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Wang G, Zhang L, Zhang S, Li B, Li J, Wang X, Zhang J, Guan C, Ji J. The combined use of a plant growth promoting Bacillus sp. strain and GABA promotes the growth of rice under salt stress by regulating antioxidant enzyme system, enhancing photosynthesis and improving soil enzyme activities. Microbiol Res 2023; 266:127225. [DOI: 10.1016/j.micres.2022.127225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Revised: 09/16/2022] [Accepted: 10/06/2022] [Indexed: 11/05/2022]
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Anand U, Vaishnav A, Sharma SK, Sahu J, Ahmad S, Sunita K, Suresh S, Dey A, Bontempi E, Singh AK, Proćków J, Shukla AK. Current advances and research prospects for agricultural and industrial uses of microbial strains available in world collections. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 842:156641. [PMID: 35700781 DOI: 10.1016/j.scitotenv.2022.156641] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 06/08/2022] [Accepted: 06/08/2022] [Indexed: 06/15/2023]
Abstract
Microorganisms are an important component of the ecosystem and have an enormous impact on human lives. Moreover, microorganisms are considered to have desirable effects on other co-existing species in a variety of habitats, such as agriculture and industries. In this way, they also have enormous environmental applications. Hence, collections of microorganisms with specific traits are a crucial step in developing new technologies to harness the microbial potential. Microbial culture collections (MCCs) are a repository for the preservation of a large variety of microbial species distributed throughout the world. In this context, culture collections (CCs) and microbial biological resource centres (mBRCs) are vital for the safeguarding and circulation of biological resources, as well as for the progress of the life sciences. Ex situ conservation of microorganisms tagged with specific traits in the collections is the crucial step in developing new technologies to harness their potential. Type strains are mainly used in taxonomic study, whereas reference strains are used for agricultural, biotechnological, pharmaceutical research and commercial work. Despite the tremendous potential in microbiological research, little effort has been made in the true sense to harness the potential of conserved microorganisms. This review highlights (1) the importance of available global microbial collections for man and (2) the use of these resources in different research and applications in agriculture, biotechnology, and industry. In addition, an extensive literature survey was carried out on preserved microorganisms from different collection centres using the Web of Science (WoS) and SCOPUS. This review also emphasizes knowledge gaps and future perspectives. Finally, this study provides a critical analysis of the current and future roles of microorganisms available in culture collections for different sustainable agricultural and industrial applications. This work highlights target-specific potential microbial strains that have multiple important metabolic and genetic traits for future research and use.
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Affiliation(s)
- Uttpal Anand
- Department of Life Sciences, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
| | - Anukool Vaishnav
- Department of Biotechnology, Institute of Applied Sciences & Humanities, GLA University, Mathura, Uttar Pradesh 281406, India; Department of Plant and Microbial Biology, University of Zürich, Zollikerstrasse 107, CH-8008 Zürich, Switzerland; Plant-Soil Interaction Group, Agroscope (Reckenholz), Reckenholzstrasse 191, 8046 Zürich, Switzerland
| | - Sushil K Sharma
- National Agriculturally Important Microbial Culture Collection (NAIMCC), ICAR-National Bureau of Agriculturally Important Microorganisms (ICAR-NBAIM), Mau 275 103, Uttar Pradesh, India.
| | - Jagajjit Sahu
- GyanArras Academy, Gothapatna, Malipada, Bhubaneswar, Odisha 751029, India
| | - Sarfaraz Ahmad
- Department of Botany, Jai Prakash University, Saran, Chhapra 841301, Bihar, India
| | - Kumari Sunita
- Department of Botany, Faculty of Science, Deen Dayal Upadhyay Gorakhpur University, Gorakhpur, Uttar Pradesh 273009, India
| | - S Suresh
- Department of Chemical Engineering, Maulana Azad National Institute of Technology, Bhopal 462 003, Madhya Pradesh, India
| | - Abhijit Dey
- Department of Life Sciences, Presidency University, 86/1 College Street, Kolkata 700073, West Bengal, India
| | - Elza Bontempi
- INSTM and Chemistry for Technologies Laboratory, Department of Mechanical and Industrial Engineering, University of Brescia, Via Branze, 38, 25123 Brescia, Italy
| | - Amit Kishore Singh
- Department of Botany, Bhagalpur National College, (A Constituent unit of Tilka Manjhi Bhagalpur University), Bhagalpur 812007, Bihar, India
| | - Jarosław Proćków
- Department of Plant Biology, Institute of Environmental Biology, Wrocław University of Environmental and Life Sciences, Kożuchowska 5b, 51-631 Wrocław, Poland.
| | - Awadhesh Kumar Shukla
- Department of Botany, K.S. Saket P.G. College, Ayodhya (affiliated to Dr. Rammanohar Lohia Avadh University, Ayodhya) 224123, Uttar Pradesh, India.
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Rani S, Kumar P, Dahiya P, Maheshwari R, Dang AS, Suneja P. Endophytism: A Multidimensional Approach to Plant-Prokaryotic Microbe Interaction. Front Microbiol 2022; 13:861235. [PMID: 35633681 PMCID: PMC9135327 DOI: 10.3389/fmicb.2022.861235] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Accepted: 03/11/2022] [Indexed: 11/20/2022] Open
Abstract
Plant growth and development are positively regulated by the endophytic microbiome via both direct and indirect perspectives. Endophytes use phytohormone production to promote plant health along with other added benefits such as nutrient acquisition, nitrogen fixation, and survival under abiotic and biotic stress conditions. The ability of endophytes to penetrate the plant tissues, reside and interact with the host in multiple ways makes them unique. The common assumption that these endophytes interact with plants in a similar manner as the rhizospheric bacteria is a deterring factor to go deeper into their study, and more focus was on symbiotic associations and plant–pathogen reactions. The current focus has shifted on the complexity of relationships between host plants and their endophytic counterparts. It would be gripping to inspect how endophytes influence host gene expression and can be utilized to climb the ladder of “Sustainable agriculture.” Advancements in various molecular techniques have provided an impetus to elucidate the complexity of endophytic microbiome. The present review is focused on canvassing different aspects concerned with the multidimensional interaction of endophytes with plants along with their application.
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Affiliation(s)
- Simran Rani
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Pradeep Kumar
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Priyanka Dahiya
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Rajat Maheshwari
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
| | - Amita Suneja Dang
- Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, India
| | - Pooja Suneja
- Plant Microbe Interaction Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, India
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Asad NI, Tremblay J, Dozois J, Mukula E, L'Espérance E, Constant P, Yergeau E. Predictive microbial-based modelling of wheat yields and grain baking quality across a 500km transect in Québec. FEMS Microbiol Ecol 2021; 97:6458360. [PMID: 34888659 DOI: 10.1093/femsec/fiab160] [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: 07/22/2021] [Accepted: 12/07/2021] [Indexed: 11/14/2022] Open
Abstract
Crops yield and quality are difficult to predict using soil physico-chemical parameters. Because of their key roles in nutrient cycles, we hypothesized that there is an untapped predictive potential in the soil microbial communities. To test our hypothesis, we sampled soils across 80 wheat fields of the province of Quebec at the beginning of the growing season in May-June. We used a wide array of methods to characterize the microbial communities, their functions, and activities, including: 1) amplicon sequencing, 2) real-time PCR quantification, and 3) community-level substrate utilization. We also measured grain yield and quality at the end of the growing season, and key soil parameters at sampling. The diversity of fungi, the abundance of nitrification genes, and the use of specific organic carbon sources were often the best predictors for wheat yield and grain quality. Using 11 or less parameters, we were able to explain 64 to 90% of the variation in wheat yield and grain and flour quality across the province of Quebec. Microbial-based regression models outperformed basic soil-based models for predicting wheat quality indicators. Our results suggest that the measurement of microbial parameters early in the season could help predict accurately grain quality and quantity.
