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Ahsan T, Tian PC, Gao J, Wang C, Liu C, Huang YQ. Effects of microbial agent and microbial fertilizer input on soil microbial community structure and diversity in a peanut continuous cropping system. J Adv Res 2024; 64:1-13. [PMID: 38030126 DOI: 10.1016/j.jare.2023.11.028] [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: 09/09/2023] [Revised: 11/11/2023] [Accepted: 11/24/2023] [Indexed: 12/01/2023] Open
Abstract
INTRODUCTION The soil harbors a diverse array of microorganisms, and these are essential components of terrestrial ecosystems. The presence of microorganisms in the soil, particularly in the rhizosphere, is closely linked to plant growth and soil fertility. OBJECTIVE The primary objective of this study is to assess the potential advantages of integrating microbial inoculants with compound fertilizer in enhancing peanut yield. METHODS We utilized Illumina MiSeq high-throughput sequencing technology to conduct our investigation. The experimental design consists of four treatment groups: compound fertilizers (CF), compound fertilizers supplemented with microbial agents (CF + MA), compound fertilizers supplemented with microbial fertilizers (CF + MF), and compound fertilizers supplemented with both microbial agents and microbial fertilizers (CF + MM). RESULTS The experimental results demonstrated a significant increase in peanut yield upon application of CF + MA, CF + MF, and CF + MM treatments. During the blossom stage and pod-setting stage, the soil's catalase, urease, and acid phosphatase activities were significantly increased in the CF + MA, and CF + MM treatments compared to the CF treatment. The application of CF + MA resulted in an increase in bacterial richness in the rhizosphere soil of peanuts, as indicated by the sequencing results. The application of CF + MA, CF + MF, and CF + MM resulted in a reduction of fungal diversity. Proteobacteria, Actinobacteria, and Acidobacteria were the dominant bacterial phyla, while Ascomycota and Basidiomycota were the dominant phyla in the fungal component of the rhizosphere soil microbiome across all experimental treatments. CONCLUSION Microbial agents and fertilizers modify the peanut rhizosphere soil's microbial community structure, as per our findings. The abundance of potentially beneficial bacteria (Bradyrhizobium, Rhizobium, and Burkholderia) and fungi (Trichoderma and Cladophialophora) could increase, while pathogenic fungi (Penicillium and Fusarium) decreased, thereby significantly promoting plant growth and yield of peanut.
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Affiliation(s)
- Taswar Ahsan
- College of Plant Protection, Shenyang Agricultural University, Shenyang 110866, Liaoning, China; College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, Liaoning, China
| | - Pei-Cong Tian
- College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, Liaoning, China
| | - Jie Gao
- College of Land and Environment, Shenyang Agricultural University, Shenyang, 110866, Liaoning, China
| | - Chen Wang
- College of Plant Protection, Shenyang Agricultural University, Shenyang 110866, Liaoning, China
| | - Chuang Liu
- College of Plant Protection, Shenyang Agricultural University, Shenyang 110866, Liaoning, China
| | - Yu-Qian Huang
- College of Plant Protection, Shenyang Agricultural University, Shenyang 110866, Liaoning, China.
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Ugras S, Bahat D. The Public Health Risks of β-Hemolytic Bacillus pumilus Bacteria Resistant to Gastrointestinal Conditions from Medicinal Plant. J Med Food 2024. [PMID: 39172551 DOI: 10.1089/jmf.2024.0138] [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: 08/24/2024] Open
Abstract
In numerous countries, the utilization of plants for both nutritional and therapeutic purposes is a common practice. However, the inadvertent use of these plants can pose risks due to their active molecules or microbiota. The traditional use of Herniaria glabra L. (H. glabra) plant in treating various diseases is well-known; however, its application in yogurt production raises concerns. In this study, Bacillus pumilus isolated from H. glabra was identified through 16s rRNA sequencing and MALDI-TOF MS (Matriks Assisted Lazer Desorption Ionization Time of Flight Massspectrometry). The bacterium's resistance under simulated gastrointestinal tract (GIT) conditions was assessed, followed by investigations into its aggregation ability, antibiotic resistance, hemolytic activity, and antagonistic potential through in vitro tests. The study revealed that B. pumilus exhibited 100% resistance to GIT conditions. Notably, the bacterium demonstrated strong autoaggregation (34.48%) and coaggregation abilities (49.82% for Escherichia coli, 49.13% for Listeria monocytogenes), signifying a potent aggregative potential. Sensitivity to most tested antibiotics was observed, while no antagonistic activity against tested bacteria was evident. Furthermore, the bacterium exhibited β-hemolytic activity, indicative of potential virulence. The findings suggest that this resistant yet virulent bacterium, with its hemolytic activity, could disrupt the GIT balance, posing serious health risks. The study underscores the need for caution and awareness regarding the potential dangers posed by bacteria in plant microbiota in herbal therapies.
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Affiliation(s)
- Serpil Ugras
- Department of Pharmaceutical Microbiology, Hamidiye Faculty of Pharmacy, University of Health Sciences, Istanbul, Türkiye
| | - Dilsah Bahat
- Department of Biology, Faculty of Science and Art, Duzce University, Duzce, Türkiye
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Wang X, Zhao N, Li W, Pu X, Xu P, Wang P. Core Bacterial Taxa Determine Formation of Forage Yield in Fertilized Soil. Microorganisms 2024; 12:1679. [PMID: 39203522 PMCID: PMC11356994 DOI: 10.3390/microorganisms12081679] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2024] [Revised: 08/06/2024] [Accepted: 08/13/2024] [Indexed: 09/03/2024] Open
Abstract
Understanding the roles of core bacterial taxa in forage production is crucial for developing sustainable fertilization practices that enhance the soil bacteria and forage yield. This study aims to investigate the impact of different fertilization regimes on soil bacterial community structure and function, with a particular focus on the role of core bacterial taxa in contributing to soil nutrient content and enhancing forage yield. Field experiments and high-throughput sequencing techniques were used to analyze the soil bacterial community structure and function under various fertilization regimes, including six treatments, control with no amendment (CK), double the standard rate of organic manure (T01), the standard rate of organic manure with nitrogen input equal to T04 (T02), half the standard rate of inorganic fertilizer plus half the standard rate of organic manure (T03), the standard rate of inorganic fertilizer reflecting local practice (T04), and double the standard rate of inorganic fertilizer (T05). The results demonstrated that organic manure treatments, particularly T01, significantly increased the forage yield and the diversity of core bacterial taxa. Core taxa from the Actinomycetota, Alphaproteobacteria, and Gammaproteobacteria classes were crucial in enhancing the soil nutrient content, directly correlating with forage yield. Fertilization significantly influenced functions relating to carbon and nitrogen cycling, with core taxa playing central roles. The diversity of core microbiota and soil nutrient levels were key determinants of forage yield variations across treatments. These findings underscore the critical role of core bacterial taxa in agroecosystem productivity and advocate for their consideration in fertilization strategies to optimize forage yield, supporting the shift towards sustainable agricultural practices.
