterns were found to drive variations in bacterial assemblages based on developmental stages. For example, genus Massilia successfully colonized the rhizosphere at jointing stage, while Mucilaginobacter showed higher relative abundance in flowering stages of both 2A5 and Z58. These members are known to possess attributes related to plant growth. The impact of dual-transgene insertion on nifH gene abundance was also analyzed where no apparent significant difference in nifH gene copy number was observed. Our results confirmed that full-length 16S rDNA sequencing was sufficient to provide higher taxonomic resolution. Also, results of our 2-year field trials confirmed that there is no significant impact of mcry gene integration on belowground biomasses. Therefore, GE insect-resistant 2A5 maize carrying mcry1Ab and mcry2Ab genes can continue to benefit human populations by increasing crop productivity. In future, further research needs to be catalyzed to analyze the impact of Bt-insertion on microbial community structure across the years for ecosystem sustainability.
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Affiliation(s)
- Aliya Fazal
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Zhongling Wen
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Minkai Yang
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Yonghui Liao
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Jiangyan Fu
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Cong He
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Xuan Wang
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Wencai Jie
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Farman Ali
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Dongqing Hu
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Tongming Yin
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China
| | - Zhi Hong
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China
| | - Guihua Lu
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
- School of Life Sciences, Huaiyin Normal University, Huaian, 223300, China.
| | - Jinliang Qi
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.
| | - Yonghua Yang
- Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing, 210023, China.
- Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, 210037, China.
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13
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Syombua ED, Tripathi JN, Obiero GO, Nguu EK, Yang B, Wang K, Tripathi L. Potential applications of the CRISPR/Cas technology for genetic improvement of yam (
Dioscorea
spp.). Food Energy Secur 2021. [DOI: 10.1002/fes3.330] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Affiliation(s)
- Easter D. Syombua
- International Institute of Tropical Agriculture (IITA) Nairobi Kenya
- Centre for Biotechnology and Bioinformatics (CEBIB) University of Nairobi Nairobi Kenya
| | | | - George O. Obiero
- Centre for Biotechnology and Bioinformatics (CEBIB) University of Nairobi Nairobi Kenya
| | - Edward K. Nguu
- Department of Biochemistry University of Nairobi Nairobi Kenya
| | - Bing Yang
- Division of Plant Sciences Bond Life Sciences Center University of Missouri Columbia MO USA
- Donald Danforth Plant Science Center St. Louis MO USA
| | - Kan Wang
- Department of Agronomy Iowa State University Ames IA USA
| | - Leena Tripathi
- International Institute of Tropical Agriculture (IITA) Nairobi Kenya
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14
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Ahmad N, Nielsen BL, Mansoor S. Editing the plastid genome of recalcitrant plant species. Trends Genet 2021; 37:955-957. [PMID: 34412923 DOI: 10.1016/j.tig.2021.08.001] [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: 08/04/2021] [Accepted: 08/04/2021] [Indexed: 10/20/2022]
Abstract
Transformation of the chloroplast genome offers key advantages over traditional methods for generating transgenic plants, but this approach is limited to a few plant species. Nakazato et al. have developed a novel technique that will help to extend the technology to other plant species that are recalcitrant to current tissue culture-based chloroplast transformation protocols.
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Affiliation(s)
- Niaz Ahmad
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, 38000, Pakistan
| | - Brent L Nielsen
- Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, USA
| | - Shahid Mansoor
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, 38000, Pakistan.
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15
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Abu-Ghosh S, Dubinsky Z, Verdelho V, Iluz D. Unconventional high-value products from microalgae: A review. BIORESOURCE TECHNOLOGY 2021; 329:124895. [PMID: 33713898 DOI: 10.1016/j.biortech.2021.124895] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2021] [Revised: 02/18/2021] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
Microalgae have gained significant importance in biotechnology development, providing valuable goods and services in multiple applications. Although there is a rising market for most of these applications, the incorporation and introduction of microalgae into new venues will extend in the near future. These advances are due to the vast biodiversity of microalgal species, recent genetic engineering tools, and culture techniques. There are three main possible approaches for novel algal compounds from: (1) recently isolated yet less known microalgae; (2) selectively stressed conditions; and (3) enzymatically adjusted compounds from conventional molecules. All these approaches can be combined in a specific manner. This review discusses the opportunities, potential and limitations of introducing novel microalgae-based products, and how the recent technologies can be deployed to make these products financially viable. To give an outlook to the future, an analysis of the developments and predicted future market that further enlarge the promise of cultivating microalgae for commercial purposes are considered.
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Affiliation(s)
- Said Abu-Ghosh
- The Mina and Everard Goodman, Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan 5290002, Israel.