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Affiliation(s)
- Numan Ibne Asad
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
| | - Julien Tremblay
- National Research Council Canada, Energy Mining and Environment, 6100 Royalmount Ave., Montreal, QC, H4P 2R2, Canada
| | - Jessica Dozois
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
| | - Eugenie Mukula
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
| | - Emmy L'Espérance
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
| | - Philippe Constant
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
| | - Etienne Yergeau
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 boul. des Prairies, Laval, QC, H7V 1B7, Canada
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Ahlawat OP, Yadav D, Kashyap PL, Khippal A, Singh G. Wheat endophytes and their potential role in managing abiotic stress under changing climate. J Appl Microbiol 2021; 132:2501-2520. [PMID: 34800309 DOI: 10.1111/jam.15375] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2021] [Revised: 10/23/2021] [Accepted: 11/16/2021] [Indexed: 11/30/2022]
Abstract
Wheat (Triticum aestivum L.) cultivation differs considerably in respect of soil type, temperature, pH, organic matter, moisture regime, etc. Among these, rising atmospheric temperature due to global warming is most important as it affects grain yield drastically. Studies have shown that for every 1°C rise in temperature above wheat's optimal growing temperature range of 20-25°C, there is a decrease in 2.8 days and 1.5 mg in the grain filling period and kernel weight, respectively, resulting in wheat yield reduction by 4-6 quintal per hectare. Growing demand for food and multidimensional issues of global warming may further push wheat crop to heat stress environments that can substantially affect heading duration, percent grain setting, maturity duration, grain growth rate and ultimately total grain yield. Considerable genetic variation exists in wheat gene pool with respect to various attributes associated with high temperature and stress tolerance; however, only about 15% of the genetic variability could be incorporated into cultivated wheat so far. Thus, alternative strategies have to be explored and implemented for sustainable, more productive and environment friendly agriculture. One of the feasible and environment friendly option is to look at micro-organisms that reside inside the plant without adversely affecting its growth, known as 'endophytes', and these colonize virtually all plant organs such as roots, stems, leaves, flowers and grains. The relationship between plant and endophytes is vital to the plant health, productivity and overall survival under abiotic stress conditions. Thus, it becomes imperative to enlist the endophytes (bacterial and fungal) isolated till date from wheat cultivars, their mechanism of ingression and establishment inside plant organs, genes involved in ingression, the survival advantages they confer to the plant under abiotic stress conditions and the potential benefits of their use in sustainable wheat cultivation.
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Affiliation(s)
| | - Dhinu Yadav
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
| | - Prem Lal Kashyap
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
| | - Anil Khippal
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
| | - Gyanendra Singh
- ICAR-Indian Institute of Wheat and Barley Research, Karnal, India
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Manfredini A, Malusà E, Costa C, Pallottino F, Mocali S, Pinzari F, Canfora L. Current Methods, Common Practices, and Perspectives in Tracking and Monitoring Bioinoculants in Soil. Front Microbiol 2021; 12:698491. [PMID: 34531836 PMCID: PMC8438429 DOI: 10.3389/fmicb.2021.698491] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 06/28/2021] [Indexed: 12/22/2022] Open
Abstract
Microorganisms promised to lead the bio-based revolution for a more sustainable agriculture. Beneficial microorganisms could be a valid alternative to the use of chemical fertilizers or pesticides. However, the increasing use of microbial inoculants is also raising several questions about their efficacy and their effects on the autochthonous soil microorganisms. There are two major issues on the application of bioinoculants to soil: (i) their detection in soil, and the analysis of their persistence and fate; (ii) the monitoring of the impact of the introduced bioinoculant on native soil microbial communities. This review explores the strategies and methods that can be applied to the detection of microbial inoculants and to soil monitoring. The discussion includes a comprehensive critical assessment of the available tools, based on morpho-phenological, molecular, and microscopic analyses. The prospects for future development of protocols for regulatory or commercial purposes are also discussed, underlining the need for a multi-method (polyphasic) approach to ensure the necessary level of discrimination required to track and monitor bioinoculants in soil.
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Affiliation(s)
- Andrea Manfredini
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, Rome, Italy
| | - Eligio Malusà
- National Research Institute of Horticulture, Skierniewice, Poland
- Council for Agricultural Research and Economics, Research Centre for Viticulture and Enology, Conegliano, Italy
| | - Corrado Costa
- Council for Agricultural Research and Analysis of the Agricultural Economy, Research Centre for Engineering and Agro-Food Processing, Monterotondo, Italy
| | - Federico Pallottino
- Council for Agricultural Research and Analysis of the Agricultural Economy, Research Centre for Engineering and Agro-Food Processing, Monterotondo, Italy
| | - Stefano Mocali
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, Rome, Italy
| | - Flavia Pinzari
- Institute for Biological Systems, Council of National Research of Italy (CNR), Rome, Italy
- Life Sciences Department, Natural History Museum, London, United Kingdom
| | - Loredana Canfora
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, Rome, Italy
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Multi-Trait Wheat Rhizobacteria from Calcareous Soil with Biocontrol Activity Promote Plant Growth and Mitigate Salinity Stress. Microorganisms 2021; 9:microorganisms9081588. [PMID: 34442666 PMCID: PMC8400701 DOI: 10.3390/microorganisms9081588] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Revised: 07/16/2021] [Accepted: 07/23/2021] [Indexed: 11/17/2022] Open
Abstract
Plant growth promoting rhizobacteria (PGPR) can be functional microbial fertilizers and/or biological control agents, contributing to an eco-spirit and safe solution for chemical replacement. Therefore, we have isolated rhizospheric arylsulfatase (ARS)-producing bacteria, belonging to Pseudomonas and Bacillus genus, from durum wheat crop grown on calcareous soil. These isolates harbouring plant growth promoting (PGP) traits were further evaluated in vitro for additional PGP traits, including indole compounds production and biocontrol activity against phytopathogens, limiting the group of multi-trait strains to eight. The selected bacterial strains were further evaluated for PGP attributes associated with biofilm formation, compatibility, salt tolerance ability and effect on plant growth. In vitro studies demonstrated that the multi-trait isolates, Bacillus (1.SG.7, 5.SG.3) and Pseudomonas (2.SG.20, 2.C.19) strains, enhanced the lateral roots abundance and shoots biomass, mitigated salinity stress, suggesting the utility of beneficial ARS-producing bacteria as potential microbial fertilizers. Furthermore, in vitro studies demonstrated that compatible combinations of multi-trait isolates, Bacillus sp. 1.SG.7 in a mixture coupled with 5.SG.3, and 2.C.19 with 5.SG.3 belonging to Bacillus and Pseudomonas, respectively, may enhance plant growth as compared to single inoculants.
