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Husaini AM, Sohail M. Agrochemical-free genetically modified and genome-edited crops: Towards achieving the United Nations sustainable development goals and a 'greener' green revolution. J Biotechnol 2024; 389:68-77. [PMID: 38663518 DOI: 10.1016/j.jbiotec.2024.04.015] [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: 03/07/2024] [Revised: 04/22/2024] [Accepted: 04/23/2024] [Indexed: 05/28/2024]
Abstract
Sustainable farming on ever-shrinking agricultural land and declining water resources for the growing human population is one of the greatest environmental and food security challenges of the 21st century. Conventional, age-old organic farming practices alone, and foods based on costly cellular agriculture, do not have the potential to be upscaled to meet the food supply challenges for feeding large populations. Additionally, agricultural practices relying on chemical inputs have a well-documented detrimental impact on human health and the environment. As the available farming methods have reached their productivity limits, new approaches to agriculture, combining friendly, age-old farming practices with modern technologies that exclude chemical interventions, are necessary to address the food production challenges. Growing genetically modified (GM) crops without chemical inputs can allow agricultural intensification with reduced adverse health and environmental impacts. Additionally, integrating high-value pleiotropic genes in their genetic improvement coupled with the use of modern agricultural technologies, like robotics and artificial intelligence (AI), will further improve productivity. Such 'organic-GM' crops will offer consumers healthy, agrochemical-free GM produce. We believe these agricultural practices will lead to the beginning of a potentially new chemical-free GM agricultural revolution in the era of Agriculture 4.0 and help meet the targets of the United Nations Sustainable Development Goals (SDGs). Furthermore, given the advancement in the genome editing (GE) toolbox, we ought to develop a new category of 'trait-reversible GM crops' to avert the fears of those who believe in ecological damage by GM crops. Thus, in this article, we advocate farming with no or minimal chemical use by combining chemical-free organic farming with the existing biofortified and multiple stress tolerant GM crops, while focusing on the development of novel 'biofertilizer-responsive GE crops' and 'trait-reversible GE crops' for the future.
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Affiliation(s)
- Amjad M Husaini
- Genome Engineering and Societal Biotechnology Lab, Division of Plant Biotechnology, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Shalimar, Jammu and Kashmir, India.
| | - Muhammad Sohail
- Wolfson College, Lintodn Road, University of Oxford, Oxford, United Kingdom
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Shi YC, Zheng YJ, Lin YC, Huang CH, Shen TL, Hsu YC, Lee BH. Investigation of the Microbial Diversity in the Oryza sativa Cultivation Environment and Artificial Transplantation of Microorganisms to Improve Sustainable Mycobiota. J Fungi (Basel) 2024; 10:412. [PMID: 38921398 PMCID: PMC11205129 DOI: 10.3390/jof10060412] [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: 05/07/2024] [Revised: 05/31/2024] [Accepted: 06/02/2024] [Indexed: 06/27/2024] Open
Abstract
Rice straw is not easy to decompose, it takes a long time to compost, and the anaerobic bacteria involved in the decomposition process produce a large amount of carbon dioxide (CO2), indicating that applications for rice straw need to be developed. Recycling rice straw in agricultural crops is an opportunity to increase the sustainability of grain production. Several studies have shown that the probiotic population gradually decreases in the soil, leading to an increased risk of plant diseases and decreased biomass yield. Because the microorganisms in the soil are related to the growth of plants, when the soil microbial community is imbalanced it seriously affects plant growth. We investigated the feasibility of using composted rice stalks to artificially cultivate microorganisms obtained from the Oryza sativa-planted environment for analyzing the mycobiota and evaluating applications for sustainable agriculture. Microbes obtained from the water-submerged part (group-A) and soil part (group-B) of O. sativa were cultured in an artificial medium, and the microbial diversity was analyzed with internal transcribed spacer sequencing. Paddy field soil was mixed with fermented paddy straw compost, and the microbes obtained from the soil used for O. sativa planting were designated as group-C. The paddy fields transplanted with artificially cultured microbes from group-A were designated as group-D and those from group-B were designated as group-E. We found that fungi and yeasts can be cultured in groups-A and -B. These microbes altered the soil mycobiota in the paddy fields after transplantation in groups-D and -E compared to groups-A and -B. Development in O. sativa post treatment with microbial transplantation was observed in the groups-D and -E compared to group-C. These results showed that artificially cultured microorganisms could be efficiently transplanted into the soil and improve the mycobiota. Phytohormones were involved in improving O. sativa growth and rice yield via the submerged part-derived microbial medium (group-D) or the soil part-derived microbial medium (group-E) treatments. Collectively, these fungi and yeasts may be applied in microbial transplantation via rice straw fermentation to repair soil mycobiota imbalances, facilitating plant growth and sustainable agriculture. These fungi and yeasts may be applied in microbial transplantation to repair soil mycobiota imbalances and sustainable agriculture.