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Affiliation(s)
- Xiangtao Wang
- School of Life Sciences, Guizhou Normal University, Guiyang 550025, China;
| | - Ningning Zhao
- State Key Laboratory of Herbage Improvement and Grassland Agro-Ecosystems, Center for Grassland Microbiome, College of Pastoral, Agriculture Science and Technology, Lanzhou University, Lanzhou 730000, China
- Qiangtang Alpine Grassland Ecosystem Research Station, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
| | - Wencheng Li
- Qiangtang Alpine Grassland Ecosystem Research Station, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
- School of Ecology and Enviroment, Tibet University, Lhasa 850000, China
| | - Xin Pu
- Qiangtang Alpine Grassland Ecosystem Research Station, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
- College of Animal Science, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
| | - Peng Xu
- Qiangtang Alpine Grassland Ecosystem Research Station, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
- College of Animal Science, Tibet Agricultural and Animal Husbandry University, Nyingchi 860000, China
| | - Puchang Wang
- School of Life Sciences, Guizhou Normal University, Guiyang 550025, China;
- State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China
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Pintarič M, Štuhec A, Tratnik E, Langerholc T. Spent Mushroom Substrate Improves Microbial Quantities and Enzymatic Activity in Soils of Different Farming Systems. Microorganisms 2024; 12:1521. [PMID: 39203364 PMCID: PMC11356570 DOI: 10.3390/microorganisms12081521] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2024] [Revised: 07/19/2024] [Accepted: 07/22/2024] [Indexed: 09/03/2024] Open
Abstract
Organic fertilizers, such as spent mushroom substrate (SMS), improve soil fertility, but studies comparing their effects on different agricultural soils are limited. In this study, the effects of standard, SMS and composed fertilizers on soils from conventional-integrated, organic and biodynamic farming were investigated. Soil samples were analyzed for microorganisms and the activity of β-glucosidase (β-GLU), β-1,4-N-acetylglucosaminidase (NAG), urease (URE), arylamidase (ARN), phosphatase (PHOS), acid phosphatase (PAC), alkaline phosphatase (PAH) and arylsulphatase (ARS). Biodynamic soil showed the highest microbial counts and enzyme activities, followed by organic and conventional soils. SMS significantly increased the number of microorganisms and enzyme activities, especially in biodynamic and organic soils. Seasonal variations affected all microorganisms and most enzymes in all soils, except NAG in conventional and organic soils. Biodynamic soil showed stable activity of enzymes and microorganisms throughout the year, indicating greater stability. This study concludes that soil microorganisms and enzyme activities respond differently to fertilization depending on the soil type, with SMS demonstrating beneficial effects in all tested soils.
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Affiliation(s)
- Maša Pintarič
- Department of Microbiology, Biochemistry, Molecular Biology and Biotechnology, Faculty of Agriculture and Life Sciences, University of Maribor, Pivola 10, 2311 Hoče, Slovenia; (A.Š.); (E.T.); (T.L.)
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Huang L, Rosado AS, Wright A, Corrêa RS, Silva L, Mazza Rodrigues JL. Microbiota recovery in a chronosquences of impoverished Cerrado soils with biosolids applications. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 931:172958. [PMID: 38714255 DOI: 10.1016/j.scitotenv.2024.172958] [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: 01/18/2024] [Revised: 04/25/2024] [Accepted: 05/01/2024] [Indexed: 05/09/2024]
Abstract
Mining activities put the Brazilian savannas, a global biodiversity hotspot, in danger of species and soil carbon losses. Experiments employing biosolids have been applied to rejuvenate this degraded ecosystem, but a lingering question yet to be answered is whether the microbiota that inhabits these impoverished soils can be recovered towards its initial steady state after vegetation recovery. Here, we selected an 18-year-old restoration chronosequence of biosolids-treated, untreated mining and native soils to investigate the soil microbiota recovery based on composition, phylogeny, and diversity, as well as the potential factors responsible for ecosystem recovery. Our results revealed that the soil microbiota holds a considerable recovery potential in the degraded Cerrado biome. Biosolids application not only improved soil health, but also led to 41.7 % recovery of the whole microbial community, featuring significantly higher microbiota diversity and enriched groups (e.g., Firmicutes) that benefit carbon storage compared to untreated mining and native soils. The recovered community showed significant compositional distinctions from the untreated mining or native soils, rather than phylogenetic differences, with physiochemical properties explaining 55 % of the overall community changes. This study advances our understanding of soil microbiota dynamics in response to disturbance and restoration by shedding light on its recovery associated with biosolid application in a degraded biodiverse ecosystem.
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Affiliation(s)
- Laibin Huang
- Department of Biology, Saint Louis University, St. Louis, MO 63103, USA
| | - Alexandre Soares Rosado
- Biological and Environmental Sciences and Engineering (BESE) Division, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955, Saudi Arabia
| | - Alonna Wright
- Genome Center, University of California, Davis, CA 95616, USA
| | - Rodrigo Studart Corrêa
- Postgraduate Program in Environmental Sciences, University of Brasília - UnB/FUP/ PPGCA, Brasília, DF 70910, Brazil
| | - Lucas Silva
- Environmental Studies Program, Department of Geography, Institute of Ecology and Evolution, University of Oregon, Eugene 97403, USA
| | - Jorge L Mazza Rodrigues
- Department of Land, Air, and Water Resources, University of California, Davis, CA 95616, USA; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
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Mažylytė R, Kailiuvienė J, Mažonienė E, Orola L, Kaziūnienė J, Mažylytė K, Lastauskienė E, Gegeckas A. The Co-Inoculation Effect on Triticum aestivum Growth with Synthetic Microbial Communities (SynComs) and Their Potential in Agrobiotechnology. PLANTS (BASEL, SWITZERLAND) 2024; 13:1716. [PMID: 38931148 PMCID: PMC11207813 DOI: 10.3390/plants13121716] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 06/17/2024] [Accepted: 06/18/2024] [Indexed: 06/28/2024]
Abstract
The use of rhizospheric SynComs can be a new and sustainable strategy in the agrobiotechnology sector. The objective of this study was to create the most appropriate SynCom composition; examine the ability to dissolve natural rock phosphate (RP) from Morocco in liquid-modified NBRIP medium; determine organic acids, and phytohormones; and verify plant growth promoting and nutrition uptake effect in the pot experiments of winter wheat (Triticum aestivum). A total of nine different microorganisms were isolated, which belonged to three different genera: Bacillus, Pseudomonas, and Streptomyces. Out of the 21 treatments tested, four SynComs had the best phosphate-dissolving properties: IJAK-27+44+91 (129.17 mg L-1), IIBEI-32+40 (90.95 µg mL-1), IIIDEG-45+41 (122.78 mg L-1), and IIIDEG-45+41+72 (120.78 mg L-1). We demonstrate that these SynComs are capable of producing lactic, acetic, gluconic, malic, oxalic, citric acids, and phytohormones such as indole-3-acetic acid, zeatin, gibberellic acid, and abscisic acid. In pot experiments with winter wheat, we also demonstrated that the designed SynComs were able to effectively colonize the plant root rhizosphere and contributed to more abundant plant growth characteristics and nutrient uptake as uninoculated treatment or uninoculated treatment with superphosphate (NPK 0-19-0). The obtained results show that the SynCom compositions of IJAK-27+44+91, IIBEI-32+40, IIIDEG-45+41, and IIIDEG-45+41+72 can be considered as promising candidates for developing biofertilizers to facilitate P absorption and increase plant nutrition.