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An overview on endophytic bacterial diversity habitat in vegetables and fruits. Folia Microbiol (Praha) 2021; 66:715-725. [PMID: 34259998 DOI: 10.1007/s12223-021-00896-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 06/30/2021] [Indexed: 01/02/2023]
Abstract
Nowadays, scientific research revolution is going on in many areas, and the human health is one of them. However, in the earlier studies, it was observed that most of the people health in the world affects by consumptions of contaminated food which is dangerous for human health and country economy. Recent studies showed that the fresh vegetables and fruits are the major habitat for endophytic bacterial communities. Salmonella and Escherichia coli both are the very common bacteria founds in fresh vegetables and fruits. Generally, many people eat vegetables and fruits without cooking (in the form of salad). The continued assumption of such food increases the health risk factor for foodborne diseases. So, from the last decades, many researchers working to understand about the relationship of endophytic microbes with plants either isolated bacteria are pathogenic or nonpathogenic. Moreover, most of the endophytes were identified by using 16S rRNA sequencing method. Hence, this review elaborates on the differences and similarities between nonpathogenic and pathogenic endophytes in terms of host plant response, colonization strategy, and genome content. Furthermore, it is emphasized on the environmental effects and biotic interactions within plant microbiota that influence pathogenesis and the pathogenesis.
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Wei X, Cao P, Wang G, Liu Y, Song J, Han J. CuO, ZnO, and γ-Fe 2O 3 nanoparticles modified the underground biomass and rhizosphere microbial community of Salvia miltiorrhiza (Bge.) after 165-day exposure. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 217:112232. [PMID: 33864980 DOI: 10.1016/j.ecoenv.2021.112232] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Revised: 04/01/2021] [Accepted: 04/03/2021] [Indexed: 06/12/2023]
Abstract
To investigate whether metal oxide nanoparticles exhibit toxicity or positive effects on medicinal plants, CuO, ZnO, and γ-Fe2O3 nanoparticles (NPs), at concentrations of 100 and 700 mg kg-1, were introduced into the cultivation of Salvia miltiorrhiza (Bge.). Metal elemental contents, chemical constituents, biomass and the structure of the rhizosphere microbial community was used to estimate this effect. The results indicated CuO NPs increased the Cu content and ZnO NPs increased the Zn content significantly as exposure increased, γ-Fe2O3 NPs had no significant effect on Fe content in S. miltiorrhiza roots, while 100 mg kg-1 ZnO and CuO NPs significantly decreased the Fe content in roots. Additionally, ZnO and γ-Fe2O3 NPs increased the underground biomass, and diameter of S. miltiorrhiza roots. However, these three metal oxide nanoparticles had no significant effect on total tanshinones, while the 700 mg kg-1 γ-Fe2O3 NPs treatment increased salvianolic acid B content by 36.46%. High-throughput sequencing indicated at 700 mg kg-1 ZnO NPs, the relative abundance of Humicola (Zn superoxide dismutase producer), was notably increased by 97.46%, and that of Arenimonas, Thiobacillus and Methylobacillus (taxa related to heavy metal tolerance) was significantly increased by 297.14%, 220.26% and 107.00%. The 700 mg kg-1 CuO NPs exposure caused a significant increase in the relative abundances of Sphingomonas (a copper-resistant and N2-fixing genus) and Flavisolibacter (stripe rust biocontrol bacteria) by 127.32% and 118.33%. To our best knowledge, this is the first study to examine the potential impact of NPs on the growth and rhizosphere microorganisms of S. miltiorrhiza.
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Affiliation(s)
- Xuemin Wei
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China
| | - Pei Cao
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China
| | - Gang Wang
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China
| | - Yang Liu
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China
| | - Jingyuan Song
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China; Key Lab of Chinese Medicine Resources Conservation, National Administration of Traditional Chinese Medicine of the People's Republic of China, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China; Engineering Research Center of Chinese Medicine Resource, Ministry of Education, Beijing 100193, China
| | - Jianping Han
- Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China; Key Lab of Chinese Medicine Resources Conservation, National Administration of Traditional Chinese Medicine of the People's Republic of China, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China; Engineering Research Center of Chinese Medicine Resource, Ministry of Education, Beijing 100193, China.
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Eid AM, Fouda A, Abdel-Rahman MA, Salem SS, Elsaied A, Oelmüller R, Hijri M, Bhowmik A, Elkelish A, Hassan SED. Harnessing Bacterial Endophytes for Promotion of Plant Growth and Biotechnological Applications: An Overview. PLANTS (BASEL, SWITZERLAND) 2021; 10:935. [PMID: 34067154 PMCID: PMC8151188 DOI: 10.3390/plants10050935] [Citation(s) in RCA: 61] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/11/2021] [Revised: 04/29/2021] [Accepted: 05/03/2021] [Indexed: 12/19/2022]
Abstract
Endophytic bacteria colonize plants and live inside them for part of or throughout their life without causing any harm or disease to their hosts. The symbiotic relationship improves the physiology, fitness, and metabolite profile of the plants, while the plants provide food and shelter for the bacteria. The bacteria-induced alterations of the plants offer many possibilities for biotechnological, medicinal, and agricultural applications. The endophytes promote plant growth and fitness through the production of phytohormones or biofertilizers, or by alleviating abiotic and biotic stress tolerance. Strengthening of the plant immune system and suppression of disease are associated with the production of novel antibiotics, secondary metabolites, siderophores, and fertilizers such as nitrogenous or other industrially interesting chemical compounds. Endophytic bacteria can be used for phytoremediation of environmental pollutants or the control of fungal diseases by the production of lytic enzymes such as chitinases and cellulases, and their huge host range allows a broad spectrum of applications to agriculturally and pharmaceutically interesting plant species. More recently, endophytic bacteria have also been used to produce nanoparticles for medical and industrial applications. This review highlights the biotechnological possibilities for bacterial endophyte applications and proposes future goals for their application.
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Affiliation(s)
- Ahmed M. Eid
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
| | - Amr Fouda
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
| | - Mohamed Ali Abdel-Rahman
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
| | - Salem S. Salem
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
| | - Albaraa Elsaied
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
| | - Ralf Oelmüller
- Department of Plant Physiology, Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Friedrich-Schiller-University, 07743 Jena, Germany; (R.O.); (A.E.)
| | - Mohamed Hijri
- Biodiversity Centre, Institut de Recherche en Biologie Végétale, Université de Montréal and Jardin botanique de Montréal, Montréal, QC 22001, Canada;
- African Genome Center, Mohammed VI Polytechnic University (UM6P), 43150 Ben Guerir, Morocco
| | - Arnab Bhowmik
- Department of Natural Resources and Environmental Design, North Carolina A&T State University, Greensboro, NC 27411, USA;
| | - Amr Elkelish
- Department of Plant Physiology, Matthias Schleiden Institute of Genetics, Bioinformatics and Molecular Botany, Friedrich-Schiller-University, 07743 Jena, Germany; (R.O.); (A.E.)
