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Li L, Li B, Li Q, Wang L, Yang H. Root Endophytic Microorganisms Contribute to the Attribute of Full-Year Shooting in Woody Bamboo Cephalostachyum pingbianense. Microorganisms 2024; 12:1927. [PMID: 39338601 PMCID: PMC11434196 DOI: 10.3390/microorganisms12091927] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2024] [Revised: 09/18/2024] [Accepted: 09/19/2024] [Indexed: 09/30/2024] Open
Abstract
Cephalostachyum pingbianense (Hsueh & Y.M. Yang ex Yi et al.) D.Z. Li & H.Q. Yang is unique among bamboo species for its ability to produce bamboo shoots in all seasons under natural conditions. Apart from the physiological mechanism, information regarding the effects of endophytic microorganisms on this full-year shooting characteristic is limited. We hypothesize that root endophytic microorganisms will have a positive impact on the full-year bamboo shooting characteristic of C. pingbianense by increasing the availability or supply of nutrients. To identify the seasonal variations in the root endophytic bacterial and fungal communities of C. pingbianense, and to assess their correlation with bamboo shoot productivity, the roots of C. pingbianense were selected as research materials, and the 16S rRNA and ITS rDNA genes of root endophytic microorganisms were sequenced using the Illumina platform. Following this sequencing, raw sequencing reads were processed, and OTUs were annotated. Alpha and beta diversity, microbial composition, and functional predictions were analyzed, with correlations to bamboo shoot numbers assessed. The results showed that seasonal changes significantly affected the community diversity and structure of root endophytic microbes of C. pingbianense. Bacterial communities in root samples from all seasons contained more nitrogen-fixing microorganisms, with members of the Burkholderiales and Rhizobiales predominating. The relative abundances of ectomycorrhizal and arbuscular mycorrhizal fungi in the autumn sample were significantly higher than in other seasons. Correlation analysis revealed that the bamboo shoot productivity was significantly and positively correlated with bacterial functions of nitrogen fixation, arsenate detoxification, and ureolysis, as well as with symbiotrophic fungi, ectomycorrhizal fungi, and arbuscular mycorrhizal fungi. At the genus level, the bacterial genus Herbaspirillum and the fungal genera Russula, unclassified_f_Acaulosporaceae, and unclassified_f_Glomeraceae were found to have a significant positive correlation with bamboo shoot number. Our study provides an ecological perspective for understanding the highly productive attribute of C. pingbianense and offers new insights into the forest management of woody bamboos.
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Affiliation(s)
- Lushuang Li
- Key Laboratory of Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming 650224, China;
- Forestry College, Southwest Forestry University, Kunming 650224, China
| | - Bin Li
- Horticultural Research Institute, Yunnan Academy of Agricultural Sciences, Kunming 650205, China;
| | - Qing Li
- Yunnan Forestry Double Center, Yunnan Forestry and Grassland Bureau, Kunming 650051, China;
| | - Lianchun Wang
- Key Laboratory of Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Forestry University, Kunming 650224, China;
| | - Hanqi Yang
- Institute of Highland Forest Science, Chinese Academy of Forestry, Kunming 650233, China
- Key Laboratory of Breeding and Utilization of Resource Insects, National Forestry and Grassland Administration, Kunming 650233, China
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Cui Y, Zhao Y, Cai R, Zhou H, Chen J, Feng L, Guo C, Wang D. Isolation and Identification of a Phosphate-Solubilizing Pantoea dispersa with a Saline-Alkali Tolerance and Analysis of Its Growth-Promoting Effects on Silage Maize Under Saline-Alkali Field Conditions. Curr Microbiol 2023; 80:291. [PMID: 37464097 DOI: 10.1007/s00284-023-03408-8] [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: 04/08/2023] [Accepted: 07/05/2023] [Indexed: 07/20/2023]