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Affiliation(s)
- Raimonda Mažylytė
- Life Sciences Center, Institute of Biosciences, Vilnius University, LT-10257 Vilnius, Lithuania; (K.M.); (E.L.); (A.G.)
| | | | - Edita Mažonienė
- Roquette Amilina, LT-35101 Panevezys, Lithuania; (J.K.); (E.M.)
| | - Liana Orola
- Faculty of Chemistry, University of Latvia, LV-1004 Riga, Latvia;
| | - Justina Kaziūnienė
- Institute of Agriculture, Lithuanian Research Centre for Agriculture and Forestry, LT-58344 Akademija, Lithuania;
| | - Kamilė Mažylytė
- Life Sciences Center, Institute of Biosciences, Vilnius University, LT-10257 Vilnius, Lithuania; (K.M.); (E.L.); (A.G.)
| | - Eglė Lastauskienė
- Life Sciences Center, Institute of Biosciences, Vilnius University, LT-10257 Vilnius, Lithuania; (K.M.); (E.L.); (A.G.)
| | - Audrius Gegeckas
- Life Sciences Center, Institute of Biosciences, Vilnius University, LT-10257 Vilnius, Lithuania; (K.M.); (E.L.); (A.G.)
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Kalairaj A, Rajendran S, Panda RC, Senthilvelan T. A study on waterlogging tolerance in sugarcane: a comprehensive review. Mol Biol Rep 2024; 51:747. [PMID: 38874798 DOI: 10.1007/s11033-024-09679-z] [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: 03/02/2024] [Accepted: 05/27/2024] [Indexed: 06/15/2024]
Abstract
Sugarcane (Saccharum officinarum) is an important crop, native to tropical and subtropical regions and it is a major source of sugar and Bioenergy in the world. Abiotic stress is defined as environmental conditions that reduce growth and yield below the optimum level. To tolerate these abiotic stresses, plants initiate several molecular, cellular, and physiological changes. These responses to abiotic stresses are dynamic and complex; they may be reversible or irreversible. Waterlogging is an abiotic stress phenomenon that drastically reduces the growth and survival of sugarcane, which leads to a 15-45% reduction in cane's yield. The extent of damage due to waterlogging depends on genotypes, environmental conditions, stage of development and duration of stress. An improved understanding of the physiological, biochemical, and molecular responses of sugarcane to waterlogging stress could help to develop new breeding strategies to sustain high yields against this situation. The present review offers a summary of recent findings on the adaptation of sugarcane to waterlogging stress in terms of growth and development, yield and quality, as well as biochemical and adaptive-molecular processes that may contribute to flooding tolerance.
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Affiliation(s)
- Ashmitha Kalairaj
- Department of Bioinformatics, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Sciences (SIMATS), Saveetha University, Thandalam, Chennai, Tamilnadu, 602 105, India
| | - Swethashree Rajendran
- Department of Bioinformatics, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Sciences (SIMATS), Saveetha University, Thandalam, Chennai, Tamilnadu, 602 105, India
| | - Rames C Panda
- Chemical Engineering Division, RajaLakshmi Engineering College, Thandalam, Chennai, Tamilnadu, 602 105, India
| | - T Senthilvelan
- Department of Bioinformatics, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Sciences (SIMATS), Saveetha University, Thandalam, Chennai, Tamilnadu, 602 105, India.
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Ebsa G, Gizaw B, Admassie M, Degu T, Alemu T. The role and mechanisms of microbes in dichlorodiphenyltrichloroethane (DDT) and its residues bioremediation. BIOTECHNOLOGY REPORTS (AMSTERDAM, NETHERLANDS) 2024; 42:e00835. [PMID: 38560709 PMCID: PMC10972831 DOI: 10.1016/j.btre.2024.e00835] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/28/2023] [Revised: 03/09/2024] [Accepted: 03/09/2024] [Indexed: 04/04/2024]
Abstract
Environmental contamination with dichlorodiphenyltrichloroethane (DDT) has sever effects on the ecosystem worldwide. DDT is a recalcitrant synthetic chemical with high toxicity and lipophilicity. It is also bioaccumulated in the food chain and causes genotoxic, estrogenic, carcinogenic, and mutagenic effects on aquatic organisms and humans. Microbial remediation mechanism and its enzymes are very important for removing DDT from environment. DDT and its main residues dichlorodiphenyldichloroethylene (DDE) and dichlorodiphenyldichloroethane (DDD) can biodegrade slowly in soil and water. To enhance this process, a number of strategies are proposed, such as bio-attenuation, biostimulation, bioaugmentation and the manipulation of environmental conditions to enhance the activity of microbial enzymes. The addition of organic matter and flooding of the soil enhance DDT degradation. Microbial candidates for DDT remediation include micro-algae, fungi and bacteria. This review provide brief information and recommendation on microbial DDT remediation and its mechanisms.
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Affiliation(s)
- Girma Ebsa
- Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, P. O. Box: 1176, Addis Ababa, Ethiopia
| | - Birhanu Gizaw
- Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, P. O. Box: 1176, Addis Ababa, Ethiopia
| | - Mesele Admassie
- Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, P. O. Box: 1176, Addis Ababa, Ethiopia
| | - Tizazu Degu
- Department of Crop Protection, Ethiopian Institute of Agricultural Research, P. O. Box: 2003, Addis Ababa, Ethiopia
| | - Tesfaye Alemu
- Department of Microbial, Cellular and Molecular Biology, Addis Ababa University, P. O. Box: 1176, Addis Ababa, Ethiopia
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Yiallouris A, Pana ZD, Marangos G, Tzyrka I, Karanasios S, Georgiou I, Kontopyrgia K, Triantafyllou E, Seidel D, Cornely OA, Johnson EO, Panagiotou S, Filippou C. Fungal diversity in the soil Mycobiome: Implications for ONE health. One Health 2024; 18:100720. [PMID: 38699438 PMCID: PMC11064618 DOI: 10.1016/j.onehlt.2024.100720] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2023] [Accepted: 04/02/2024] [Indexed: 05/05/2024] Open
Abstract
Today, over 300 million individuals worldwide are afflicted by severe fungal infections, many of whom will perish. Fungi, as a result of their plastic genomes have the ability to adapt to new environments and extreme conditions as a consequence of globalization, including urbanization, agricultural intensification, and, notably, climate change. Soils and the impact of these anthropogenic environmental factors can be the source of pathogenic and non-pathogenic fungi and subsequent fungal threats to public health. This underscores the growing understanding that not only is fungal diversity in the soil mycobiome a critical component of a functioning ecosystem, but also that soil microbial communities can significantly contribute to plant, animal, and human health, as underscored by the One Health concept. Collectively, this stresses the importance of investigating the soil microbiome in order to gain a deeper understanding of soil fungal ecology and its interplay with the rhizosphere microbiome, which carries significant implications for human health, animal health and environmental health.