- Botany Department, Faculty of Science, Suez Canal University, Ismailia 41522, Egypt
| | - Saad El-Din Hassan
- Department of Botany and Microbiology, Faculty of Science, Al-Azhar University, Nasr City, Cairo 11884, Egypt; (A.M.E.); (M.A.A.-R.); (S.S.S.); (A.E.)
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Effect of Co-Inoculation of Bacillus sp. Strain with Bacterial Endophytes on Plant Growth and Colonization in Tomato Plant (Solanum lycopersicum). MICROBIOLOGY RESEARCH 2021. [DOI: 10.3390/microbiolres12020032] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Colonization of a biofertilizer Bacillus sp. OYK strain, which was isolated from a soil, was compared with three rhizospheric and endophytic Bacillus sp. strains to evaluate the colonization potential of the Bacillus sp. strains with a different origin. Surface-sterilized seeds of tomato (Solanum lycopersicum L. cv. Chika) were sown in the sterilized vermiculite, and four Bacillus sp. strains were each inoculated onto the seed zone. After cultivation in a phytotron, plant growth parameters and populations of the inoculants in the root, shoot, and rhizosphere were determined. In addition, effects of co-inoculation and time interval inoculation of Bacillus sp. F-33 with the other endophytes were examined. All Bacillus sp. strains promoted plant growth except for Bacillus sp. RF-37, and populations of the rhizospheric and endophytic Bacillus sp. strains were 1.4–2.8 orders higher in the tomato plant than that of Bacillus sp. OYK. The plant growth promotion by Bacillus sp. F-33 was reduced by co-inoculation with the other endophytic strains: Klebsiella sp. Sal 1, Enterobacter sp. Sal 3, and Herbaspirillum sp. Sal 6., though the population of Bacillus sp. F-33 maintained or slightly decreased. When Klebsiella sp. Sal 1 was inoculated after Bacillus sp. F-33, the plant growth-promoting effects by Bacillus sp. F-33 were reduced without a reduction of its population, while when Bacillus sp. F-33 was inoculated after Klebsiella sp. Sal 1, the effects were increased in spite of the reduction of its population. Klebsiella sp. Sal 1 colonized dominantly under both conditions. The higher population of rhizospheric and endophytic Bacillus sp. in the plant suggests the importance of the origin of the strains for their colonization. The plant growth promotion and colonization potentials were independently affected by the co-existing microorganisms.
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Wang C, Wang H, Li Y, Li Q, Yan W, Zhang Y, Wu Z, Zhou Q. Plant growth-promoting rhizobacteria isolation from rhizosphere of submerged macrophytes and their growth-promoting effect on Vallisneria natans under high sediment organic matter load. Microb Biotechnol 2021; 14:726-736. [PMID: 33507630 PMCID: PMC7936287 DOI: 10.1111/1751-7915.13756] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Revised: 12/15/2020] [Accepted: 12/16/2020] [Indexed: 11/26/2022] Open
Abstract
Sediment organic matter is a key stressor for submerged macrophyte growth, which negatively impacts the ecological restoration of lakes. Plant growth-promoting rhizobacteria (PGPR) were screened from the rhizosphere of submerged macrophytes and used due to their promoting effect on Vallisneria natans under a high sediment organic matter load. Root exudates were used as the sole carbon source to obtain the root affinity strains. Eight isolates were selected from the 61 isolated strains, based on the P solubilization, IAA production, cytokinins production and ACC deaminase activity. The analysis of the 16S rDNA indicated that one strain was Staphylococcus sp., while the other seven bacterial strains were Bacillus sp. They were all listed in low-risk groups for safety use in agricultural practices. The plant height significantly increased after inoculation with PGPR strains, with the highest rate of increase reaching 96%. This study provides an innovative technique for recovering submerged macrophytes under sediment organic matter stress.
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Affiliation(s)
- Chuan Wang
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
| | - Huihui Wang
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
- University of Chinese Academy of Sciences19 A Yuquan Road, Shijingshan DistrictBeijing100049China
| | - Yahua Li
- China University of GeosciencesNo. 388 Lumo Road, Hongshan DistrictWuhan430074China
| | - Qianzheng Li
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
- University of Chinese Academy of Sciences19 A Yuquan Road, Shijingshan DistrictBeijing100049China
| | - Wenhao Yan
- China University of GeosciencesNo. 388 Lumo Road, Hongshan DistrictWuhan430074China
| | - Yi Zhang
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
| | - Zhenbin Wu
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
| | - Qiaohong Zhou
- State Key Laboratory of Freshwater Ecology and BiotechnologyInstitute of HydrobiologyChinese Academy of SciencesNo. 7 Donghu South Road, Wuchang DistrictWuhan430072China
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Araújo NAF, Brandão RM, Barguil BM, Cardoso MDG, Pasqual M, Rezende RALS, Pereira MMA, Buttrós VHT, Dória J. Plant Growth-Promoting Bacteria Improve Growth and Modify Essential Oil in Rose (Rosa hybrida L.) cv. Black Prince. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2020. [DOI: 10.3389/fsufs.2020.606827] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Rose essential oil is rich in compounds widely used by the pharmaceutical and cosmetic industry, due to the biological activities it presents. However, obtaining oil is costly, as the yield per plant is low, which requires several techniques that aim to increase its production. The application of growth-promoting bacteria has been studied for this purpose. Thus, the objective of this work was to select efficient bacteria for production and evaluate their influence on the phytotechnical characteristics and composition of the essential oils of roses. Seven species of bacteria were evaluated for the potential to promote growth in vitro, being tested for nitrogen fixation, phosphate solubilization, protease production and auxin production. From bacteria tested, four were selected and inoculated on rose plants of cultivar Black Prince to evaluate the influence on phytotechnical variables of flower and stem and the oil production. The evaluation of the production of roses was performed through the characteristics of the flowers (size, weight, and diameter of the stem) and floral bud. The essential oils from the inoculated flowers were extracted and evaluated in terms of content, yield, and chemical composition. The application of B. acidiceler, B. subtilis and B. pumilus resulted in flowers with a diameter up to 29% larger. The floral stem was increased by up to 24.5% when B. acidiceler and B. pumilus were used. Meanwhile, the stem diameter was around 41% greater in the presence of B. acidiceler, B. subtilis and in the control. Bacillus pumilus also increased the weight of fresh petals (104%) and essential oil yield (26%), changing the chemical composition of the extracted essential oil. Thus, it is concluded that B. acidiceler, B. pumilus, and B. subtilis improved the phytotechnical characteristics of roses. Among bacteria, B. pumilus increased the essential oil content as well as positively changed the chemical composition of the extracted essential oil.