Abstract
Phosphate-solubilizing bacteria (PSB) are microorganisms that can dissolve insoluble phosphorus (P) to accessible forms. This study aimed to screen saline-alkali-tolerant PSB and analyze its growth promoting properties, and evaluate its effects on the growth, quality, soil nutrient balance, and enzyme activities of silage maize in the field. We isolated six phosphate-solubilizing strains from rhizosphere soil of silage maize planted in saline-alkali land, and FC-1 with the best P-solubilizing effect was used for further study. The morphological, physiological and biochemical analysis, and 16S rDNA and housekeeping gene atpD sequencing were performed for identification. FC-1 was identified as Pantoea dispersa and had high P solubility. The phosphate solubility of FC-1 using four P sources ranged from 160.79 to 270.22 mg l-1. FC-1 produced indole-3-acetic acid (IAA) and decreased the pH of the growth media by secreting organic acids, including citric acid, malic acid, succinic acid, and acetic acid. The results of a field experiment indicated that FC-1 treatment increased the height, stem diameter, fresh weight, dry weight, starch content, crude protein content, and total P content of silage maize by 9.8, 9.2, 12.6, 11.7, 12.6, 18.3, and 17.4%, respectively. The nitrogen, potassium, phosphorus, and organic matter contents in the rhizosphere soil of silage maize increased by 29.8, 17.1, 17.9, and 25.3%, respectively; urease, catalase, sucrase, and alkaline phosphatase levels also increased by 24.7, 26.7, 24.0, and 19.5%, respectively. FC-1 promoted the growth of silage maize by improving nutrient metabolism and enzyme activities in saline-alkali soil and may be an effective alternative to fertilizers.
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Affiliation(s)
- Ying Cui
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China
| | - Yujie Zhao
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China
| | - Run Cai
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China
| | - Hao Zhou
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China
| | - Jiaxin Chen
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China
| | - Lirong Feng
- Science and Technology Building, Heilongjiang Guohong Environmental Co., Ltd., No. 600 of Chuangxin Third Road, Songbei Zone, Harbin, 150029, China
| | - Changhong Guo
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China.
| | - Dan Wang
- Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Limin Development Zone, Harbin Normal University, No. 1 of Shida Road, Harbin, 150025, China.
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Chiaranunt P, White JF. Plant Beneficial Bacteria and Their Potential Applications in Vertical Farming Systems. PLANTS (BASEL, SWITZERLAND) 2023; 12:400. [PMID: 36679113 PMCID: PMC9861093 DOI: 10.3390/plants12020400] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Revised: 01/12/2023] [Accepted: 01/12/2023] [Indexed: 06/17/2023]
Abstract
In this literature review, we discuss the various functions of beneficial plant bacteria in improving plant nutrition, the defense against biotic and abiotic stress, and hormonal regulation. We also review the recent research on rhizophagy, a nutrient scavenging mechanism in which bacteria enter and exit root cells on a cyclical basis. These concepts are covered in the contexts of soil agriculture and controlled environment agriculture, and they are also used in vertical farming systems. Vertical farming-its advantages and disadvantages over soil agriculture, and the various climatic factors in controlled environment agriculture-is also discussed in relation to plant-bacterial relationships. The different factors under grower control, such as choice of substrate, oxygenation rates, temperature, light, and CO2 supplementation, may influence plant-bacterial interactions in unintended ways. Understanding the specific effects of these environmental factors may inform the best cultural practices and further elucidate the mechanisms by which beneficial bacteria promote plant growth.