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Affiliation(s)
- Andreas Yiallouris
- School of Medicine, European University, Cyprus
- Medical innovation center (MEDIC), School of Medicine, European University, Cyprus
| | - Zoi D. Pana
- School of Medicine, European University, Cyprus
- Medical innovation center (MEDIC), School of Medicine, European University, Cyprus
| | | | | | | | | | | | | | - Danila Seidel
- University of Cologne, Faculty of Medicine and University Hospital Cologne, Translational Research, Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), Cologne, Germany
- University of Cologne, Faculty of Medicine and University Hospital Cologne, Department I of Internal Medicine, Center for Integrated Oncology Aachen Bonn Cologne Duesseldorf (CIO ABCD) and Excellence Center for Medical Mycology (ECMM), Cologne, Germany
- German Centre for Infection Research (DZIF), Partner Site Bonn-Cologne, Cologne, Germany
| | - Oliver A. Cornely
- University of Cologne, Faculty of Medicine and University Hospital Cologne, Translational Research, Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), Cologne, Germany
- University of Cologne, Faculty of Medicine and University Hospital Cologne, Department I of Internal Medicine, Center for Integrated Oncology Aachen Bonn Cologne Duesseldorf (CIO ABCD) and Excellence Center for Medical Mycology (ECMM), Cologne, Germany
- German Centre for Infection Research (DZIF), Partner Site Bonn-Cologne, Cologne, Germany
| | - Elizabeth O. Johnson
- School of Medicine, European University, Cyprus
- Medical innovation center (MEDIC), School of Medicine, European University, Cyprus
| | - Stavros Panagiotou
- School of Medicine, European University, Cyprus
- Division of Medical Education, School of Medical Sciences, Faculty of Biology, Medicine and Health, University of Manchester
| | - Charalampos Filippou
- School of Medicine, European University, Cyprus
- Medical innovation center (MEDIC), School of Medicine, European University, Cyprus
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Jiménez-Ríos L, Torrado A, González-Pimentel JL, Iniesta-Pallarés M, Molina-Heredia FP, Mariscal V, Álvarez C. Emerging nitrogen-fixing cyanobacteria for sustainable cotton cultivation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 924:171533. [PMID: 38458446 DOI: 10.1016/j.scitotenv.2024.171533] [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: 01/15/2024] [Revised: 03/04/2024] [Accepted: 03/04/2024] [Indexed: 03/10/2024]
Abstract
Amid growing environmental concerns and the imperative for sustainable agricultural practices, this study examines the potential of nitrogen-fixing cyanobacteria as biofertilizers, particularly in cotton cultivation. The reliance on synthetic nitrogen fertilizers (SNFs), prevalent in modern agriculture, poses significant environmental challenges, including greenhouse gas emissions and water system contamination. This research aims to shift this paradigm by exploring the capacity of cyanobacteria as a natural and sustainable alternative. Utilizing advanced metabarcoding methods to analyze the 16S rRNA gene, we conducted a comprehensive assessment of soil bacterial communities within cotton fields. This study focused on evaluating the diversity, structure, taxonomic composition, and potential functional characteristics of these communities. Emphasis was placed on the isolation of native N2-fixing cyanobacteria strains rom cotton soils, and their subsequent effects on cotton growth. Results from our study demonstrate significant plant growth-promoting (PGP) activities, measured as N2 fixation, production of Phytohormones, Fe solubilization and biofertilization potential of five isolated cyanobacterial strains, underscoring their efficacy in cotton. These findings suggest a viable pathway for replacing chemical-synthetic nitrogen fertilizers with natural, organic alternatives. The reintegration of these beneficial species into agricultural ecosystems can enhance crop growth while fostering a balanced microbial environment, thus contributing to the broader goals of global sustainable agriculture.
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Affiliation(s)
- Lucía Jiménez-Ríos
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain
| | - Alejandro Torrado
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain
| | - José Luis González-Pimentel
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain
| | - Macarena Iniesta-Pallarés
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain
| | - Fernando P Molina-Heredia
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain
| | - Vicente Mariscal
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain.
| | - Consolación Álvarez
- Instituto de Bioquímica Vegetal y Fotosíntesis, Consejo Superior de Investigaciones Científicas and Universidad de Sevilla, Américo Vespucio 49, 41092 Sevilla, Spain.
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11
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Niu X, Wang P, Xie Z, Gao M, Qian S, Saifutdinov R, Aspe NM, Wu D, Guan P. Soil nematode metacommunities in different land covers: Assessment at the local and regional scales. Ecol Evol 2024; 14:e11468. [PMID: 38799394 PMCID: PMC11116945 DOI: 10.1002/ece3.11468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 05/05/2024] [Accepted: 05/08/2024] [Indexed: 05/29/2024] Open
Abstract
The metacommunity theory enhances our understanding of how ecological processes regulate community structure. Yet, unraveling the complexities of soil nematode metacommunity structures across various spatial scales and determining the factors influencing these patterns remains challenging. Therefore, we conducted an investigation on soil nematode metacommunities spanning from north to south in the Northeastern China. Our aim was to test whether nematode metacommunities were structured by different drivers under three land covers (i.e., farmland, grassland and woodland) at the local and regional scales. The results revealed that the Clementsian, Gleasonian and their quasi-structures of soil nematodes collectively accounted for 93% of the variation across the three land covers at the local and regional scales. These structures suggest that the soil nematode metacommunities in the Northeast China responded to fluctuations in environmental gradients. At the local scale, metacommunities were primarily shaped by biological interactions. At the regional scale, environmental heterogeneity, dispersal limitation and biological interactions all contributed to nematode metacommunities. Meanwhile, biological interactions under three land covers were represented within different trophic groups, with plant parasites predominant in farmlands and bacterivores in grasslands and woodlands. In conclusion, the metacommunity structures of soil nematodes remain stable at different spatial scales and land covers. Biological interactions are widespread among nematodes regardless of changes in spatial scales and land covers. This study reveals the importance of nematode sensitivity to the environment and biological interactions in shaping the nematode metacommunities, potentially enhancing our understanding of the spatial patterns of nematode metacommunities.