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Maquia IS, Fareleira P, Videira e Castro I, Brito DRA, Soares R, Chaúque A, Ferreira-Pinto MM, Lumini E, Berruti A, Ribeiro NS, Marques I, Ribeiro-Barros AI. Mining the Microbiome of Key Species from African Savanna Woodlands: Potential for Soil Health Improvement and Plant Growth Promotion. Microorganisms 2020; 8:E1291. [PMID: 32846974 PMCID: PMC7563409 DOI: 10.3390/microorganisms8091291] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2020] [Revised: 07/29/2020] [Accepted: 08/14/2020] [Indexed: 01/19/2023] Open
Abstract
(1) Aims: Assessing bacterial diversity and plant-growth-promoting functions in the rhizosphere of the native African trees Colophospermum mopane and Combretum apiculatum in three landscapes of the Limpopo National Park (Mozambique), subjected to two fire regimes. (2) Methods: Bacterial communities were identified through Illumina Miseq sequencing of the 16S rRNA gene amplicons, followed by culture dependent methods to isolate plant growth-promoting bacteria (PGPB). Plant growth-promoting traits of the cultivable bacterial fraction were further analyzed. To screen for the presence of nitrogen-fixing bacteria, the promiscuous tropical legume Vigna unguiculata was used as a trap host. The taxonomy of all purified isolates was genetically verified by 16S rRNA gene Sanger sequencing. (3) Results: Bacterial community results indicated that fire did not drive major changes in bacterial abundance. However, culture-dependent methods allowed the differentiation of bacterial communities between the sampled sites, which were particularly enriched in Proteobacteria with a wide range of plant-beneficial traits, such as plant protection, plant nutrition, and plant growth. Bradyrhizobium was the most frequent symbiotic bacteria trapped in cowpea nodules coexisting with other endophytic bacteria. (4) Conclusion: Although the global analysis did not show significant differences between landscapes or sites with different fire regimes, probably due to the fast recovery of bacterial communities, the isolation of PGPB suggests that the rhizosphere bacteria are driven by the plant species, soil type, and fire regime, and are potentially associated with a wide range of agricultural, environmental, and industrial applications. Thus, the rhizosphere of African savannah ecosystems seems to be an untapped source of bacterial species and strains that should be further exploited for bio-based solutions.
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Affiliation(s)
- Ivete Sandra Maquia
- Plant Stress & Biodiversity Lab—Forest Research Center (CEF), School of Agriculture, University of Lisbon, 1349-017 Lisbon, Portugal; (I.S.M.); (M.M.F.-P.)
- TropiKMan Doctoral Program, Nova School of Business & Economics (Nova SBE), 2775-405 Carcavelos, Portugal
- Biotechnology Center, Eduardo Mondlane University, CP 257 Maputo, Mozambique;
| | - Paula Fareleira
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV, I.P.), 2780-159 Oeiras, Portugal; (P.F.); (I.V.eC.); (R.S.)
| | - Isabel Videira e Castro
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV, I.P.), 2780-159 Oeiras, Portugal; (P.F.); (I.V.eC.); (R.S.)
| | - Denise R. A. Brito
- Biotechnology Center, Eduardo Mondlane University, CP 257 Maputo, Mozambique;
| | - Ricardo Soares
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV, I.P.), 2780-159 Oeiras, Portugal; (P.F.); (I.V.eC.); (R.S.)
| | - Aniceto Chaúque
- Faculty of Agronomy and Forest Engineering, Eduardo Mondlane University, CP 257 Maputo, Mozambique; (A.C.); (N.S.R.)
| | - M. Manuela Ferreira-Pinto
- Plant Stress & Biodiversity Lab—Forest Research Center (CEF), School of Agriculture, University of Lisbon, 1349-017 Lisbon, Portugal; (I.S.M.); (M.M.F.-P.)
| | - Erica Lumini
- Institute for Sustainable Plant Protection, National Research Council, I-10135 Turin, Italy; (E.L.); (A.B.)
| | - Andrea Berruti
- Institute for Sustainable Plant Protection, National Research Council, I-10135 Turin, Italy; (E.L.); (A.B.)
| | - Natasha S. Ribeiro
- Faculty of Agronomy and Forest Engineering, Eduardo Mondlane University, CP 257 Maputo, Mozambique; (A.C.); (N.S.R.)
| | - Isabel Marques
- Plant Stress & Biodiversity Lab—Forest Research Center (CEF), School of Agriculture, University of Lisbon, 1349-017 Lisbon, Portugal; (I.S.M.); (M.M.F.-P.)
| | - Ana I. Ribeiro-Barros
- Plant Stress & Biodiversity Lab—Forest Research Center (CEF), School of Agriculture, University of Lisbon, 1349-017 Lisbon, Portugal; (I.S.M.); (M.M.F.-P.)
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Romano I, Ventorino V, Ambrosino P, Testa A, Chouyia FE, Pepe O. Development and Application of Low-Cost and Eco-Sustainable Bio-Stimulant Containing a New Plant Growth-Promoting Strain Kosakonia pseudosacchari TL13. Front Microbiol 2020; 11:2044. [PMID: 33013749 PMCID: PMC7461993 DOI: 10.3389/fmicb.2020.02044] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 08/03/2020] [Indexed: 01/26/2023] Open
Abstract
The use of beneficial microbes as inoculants able to improve fitness, growth and health of plants also in stress conditions is an attractive low-cost and eco-friendly alternative strategy to harmful chemical inputs. Thirteen potential plant growth-promoting bacteria were isolated from the rhizosphere of wheat plants cultivated under drought stress and nitrogen deficiency. Among these, the two isolates TL8 and TL13 showed multiple plant growth promotion activities as production of indole-3-acetic acid (IAA), siderophores, ammonia, and 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase production, the ability to solubilize phosphate as well as exerted antimicrobial activity against plant pathogens as Botrytis spp. and Phytophthora spp. The two selected strains were identified as Kosakonia pseudosacchari by sequencing of 16S rRNA gene. They resulted also tolerant to abiotic stress and were able to efficiently colonize plant roots as observed in vitro assay under fluorescence microscope. Based on the best PGP properties, the strain K. pseudosacchari TL13 was selected to develop a new microbial based formulate. A sustainable and environmentally friendly process for inoculant production was developed using agro-industrial by-products for microbial growth. Moreover, the application of K. pseudosacchari TL13- based formulates in pot experiment improved growth performance of maize plants.