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Naqqash T, Malik KA, Imran A, Hameed S, Shahid M, Hanif MK, Majeed A, Iqbal MJ, Qaisrani MM, van Elsas JD. Inoculation With Azospirillum spp. Acts as the Liming Source for Improving Growth and Nitrogen Use Efficiency of Potato. FRONTIERS IN PLANT SCIENCE 2022; 13:929114. [PMID: 35968126 PMCID: PMC9366913 DOI: 10.3389/fpls.2022.929114] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/26/2022] [Accepted: 06/23/2022] [Indexed: 06/15/2023]
Abstract
Nitrogen (N) is one of the limiting factors for plant growth, and it is mainly supplied exogenously by fertilizer application. It is well documented that diazotrophic rhizobacteria improve plant growth by fixing atmospheric N in the soil. The present study investigates the nitrogen-fixing potential of two Azospirillum spp. strains using the 15N isotope-dilution method. The two diazotrophic strains (TN03 and TN09) native to the rhizosphere of potato belong to the genus Azospirillum (16S rRNA gene accession numbers LN833443 and LN833448, respectively). Both strains were able to grow on an N-free medium with N-fixation potential (138-143 nmol mg-1 protein h-1) and contained the nifH gene. Strain TN03 showed highest indole acetic acid (IAA) production (30.43 μg/mL), while TN09 showed highest phosphate solubilization activity (249.38 μg/mL) while both diazotrophs showed the production of organic acids. A 15N dilution experiment was conducted with different fertilizer inputs to evaluate the N-fixing potential of both diazotrophs in pots. The results showed that plant growth parameters and N contents increased significantly by the inoculations. Moreover, reduced 15N enrichment was found compared to uninoculated controls that received similar N fertilizer levels. This validates the occurrence of N-fixation through isotopic dilution. Strain TN09 showed higher N-fixing potential than TN03 and the uninoculated controls. Inoculation with either strain also showed a remarkable increase in plant growth under field conditions. Thus, there were remarkable increases in N use efficiency, N uptake and N utilization levels. Confocal laser scanning and transmission electron microscopy showed that TN03 is an ectophyte, i.e., present outside root cells or within the grooves of root hairs, while TN09 is an endophyte, i.e., present within root cells, forming a strong association withroot it. This study confirms that diazotrophic Azospirillum spp. added to potato systems can improve plant growth and N use efficiency, opening avenues for improvement of potato crop growth with reduced input of N fertilizer.
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Affiliation(s)
- Tahir Naqqash
- Institute of Molecular Biology and Biotechnology, Bahauddin Zakariya University, Multan, Pakistan
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
| | | | - Asma Imran
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
| | - Sohail Hameed
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
- Department of Biosciences, University of Wah Research Lab Complex, University of Wah, Wah, Pakistan
| | - Muhammad Shahid
- Department of Bioinformatics and Biotechnology, Government College University, Faisalabad, Pakistan
| | - Muhammad Kashif Hanif
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
- Department of Biological Sciences, University of Lahore, Sargodha Campus, Punjab, Pakistan
| | - Afshan Majeed
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
- Department of Soil and Environmental Sciences, The University of Poonch Rawalakot, Rawalakot, Pakistan
| | - Muhammad Javed Iqbal
- National Institute for Biotechnology and Genetic Engineering (NIBGE), Faisalabad, Pakistan
| | - Muther Mansoor Qaisrani
- Department of Bioinformatics, Khwaja Fareed University of Engineering and Information Technology, Rahim Yar Khan, Pakistan
| | - Jan Dirk van Elsas
- Department of Microbial Ecology, Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, Netherlands
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5
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Wu SC, Chang BS, Li YY. Effect of the coexistence of endosulfan on the lindane biodegradation by Novosphingobium barchaimii and microbial enrichment cultures. CHEMOSPHERE 2022; 297:134063. [PMID: 35192855 DOI: 10.1016/j.chemosphere.2022.134063] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2021] [Revised: 01/30/2022] [Accepted: 02/18/2022] [Indexed: 05/06/2023]
Abstract
Organochlorine pesticides, especially lindane and endosulfan, have been demonstrated to be both biodegradable and frequently coexistent, but their inhibitory effect has never been studied. In this study, we investigated the effect of endosulfan coexistence on lindane degradation to a lindane-degrading isolate, Novosphingobium barchaimii strain LL02, and mixed enrichment cultures from two different inocula. Our results of the lindane degradation batch experiments demonstrated that endosulfan concentration above 20 mg L-1 causes significant inhibition to the lindane degradation efficiency of the strain LL02. Besides, the acidic conditions at pH 5.0 to 6.0 further decreased its lindane degradation rate constants by 57% compared to the neutral and alkaline conditions. For the mixed microbial cultures, the lindane degradation efficiency in the lindane/endosulfan co-contamination conditions decreased by 35.7%-50.7% compared to the lindane alone conditions. From our 16S rRNA amplicon sequencing results through the PacBio platform, most of the predominant bacteria in the lindane-enriched cultures were depressed in the lindane/endosulfan-enriched cultures. Moreover, bacteria of Burkholderia australis, Chujaibacter soli, Flavitalea flava, and one Rhodanobacteraceae bacterium were relatively highly abundant in the co-contamination enrichment cultures, suggesting their potential for lindane degradation under the endosulfan stress. Our results demonstrated that endosulfan coexistence causes inhibitory impacts on lindane biodegradation toward both lindane-degrading bacteria and mixed microbial cultures. The coexistence of multiple organochlorine pesticides on the biodegradation efficiencies should be carefully considered when applying bioremediation to remove organochlorine pesticide contamination.