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Affiliation(s)
- Ximei Niu
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
| | - Ping Wang
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
- Key Laboratory of Vegetation Ecology, Ministry of EducationNortheast Normal UniversityChangchunChina
| | - Zhijing Xie
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
- Key Laboratory of Vegetation Ecology, Ministry of EducationNortheast Normal UniversityChangchunChina
| | - Meixiang Gao
- Department of Geography and Spatial Information TechniquesNingbo UniversityNingboChina
| | - Siru Qian
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
| | - Ruslan Saifutdinov
- Laboratory for Soil Ecological FunctionsA.N. Severtsov Institute of Ecology and Evolution, Russian Academy of SciencesMoscowRussia
| | - Nonillon M. Aspe
- College of Marine and Allied SciencesMindanao State University at NaawanNaawanPhilippines
| | - Donghui Wu
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
- Key Laboratory of Vegetation Ecology, Ministry of EducationNortheast Normal UniversityChangchunChina
- Key Laboratory of Wetland Ecology and Environment, Northeast Institute of Geography and AgroecologyChinese Academy of SciencesChangchunChina
| | - Pingting Guan
- State Environmental Protection Key Laboratory of Wetland Ecology and Vegetation Restoration, School of EnvironmentNortheast Normal UniversityChangchunChina
- Key Laboratory of Vegetation Ecology, Ministry of EducationNortheast Normal UniversityChangchunChina
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Shamshitov A, Kadžienė G, Supronienė S. The Role of Soil Microbial Consortia in Sustainable Cereal Crop Residue Management. PLANTS (BASEL, SWITZERLAND) 2024; 13:766. [PMID: 38592825 PMCID: PMC10974107 DOI: 10.3390/plants13060766] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Revised: 03/05/2024] [Accepted: 03/06/2024] [Indexed: 04/11/2024]
Abstract
The global escalation in cereal production, essential to meet growing population demands, simultaneously augments the generation of cereal crop residues, estimated annually at approximately 3107 × 106 Mg/year. Among different crop residue management approaches, returning them to the soil can be essential for various ecological benefits, including nutrient recycling and soil carbon sequestration. However, the recalcitrant characteristics of cereal crop residues pose significant challenges in their management, particularly in the decomposition rate. Therefore, in this review, we aim to summarize the influence of different agricultural practices on enhancing soil microbial decomposer communities, thereby effectively managing cereal crop residues. Moreover, this manuscript provides indirect estimates of cereal crop residue production in Northern Europe and Lithuania, and highlights the diverse roles of lignocellulolytic microorganisms in the decomposition process, with a particular focus on enzymatic activities. This review bridges the knowledge gap and indicates future research directions concerning the influence of agricultural practices on cereal crop residue-associated microbial consortia.
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Affiliation(s)
- Arman Shamshitov
- Laboratory of Microbiology, Institute of Agriculture, Lithuanian Research Centre for Agriculture and Forestry, Instituto al. 1, Akademija, LT-58344 Kedainiai, Lithuania;
| | - Gražina Kadžienė
- Department of Soil and Crop Management, Institute of Agriculture, Lithuanian Research Centre for Agriculture and Forestry, Instituto al. 1, Akademija, LT-58344 Kedainiai, Lithuania
| | - Skaidrė Supronienė
- Laboratory of Microbiology, Institute of Agriculture, Lithuanian Research Centre for Agriculture and Forestry, Instituto al. 1, Akademija, LT-58344 Kedainiai, Lithuania;
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13
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Raj A, Kumar A, Khare PK. The looming threat of profenofos organophosphate and microbes in action for their sustainable degradation. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:14367-14387. [PMID: 38291208 DOI: 10.1007/s11356-024-32159-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Accepted: 01/19/2024] [Indexed: 02/01/2024]
Abstract
Organophosphates are the most extensively used class of pesticides to deal with increasing pest diversity and produce more on limited terrestrial areas to feed the ever-expanding global population. Profenofos, an organophosphate group of non-systematic insecticides and acaricides, is used to combat aphids, cotton bollworms, tobacco budworms, beet armyworms, spider mites, and lygus bugs. Profenofos was inducted into the system as a replacement for chlorpyrifos due to its lower toxicity and half-life. It has become a significant environmental concern due to its widespread presence. It accumulates in various environmental components, contaminating food, water, and air. As a neurotoxic poison, it inhibits acetylcholinesterase receptor activity, leading to dizziness, paralysis, and pest death. It also affects other eukaryotes, such as pollinators, birds, mammals, and invertebrates, affecting ecosystem functioning. Microbes directly expose themselves to profenofos and adapt to these toxic compounds over time. Microbes use these toxic compounds as carbon and energy sources and it is a sustainable and economical method to eliminate profenofos from the environment. This article explores the studies and developments in the bioremediation of profenofos, its impact on plants, pollinators, and humans, and the policies and laws related to pesticide regulation. The goal is to raise awareness about the global threat of profenofos and the role of policymakers in managing pesticide mismanagement.
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Affiliation(s)
- Aman Raj
- Metagenomics and Secretomics Research Laboratory, Department of Botany, Dr. Harisingh Gour University (A Central University), Sagar, (M.P), -470003, India
| | - Ashwani Kumar
- Metagenomics and Secretomics Research Laboratory, Department of Botany, Dr. Harisingh Gour University (A Central University), Sagar, (M.P), -470003, India.
- Metagenomics and Secretomics Research Laboratory, Department of Botany, University of Allahabad (A Central University), Prayagraj, (UP), -211002, India.
| | - Pramod Kumar Khare
- Ecology Laboratory, Department of Botany, Dr. Harisingh Gour Vishwavidyalaya (A Central University), Madhya Pradesh, Sagar, -470003, India
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14
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Patani A, Patel M, Islam S, Yadav VK, Prajapati D, Yadav AN, Sahoo DK, Patel A. Recent advances in Bacillus-mediated plant growth enhancement: a paradigm shift in redefining crop resilience. World J Microbiol Biotechnol 2024; 40:77. [PMID: 38253986 DOI: 10.1007/s11274-024-03903-5] [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: 12/12/2023] [Accepted: 01/18/2024] [Indexed: 01/24/2024]
Abstract
The Bacillus genus has emerged as an important player in modern agriculture, revolutionizing plant growth promotion through recent advances. This review provides a comprehensive overview of the critical role Bacillus species play in boosting plant growth and agricultural sustainability. Bacillus genus bacteria benefit plants in a variety of ways, according to new research. Nitrogen fixation, phosphate solubilization, siderophore production, and the production of growth hormones are examples of these. Bacillus species are also well-known for their ability to act as biocontrol agents, reducing phytopathogens and protecting plants from disease. Molecular biology advances have increased our understanding of the complex interplay between Bacillus species and plants, shedding light on the genetic and metabolic underpinnings of these interactions. Furthermore, novel biotechnology techniques have enabled the development of Bacillus-based biofertilizers and biopesticides, providing sustainable alternatives to conventional chemical inputs. Apart from this, the combination of biochar and Bacillus species in current biotechnology is critical for improving soil fertility and encouraging sustainable agriculture through enhanced nutrient retention and plant growth. This review also emphasizes the Bacillus genus bacteria's ability to alleviate environmental abiotic stresses such as drought and salinity, hence contributing to climate-resilient agriculture. Moreover, the authors discuss the challenges and prospects associated with the practical application of Bacillus-based solutions in the field. Finally, recent advances in Bacillus-mediated plant growth promotion highlight their critical significance in sustainable agriculture. Understanding these improvements is critical for realizing the full potential of Bacillus genus microorganisms to address current global food production concerns.
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Affiliation(s)
- Anil Patani
- Department of Biotechnology, Smt. S. S. Patel Nootan Science and Commerce College, Sankalchand Patel University, Visnagar, Gujarat, India
| | - Margi Patel
- Department of Life Sciences, Hemchandracharya North Gujarat University, Patan, Gujarat, 384265, India
| | - Shaikhul Islam
- Plant Pathology Division, Wheat and Maize Research Institute, Nashipur, Dinajpur, 5200, Bangladesh
| | - Virendra Kumar Yadav
- Department of Life Sciences, Hemchandracharya North Gujarat University, Patan, Gujarat, 384265, India
| | - Dharmendra Prajapati
- Department of Biotechnology, Smt. S. S. Patel Nootan Science and Commerce College, Sankalchand Patel University, Visnagar, Gujarat, India
| | - Ajar Nath Yadav
- Department of Biotechnology, Dr. KSG Akal College of Agriculture, Eternal University, Baru Sahib, Sirmour, Himachal Pradesh, 173101, India
| | - Dipak Kumar Sahoo
- Department of Veterinary Clinical Sciences, College of Veterinary Medicine, Iowa State University, Ames, USA
| | - Ashish Patel
- Department of Life Sciences, Hemchandracharya North Gujarat University, Patan, Gujarat, 384265, India.