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Affiliation(s)
- Ida Romano
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
| | - Valeria Ventorino
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
| | - Patrizia Ambrosino
- Agriges S.r.l. - Nutrizione Speciale per L'Agricoltura Biologica e Integrata, San Salvatore Telesino, Italy
| | - Antonino Testa
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
| | - Fatima Ezzahra Chouyia
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy.,Department of Biology, Faculty of Sciences and Techniques, Hassan II University of Casablanca, Casablanca, Morocco
| | - Olimpia Pepe
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
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Fadiji AE, Babalola OO. Exploring the potentialities of beneficial endophytes for improved plant growth. Saudi J Biol Sci 2020; 27:3622-3633. [PMID: 33304173 PMCID: PMC7714962 DOI: 10.1016/j.sjbs.2020.08.002] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2019] [Revised: 07/31/2020] [Accepted: 08/02/2020] [Indexed: 11/23/2022] Open
Abstract
Pathogen affects plant growth, host health and productivity. Endophytes, presumed to live inside the plant tissues, might be helpful in sustaining the future of agriculture. Although recent studies have proven that endophytes can be pathogenic, commensal, non-pathogenic, and/or beneficial, this review will focus on the beneficial category only. Beneficial endophytes produce a number of compounds which are useful for protecting plants from environmental conditions, enhancing plant growth and sustainability, while living conveniently inside the hosts. The population of endophytes is majorly controlled by location, and climatic conditions where the host plant grows. Often the most frequently isolated endophytes from the tissues of the plant are fungi, but sometimes greater numbers of bacteria are isolated. Beneficial endophytes stand a chance to replace the synthetic chemicals currently being used for plant growth promotion if carefully explored by researchers and embraced by policymakers. However, the roles of endophytes in plant growth improvement and their behavior in the host plant have not been fully understood. This review presents the current development of research into beneficial endophytes and their effect in improving plant growth.
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Affiliation(s)
- Ayomide Emmanuel Fadiji
- Food Security and Safety Niche, Faculty of Natural and Agricultural Sciences, Private Mail Bag X2046, North-West University, South Africa
| | - Olubukola Oluranti Babalola
- Food Security and Safety Niche, Faculty of Natural and Agricultural Sciences, Private Mail Bag X2046, North-West University, South Africa
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17
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Sant'Anna FH, Reiter KC, Fátima Almeida PD, Pereira Passaglia LM. Systematic review of descriptions of novel bacterial species: evaluation of the twenty-first century taxonomy through text mining. Int J Syst Evol Microbiol 2020; 70:2925-2936. [PMID: 32100698 DOI: 10.1099/ijsem.0.004070] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
Abstract
Although described bacterial species increased in the twenty-first century, they correspond to a tiny fraction of the actual number of species living on our planet. The volume of textual data of these descriptions constitutes valuable information for revealing trends that in turn could support strategies for improvement of bacterial taxonomy. In this study, a text mining approach was used to generate bibliometric data to verify the state-of-art of bacterial taxonomy. Around 9700 abstracts of bacterial classification containing the expression 'sp. nov.' and published between 2001 and 2018 were downloaded from PubMed and analysed. Most articles were from PR China and the Republic of Korea, and published in the International Journal of Systematic and Evolutionary Microbiology. From about 10 800 species names detected, 93.33 % were considered valid according to the rules of the Bacterial Code, and they corresponded to 82.98 % of the total number of species validated between 2001 and 2018. Streptomyces, Bacillus and Paenibacillus each had more than 200 species described in the period. However, almost 40 % of all species were from the phylum Proteobacteria. Most bacteria were Gram-stain-negative, bacilli and isolated from soil. Thirteen species and one genus homonyms were found. With respect to methodologies of bacterial characterization, the use of terms related to 16S rRNA and polar lipids increased along these years, and terms related to genome metrics only began to appear from 2009 onward, although at a relatively lower frequency. Bacterial taxonomy is known as a conservative discipline, but it gradually changed in terms of players and practices. With the advent of the mandatory use of genomic analyses for species description, we are probably witnessing a turning point in the evolution of bacterial taxonomy.
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Affiliation(s)
- Fernando Hayashi Sant'Anna
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Porto Alegre, Brazil
| | - Keli Cristine Reiter
- Laboratório de Imunologia Celular e Molecular, Universidade Federal de Ciências da Saúde de Porto Alegre, Porto Alegre, Brazil
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18
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Romano I, Ventorino V, Pepe O. Effectiveness of Plant Beneficial Microbes: Overview of the Methodological Approaches for the Assessment of Root Colonization and Persistence. FRONTIERS IN PLANT SCIENCE 2020; 11:6. [PMID: 32076431 PMCID: PMC7006617 DOI: 10.3389/fpls.2020.00006] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2019] [Accepted: 01/06/2020] [Indexed: 05/22/2023]
Abstract
Issues concerning the use of harmful chemical fertilizers and pesticides that have large negative impacts on environmental and human health have generated increasing interest in the use of beneficial microorganisms for the development of sustainable agri-food systems. A successful microbial inoculant has to colonize the root system, establish a positive interaction and persist in the environment in competition with native microorganisms living in the soil through rhizocompetence traits. Currently, several approaches based on culture-dependent, microscopic and molecular methods have been developed to follow bioinoculants in the soil and plant surface over time. Although culture-dependent methods are commonly used to estimate the persistence of bioinoculants, it is difficult to differentiate inoculated organisms from native populations based on morphological characteristics. Therefore, these methods should be used complementary to culture-independent approaches. Microscopy-based techniques (bright-field, electron and fluorescence microscopy) allow to obtain a picture of microbial colonization outside and inside plant tissues also at high resolution, but it is not possible to always distinguish living cells from dead cells by direct observation as well as distinguish bioinoculants from indigenous microbial populations living in soils. In addition, the development of metagenomic techniques, including the use of DNA probes, PCR-based methods, next-generation sequencing, whole-genome sequencing and pangenome methods, provides a complementary approach useful to understand plant-soil-microbe interactions. However, to ensure good results in microbiological analysis, the first fundamental prerequisite is correct soil sampling and sample preparation for the different methodological approaches that will be assayed. Here, we provide an overview of the advantages and limitations of the currently used methods and new methodological approaches that could be developed to assess the presence, plant colonization and soil persistence of bioinoculants in the rhizosphere. We further discuss the possibility of integrating multidisciplinary approaches to examine the variations in microbial communities after inoculation and to track the inoculated microbial strains.
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Affiliation(s)
- Ida Romano
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
| | - Valeria Ventorino
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
- *Correspondence: Valeria Ventorino,
| | - Olimpia Pepe
- Department of Agricultural Sciences, University of Naples Federico II, Naples, Italy
- Task Force on Microbiome Studies, University of Naples Federico II, Naples, Italy
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19
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Zhang XX, Whalley PA, Ashton RW, Evans J, Hawkesford MJ, Griffiths S, Huang ZD, Zhou H, Mooney SJ, Whalley WR. A comparison between water uptake and root length density in winter wheat: effects of root density and rhizosphere properties. PLANT AND SOIL 2020. [PMID: 32848280 DOI: 10.1007/s11104-020-04582-5] [Citation(s) in RCA: 45] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
BACKGROUND AND AIMS We aim to quantify the variation in root distribution in a set of 35 experimental wheat lines. We also compared the effect of variation in hydraulic properties of the rhizosphere on water uptake by roots. METHODS We measured the root length density and soil drying in 35 wheat lines in a field experiment. A 3D numerical model was used to predict soil drying profiles with the different root length distributions and compared with measured soil drying. The model was used to test different scenarios of the hydraulic properties of the rhizosphere. RESULTS We showed that wheat lines with no detectable differences in root length density can induce soil drying profiles with statistically significant differences. Our data confirmed that a root length density of at least 1 cm/cm3 is needed to drain all the available water in soil. In surface layers where the root length density was far greater than 1 cm/cm3 water uptake was independent of rooting density due to competition for water. However, in deeper layers where root length density was less than 1 cm/cm3, water uptake by roots was proportional to root density. CONCLUSION In a set of wheat lines with no detectable differences in the root length density we found significant differences in water uptake. This may be because small differences in root density at depth can result in larger differences in water uptake or that the hydraulic properties of the rhizosphere can greatly affect water uptake.