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Affiliation(s)
- Siang Chen Wu
- Department of Environmental Engineering, National Chung Hsing University, 145 Xingda Road, Taichung, 40227, Taiwan.
| | - Bo-Sheng Chang
- Department of Environmental Engineering, National Chung Hsing University, 145 Xingda Road, Taichung, 40227, Taiwan
| | - Yu-Ying Li
- Department of Environmental Engineering, National Chung Hsing University, 145 Xingda Road, Taichung, 40227, Taiwan
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6
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Mahapatra DM, Satapathy KC, Panda B. Biofertilizers and nanofertilizers for sustainable agriculture: Phycoprospects and challenges. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 803:149990. [PMID: 34492488 DOI: 10.1016/j.scitotenv.2021.149990] [Citation(s) in RCA: 34] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2021] [Revised: 08/17/2021] [Accepted: 08/24/2021] [Indexed: 05/21/2023]
Abstract
Increased food demands and ceasing nutrient deposits have resulted in a great shortfall between the food supply and demand and would be worse in the years to come. Higher inputs of synthetic fertilizers on lands have resulted in environmental pollution, persistent changes in the soil ecology, and physicochemical conditions. This has greatly decreased the natural soil fertility thereby hindering agricultural productivity, human health, and hygiene. Bio-based resilient nutrient sources as wastewater-derived algae are promising as a complete nutrient for agriculture and have the potential to be used in soilless cultivations. Innovations in nano-fortification and nano-sizing of minerals and algae have the potential to facilitate nutrients bioavailability and efficacy for a multifold increase in productivity. In this context, various options on minerals nanofertilizer application in agricultural food production besides efficient biofertilizer have been investigated. Algal biofertilizer with the nanoscale application has huge prospects for further agriculture productivities and fosters suitable development.
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Affiliation(s)
- Durga Madhab Mahapatra
- Center of Environment, Climate Change and Public Health, Utkal University, Vani Vihar, Bhubaneswar 751004, Odisha, India; Biological and Ecological Engineering Department, Oregon State University, Corvallis, OR, USA.
| | - Kanhu Charan Satapathy
- Center of Environment, Climate Change and Public Health, Utkal University, Vani Vihar, Bhubaneswar 751004, Odisha, India; Post Graduate Department of Anthropology, Utkal University, Bhubaneswar 751004, Odisha, India.
| | - Bhabatarini Panda
- Center of Environment, Climate Change and Public Health, Utkal University, Vani Vihar, Bhubaneswar 751004, Odisha, India; Post Graduate Department of Botany, Utkal University, Bhubaneswar 751004, Odisha, India.
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7
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Leite MFA, Dimitrov MR, Freitas-Iório RP, de Hollander M, Cipriano MAP, Andrade SAL, da Silveira APD, Kuramae EE. Rearranging the sugarcane holobiont via plant growth-promoting bacteria and nitrogen input. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 800:149493. [PMID: 34426366 DOI: 10.1016/j.scitotenv.2021.149493] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Revised: 07/22/2021] [Accepted: 08/02/2021] [Indexed: 06/13/2023]
Abstract
The development and productivity of plants are governed by their genetic background, nutrient input, and the microbial communities they host, i.e. the holobiont. Accordingly, engineering beneficial root microbiomes has emerged as a novel and sustainable approach to crop production with reduced nutrient input. Here, we tested the effects of six bacterial strains isolated from sugarcane stalks on sugarcane growth and physiology as well as the dynamics of prokaryote community assembly in the rhizosphere and root endosphere under two N fertilization regimes. All six strains, Paraburkholderia caribensis IAC/BECa 88, Kosakonia oryzae IAC/BECa 90, Kosakonia radicincitans IAC/BECa 95, Paraburkholderia tropica IAC/BECa 135, Pseudomonas fluorescens IAC/BECa 141 and Herbaspirillum frisingense IAC/BECa 152, increased in shoot and root dry mass, and influenced the concentration and accumulation of important macro- and micronutrients. However, N input reduced the impact of inoculation by shifting the sugarcane microbiome (rhizosphere and root endosphere) and weakening the co-dependence between soil microbes and sugarcane biomass and nutrients. The results show that these beneficial microbes improved plant nutrient uptake conditioned to a reduced N nutrient input. Therefore, reduced fertilization is not only desirable consequence of bacterial inoculation but essential for higher impact of these beneficial bacteria on the sugarcane microbiome.