| | - Zvy Dubinsky
- The Mina and Everard Goodman, Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan 5290002, Israel
| | - Vitor Verdelho
- General Manager of the European Algae Biomass Association (EABA), Portugal
| | - David Iluz
- The Mina and Everard Goodman, Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan 5290002, Israel; Department of Environmental Sciences and Agriculture, Beit Berl Academic College, Israel; Talpiot academic College, Holon, Israel
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16
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Zenda T, Liu S, Dong A, Duan H. Advances in Cereal Crop Genomics for Resilience under Climate Change. Life (Basel) 2021; 11:502. [PMID: 34072447 PMCID: PMC8228855 DOI: 10.3390/life11060502] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Revised: 05/21/2021] [Accepted: 05/25/2021] [Indexed: 12/12/2022] Open
Abstract
Adapting to climate change, providing sufficient human food and nutritional needs, and securing sufficient energy supplies will call for a radical transformation from the current conventional adaptation approaches to more broad-based and transformative alternatives. This entails diversifying the agricultural system and boosting productivity of major cereal crops through development of climate-resilient cultivars that can sustainably maintain higher yields under climate change conditions, expanding our focus to crop wild relatives, and better exploitation of underutilized crop species. This is facilitated by the recent developments in plant genomics, such as advances in genome sequencing, assembly, and annotation, as well as gene editing technologies, which have increased the availability of high-quality reference genomes for various model and non-model plant species. This has necessitated genomics-assisted breeding of crops, including underutilized species, consequently broadening genetic variation of the available germplasm; improving the discovery of novel alleles controlling important agronomic traits; and enhancing creation of new crop cultivars with improved tolerance to biotic and abiotic stresses and superior nutritive quality. Here, therefore, we summarize these recent developments in plant genomics and their application, with particular reference to cereal crops (including underutilized species). Particularly, we discuss genome sequencing approaches, quantitative trait loci (QTL) mapping and genome-wide association (GWAS) studies, directed mutagenesis, plant non-coding RNAs, precise gene editing technologies such as CRISPR-Cas9, and complementation of crop genotyping by crop phenotyping. We then conclude by providing an outlook that, as we step into the future, high-throughput phenotyping, pan-genomics, transposable elements analysis, and machine learning hold much promise for crop improvements related to climate resilience and nutritional superiority.
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Affiliation(s)
- Tinashe Zenda
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding 071001, China; (S.L.); (A.D.)
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China
- Department of Crop Science, Faculty of Agriculture and Environmental Science, Bindura University of Science Education, Bindura P. Bag 1020, Zimbabwe
| | - Songtao Liu
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding 071001, China; (S.L.); (A.D.)
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China
| | - Anyi Dong
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding 071001, China; (S.L.); (A.D.)
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China
| | - Huijun Duan
- State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding 071001, China; (S.L.); (A.D.)
- North China Key Laboratory for Crop Germplasm Resources of the Education Ministry, Hebei Agricultural University, Baoding 071001, China
- Department of Crop Genetics and Breeding, College of Agronomy, Hebei Agricultural University, Baoding 071001, China
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17
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Meena M, Zehra A, Swapnil P, Harish, Marwal A, Yadav G, Sonigra P. Endophytic Nanotechnology: An Approach to Study Scope and Potential Applications. Front Chem 2021; 9:613343. [PMID: 34113600 PMCID: PMC8185355 DOI: 10.3389/fchem.2021.613343] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2020] [Accepted: 01/18/2021] [Indexed: 12/11/2022] Open
Abstract
Nanotechnology has become a very advanced and popular form of technology with huge potentials. Nanotechnology has been very well explored in the fields of electronics, automobiles, construction, medicine, and cosmetics, but the exploration of nanotecnology's use in agriculture is still limited. Due to climate change, each year around 40% of crops face abiotic and biotic stress; with the global demand for food increasing, nanotechnology is seen as the best method to mitigate challenges in disease management in crops by reducing the use of chemical inputs such as herbicides, pesticides, and fungicides. The use of these toxic chemicals is potentially harmful to humans and the environment. Therefore, using NPs as fungicides/ bactericides or as nanofertilizers, due to their small size and high surface area with high reactivity, reduces the problems in plant disease management. There are several methods that have been used to synthesize NPs, such as physical and chemical methods. Specially, we need ecofriendly and nontoxic methods for the synthesis of NPs. Some biological organisms like plants, algae, yeast, bacteria, actinomycetes, and fungi have emerged as superlative candidates for the biological synthesis of NPs (also considered as green synthesis). Among these biological methods, endophytic microorganisms have been widely used to synthesize NPs with low metallic ions, which opens a new possibility on the edge of biological nanotechnology. In this review, we will have discussed the different methods of synthesis of NPs, such as top-down, bottom-up, and green synthesis (specially including endophytic microorganisms) methods, their mechanisms, different forms of NPs, such as magnesium oxide nanoparticles (MgO-NPs), copper nanoparticles (Cu-NPs), chitosan nanoparticles (CS-NPs), β-d-glucan nanoparticles (GNPs), and engineered nanoparticles (quantum dots, metalloids, nonmetals, carbon nanomaterials, dendrimers, and liposomes), and their molecular approaches in various aspects. At the molecular level, nanoparticles, such as mesoporous silica nanoparticles (MSN) and RNA-interference molecules, can also be used as molecular tools to carry genetic material during genetic engineering of plants. In plant disease management, NPs can be used as biosensors to diagnose the disease.