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Affiliation(s)
- X X Zhang
- Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ UK
| | - P A Whalley
- University of Oxford, Radcliffe Observatory, Andrew Wiles Building, Woodstock Rd, Oxford, OX2 6GG UK
| | - R W Ashton
- Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ UK
| | - J Evans
- Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ UK
| | - M J Hawkesford
- Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ UK
| | - S Griffiths
- John Innes Centre, Norwich Research Park, Norwich, NR4 7UH UK
| | - Z D Huang
- Farmland Irrigation Research Institute, Chinese Academy of Agricultural Sciences, Xinxiang, 453002 Henan China
| | - H Zhou
- School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, Leicestershire LE12 5RD UK
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Sciences, Chinese Academy of Sciences, 71 East Beijing Road, Nanjing, 210008 People's Republic of China
| | - S J Mooney
- School of Biosciences, University of Nottingham, Sutton Bonington Campus, Loughborough, Leicestershire LE12 5RD UK
| | - W R Whalley
- Rothamsted Research, Harpenden, Hertfordshire AL5 2JQ UK
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20
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Xie S, Yu H, Wang Q, Cheng Y, Ding T. Two rapid and sensitive methods based on TaqMan qPCR and droplet digital PCR assay for quantitative detection of Bacillus subtilis in rhizosphere. J Appl Microbiol 2019; 128:518-527. [PMID: 31602754 DOI: 10.1111/jam.14481] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2019] [Revised: 08/22/2019] [Accepted: 10/04/2019] [Indexed: 01/03/2023]
Abstract
AIMS Bacillus subtilis, a typical plant growth-promoting rhizobacteria, can benefit plant through promoting growth and reducing disease. The colonization intensity of B. subtilis in rhizosphere is a key factor for improving their effectiveness of field application. In this study, we developed a rapid and sensitive method for detecting B. subtilis in rhizosphere via TaqMan qPCR and droplet digital PCR (ddPCR) methods. METHODS AND RESULTS The primers/probe set targeting gyrB gene could successfully distinguish B. subtilis from its close-related species. Both the TaqMan qPCR and ddPCR methods exhibited a good linear relationship in the sensitivity assay, suggesting the developed method was specific, effective and reliable. Finally, the two methods were used to detect the colonization dynamic of B. subtilis within Arabidopsis rhizosphere. Both of them showed a consistent trend compared with the traditional cultivation-based and microscopy-based methods. CONCLUSIONS The TaqMan qPCR and droplet digital PCR (ddPCR) methods we developed could be used to rapidly detect B. subtilis in rhizosphere. SIGNIFICANCE AND IMPACT OF THE STUDY The TaqMan qPCR and ddPCR methods developed in this study can be applied to rapid quantitative detection of B. subtilis populations, and will be helpful to evaluate their effectiveness of field application.
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Affiliation(s)
- Shanshan Xie
- The National Key Engineering Lab of Crop Stress Resistance Breeding, College of Life Sciences, Anhui Agricultural University, Hefei, China
| | - Hengguo Yu
- The National Key Engineering Lab of Crop Stress Resistance Breeding, College of Life Sciences, Anhui Agricultural University, Hefei, China
| | - Qi Wang
- College of Plant protection, Anhui Agricultural University, Hefei, China
| | - Yifeng Cheng
- The National Key Engineering Lab of Crop Stress Resistance Breeding, College of Life Sciences, Anhui Agricultural University, Hefei, China
| | - Ting Ding
- College of Plant protection, Anhui Agricultural University, Hefei, China
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21
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Wang Q, Ma L, Zhou Q, Chen B, Zhang X, Wu Y, Pan F, Huang L, Yang X, Feng Y. Inoculation of plant growth promoting bacteria from hyperaccumulator facilitated non-host root development and provided promising agents for elevated phytoremediation efficiency. CHEMOSPHERE 2019; 234:769-776. [PMID: 31238273 DOI: 10.1016/j.chemosphere.2019.06.132] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2019] [Revised: 06/08/2019] [Accepted: 06/17/2019] [Indexed: 05/12/2023]
Abstract
Plant growth promoting bacteria (PGPB) have been reported to have the ability to promote plant growth, development and increase heavy metals (HMs) uptake. Therefore, PGPB inoculation as soil remediation agents into plants with larger biomass and potential of phytoextraction is of great importance to increase bioremediation efficiency. In this study, 12 PGPB strains isolated from a cadmium (Cd)/zinc hyperaccumulator Sedum alfredii Hance were inoculated into non-host plant Brassica juncea and their effects on plant growth and Cd uptake were determined. The results showed that inoculation of most PGPB strains promoted plant growth, boosted root development and improved chlorophyll content in the absence of Cd. Inoculation of PGPB strains promoted plant growth up to 111% in shoot and 358% in root when treated with 2 μM Cd. In addition, PGPB inoculation not only ameliorated plant root morphology including the total root length (RL), total surface area (SA), total root volume (RV) and number of root tips (RT), but also facilitated Cd uptake up to 126%. Furthermore, inoculation of PGPB strains promoted plant Cd accumulation up to 261% in shoot and up to 8.93-fold increase in root. Among all the 12 PGPB strains, Burkholdria SaMR10 and Sphingomonas SaMR12 were identified as the promising microbes for improving phytoremediation efficiency of Cd contaminated soils. These results not only provided useful findings for further investigation of interacting mechanisms between different bacterial strains and plants, but also facilitated the development of microbe-assisted phytoremediation application for HM contaminated soil.
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Affiliation(s)
- Qiong Wang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Luyao Ma
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Qiyao Zhou
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Bao Chen
- Project Business Department, Jinjiang Building, No. 111, Hushu South Road, Hangzhou City, Zhejiang province, 310005, China
| | - Xincheng Zhang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Yingjie Wu
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Fengshan Pan
- Hailiang Group Co., Ltd., Hangzhou, 310058, China
| | - Lukuan Huang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Xiaoe Yang
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China
| | - Ying Feng
- Key Laboratory of Environment Remediation and Ecological Health, Ministry of Education, College of Environmental Resource Sciences, Zhejiang University, 310058, Hangzhou, China.