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Affiliation(s)
- Yeu-Ching Shi
- Department of Food Sciences, National Chiayi University, Chiayi 60004, Taiwan;
| | - Yu-Juan Zheng
- Department of Horticultural Sciences, National Chiayi University, Chiayi 60004, Taiwan; (Y.-J.Z.); (Y.-C.L.)
| | - Yi-Ching Lin
- Department of Horticultural Sciences, National Chiayi University, Chiayi 60004, Taiwan; (Y.-J.Z.); (Y.-C.L.)
| | - Cheng-Hao Huang
- Department of Food Safety/Hygiene and Risk Management, College of Medicine, National Cheng Kung University, Tainan 701401, Taiwan;
| | - Tang-Long Shen
- Department of Plant Pathology and Microbiology, National Taiwan University, Taipei 10617, Taiwan;
| | - Yu-Chia Hsu
- Department of Agronomy, National Chiayi University, Chiayi 60004, Taiwan;
| | - Bao-Hong Lee
- Department of Horticultural Sciences, National Chiayi University, Chiayi 60004, Taiwan; (Y.-J.Z.); (Y.-C.L.)
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Kisvarga S, Hamar-Farkas D, Ördögh M, Horotán K, Neményi A, Kovács D, Orlóci L. The Role of the Plant-Soil Relationship in Agricultural Production-With Particular Regard to PGPB Application and Phytoremediation. Microorganisms 2023; 11:1616. [PMID: 37375118 DOI: 10.3390/microorganisms11061616] [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: 05/12/2023] [Revised: 06/09/2023] [Accepted: 06/17/2023] [Indexed: 06/29/2023] Open
Abstract
Plant growth-promoting bacteria (PGPB) and other living organisms can help with the challenges of modern agriculture. PGPB offer ever-expanding possibilities for science and commerce, and the scientific results have been very advanced in recent years. In our current work, we collected the scientific results of recent years and the opinions of experts on the subject. Opinions and results on soil-plant relations, as well as the importance of PGPB and the latest related experiences, are important topics of our review work, which highlights the scientific results of the last 3-4 years. Overall, it can be concluded from all these observations that the bacteria that promote plant development are becoming more and more important in agriculture almost all over the world, thus, promoting more sustainable and environmentally conscious agricultural production and avoiding the use of artificial fertilizers and chemicals. Since many mechanisms of action, namely biochemical and operational processes, are still under investigation, a new emerging scientific direction is expected in the coming years with regard to PGPB, microbial, and other plant growth-stimulating substances, in which omics and microbial modulation also play a leading role.