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Affiliation(s)
- Mukesh Meena
- Laboratory of Phytopathology and Microbial Biotechnology, Department of Botany, Mohanlal Sukhadia University, Udaipur, India
| | - Andleeb Zehra
- Centre of Advanced Study in Botany, Institute of Science, Banaras Hindu University, Varanasi, India
| | - Prashant Swapnil
- Centre of Advanced Study in Botany, Institute of Science, Banaras Hindu University, Varanasi, India
- Department of Botany, Acharya Narendra Dev College, University of Delhi, New Delhi, India
| | - Harish
- Plant Biotechnology Laboratory, Department of Botany, Mohanlal Sukhadia University, Udaipur, India
| | - Avinash Marwal
- Department of Biotechnology, Vigyan Bhawan, Mohanlal Sukhadia University, Udaipur, India
| | - Garima Yadav
- Laboratory of Phytopathology and Microbial Biotechnology, Department of Botany, Mohanlal Sukhadia University, Udaipur, India
| | - Priyankaraj Sonigra
- Laboratory of Phytopathology and Microbial Biotechnology, Department of Botany, Mohanlal Sukhadia University, Udaipur, India
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18
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Balestrini R, Brunetti C, Cammareri M, Caretto S, Cavallaro V, Cominelli E, De Palma M, Docimo T, Giovinazzo G, Grandillo S, Locatelli F, Lumini E, Paolo D, Patanè C, Sparvoli F, Tucci M, Zampieri E. Strategies to Modulate Specialized Metabolism in Mediterranean Crops: From Molecular Aspects to Field. Int J Mol Sci 2021; 22:2887. [PMID: 33809189 PMCID: PMC7999214 DOI: 10.3390/ijms22062887] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 03/10/2021] [Accepted: 03/10/2021] [Indexed: 12/21/2022] Open
Abstract
Plant specialized metabolites (SMs) play an important role in the interaction with the environment and are part of the plant defense response. These natural products are volatile, semi-volatile and non-volatile compounds produced from common building blocks deriving from primary metabolic pathways and rapidly evolved to allow a better adaptation of plants to environmental cues. Specialized metabolites include terpenes, flavonoids, alkaloids, glucosinolates, tannins, resins, etc. that can be used as phytochemicals, food additives, flavoring agents and pharmaceutical compounds. This review will be focused on Mediterranean crop plants as a source of SMs, with a special attention on the strategies that can be used to modulate their production, including abiotic stresses, interaction with beneficial soil microorganisms and novel genetic approaches.
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Affiliation(s)
- Raffaella Balestrini
- National Research Council (CNR)-Institute of Sustainable Plant Protection (IPSP), Viale Mattioli 25 and Strada delle Cacce 73, 10125 and 10135 Torino, Via Madonna del Piano 10, 50019 Sesto Fiorentino, Italy; (C.B.); (E.L.); (E.Z.)
| | - Cecilia Brunetti
- National Research Council (CNR)-Institute of Sustainable Plant Protection (IPSP), Viale Mattioli 25 and Strada delle Cacce 73, 10125 and 10135 Torino, Via Madonna del Piano 10, 50019 Sesto Fiorentino, Italy; (C.B.); (E.L.); (E.Z.)
| | - Maria Cammareri
- CNR-Institute of Bioscience and Bioresources (IBBR), Via Università 133, 80055 Portici, Italy; (M.C.); (M.D.P.); (T.D.); (S.G.); (M.T.)
| | - Sofia Caretto
- CNR-Institute of Sciences of Food Production, Via Monteroni, 73100 Lecce, Italy; (S.C.); (G.G.)
| | - Valeria Cavallaro
- CNR-Institute of Bioeconomy (IBE), Via Paolo Gaifami, 18, 95126 Catania, Italy; (V.C.); (C.P.)
| | - Eleonora Cominelli
- CNR-Institute of Agricultural Biology and Biotechnology, Via Edoardo Bassini 15, 20133 Milan, Italy; (E.C.); (F.L.); (D.P.); (F.S.)
| | - Monica De Palma
- CNR-Institute of Bioscience and Bioresources (IBBR), Via Università 133, 80055 Portici, Italy; (M.C.); (M.D.P.); (T.D.); (S.G.); (M.T.)
| | - Teresa Docimo
- CNR-Institute of Bioscience and Bioresources (IBBR), Via Università 133, 80055 Portici, Italy; (M.C.); (M.D.P.); (T.D.); (S.G.); (M.T.)
| | - Giovanna Giovinazzo
- CNR-Institute of Sciences of Food Production, Via Monteroni, 73100 Lecce, Italy; (S.C.); (G.G.)
| | - Silvana Grandillo
- CNR-Institute of Bioscience and Bioresources (IBBR), Via Università 133, 80055 Portici, Italy; (M.C.); (M.D.P.); (T.D.); (S.G.); (M.T.)
| | - Franca Locatelli
- CNR-Institute of Agricultural Biology and Biotechnology, Via Edoardo Bassini 15, 20133 Milan, Italy; (E.C.); (F.L.); (D.P.); (F.S.)
| | - Erica Lumini
- National Research Council (CNR)-Institute of Sustainable Plant Protection (IPSP), Viale Mattioli 25 and Strada delle Cacce 73, 10125 and 10135 Torino, Via Madonna del Piano 10, 50019 Sesto Fiorentino, Italy; (C.B.); (E.L.); (E.Z.)
| | - Dario Paolo
- CNR-Institute of Agricultural Biology and Biotechnology, Via Edoardo Bassini 15, 20133 Milan, Italy; (E.C.); (F.L.); (D.P.); (F.S.)
| | - Cristina Patanè
- CNR-Institute of Bioeconomy (IBE), Via Paolo Gaifami, 18, 95126 Catania, Italy; (V.C.); (C.P.)
| | - Francesca Sparvoli
- CNR-Institute of Agricultural Biology and Biotechnology, Via Edoardo Bassini 15, 20133 Milan, Italy; (E.C.); (F.L.); (D.P.); (F.S.)
| | - Marina Tucci
- CNR-Institute of Bioscience and Bioresources (IBBR), Via Università 133, 80055 Portici, Italy; (M.C.); (M.D.P.); (T.D.); (S.G.); (M.T.)
| | - Elisa Zampieri
- National Research Council (CNR)-Institute of Sustainable Plant Protection (IPSP), Viale Mattioli 25 and Strada delle Cacce 73, 10125 and 10135 Torino, Via Madonna del Piano 10, 50019 Sesto Fiorentino, Italy; (C.B.); (E.L.); (E.Z.)