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15
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Li Z, Yang Y, Liu J, Jiang W, Gao Y. Effects of water volume of drip irrigation on soil bacterial communities and its association with soil properties in jujube cultivation. Front Microbiol 2024; 14:1321993. [PMID: 38312501 PMCID: PMC10836404 DOI: 10.3389/fmicb.2023.1321993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2023] [Accepted: 12/22/2023] [Indexed: 02/06/2024] Open
Abstract
Introduction Jujube is one of an important crop in Xinjiang, China, a area suffered by water scarcity and DI has been proven as a suitable mode for jujube cultivation. Soil bacterial community play a vital role in biogeochemical cycles to support the crop growth, and water content is considered as one of the important factors for them. However, limited research has explored the optimum irrigation strategies, such as water volume of DI, to maximize the benefits of jujube cultivation by regulating the soil bacterial communities. Methods Therefore, in this study, we conducted DI experiments on jujube fields in Xinjiang with three different water volume levels, and measured the soil properties and bacterial communities of the flowering and fruit setting (FFS) and end of growth (EG) stages. Results and discussion Significant lower jujube yield and soil available nutrients were observed in samples with low water amount. In addition, we discovered significant effects of the water amount of DI and jujube growth stages on soil bacterial communities. Based on the compare of samples among different growth stages and water amounts some growth stage related bacterial genera (Mycobacterium, Bradyrhizobium, and Bacillus) and water amount-related bacterial phyla (Chloroflexi, Nitrospirota, and Myxococcota) were recognized. Moreover, according to the results of null model, soil bacterial communities were governed by stochastic and deterministic processes under middle and low water volumes of DI, respectively. Finally, we deduced that middle water amount (600 mm) could be the optimal condition of DI for jujube cultivation because the higher jujube yield, deterministic assembly, and stronger correlations between soil properties and bacterial community under this condition. Our findings provide guidance for promoting the application of DI in jujube cultivation, and further research is needed to investigate the underlying mechanisms of soil bacterial community to promote the jujube yield.
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Affiliation(s)
- Zhaoyang Li
- College of Water Hydraulic and Architectural Engineering, Tarim University, Alar, China
- Laboratory of Modern Agricultural Engineering, Tarim University, Alar, China
- Key Laboratory of Northwest Oasis Water-Saving Agriculture, Ministry of Agriculture and Rural Affairs, Shihezi, China
| | - Yuhui Yang
- College of Water Hydraulic and Architectural Engineering, Tarim University, Alar, China
- Laboratory of Modern Agricultural Engineering, Tarim University, Alar, China
| | - Jiangfan Liu
- College of Water Hydraulic and Architectural Engineering, Tarim University, Alar, China
| | - Wenge Jiang
- College of Water Hydraulic and Architectural Engineering, Tarim University, Alar, China
| | - Yang Gao
- College of Water Hydraulic and Architectural Engineering, Tarim University, Alar, China
- Institute of Farmland Irrigation, Chinese Academy of Agricultural Sciences, Xinxiang, Henan, China
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16
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Chee-Sanford JC, Connor LM. Comparison of microbial community assemblages in the rhizosphere of three Amaranthus spp. PLoS One 2023; 18:e0294966. [PMID: 38019804 PMCID: PMC10686429 DOI: 10.1371/journal.pone.0294966] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 11/10/2023] [Indexed: 12/01/2023] Open
Abstract
Weed management remains a major challenge in cropping systems worldwide, with rising interest in ecological based approaches that can be integrated with herbicide use. Soil microbial communities may play important, yet undiscovered, roles in weed success. Little is known about the rhizosphere communities associated with weeds like Amaranthus, commonly known as pigweeds, and considered some of the most problematic weeds in agricultural systems. In a greenhouse experiment that allowed controlled plant growth conditions and a high number of individual plant specimens to analyze for statistical robustness (n = 8 per species), we show that specific bacterial assemblages form in the rhizospheres of A. retroflexus L. (redroot pigweed), A. palmeri S. Watson (Palmer amaranth), and A. tuberculatus (Moq.) J. D. Sauer (waterhemp). Using a relatively rapid and easy approach of T-RFLP community profiling of the 16S rRNA genes, distinct assemblages corresponded to plant species (PERMANOVA F = 14.776, p = 0.001), and further within each species, similar communities (F = 11.449, p = 0.001) were associated with three rhizosphere soil fractions taken in increasing distances away from the root tissue. These results provide the first solid basis for distinct plant-microbe relationships within three closely related Amaranthus species, warranting closer examination of the identities and function of the microorganisms that appear to be selectively recruited from the extant soil community. More intensive efforts to obtain the microbial taxonomic identities via sequencing are underway that can lead to further detailed studies to elucidate important functional plant-microbe interactions that may associate with weed success. Such data provides underlying key information that may ultimately exploit weed-microbe interactions in development of new integrated weed control tactics.
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17
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Narayanan M, Ma Y. Mitigation of heavy metal stress in the soil through optimized interaction between plants and microbes. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 345:118732. [PMID: 37536126 DOI: 10.1016/j.jenvman.2023.118732] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Revised: 07/29/2023] [Accepted: 07/29/2023] [Indexed: 08/05/2023]
Abstract
Agricultural as well as industrial processes, such as mining and textile activities, are just a few examples of anthropogenic activities that have a long-term negative impact on the environment. Each of the aforementioned factors increases the concentration of heavy metals in soil. Heavy metal contamination in soil causes a wide range of environmental issues and is harmful to microbes, plants, and animals. Because of their non-biodegradability and toxic effects, preventing additional metal contamination and remediating the vast majority of contaminated sites around the world is critical. Hence, this review focuses on the effects of metal contamination on soil microbes, as well as plant-microbe interactions. Plant-associated probiotics reduce metal accumulation; the introduction of beneficial microbes is regarded as one of the most promising approaches to improving metal stress tolerance; thus, the study focuses on plant-microbe interactions as well as their actual implications via phytoremediation. Plant-microbe interaction can play an important role in acclimating vegetation (plants) to metalliferous conditions and should thus be studied to improve microbe-aided metal tolerance in plants. Plant-interacted microbes reduce metal accumulation in plant cells and metal bioaccumulation in the soil through a variety of processes. A novel phytobacterial approach, such as genetically modified microbes, is now being used to improve heavy metal cleanup as well as stress tolerance among plants. This review examines our current understanding of such negative consequences of heavy metal stresses, signaling responses, and the role of plant-associated microbiota in heavy metal stress tolerance and interaction.
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Affiliation(s)
- Mathiyazhagan Narayanan
- Division of Research and Innovation, Department of Biotechnology, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Science, Chennai, Tamil Nadu, India.
| | - Ying Ma
- College of Resources and Environment, Southwest University, Chongqing, 400716, China.