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22
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Ghadam Khani A, Enayatizamir N, Norouzi Masir M. Impact of plant growth promoting rhizobacteria on different forms of soil potassium under wheat cultivation. Lett Appl Microbiol 2019; 68:514-521. [PMID: 30773686 DOI: 10.1111/lam.13132] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2018] [Revised: 02/10/2019] [Accepted: 02/11/2019] [Indexed: 12/01/2022]
Abstract
This study aimed to investigate the effect of some plant growth promoting rhizobacteria with potassium dissolution ability on different forms of potassium in soil under the cultivation of wheat. The factorial experiment was conducted as a randomized complete design with three replications in greenhouse conditions. The treatments consisted of bacterium inoculation (without inoculation, Enterobacter cloacae Rhizo_33, Pseudomonas sp. Rhizo_9, consortium of Enterobacter cloacae Rhizo_33 and Pseudomonas sp. Rhizo_9), potassium application (2·87 mg K kg-1 of soil and without potassium application).The results indicated that soils treated with Enterobacter cloacae Rhizo_33, either receiving potassium or not, maintain a higher amount of exchangeable K (337 mg kg-1 ) and water-soluble K (1·25 and 1·31 meq L-1 with and without K application respectively). The nonexchangeable K and nitric acid-extractable K values were decreased by inoculating bacterial strains. The grain yield was significantly enhanced by the inoculation of bacterial strains irrespective of rates of potassium application. About 19·16% increase of grain yield was recorded by inoculation of Enterobacter cloacae Rhizo_33 and without potassium application. A significantly greater amount of K uptake in grain was obtained in soils treated with Enterobacter cloacae Rhizo_33, with and without the application of potassium (28·7 and 30·7 mg per pot respectively). There was a significant (P < 0·01) and positive correlation between grain yield and grain, shoot and root K uptake. Potassium uptake had a positive significant correlation with water-soluble K and exchangeable K; it was negatively correlated with K (HNO3 ). The data suggested that inoculation of soil with mentioned bacteria can improve plant growth and potassium uptake. SIGNIFICANCE AND IMPACT OF THE STUDY: As one of the macronutrients, Potassium is the most abundant absorbed cation in most plants and exists in soil in different forms. Soluble and exchangeable forms of potassium (K) are important with regard to plant uptake. K-solubilizing bacteria can convert insoluble potassium to soluble forms; therefore using K-solubilizing bacteria as biofertilizers is a sustainable solution for the improvement of plant growth, nutrition, root growth, plant competitiveness and reducing the use of potassium chemical fertilizer.
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Affiliation(s)
- A Ghadam Khani
- Soil Science Department, Agriculture Faculty, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - N Enayatizamir
- Soil Science Department, Agriculture Faculty, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - M Norouzi Masir
- Soil Science Department, Agriculture Faculty, Shahid Chamran University of Ahvaz, Ahvaz, Iran
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The potential of Bacilli rhizobacteria for sustainable crop production and environmental sustainability. Microbiol Res 2019; 219:26-39. [DOI: 10.1016/j.micres.2018.10.011] [Citation(s) in RCA: 83] [Impact Index Per Article: 16.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2018] [Revised: 10/24/2018] [Accepted: 10/31/2018] [Indexed: 12/21/2022]
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Batista BD, Lacava PT, Ferrari A, Teixeira-Silva NS, Bonatelli ML, Tsui S, Mondin M, Kitajima EW, Pereira JO, Azevedo JL, Quecine MC. Screening of tropically derived, multi-trait plant growth- promoting rhizobacteria and evaluation of corn and soybean colonization ability. Microbiol Res 2018; 206:33-42. [PMID: 29146258 DOI: 10.1016/j.micres.2017.09.007] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2017] [Accepted: 09/18/2017] [Indexed: 01/10/2023]
Abstract
The present study assessed the plant growth-promoting (PGP) traits and diversity of culturable rhizobacteria associated with guarana (Paullinia cupana), a typical tropical plant. Ninety-six bacteria were isolated, subjected to biochemical tests, and identified by partial or total 16S rDNA sequencing. Proteobacteria and Firmicutes were the dominant rhizospheric phyla found, and Burkholderia and Bacillus were the most abundant genera. Thirteen strains exhibited the four PGP traits evaluated, and most of them belonged to the genus Burkholderia. Two multi-trait PGP strains, RZ2MS9 (Bacillus sp.) and RZ2MS16 (Burkholderia ambifaria), expressively promoted corn and soybean growth under greenhouse conditions. Compared to the non-inoculated control, increases in corn root dry weight of 247.8 and 136.9% were obtained with RZ2MS9 and RZ2MS16 inoculation, respectively, at 60days after seeding. The dry weights of corn and soybean shoots were significantly higher than those of non-inoculated plants, showing increases of more than 47% for both strains and crops. However, soybean root dry weight did not increased after bacterial inoculation with either strain. The colonization behavior of RZ2MS16 was assessed using GFP-labeling combined with fluorescence microscopy and a cultivation-based approach for quantification. RZ2MS16:gfp was able to colonize the roots and shoots of corn and soybean, revealing an endophytic behavior.
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Affiliation(s)
- Bruna Durante Batista
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Paulo Teixeira Lacava
- Department of Morphology and Pathology, Center for Biological and Health Sciences, Federal University of São Carlos, São Carlos, - SP, Brazil
| | - Andrea Ferrari
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Natalia Sousa Teixeira-Silva
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Maria Letícia Bonatelli
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Sarina Tsui
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Mateus Mondin
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Elliot Watanabe Kitajima
- Department of Plant Pathology and Nematology, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | | | - João Lúcio Azevedo
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil
| | - Maria Carolina Quecine
- Department of Genetics, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, - SP, Brazil.
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Kandel SL, Joubert PM, Doty SL. Bacterial Endophyte Colonization and Distribution within Plants. Microorganisms 2017; 5:E77. [PMID: 29186821 PMCID: PMC5748586 DOI: 10.3390/microorganisms5040077] [Citation(s) in RCA: 225] [Impact Index Per Article: 32.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2017] [Revised: 11/21/2017] [Accepted: 11/23/2017] [Indexed: 11/16/2022] Open
Abstract
The plant endosphere contains a diverse group of microbial communities. There is general consensus that these microbial communities make significant contributions to plant health. Both recently adopted genomic approaches and classical microbiology techniques continue to develop the science of plant-microbe interactions. Endophytes are microbial symbionts residing within the plant for the majority of their life cycle without any detrimental impact to the host plant. The use of these natural symbionts offers an opportunity to maximize crop productivity while reducing the environmental impacts of agriculture. Endophytes promote plant growth through nitrogen fixation, phytohormone production, nutrient acquisition, and by conferring tolerance to abiotic and biotic stresses. Colonization by endophytes is crucial for providing these benefits to the host plant. Endophytic colonization refers to the entry, growth and multiplication of endophyte populations within the host plant. Lately, plant microbiome research has gained considerable attention but the mechanism allowing plants to recruit endophytes is largely unknown. This review summarizes currently available knowledge about endophytic colonization by bacteria in various plant species, and specifically discusses the colonization of maize plants by Populus endophytes.
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Affiliation(s)
| | | | - Sharon L. Doty
- School of Environmental and Forest Sciences, College of the Environment, University of Washington, Seattle, WA 98195-2100, USA; (S.L.K.); (P.M.J.)
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