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Affiliation(s)
- Marcio F A Leite
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, the Netherlands; Ecology and Biodiversity, Institute of Environmental Biology, Utrecht University, Utrecht, the Netherlands
| | - Mauricio R Dimitrov
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, the Netherlands
| | | | - Mattias de Hollander
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, the Netherlands
| | - Matheus A P Cipriano
- Center of Soil and Environmental Resources, Agronomic Institute (IAC), Campinas, Brazil
| | - Sara A L Andrade
- Department of Plant Biology, Institute of Biology, State University of Campinas, Campinas, Brazil
| | | | - Eiko E Kuramae
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, the Netherlands; Ecology and Biodiversity, Institute of Environmental Biology, Utrecht University, Utrecht, the Netherlands.
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8
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Sherpa MT, Sharma L, Bag N, Das S. Isolation, Characterization, and Evaluation of Native Rhizobacterial Consortia Developed From the Rhizosphere of Rice Grown in Organic State Sikkim, India, and Their Effect on Plant Growth. Front Microbiol 2021; 12:713660. [PMID: 34552571 PMCID: PMC8450577 DOI: 10.3389/fmicb.2021.713660] [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: 05/23/2021] [Accepted: 08/02/2021] [Indexed: 11/13/2022] Open
Abstract
Eight rhizospheric bacteria were isolated from the organic paddy fields of Sikkim, India, and identified as Pseudomonas kribbensis KSB, Burkholderia cenocepacia SRD, Kosakonia oryzendophytica YMA7, Pseudomonas rhodesiae SRB, Bacillus sp. ARA, Paenibacillus polymyxa COW3, Bacillus aryabhattai PSB2, and Bacillus megaterium PSB1. They showed plant growth-promoting attributes in rice and have bio-control potential against phytopathogen Colletotrichum gloeosporioides of large cardamom (Amomum subulatum). Burkholderia cenocepacia SRD showed production of indole acetic acid and ammonia and solubilization of phosphate and potassium and also possessed nitrogen fixation potential. It showed antagonistic activity against two other plant pathogens of large cardamom, viz., Curvularia eragrostidis and Pestalotiopsis sp., under in vitro conditions. The liquid bacterial consortium was prepared using the bacterial strains SRB, PSB1, and COW3 (Consortia-1); PSB2, SRD, and COW3 (Consortia-2); and COW3, KSB, and YMA7 (Consortia-3) to increase the growth and yield of rice plants under organic farming conditions. Greenhouse and field studies showed that the Consortia-3 had the highest plant growth-promoting activity. Consortia-3 demonstrated better agronomic performance in terms of root length (9.5 cm),number of leaflets per plant (5.3), grains per panicle (110.6), test grain weight (27.4 g), dry root weight per plant (0.73 g), and total dry biomass per plant (8.26 g).