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Affiliation(s)
- Szilvia Kisvarga
- Ornamental Plant and Green System Management Research Group, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1223 Budapest, Hungary
| | - Dóra Hamar-Farkas
- Ornamental Plant and Green System Management Research Group, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1223 Budapest, Hungary
- Department of Floriculture and Dendrology, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1118 Budapest, Hungary
| | - Máté Ördögh
- Department of Floriculture and Dendrology, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1118 Budapest, Hungary
| | - Katalin Horotán
- Zoological Department, Institute of Biology, Eszterházy Károly Catholic University, 3300 Eger, Hungary
| | - András Neményi
- Ornamental Plant and Green System Management Research Group, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1223 Budapest, Hungary
| | - Dezső Kovács
- Department of Floriculture and Dendrology, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1118 Budapest, Hungary
| | - László Orlóci
- Ornamental Plant and Green System Management Research Group, Institute of Landscape Architecture, Urban Planning and Garden Art, Hungarian University of Agriculture and Life Sciences (MATE), 1223 Budapest, Hungary
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Liu Y, Morelli M, Koskimäki JJ, Qin S, Zhu YH, Zhang XX. Editorial: Role of endophytic bacteria in improving plant stress resistance. FRONTIERS IN PLANT SCIENCE 2022; 13:1106701. [PMID: 36561457 PMCID: PMC9763997 DOI: 10.3389/fpls.2022.1106701] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 11/28/2022] [Indexed: 06/03/2023]
Affiliation(s)
- Yang Liu
- School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing, China
| | - Massimiliano Morelli
- Consiglio Nazionale delle Ricerche, Istituto per la Protezione Sostenibile delle Piante, Sede Secondaria di Bari, Bari, Italy
| | | | - Sheng Qin
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Sciences, Jiangsu Normal University, Xuzhou, China
| | - Yong-Hua Zhu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, Hunan, China
| | - Xiao-Xia Zhang
- Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
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Naz M, Benavides-Mendoza A, Tariq M, Zhou J, Wang J, Qi S, Dai Z, Du D. CRISPR/Cas9 technology as an innovative approach to enhancing the phytoremediation: Concepts and implications. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2022; 323:116296. [PMID: 36261968 DOI: 10.1016/j.jenvman.2022.116296] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2022] [Revised: 09/03/2022] [Accepted: 09/13/2022] [Indexed: 06/16/2023]
Abstract
Phytoremediation is currently an active field of research focusing chiefly on identifying and characterizing novel and high chelation action super-accumulators. In the last few years, molecular tools have been widely exploited to understand better metal absorption, translocation, cation, and tolerance mechanisms in plants. Recently more advanced CRISPR-Cas9 genome engineering technology is also employed to enhance detoxification efficiency. Further, advances in molecular science will trigger the understanding of adaptive phytoremediation ability plant production in current global warming conditions. The enhanced abilities of nucleases for genome modification can improve plant repair capabilities by modifying the genome, thereby achieving a sustainable ecosystem. The purpose of this manuscript focuses on biotechnology's fundamental principles and application to promote climate-resistant metal plants, especially the CRISPR-Cas9 genome editing system for enhancing the phytoremediation of harmful contamination and pollutants.
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Affiliation(s)
- Misbah Naz
- Institute of Environment and Ecology, School of the Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China
| | - Adalberto Benavides-Mendoza
- Department of Horticulture, Autonomous Agricultural University Antonio Narro, 1923 Saltillo, C.P. 25315, Mexico
| | - Muhammad Tariq
- Department of Pharmacology, Lahore Pharmacy College, 54000, Lahore, Pakistan
| | - Jianyu Zhou
- Institute of Environment and Ecology, School of the Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China
| | - Jiahao Wang
- Key Laboratory of Modern Agricultural Equipment and Technology, Ministry of Education, School of Agricultural Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China
| | - Shanshan Qi
- Key Laboratory of Modern Agricultural Equipment and Technology, Ministry of Education, School of Agricultural Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China
| | - Zhicong Dai
- Institute of Environment and Ecology, School of the Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China; Jiangsu Collaborative Innovation Center of Technology and Material of Water Treatment, Suzhou University of Science and Technology, 99 Xuefu Road, Suzhou, 215009, Jiangsu Province, PR China.