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18
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Liu J, Guo Y, Gu H, Liu Z, Hu X, Yu Z, Li Y, Li L, Sui Y, Jin J, Liu X, Adams JM, Wang G. Conversion of steppe to cropland increases spatial heterogeneity of soil functional genes. THE ISME JOURNAL 2023; 17:1872-1883. [PMID: 37607984 PMCID: PMC10579271 DOI: 10.1038/s41396-023-01496-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Revised: 08/10/2023] [Accepted: 08/14/2023] [Indexed: 08/24/2023]
Abstract
The microbiome function responses to land use change are important for the long-term prediction and management of soil ecological functions under human influence. However, it has remains uncertain how the biogeographic patterns of soil functional composition change when transitioning from natural steppe soils (NS) to agricultural soils (AS). We collected soil samples from adjacent pairs of AS and NS across 900 km of Mollisol areas in northeast China, and the soil functional composition was characterized using shotgun sequencing. AS had higher functional alpha-diversity indices with respect to KO trait richness and a higher Shannon index than NS. The distance-decay slopes of functional gene composition were steeper in AS than in NS along both spatial and environmental gradients. Land-use conversion from steppe to farmland diversified functional gene profiles both locally and spatially; it increased the abundances of functional genes related to labile carbon, but decreased those related to recalcitrant substrate mobilization (e.g., lignin), P cycling, and S cycling. The composition of gene functional traits was strongly driven by stochastic processes, while the degree of stochasticity was higher in NS than in AS, as revealed by the neutral community model and normalized stochasticity ratio analysis. Alpha-diversity of core functional genes was strongly related to multi-nutrient cycling in AS, suggesting a key relationship to soil fertility. The results of this study challenge the paradigm that the conversion of natural to agricultural habitat will homogenize soil properties and biology while reducing local and regional gene functional diversity.
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Affiliation(s)
- Junjie Liu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Yaping Guo
- School of Geography and Ocean Science, Nanjing University, Nanjing, 210023, P R China
| | - Haidong Gu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Zhuxiu Liu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Xiaojing Hu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Zhenhua Yu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Yansheng Li
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Lujun Li
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Yueyu Sui
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Jian Jin
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Xiaobing Liu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China
| | - Jonathan M Adams
- School of Geography and Ocean Science, Nanjing University, Nanjing, 210023, P R China.
| | - Guanghua Wang
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, P R China.
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Estrada R, Cosme R, Porras T, Reynoso A, Calderon C, Arbizu CI, Arone GJ. Changes in Bulk and Rhizosphere Soil Microbial Diversity Communities of Native Quinoa Due to the Monocropping in the Peruvian Central Andes. Microorganisms 2023; 11:1926. [PMID: 37630486 PMCID: PMC10458079 DOI: 10.3390/microorganisms11081926] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2023] [Revised: 07/17/2023] [Accepted: 07/24/2023] [Indexed: 08/27/2023] Open
Abstract
Quinoa (Chenopodium quinoa) is a highly nutritious crop that is resistant to adverse conditions. Due to the considerable increase in its commercial production in Andean soils, the plant is suffering the negative effects of monocropping, which reduces its yield. We used for the first time a high-throughput Illumina MiSeq sequencing approach to explore the composition, diversity, and functions of fungal and bacterial communities of the bulk and rhizosphere in soils of native C. quinoa affected by monocropping in the central Andes of Peru. The results showed that the bacterial and fungal community structure among the treatments was significantly changed by the monocropping and the types of soil (rhizosphere and bulk). Also, in soils subjected to monocropping, there was an increase in Actinobacteria and a decrease in Proteobacteria, and the reduction in the presence of Ascomycota and the increase in Basidiomycota. By alpha-diversity indices, lower values of bacteria and fungi were observed in the monoculture option compared to the soil not affected by monocropping, and sometimes significant differences were found between both. We detected differentially abundant phytopathogenic fungi and bacteria with growth-stimulating effects on plants. Also, we denoted a decrease in the abundance of the functional predictions in bacteria in the monocropped soils. This research will serve as a starting point to explore the importance and effects of microorganisms in degraded soils and their impact on the growth and quality of quinoa crops.
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Affiliation(s)
- Richard Estrada
- Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru; (R.E.); (T.P.); (A.R.)
| | - Roberto Cosme
- Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru; (R.E.); (T.P.); (A.R.)
| | - Tatiana Porras
- Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru; (R.E.); (T.P.); (A.R.)
| | - Auristela Reynoso
- Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru; (R.E.); (T.P.); (A.R.)
| | - Constatino Calderon
- Facultad de Agronomía, Universidad Nacional Agraria la Molina (UNALM), Av. La Molina s/n, Lima 15024, Peru
| | - Carlos I. Arbizu
- Dirección de Desarrollo Tecnológico Agrario, Instituto Nacional de Innovación Agraria (INIA), Av. La Molina 1981, Lima 15024, Peru; (R.E.); (T.P.); (A.R.)
- Facultad de Ingeniería y Ciencias Agrarias, Universidad Nacional Toribio Rodríguez de Mendoza de Amazonas (UNTRM), Cl. Higos Urco 342, Chachapoyas 01001, Peru
| | - Gregorio J. Arone
- Facultad de Ingeniería, Universidad Nacional de Barranca (UNAB), Av. Toribio Luzuriaga 376, Lima 15169, Peru;
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Mahanta K, Bhattacharyya PN, Sharma AK, Rajkhowa D, Lesueur D, Verma H, Parit R, Deka J, Medhi BK, Kohli A. Residue and soil dissipation kinetics of chloroacetanilide herbicides on rice (Oryzae sativa L.) and assessing the impact on soil microbial parameters and enzyme activity. ENVIRONMENTAL MONITORING AND ASSESSMENT 2023; 195:910. [PMID: 37392291 DOI: 10.1007/s10661-023-11513-1] [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: 12/16/2022] [Accepted: 06/11/2023] [Indexed: 07/03/2023]
Abstract
The present investigation determines the persistence of herbicides like butachlor and pretilachlor in Indian soil, and their impact on soil biological properties including microbial biomass carbon (MBC), total microbial population numbers, and enzyme activities. Butachlor was degraded faster in autumn rice soil (t1/2 of 10-13 days) than in winter rice soil (half-life of 16-18 days). The t1/2 of pretilachlor in winter rice was 12-16 days. Regardless of the seasons under cultivation, no pesticide residue was detected in rice at harvest. Herbicides induced an initial decline (0-14th days after application) in MBC (averages of 332.7-478.4 g g-1 dry soil in autumn rice and 299.6-444.3 g g-1 dry soil in winter rice), microbial populations (averages of 6.4 cfu g-1 in autumn rice and 4.6 cfu g-1 in winter rice), and phosphatase (averages of 242.6-269.3 μg p-nitrophenol g-1 dry soil h-1 in autumn rice and 188.2-212.2 μg p-nitrophenol g-1 dry soil h-1 in winter rice). The application of herbicides favored dehydrogenase (averages of 123.1-156.7 g TPF g-1 dry soil in autumn and 126.7-151.1 g TPF g-1 dry soil in winter) and urease activities (averages of 279.0-340.4 g NH4 g-1 soil 2 h-1 in autumn and 226.7-296.5 g NH4 g-1 soil 2 h-1 in winter) in rice soil at 0-14th DAA. The study suggests that applications of butachlor and pretilachlor at the rates of 1000 g ha-1 and 750 g ha-1, respectively, to control the weeds in the transplanted rice fields do not have any negative impact on the harvested rice and associated soil environment.