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Affiliation(s)
- Mingma Thundu Sherpa
- Department of Horticulture, School of Life Sciences, Sikkim University, Gangtok, India
| | - Laxuman Sharma
- Department of Horticulture, School of Life Sciences, Sikkim University, Gangtok, India
| | - Niladri Bag
- Department of Horticulture, School of Life Sciences, Sikkim University, Gangtok, India
| | - Sayak Das
- Department of Microbiology, School of Life Sciences, Sikkim University, Gangtok, India
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9
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Wang K, Wu Y, Ye M, Yang Y, Asiegbu FO, Overmyer K, Liu S, Cui F. Comparative Genomics Reveals Potential Mechanisms of Plant Beneficial Effects of a Novel Bamboo-Endophytic Bacterial Isolate Paraburkholderia sacchari Suichang626. Front Microbiol 2021; 12:686998. [PMID: 34220778 PMCID: PMC8250432 DOI: 10.3389/fmicb.2021.686998] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2021] [Accepted: 05/25/2021] [Indexed: 11/13/2022] Open
Abstract
Plant-beneficial microbes have drawn wide attention due to their potential application as bio-control agents and bio-fertilizers. Moso bamboo, which is among the monocots with the highest growth rate, lives perennially with abundant microbes that may benefit annually growing crops. Genome information of moso bamboo associated bacteria remains underexplored. We isolated and identified a novel Paraburkholderia strain Suichang626 from moso bamboo roots. Growth promoting effects of Suichang626 on both moso bamboo and seedlings of the model dicot Arabidopsis thaliana were documented in laboratory conditions. To gain insight into the genetic basis of this growth promotion effect, we sequenced the genome of Suichang626. Evidenced by genome-wide phylogeny data, we propose that Suichang626 is a novel strain of Paraburkholderia sacchari. Gene homologs encoding biosynthesis of the plant growth-promoting chemicals, acetoin and 2,3-butanediol, were identified in the genome of Suichang626. Comparative genomics was further performed with plant-beneficial and plant/animal pathogenic species of Paraburkholderia and Burkholderia. Genes related to volatile organic compounds, nitrogen fixation, and auxin biosynthesis were discovered specifically in the plant growth-promoting species of both genera.
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Affiliation(s)
- Kai Wang
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China.,Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Ying Wu
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
| | - Mengyuan Ye
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
| | - Yifan Yang
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
| | - Fred O Asiegbu
- Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Kirk Overmyer
- Organismal and Evolutionary Biology Research Program, Faculty of Biological and Environmental Sciences, and Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - Shenkui Liu
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
| | - Fuqiang Cui
- State Key Laboratory of Subtropical Silviculture, Zhejiang A&F University, Hangzhou, China
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10
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Khoiri AN, Cheevadhanarak S, Jirakkakul J, Dulsawat S, Prommeenate P, Tachaleat A, Kusonmano K, Wattanachaisaereekul S, Sutheeworapong S. Comparative Metagenomics Reveals Microbial Signatures of Sugarcane Phyllosphere in Organic Management. Front Microbiol 2021; 12:623799. [PMID: 33828538 PMCID: PMC8019924 DOI: 10.3389/fmicb.2021.623799] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 02/01/2021] [Indexed: 12/21/2022] Open
Abstract
Converting conventional farms to organic systems to improve ecosystem health is an emerging trend in recent decades, yet little is explored to what extent and how this process drives the taxonomic diversity and functional capacity of above-ground microbes. This study was, therefore, conducted to investigate the effects of agricultural management, i.e., organic, transition, and conventional, on the structure and function of sugarcane phyllosphere microbial community using the shotgun metagenomics approach. Comparative metagenome analysis exhibited that farming practices strongly influenced taxonomic and functional diversities, as well as co-occurrence interactions of phyllosphere microbes. A complex microbial network with the highest connectivity was observed in organic farming, indicating strong resilient capabilities of its microbial community to cope with the dynamic environmental stressors. Organic farming also harbored genus Streptomyces as the potential keystone species and plant growth-promoting bacteria as microbial signatures, including Mesorhizobium loti, Bradyrhizobium sp. SG09, Lactobacillus plantarum, and Bacillus cellulosilyticus. Interestingly, numerous toxic compound-degrading species were specifically enriched in transition farming, which might suggest their essential roles in the transformation of conventional to organic farming. Moreover, conventional practice diminished the abundance of genes related to cell motility and energy metabolism of phyllosphere microbes, which could negatively contribute to lower microbial diversity in this habitat. Altogether, our results demonstrated the response of sugarcane-associated phyllosphere microbiota to specific agricultural managements that played vital roles in sustainable sugarcane production.