| | - Daolin Du
- Institute of Environment and Ecology, School of the Environment and Safety Engineering, Jiangsu University, 301 Xuefu Road, Zhenjiang, 21201, Jiangsu Province, PR China
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Diwan D, Rashid MM, Vaishnav A. Current understanding of plant-microbe interaction through the lenses of multi-omics approaches and their benefits in sustainable agriculture. Microbiol Res 2022; 265:127180. [PMID: 36126490 DOI: 10.1016/j.micres.2022.127180] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Revised: 08/26/2022] [Accepted: 08/27/2022] [Indexed: 11/28/2022]
Abstract
The success of sustainable agricultural practices has now become heavily dependent on the interactions between crop plants and their associated microbiome. Continuous advancement in high throughput sequencing platforms, omics-based approaches, and gene editing technologies has remarkably accelerated this area of research. It has enabled us to characterize the interactions of plants with associated microbial communities more comprehensively and accurately. Furthermore, the genomic and post-genomic era has significantly refined our perspective toward the complex mechanisms involved in those interactions, opening new avenues for efficiently deploying the knowledge in developing sustainable agricultural practices. This review focuses on our fundamental understanding of plant-microbe interactions and the contribution of existing multi-omics approaches, including those under active development and their tremendous success in unraveling different aspects of the complex network between plant hosts and microbes. In addition, we have also discussed the importance of sustainable and eco-friendly agriculture and the associated outstanding challenges ahead.
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Affiliation(s)
- Deepti Diwan
- Washington University School of Medicine, Saint Louis, MO 63110, USA.
| | - Md Mahtab Rashid
- Department of Plant Pathology, Bihar Agricultural University, Sabour, Bhagalpur, Bihar 813210, India; Department of Mycology and Plant Pathology, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi, Uttar Pradesh 221005, India
| | - Anukool Vaishnav
- Department of Biotechnology, GLA University, Mathura, Uttar Pradesh 281121, India; Department of Plant and Microbial Biology, University of Zürich, Zollikerstrasse 107, Zürich CH-8008, Switzerland; Plant-Soil Interaction Group, Agroscope (Reckenholz), Reckenholzstrasse 191, Zürich 8046, Switzerland
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Jha V, Purohit H, Dafale NA. Revealing the potential of Klebsiella pneumoniae PVN-1 for plant beneficial attributes by genome sequencing and analysis. 3 Biotech 2021; 11:473. [PMID: 34777930 DOI: 10.1007/s13205-021-03020-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Accepted: 10/05/2021] [Indexed: 12/28/2022] Open
Abstract
Genome sequencing of Klebsiella pneumoniae PVN-1, isolated from effluent treatment plant (ETP), generates a 5.064 Mb draft genome with 57.6% GC content. The draft genome assembled into 19 contigs comprises 4783 proteins, 3 rRNA, 44 tRNA, 8 other RNA, 4911 genes, and 73 pseudogenes. Genome information revealed the presence of phosphate metabolism/solubilizing, potassium solubilizing, auxin production, and other plant benefiting attributes like enterobactin and pyrroloquinoline quinone biosynthesis genes. Presence of gcd and pqq genes in K. pneumoniae PVN-1 genome validates the inorganic phosphate solubilizing potential (528.5 mg/L). Pangenome analysis identified a unique 5'-Nucleotidase that further assists in enhanced phosphate acquisition. Additionally, the genetic potential for complete benzoate, catechol, and phenylacetate degradation with stress response and heavy metal (Cu, Zn, Ni, Co) resistance was identified in K. pneumoniae PVN-1. Functioning of annotated plant benefiting genes validates by the metabolic activity of auxin production (7.40 µg/mL), nitrogen fixation, catalase activity, potassium solubilization (solubilization index-3.47), and protease activity (proteolytic index-2.27). In conclusion, the K. pneumoniae PVN-1 genome has numerous beneficial qualities that can be employed to enhance plant growth as well as for phytoremediation. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at 10.1007/s13205-021-03020-2.