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Tiwari P, Khare T, Shriram V, Bae H, Kumar V. Plant synthetic biology for producing potent phyto-antimicrobials to combat antimicrobial resistance. Biotechnol Adv 2021; 48:107729. [PMID: 33705914 DOI: 10.1016/j.biotechadv.2021.107729] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Revised: 01/22/2021] [Accepted: 03/04/2021] [Indexed: 12/14/2022]
Abstract
Inappropriate and injudicious use of antimicrobial drugs in human health, hygiene, agriculture, animal husbandry and food industries has contributed significantly to rapid emergence and persistence of antimicrobial resistance (AMR), one of the serious global public health threats. The crisis of AMR versus slower discovery of newer antibiotics put forth a daunting task to control these drug-resistant superbugs. Several phyto-antimicrobials have been identified in recent years with direct-killing (bactericidal) and/or drug-resistance reversal (re-sensitization of AMR phenotypes) potencies. Phyto-antimicrobials may hold the key in combating AMR owing to their abilities to target major microbial drug-resistance determinants including cell membrane, drug-efflux pumps, cell communication and biofilms. However, limited distribution, low intracellular concentrations, eco-geographical variations, beside other considerations like dynamic environments, climate change and over-exploitation of plant-resources are major blockades in full potential exploration phyto-antimicrobials. Synthetic biology (SynBio) strategies integrating metabolic engineering, RNA-interference, genome editing/engineering and/or systems biology approaches using plant chassis (as engineerable platforms) offer prospective tools for production of phyto-antimicrobials. With expanding SynBio toolkit, successful attempts towards introduction of entire gene cluster, reconstituting the metabolic pathway or transferring an entire metabolic (or synthetic) pathway into heterologous plant systems highlight the potential of this field. Through this perspective review, we are presenting herein the current situation and options for addressing AMR, emphasizing on the significance of phyto-antimicrobials in this apparently post-antibiotic era, and effective use of plant chassis for phyto-antimicrobial production at industrial scales along with major SynBio tools and useful databases. Current knowledge, recent success stories, associated challenges and prospects of translational success are also discussed.
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Affiliation(s)
- Pragya Tiwari
- Molecular Metabolic Engineering Lab, Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk 38541, Republic of Korea
| | - Tushar Khare
- Department of Biotechnology, Modern College of Arts, Science and Commerce, Savitribai Phule Pune University, Ganeshkhind, Pune 411016, India; Department of Environmental Science, Savitribai Phule Pune University, Pune 411007, India
| | - Varsha Shriram
- Department of Botany, Prof. Ramkrishna More Arts, Commerce and Science College, Savitribai Phule Pune University, Akurdi, Pune 411044, India
| | - Hanhong Bae
- Molecular Metabolic Engineering Lab, Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk 38541, Republic of Korea.
| | - Vinay Kumar
- Department of Biotechnology, Modern College of Arts, Science and Commerce, Savitribai Phule Pune University, Ganeshkhind, Pune 411016, India; Department of Environmental Science, Savitribai Phule Pune University, Pune 411007, India.
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20
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Nguyen HN, Kambhampati S, Kisiala A, Seegobin M, Emery RJN. The soybean ( Glycine max L.) cytokinin oxidase/dehydrogenase multigene family; Identification of natural variations for altered cytokinin content and seed yield. PLANT DIRECT 2021; 5:e00308. [PMID: 33644633 PMCID: PMC7887454 DOI: 10.1002/pld3.308] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2020] [Revised: 01/15/2021] [Accepted: 01/18/2021] [Indexed: 05/11/2023]
Abstract
Cytokinins (CKs) play a fundamental role in regulating dynamics of organ source/sink relationships during plant development, including flowering and seed formation stages. As a result, CKs are key drivers of seed yield. The cytokinin oxidase/dehydrogenase (CKX) is one of the critical enzymes responsible for regulating plant CK levels by causing their irreversible degradation. Variation of CKX activity is significantly correlated with seed yield in many crop species while in soybean (Glycine max L.), the possible associations between CKX gene family members (GFMs) and yield parameters have not yet been assessed. In this study, 17 GmCKX GFMs were identified, and natural variations among GmCKX genes were probed among soybean cultivars with varying yield characteristics. The key CKX genes responsible for regulating CK content during seed filling stages of reproductive development were highlighted using comparative phylogenetics, gene expression analysis and CK metabolite profiling. Five of the seventeen identified GmCKX GFMs, showed natural variations in the form of single nucleotide polymorphisms (SNPs). The gene GmCKX7-1, with high expression during critical seed filling stages, was found to have a non-synonymous mutation (H105Q), on one of the active site residues, Histidine 105, previously reported to be essential for co-factor binding to maintain structural integrity of the enzyme. Soybean lines with this mutation had higher CK content and desired yield characteristics. The potential for marker-assisted selection based on the identified natural variation within GmCKX7-1, is discussed in the context of hormonal control that can result in higher soybean yield.
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Affiliation(s)
| | - Shrikaar Kambhampati
- Department of BiologyTrent UniversityPeterboroughONCanada
- Donald Danforth Plant Science CenterSt. LouisMOUSA
| | - Anna Kisiala
- Department of BiologyTrent UniversityPeterboroughONCanada
| | - Mark Seegobin
- Department of BiologyTrent UniversityPeterboroughONCanada
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21
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Gomide MS, Sales TT, Barros LRC, Limia CG, de Oliveira MA, Florentino LH, Barros LMG, Robledo ML, José GPC, Almeida MSM, Lima RN, Rehen SK, Lacorte C, Melo EO, Murad AM, Bonamino MH, Coelho CM, Rech E. Genetic switches designed for eukaryotic cells and controlled by serine integrases. Commun Biol 2020; 3:255. [PMID: 32444777 PMCID: PMC7244727 DOI: 10.1038/s42003-020-0971-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Accepted: 04/28/2020] [Indexed: 11/16/2022] Open
Abstract
Recently, new serine integrases have been identified, increasing the possibility of scaling up genomic modulation tools. Here, we describe the use of unidirectional genetic switches to evaluate the functionality of six serine integrases in different eukaryotic systems: the HEK 293T cell lineage, bovine fibroblasts and plant protoplasts. Moreover, integrase activity was also tested in human cell types of therapeutic interest: peripheral blood mononuclear cells (PBMCs), neural stem cells (NSCs) and undifferentiated embryonic stem (ES) cells. The switches were composed of plasmids designed to flip two different genetic parts driven by serine integrases. Cell-based assays were evaluated by measurement of EGFP fluorescence and by molecular analysis of attL/attR sites formation after integrase functionality. Our results demonstrate that all the integrases were capable of inverting the targeted DNA sequences, exhibiting distinct performances based on the cell type or the switchable genetic sequence. These results should support the development of tunable genetic circuits to regulate eukaryotic gene expression.