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Affiliation(s)
- Ahmad Nuruddin Khoiri
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Supapon Cheevadhanarak
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, Thailand.,Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Jiraporn Jirakkakul
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Sudarat Dulsawat
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Peerada Prommeenate
- Biochemical Engineering and Systems Biology Research Group, National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency at King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Anuwat Tachaleat
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Kanthida Kusonmano
- School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, Thailand.,Bioinformatics and Systems Biology Program, School of Bioresources and Technology, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
| | - Songsak Wattanachaisaereekul
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand.,Faculty of Food Industry, King Mongkut's Institute of Technology Ladkrabang, Bangkok, Thailand
| | - Sawannee Sutheeworapong
- Pilot Plant Development and Training Institute, King Mongkut's University of Technology Thonburi, Bangkok, Thailand
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11
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Yun T, Zhang M, Zhou D, Jing T, Zang X, Qi D, Chen Y, Li K, Zhao Y, Tang W, Huang J, Wang W, Xie J. Anti-Foc RT4 Activity of a Newly Isolated Streptomyces sp. 5-10 From a Medicinal Plant ( Curculigo capitulata). Front Microbiol 2021; 11:610698. [PMID: 33552022 PMCID: PMC7862724 DOI: 10.3389/fmicb.2020.610698] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2020] [Accepted: 12/21/2020] [Indexed: 01/25/2023] Open
Abstract
Fusarium wilt of banana caused by Fusarium oxysporum f. sp. cubense (Foc) is a disastrous soil-borne fungal disease. Foc tropical race 4 (Foc TR4) can infect almost all banana cultivars. Until now, there is a shortage of safety and effective control methods and commercial banana cultivars with a resistance against Foc TR4. Biocontrol using environmentally friendly microbes is a promising strategy for the management of Foc TR4. Here, a strain 5-10, newly isolated from a medicinal plant (Curculigo capitulata), exhibited a high antifungal activity against Foc TR4. Combing the morphological characteristics and molecular identification, strain 5-10 was classified as a Streptomyces genus. The sequenced genome revealed that more than 39 gene clusters were involved in the biosynthesis of secondary metabolites. Some multidrug resistance gene clusters were also identified such as mdtD, vatB, and vgaE. To improve the anti-Foc TR4 activity of the strain 5-10 extracts, an optimization method of fermentation broth was established. Antifungal activity increased by 72.13% under the fermentation system containing 2.86 g/L of NaCl and 11.57% of inoculation amount. After being treated with the strain 5-10 extracts, the Foc TR4 hyphae shrinked, deformed, and ruptured. The membrane integrity and cell ultrastructure incurred irreversible damage. Streptomyces sp. 5-10 extracts play a fungicidal role in Foc TR4. Hence, Streptomyces sp. 5-10 will be a potential biocontrol agent to manage fungal diseases by exploring the microbial fertilizer.
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Affiliation(s)
- Tianyan Yun
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Miaoyi Zhang
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Dengbo Zhou
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Tao Jing
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Xiaoping Zang
- Haikou Experimental Station, Chinese Academy of Tropical Agricultural Sciences, Haikou, China
| | - Dengfeng Qi
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Yufeng Chen
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Kai Li
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Yankun Zhao
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Wen Tang
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Jiaquan Huang
- College of Tropical Crops, Hainan University, Haikou, China
| | - Wei Wang
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
| | - Jianghui Xie
- Key Laboratory of Biology and Genetic Resources of Tropical Crops, Ministry of Agriculture, Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences (CATAS), Haikou, China
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12
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Fatima F, Hashim A, Anees S. Efficacy of nanoparticles as nanofertilizer production: a review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:1292-1303. [PMID: 33070292 DOI: 10.1007/s11356-020-11218-9] [Citation(s) in RCA: 35] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 10/11/2020] [Indexed: 05/21/2023]
Abstract
Owing to the ever-increasing demand for food, the growing global population has forced farmers to increase fertilizer use. The overall use of fertilizers increased by 13 times between 1950 and 2020, from 15 to 194 million tons. Due to the resource shortages of chemical fertilizers on the market, agricultural costs are rising drastically every day because they cause an adverse impact on the environment by releasing chemical particulates and run-off agriculture. Biofertilizers have thus become a safer supplement to increase crop production without doing any harm to the environment, as they are produced industrially from a selected community of microorganisms that either develop a mutually beneficial relationship with plants or are part of their rhizosphere. They still have some drawbacks, which led to the development of a new avenue for the application of nanotechnology-mediated nanofertilizers. Nanotechnology recommends significant prospects for tailoring nanofertilizer production. They are typically coated with desired chemical composition having controlled release and targeted delivery of effective nanoscale ingredients, ability to improve plant productivity and to minimize environmental pollutants. The present review focuses primarily on the usefulness of nanofertilizers, as well as its environmental and safety concerns. The research would also include useful knowledge related to the introduction of different forms of nanoparticles within the agricultural field, contributing to the opening of a new route to nanorevolution.