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Gupta R, Anand G, Gaur R, Yadav D. Plant-microbiome interactions for sustainable agriculture: a review. PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS : AN INTERNATIONAL JOURNAL OF FUNCTIONAL PLANT BIOLOGY 2021; 27:165-179. [PMID: 33627969 PMCID: PMC7873154 DOI: 10.1007/s12298-021-00927-1] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2020] [Revised: 12/22/2020] [Accepted: 01/07/2021] [Indexed: 05/03/2023]
Abstract
UNLABELLED Plant-microbiome interactions are significant determinant for plant growth, fitness and productivity. Depending upon the specific habitat, plants' microbial communities are classified as the rhizo-, phyllo-, and endospheric regions. Understanding the plant microbiome interactions could provide an opportunity to develop strategies for sustainable agricultural practices. There is a necessity to decipher the complex structural and functional diversity within plant microbiomes to reveal its immense potential in agriculture. The plant microbiota harbors enormous microbial communities that defy analytical methodologies to study dynamics underlying plant microbiome interactions. Findings based on conventional approaches have ignored many beneficial microbial strains, which creates a serious gap in understanding the microbial communications along with the genetic adaptations, which favors their association with host plant. The new era of next generation sequencing techniques and modern cost-effective high-throughput molecular approaches can decipher microbial community composition and function. In this review, we have presented the overview of the various compartments of plants, approaches to allow the access to microbiome and factors that influence microbial community composition and function. Next, we summarize how plant microbiome interactions modulate host beneficial properties particularly nutrient acquisition and defense, along with future agricultural applications. SUPPLEMENTARY INFORMATION The online version contains supplementary material available at. 10.1007/s12298-021-00927-1.
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Affiliation(s)
- Rupali Gupta
- Department of Plant Pathology and Weed Research, Agricultural Research Organization, The Volcani Center, Rishon LeTsiyon, Israel
| | - Gautam Anand
- Department of Plant Pathology and Weed Research, Agricultural Research Organization, The Volcani Center, Rishon LeTsiyon, Israel
- Department of Biotechnology, Deen Dayal Upadhyaya Gorakhpur University, Gorakhpur, Uttar Pradesh India
| | - Rajeeva Gaur
- Department of Microbiology, Dr. Ram Manohar Lohia Avadh University, Ayodhya, 224001 Uttar Pradesh India
| | - Dinesh Yadav
- Department of Biotechnology, Deen Dayal Upadhyaya Gorakhpur University, Gorakhpur, Uttar Pradesh India
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Sahu J, Vaishnav A, Singh HB. Insights in Plant-Microbe Interaction through Genomics Approach (Part 1). Curr Genomics 2020; 21:155. [PMID: 33071608 PMCID: PMC7521037 DOI: 10.2174/138920292103200625161718] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Affiliation(s)
- Jagajjit Sahu
- 1National Center for Cell Sciences (NCCS), University of Pune Campus, University Road, Ganeshkhind, Pune-411007, Maharashtra, India; 2Somvanshi Research Foundation, 13/21 Vikas Nagar, Lucknow-226022, Uttar Pradesh, India; 3Department of Biotechnology, Institute of Applied Sciences and Humanities, GLA University, Mathura-281121, Uttar Pradesh, India
| | - Anukool Vaishnav
- 1National Center for Cell Sciences (NCCS), University of Pune Campus, University Road, Ganeshkhind, Pune-411007, Maharashtra, India; 2Somvanshi Research Foundation, 13/21 Vikas Nagar, Lucknow-226022, Uttar Pradesh, India; 3Department of Biotechnology, Institute of Applied Sciences and Humanities, GLA University, Mathura-281121, Uttar Pradesh, India
| | - Harikesh B Singh
- 1National Center for Cell Sciences (NCCS), University of Pune Campus, University Road, Ganeshkhind, Pune-411007, Maharashtra, India; 2Somvanshi Research Foundation, 13/21 Vikas Nagar, Lucknow-226022, Uttar Pradesh, India; 3Department of Biotechnology, Institute of Applied Sciences and Humanities, GLA University, Mathura-281121, Uttar Pradesh, India
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