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Affiliation(s)
- Mayna S Gomide
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
- Department of Cell Biology, Institute of Biological Science, University of Brasília, Brasília, 70910900, DF, Brazil
- School of Medicine, Federal University of Juiz de Fora, Juiz de Fora, 36036900, MG, Brazil
| | - Thais T Sales
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
- Department of Cell Biology, Institute of Biological Science, University of Brasília, Brasília, 70910900, DF, Brazil
| | - Luciana R C Barros
- Molecular Carcinogenesis Program, Research Coordination, National Cancer Institute (INCA), Rio de Janeiro, 20231050, RJ, Brazil
| | - Cintia G Limia
- Molecular Carcinogenesis Program, Research Coordination, National Cancer Institute (INCA), Rio de Janeiro, 20231050, RJ, Brazil
| | - Marco A de Oliveira
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
- Department of Cell Biology, Institute of Biological Science, University of Brasília, Brasília, 70910900, DF, Brazil
| | - Lilian H Florentino
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Leila M G Barros
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Maria L Robledo
- Molecular Carcinogenesis Program, Research Coordination, National Cancer Institute (INCA), Rio de Janeiro, 20231050, RJ, Brazil
| | - Gustavo P C José
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Mariana S M Almeida
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Rayane N Lima
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Stevens K Rehen
- D'Or Institute for Research and Education (IDOR), Rio de Janeiro, 22281100, RJ, Brazil
- Institute of Biomedical Sciences, Federal University of Rio de Janeiro, Rio de Janeiro, 21941902, RJ, Brazil
| | - Cristiano Lacorte
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Eduardo O Melo
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
- Graduation Program in Biotechnology, Federal University of Tocantins, Gurupi, 77402970, TO, Brazil
| | - André M Murad
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil
| | - Martín H Bonamino
- Molecular Carcinogenesis Program, Research Coordination, National Cancer Institute (INCA), Rio de Janeiro, 20231050, RJ, Brazil.
- Vice-Presidency of Research and Biological Collections (VPPCB), FIOCRUZ - Oswaldo Cruz Foundation Institute, Rio de Janeiro, 21040900, RJ, Brazil.
| | - Cintia M Coelho
- Department of Genetic and Morphology, Institute of Biological Science, University of Brasília, Brasília, 70910900, DF, Brazil.
| | - Elibio Rech
- Brazilian Agriculture Research Corporation - Embrapa - Genetic Resources and Biotechnology - CENARGEN, Brasília, 70770917, DF, Brazil.
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Leng C, Sun B, Liu Z, Zhang L, Wei X, Zhou Y, Meng Y, Lai Y, Dai Y, Zhu Z. An optimized double T-DNA binary vector system for improved production of marker-free transgenic tobacco plants. Biotechnol Lett 2020; 42:641-655. [PMID: 31965394 DOI: 10.1007/s10529-020-02797-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Accepted: 01/12/2020] [Indexed: 12/31/2022]
Abstract
OBJECTIVES In the plant transformation process, marker genes play a vital role in identifying transformed cells from non-transformed cells. However, once transgenic plants have been obtained, the presence of marker genes may provoke public concern about environmental or biosafety issues. In our previous study, a double T-DNA vector system has been developed to obtain marker-free transgenic plants, but the T-DNA left border (LB) and right border (RB) of the vector showed an RB-LB-RB-LB pattern and led to high linkage integration between the selectable marker gene (SMG) and the gene of interest (GOI). To improve this double T-DNA vector system, we inverted the first T-DNA direction such that a LB-RB-RB-LB pattern resulted to avoid transcriptional read-through at the LB and the subsequent linkage transfer of the SMG and GOI. RESULTS We separately inserted the green fluorescent protein (GFP) gene as the GOI and the neomycin phosphotransferase II (NPTII) gene as the SMG in both optimized and original vectors and carried out Agrobacterium-mediated tobacco transformation. Statistical analysis revealed that the linkage frequency was 25.6% in T0 plants transformed with the optimized vector, which is a 42.1% decrease compared with that of the original vector (44.2%). The frequency of obtaining marker-free transgenic plants was 66.7% in T1 plants transformed with the optimized vector, showing a 33.4% increase compared with that of the original vector (50.0%). CONCLUSION Our results demonstrate that the optimized double T-DNA binary vector system is a more effective, economical and time-saving approach for obtaining marker-free transgenic plants.