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Affiliation(s)
- Kaberi Mahanta
- Assam Agricultural University, Jorhat 785 013, Assam, India
| | | | | | - Dipjyoti Rajkhowa
- ICAR Research Complex for NEH Region, Nagaland Centre, Nagaland, 797106, India
| | - Didier Lesueur
- Centre de Coopération Internationale en Recherche Agronomique pour le Développent (CIRAD), UMR Eco&Sols, Hanoi, Vietnam
- Eco & Sols, Université de Montpellier (UMR), CIRAD, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE), Institut de Recherche pour le Développement (IRD), 34060 Montpellier, Montpellier SupAgro, France
- Alliance of Biodiversity International and International Center for Tropical Agriculture (CIAT), Asia hub, Common Microbial Biotechnology Platform (CMBP), Hanoi, Vietnam
- School of Life and Environmental Sciences, Faculty of Science, Engineering and Built Environment-Deakin University, Melbourne, VIC 3125, Australia
- Chinese Academy of Tropical Agricultural Sciences, Rubber Research Institute, Haikou, China
| | - Harendra Verma
- ICAR Research Complex for NEH Region, Nagaland Centre, Nagaland, 797106, India
| | - Rajat Parit
- Assam Agricultural University, Jorhat 785 013, Assam, India
| | - Jayanta Deka
- Assam Agricultural University, Jorhat 785 013, Assam, India
| | | | - Anshuman Kohli
- Bihar Agriculture University, Sabour 813210, Bihar, India
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21
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Nadarajah K, Abdul Rahman NSN. The Microbial Connection to Sustainable Agriculture. PLANTS (BASEL, SWITZERLAND) 2023; 12:2307. [PMID: 37375932 DOI: 10.3390/plants12122307] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2023] [Revised: 06/01/2023] [Accepted: 06/08/2023] [Indexed: 06/29/2023]
Abstract
Microorganisms are an important element in modeling sustainable agriculture. Their role in soil fertility and health is crucial in maintaining plants' growth, development, and yield. Further, microorganisms impact agriculture negatively through disease and emerging diseases. Deciphering the extensive functionality and structural diversity within the plant-soil microbiome is necessary to effectively deploy these organisms in sustainable agriculture. Although both the plant and soil microbiome have been studied over the decades, the efficiency of translating the laboratory and greenhouse findings to the field is largely dependent on the ability of the inoculants or beneficial microorganisms to colonize the soil and maintain stability in the ecosystem. Further, the plant and its environment are two variables that influence the plant and soil microbiome's diversity and structure. Thus, in recent years, researchers have looked into microbiome engineering that would enable them to modify the microbial communities in order to increase the efficiency and effectiveness of the inoculants. The engineering of environments is believed to support resistance to biotic and abiotic stressors, plant fitness, and productivity. Population characterization is crucial in microbiome manipulation, as well as in the identification of potential biofertilizers and biocontrol agents. Next-generation sequencing approaches that identify both culturable and non-culturable microbes associated with the soil and plant microbiome have expanded our knowledge in this area. Additionally, genome editing and multidisciplinary omics methods have provided scientists with a framework to engineer dependable and sustainable microbial communities that support high yield, disease resistance, nutrient cycling, and management of stressors. In this review, we present an overview of the role of beneficial microbes in sustainable agriculture, microbiome engineering, translation of this technology to the field, and the main approaches used by laboratories worldwide to study the plant-soil microbiome. These initiatives are important to the advancement of green technologies in agriculture.
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Affiliation(s)
- Kalaivani Nadarajah
- Department of Biological Sciences and Biotechnology, Faculty of Sciences and Technology, University Kebangsaan Malaysia, Bangi 43600, Malaysia
| | - Nur Sabrina Natasha Abdul Rahman
- Department of Biological Sciences and Biotechnology, Faculty of Sciences and Technology, University Kebangsaan Malaysia, Bangi 43600, Malaysia
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22
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Boussageon R, van Tuinen D, Lapadatescu C, Trépanier M, Vermersch E, Wipf D, Courty PE. Effects of field inoculation of potato tubers with the arbuscular mycorrhizal fungus Rhizophagus irregularis DAOM 197,198 are cultivar dependent. Symbiosis 2023. [DOI: 10.1007/s13199-023-00908-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/19/2023]
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23
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A bacillaceae consortium positively impacts arbuscular mycorrhizal fungus colonisation, plant phosphate nutrition, and tuber yield in Solanum tuberosum cv. Jazzy. Symbiosis 2023. [DOI: 10.1007/s13199-023-00904-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/19/2023]
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24
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Zou Y, Zhong Y, Yu H, Pokharel SS, Fang W, Chen F. Impacts of Ecological Shading by Roadside Trees on Tea Foliar Nutritional and Bioactive Components, Community Diversity of Insects and Soil Microbes in Tea Plantation. BIOLOGY 2022; 11:biology11121800. [PMID: 36552309 PMCID: PMC9775167 DOI: 10.3390/biology11121800] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Revised: 12/06/2022] [Accepted: 12/08/2022] [Indexed: 12/14/2022]
Abstract
Roadside trees not only add aesthetic appeal to tea plantations, but also serve important ecological purposes for the shaded tea plants. In this study, we selected tea orchards with two access roads, from east to west (EW-road) and from south to north (SN-road), and the roadside trees formed three types of ecological shading of the adjoining tea plants; i.e., south shading (SS) by the roadside trees on the EW-road, and east shading and west shading (ES and WS) by the roadside trees on the SN-road. We studied the impacts of ecological shading by roadside trees on the tea plants, insects, and soil microbes in the tea plantation, by measuring the contents of soluble nutrients, bioactive compounds in the tea, and tea quality indices; and by investigating the population occurrence of key species of insects and calculating insect community indexes, while simultaneously assaying the soil microbiome. The results vividly demonstrated that the shading formed by roadside tree lines on the surrounding tea plantation (SS, ES, and WS) had adverse effects on the concentration of tea soluble sugars but enhanced the foliar contents of bioactive components and improved the overall tea quality, in contrast to the no-shading control tea plants. In addition, the roadside tree lines seemed to be beneficial for the tea plantation, as they reduced pest occurrence, and ES shading enhanced the microbial soil diversity in the rhizosphere of the tea plants.
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Affiliation(s)
- Yan Zou
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Yanni Zhong
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Han Yu
- Department of Forest Genetics and Breeding, College of Forestry, Nanjing Forestry University, Nanjing 210037, China
| | - Sabin Saurav Pokharel
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Wanping Fang
- Department of Tea Science, College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China
- Correspondence: (W.F.); (F.C.); Tel.: +86-13512504245 (W.F.); +86-13675173286 (F.C.)
| | - Fajun Chen
- Department of Entomology, College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
- Correspondence: (W.F.); (F.C.); Tel.: +86-13512504245 (W.F.); +86-13675173286 (F.C.)
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