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Affiliation(s)
- Chunxu Leng
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- Biotechnology Research Institute, Heilongjiang Academy of Agricultural Sciences, Harbin, 150086, China
| | - Bing Sun
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- Institute of Crop Cultivation and Tillage, Heilongjiang Academy of Agricultural Sciences, Harbin, 150086, China
| | - Zheming Liu
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Lei Zhang
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xiaoli Wei
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Yun Zhou
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China
| | - Ying Meng
- Institute of Crop Cultivation and Tillage, Heilongjiang Academy of Agricultural Sciences, Harbin, 150086, China
| | - Yongcai Lai
- Heilongjiang Academy of Agricultural Sciences, Harbin, 150086, China
| | - Yan Dai
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
| | - Zhen Zhu
- State Key Laboratory of Plant Genomics and National Center for Plant Gene Research (Beijing), Institute of Genetics and Developmental Biology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.
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Ahmad N, Mehmood MA, Malik S. Recombinant Protein Production in Microalgae: Emerging Trends. Protein Pept Lett 2020; 27:105-110. [DOI: 10.2174/0929866526666191014124855] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2018] [Revised: 04/19/2019] [Accepted: 08/03/2019] [Indexed: 11/22/2022]
Abstract
:
In recent years, microalgae have emerged as an alternative platform for large-scale
production of recombinant proteins for different commercial applications. As a production
platform, it has several advantages, including rapid growth, easily scale up and ability to grow with
or without the external carbon source. Genetic transformation of several species has been
established. Of these, Chlamydomonas reinhardtii has become significantly attractive for its
potential to express foreign proteins inexpensively. All its three genomes – nuclear, mitochondrial
and chloroplastic – have been sequenced. As a result, a wealth of information about its genetic
machinery, protein expression mechanism (transcription, translation and post-translational
modifications) is available. Over the years, various molecular tools have been developed for the
manipulation of all these genomes. Various studies show that the transformation of the chloroplast
genome has several advantages over nuclear transformation from the biopharming point of view.
According to a recent survey, over 100 recombinant proteins have been expressed in algal
chloroplasts. However, the expression levels achieved in the algal chloroplast genome are generally
lower compared to the chloroplasts of higher plants. Work is therefore needed to make the algal
chloroplast transformation commercially competitive. In this review, we discuss some examples
from the algal research, which could play their role in making algal chloroplast commercially
successful.
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Affiliation(s)
- Niaz Ahmad
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Jhang Road, Faisalabad, Pakistan
| | - Muhammad Aamer Mehmood
- Bioenergy Research Centre, Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
| | - Sana Malik
- Bioenergy Research Centre, Department of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Pakistan
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Siddiqui A, Wei Z, Boehm M, Ahmad N. Engineering microalgae through chloroplast transformation to produce high‐value industrial products. Biotechnol Appl Biochem 2020; 67:30-40. [DOI: 10.1002/bab.1823] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2019] [Accepted: 09/16/2019] [Indexed: 12/18/2022]
Affiliation(s)
- Ayesha Siddiqui
- Agricultural Biotechnology DivisionNational Institute for Biotechnology & Genetic Engineering (NIBGE) Faisalabad Pakistan
| | - Zhengyi Wei
- Institute of Agricultural BiotechnologyJilin Academy of Agricultural Sciences Changchun Jilin Province People's Republic of China
| | - Marko Boehm
- Botanical InstituteChristian‐Albrechts‐University Kiel Germany
| | - Niaz Ahmad
- Agricultural Biotechnology DivisionNational Institute for Biotechnology & Genetic Engineering (NIBGE) Faisalabad Pakistan
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Cao X, Dong Z, Tian D, Dong L, Qian W, Liu J, Liu X, Qin H, Zhai W, Gao C, Zhang K, Wang D. Development and characterization of marker-free and transgene insertion site-defined transgenic wheat with improved grain storability and fatty acid content. PLANT BIOTECHNOLOGY JOURNAL 2020; 18:129-140. [PMID: 31141279 PMCID: PMC6920130 DOI: 10.1111/pbi.13178] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 05/09/2019] [Accepted: 05/20/2019] [Indexed: 05/24/2023]
Abstract
Development of marker-free and transgene insertion site-defined (MFTID) transgenic plants is essential for safe application of transgenic crops. However, MFTID plants have not been reported for wheat (Triticum aestivum). Here, we prepared a RNAi cassette for suppressing lipoxygenase (LOX) gene expression in wheat grains using a double right border T-DNA vector. The resultant construct was introduced into wheat genome via Agrobacterium-mediated transformation, with four homozygous marker-free transgenic lines (namely GLRW-1, -3, -5 and -8) developed. Aided by the newly published wheat genome sequence, the T-DNA insertion sites in GLRW-3 and GLRW-8 were elucidated at base-pair resolution. While the T-DNA in GLRW-3 inserted in an intergenic region, that of GLRW-8 inactivated an endogenous gene, which was thus excluded from further analysis. Compared to wild -type (WT) control, GLRW-1, -3 and -5 showed decreased LOX gene expression, lower LOX activity and less lipid peroxidation in the grains; they also exhibited significantly higher germination rates and better seedling growth after artificial ageing treatment. Interestingly, the three GLRW lines also had substantially increased contents of several fatty acids (e.g., linoleic acid and linolenic acid) in their grain and flour samples than WT control. Collectively, our data suggest that suppression of grain LOX activity can be employed to improve the storability and fatty acid content of wheat seeds and that the MFTID line GLRW-3 is likely of commercial value. Our approach may also be useful for developing the MFTID transgenic lines of other crops with enhanced grain storability and fatty acid content.
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Affiliation(s)
- Xuemin Cao
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
| | - Zhenying Dong
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Dong Tian
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
| | - Lingli Dong
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Weiqiang Qian
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Jinxing Liu
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Xin Liu
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Huanju Qin
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Wenxue Zhai
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
| | - Caixia Gao
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
| | - Kunpu Zhang
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- College of Agronomy and State Key Laboratory of Wheat and Maize Crop ScienceHenan Agricultural UniversityZhengzhouChina
| | - Daowen Wang
- State Key Laboratory of Plant Cell and Chromosome EngineeringInstitute of Genetics and Developmental BiologyChinese Academy of SciencesBeijingChina
- University of Chinese Academy of SciencesBeijingChina
- College of Agronomy and State Key Laboratory of Wheat and Maize Crop ScienceHenan Agricultural UniversityZhengzhouChina
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Farooq N, Nawaz MA, Mukhtar Z, Ali I, Hundleby P, Ahmad N. Investigating the In Vitro Regeneration Potential of Commercial Cultivars of Brassica. PLANTS (BASEL, SWITZERLAND) 2019; 8:E558. [PMID: 31795525 PMCID: PMC6963692 DOI: 10.3390/plants8120558] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/10/2019] [Revised: 11/24/2019] [Accepted: 11/26/2019] [Indexed: 01/11/2023]
Abstract
In vitro regeneration is a pre-requisite for developing transgenic plants through tissue culture-based genetic engineering approaches. Huge variations among different genotypes of the genus Brassica necessitate the identification of a set of regeneration conditions for a genotype, which can be reliably used in transformation experiments. In this study, we evaluated the morphogenesis potential of four commercial cultivars (Faisal canola, Punjab canola, Aari canola, Nifa Gold) and one model, Westar, from four different explants namely cotyledons, hypocotyls, petioles and roots on three different Brassica regeneration protocols, BRP-I, -II and -III. The regeneration efficiency was observed in the range of 6-73%, 4-79.3%, 0-50.6%, and 0-42.6% from cotyledons, petioles, hypocotyls and roots, respectively, whereas, the regeneration response in terms of average shoots per explant was found to be 0.76-10.9, 0.2-3.2, 0-3.4 and 0-2.7 from these explants. Of the commercial varieties tested, almost all varieties showed poorer regeneration than Westar except Aari canola. In comparison to Westar, its regeneration frequency from cotyledons was up to 7.5-fold higher on BRP-I, while it produced up to 21.9-fold more shoots per explant. Our data show that the explant has strong influence on the regeneration response, ranging from 24% to 92%. While the growth of commercial cultivars was least affected by the regeneration conditions provided, the effect on Westar was twice that of the commercial cultivars. After determining the optimal explant type and regeneration conditions, we also determined the minimum kanamycin concentration levels required to selectively inhibit the growth of untransformed cells for these cultivars. Regenerated shoots of Aari canola could be successfully grown to maturity within 16-18 weeks, with no altered phenotype noted and normal seed yields obtained. Therefore, the commercial variety, Aari canola, could be a good candidate for future genetic transformation studies.
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Affiliation(s)
- Nisma Farooq
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad 38000, Pakistan
| | - Muhammad Asif Nawaz
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad 38000, Pakistan
| | - Zahid Mukhtar
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad 38000, Pakistan
| | - Iftikhar Ali
- Nuclear Institute for Agriculture and Biology, Faisalabad 38000, Pakistan
| | - Penny Hundleby
- Department of Crop Genetics, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK
| | - Niaz Ahmad
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad 38000, Pakistan
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27
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A cautionary tale of cross-contamination among plasmids from commercial suppliers. Biotechniques 2019; 68:14-21. [PMID: 31755299 DOI: 10.2144/btn-2019-0018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
Abstract
Many researchers have switched to purchasing their desired plasmids from commercial suppliers to save time and resources, as we did for 17 high-risk human papillomavirus plasmids. To our surprise, they were shown to be cross-contaminated with one another. Comparison between the production schedule and the pattern of contaminations proved that this contamination occurred during the production process, which was also shown for another two sets of commercial plasmids. Our experience indicates that the absolute purity of plasmids obtained from external sources cannot be guaranteed. Extreme caution should be exercised, especially when such plasmids are used for human gene therapies and DNA vaccines, where even a minute amount of contamination may pose significant risks to patients.
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28
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Rodríguez-González V, Terashima C, Fujishima A. Applications of photocatalytic titanium dioxide-based nanomaterials in sustainable agriculture. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY C-PHOTOCHEMISTRY REVIEWS 2019. [DOI: 10.1016/j.jphotochemrev.2019.06.001] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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29
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Ahmad N, Rahman M, Mukhtar Z, Zafar Y, Zhang B. A critical look on CRISPR‐based genome editing in plants. J Cell Physiol 2019; 235:666-682. [DOI: 10.1002/jcp.29052] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Revised: 02/12/2019] [Accepted: 06/06/2019] [Indexed: 12/20/2022]
Affiliation(s)
- Niaz Ahmad
- Agricultural Biotechnology Division National Institute for Biotechnology & Genetic Engineering (NIBGE) Faisalabad Pakistan
| | - Mehboob‐ur Rahman
- Agricultural Biotechnology Division National Institute for Biotechnology & Genetic Engineering (NIBGE) Faisalabad Pakistan
| | - Zahid Mukhtar
- Agricultural Biotechnology Division National Institute for Biotechnology & Genetic Engineering (NIBGE) Faisalabad Pakistan
| | - Yusuf Zafar
- Pakistan Agriculture Research Council Islamabad Pakistan
| | - Baohong Zhang
- Department of Biology East Carolina University Greenville North Caroline
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30
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Tan Y, Zhang J, Sun Y, Tong Z, Peng C, Chang L, Guo A, Wang X. Comparative Proteomics of Phytase-transgenic Maize Seeds Indicates Environmental Influence is More Important than that of Gene Insertion. Sci Rep 2019; 9:8219. [PMID: 31160654 PMCID: PMC6547748 DOI: 10.1038/s41598-019-44748-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2018] [Accepted: 04/23/2019] [Indexed: 12/30/2022] Open
Abstract
Proteomic differences were compared between phytase-transgenic (PT) maize seeds and nontransgenic (NT) maize seeds through two-dimensional electrophoresis (2-DE) with mass spectrometry (MS). When maize was grown under field conditions, 30 differentially accumulated proteins (DAPs) were successfully identified in PT seeds (PT/NT). Clusters of Orthologous Groups (COG) functional classification of these proteins showed that the largest group was associated with posttranslational modifications. To investigate the effects of environmental factors, we further compared the seed protein profiles of the same maize planted in a greenhouse or under field conditions. There were 76 DAPs between the greenhouse- and field-grown NT maize seeds and 77 DAPs between the greenhouse- and field-grown PT maize seeds However, under the same planting conditions, there were only 43 DAPs (planted in the greenhouse) or 37 DAPs (planted in the field) between PT and NT maize seeds. The results revealed that DAPs caused by environmental factors were more common than those caused by the insertion of exogenous genes, indicating that the environment has much more important effects on the seed protein profiles. Our maize seed proteomics results also indicated that the occurrence of unintended effects is not specific to genetically modified crops (GMCs); instead, such effects often occur in traditionally bred plants. Our data may be beneficial for biosafety assessments of GMCs at the protein profile level in the future.
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Affiliation(s)
- Yanhua Tan
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China
| | - Jiaming Zhang
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China
| | - Yong Sun
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China.,College of Life Sciences, Key Laboratory for Ecology of Tropical Islands, Ministry of Education, Hainan Normal University, Haikou, Hainan, 571158, China
| | - Zheng Tong
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China
| | - Cunzhi Peng
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China
| | - Lili Chang
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China
| | - Anping Guo
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China.
| | - Xuchu Wang
- Institute of Tropical Biosciences and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan, 571101, China. .,College of Life Sciences, Key Laboratory for Ecology of Tropical Islands, Ministry of Education, Hainan Normal University, Haikou, Hainan, 571158, China.
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Apriana A, Sisharmini A, Aswidinnoor H, Trijatmiko KR, Sudarsono S. Promoter deletion analysis reveals root-specific expression of the alkenal reductase gene (OsAER1) in Oryza sativa. FUNCTIONAL PLANT BIOLOGY : FPB 2019; 46:376-391. [PMID: 32172746 DOI: 10.1071/fp18237] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2018] [Accepted: 01/12/2019] [Indexed: 06/10/2023]
Abstract
Root-specific promoters are useful in plant genetic engineering, primarily to improve water and nutrient absorption. The aim of this study was to clone and characterise the promoter of the Oryza sativa L. alkenal reductase (OsAER1) gene encoding 2-alkenal reductase, an NADPH-dependent oxidoreductase. Expression analysis using quantitative real-time PCR confirmed the root-specific expression of the OsAER1 gene. Subsequently, a 3082-bp fragment of the OsAER1 promoter was isolated from a local Indonesian rice cultivar, Awan Kuning. Sequencing and further nucleotide sequence analysis of the 3082-bp promoter fragment (PA-5) revealed the presence of at least 10 root-specific cis-regulatory elements putatively responsible for OsAER1 root-specific expression. Using the 3082-bp promoter fragment to drive the expression of the GUS reporter transgene confirmed that the OsAER1 promoter is root-specific. Further, the analysis indicated that OsAER1 promoter activity was absent in leaves, petioles and shoots during sprouting, vegetative, booting and generative stages of rice development. In contrast, the promoter activity was present in anthers and aleurone layers of immature seeds 7-20 days after anthesis. Moreover, there was no promoter activity observed in the aleurone layers of mature seeds. The OsAER1 promoter activity is induced by Al-toxicity, NaCl and submergence stresses, indicating the OsAER1 promoter activity is induced by those stresses. Exogenous treatments of transgenic plants carrying the PA-5 promoter construct with abscisic acid and indoleacetic acid also induced expression of the GUS reporter transgene, indicating the role of plant growth regulators in controlling OsAER1 promoter activity. Promoter deletion analysis was conducted to identify the cis-acting elements of the promoter responsible for controlling root-specific expression. The GUS reporter gene was fused with various deletion fragments of the OsAER1 promoter and the resulting constructs were transformed in rice plants to generate transgenic plants. The results of this analysis indicated that cis-acting elements controlling root-specific expression are located between -1562 to -1026bp of the OsAER1 CDS. Here we discusses the results of the conducted analyses, the possible role of OsAER1 in rice growth and development, possible contributions and the potential usage of these findings in future plant research.
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Affiliation(s)
- Aniversari Apriana
- PMB Lab, Department of Agronomy and Horticulture, Faculty of Agriculture, Bogor Agricultural University, Jalan Raya Ciampea, Bogor, Indonesia; and Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development, Jalan Tentara Pelajar 3A, Bogor, Indonesia
| | - Atmitri Sisharmini
- Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development, Jalan Tentara Pelajar 3A, Bogor, Indonesia
| | - Hajrial Aswidinnoor
- PMB Lab, Department of Agronomy and Horticulture, Faculty of Agriculture, Bogor Agricultural University, Jalan Raya Ciampea, Bogor, Indonesia
| | - Kurniawan R Trijatmiko
- Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development, Jalan Tentara Pelajar 3A, Bogor, Indonesia; and Corresponding authors. Emails: ;
| | - Sudarsono Sudarsono
- PMB Lab, Department of Agronomy and Horticulture, Faculty of Agriculture, Bogor Agricultural University, Jalan Raya Ciampea, Bogor, Indonesia; and Corresponding authors. Emails: ;
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