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Affiliation(s)
- Faria Fatima
- Integral Institute of Agricultural Science and Technology, Integral University, Lucknow, 226026, India.
| | - Arshya Hashim
- Department of Biotechnology, Abeda Inamdar Sr. College of Arts, Science and Commerce, Pune, Maharashtra, 411001, India
| | - Sumaiya Anees
- Department of Biosciences Integral University, Lucknow, 226026, India
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13
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Diniz AL, da Silva DIR, Lembke CG, Costa MDBL, ten-Caten F, Li F, Vilela RD, Menossi M, Ware D, Endres L, Souza GM. Amino Acid and Carbohydrate Metabolism Are Coordinated to Maintain Energetic Balance during Drought in Sugarcane. Int J Mol Sci 2020; 21:ijms21239124. [PMID: 33266228 PMCID: PMC7729667 DOI: 10.3390/ijms21239124] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Revised: 11/12/2020] [Accepted: 11/13/2020] [Indexed: 01/10/2023] Open
Abstract
The ability to expand crop plantations without irrigation is a major goal to increase agriculture sustainability. To achieve this end, we need to understand the mechanisms that govern plant growth responses under drought conditions. In this study, we combined physiological, transcriptomic, and genomic data to provide a comprehensive picture of drought and recovery responses in the leaves and roots of sugarcane. Transcriptomic profiling using oligoarrays and RNA-seq identified 2898 (out of 21,902) and 46,062 (out of 373,869) transcripts as differentially expressed, respectively. Co-expression analysis revealed modules enriched in photosynthesis, small molecule metabolism, alpha-amino acid metabolism, trehalose biosynthesis, serine family amino acid metabolism, and carbohydrate transport. Together, our findings reveal that carbohydrate metabolism is coordinated with the degradation of amino acids to provide carbon skeletons to the tricarboxylic acid cycle. This coordination may help to maintain energetic balance during drought stress adaptation, facilitating recovery after the stress is alleviated. Our results shed light on candidate regulatory elements and pave the way to biotechnology strategies towards the development of drought-tolerant sugarcane plants.
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Affiliation(s)
- Augusto Lima Diniz
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
| | - Danielle Izilda Rodrigues da Silva
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
- Center for Applied Plant Sciences (CAPS), The Ohio State University, Columbus, OH 43210, USA
- Escola Superior de Agricultura “Luiz de Queiroz”, Universidade de São Paulo, Piracicaba, SP 13418-900, Brazil
| | - Carolina Gimiliani Lembke
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
| | - Maximiller Dal-Bianco Lamas Costa
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal de Viçosa, Viçosa, MG 36570-900, Brazil
| | - Felipe ten-Caten
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
| | - Forrest Li
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; (F.L.); (D.W.)
| | - Romel Duarte Vilela
- Centro de Ciências Agrárias, Universidade Federal de Alagoas, Rio Largo, AL 57100-000, Brazil; (R.D.V.); (L.E.)
| | - Marcelo Menossi
- Instituto de Biologia, Universidade Estadual de Campinas, Campinas, SP 13083-862, Brazil;
| | - Doreen Ware
- Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA; (F.L.); (D.W.)
- USDA ARS NAA Robert W. Holley Center for Agriculture and Health, Ithaca, NY 14853, USA
| | - Lauricio Endres
- Centro de Ciências Agrárias, Universidade Federal de Alagoas, Rio Largo, AL 57100-000, Brazil; (R.D.V.); (L.E.)
| | - Glaucia Mendes Souza
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 05508-000, Brazil; (A.L.D.); (D.I.R.d.S.); (C.G.L.); (M.D.-B.L.C.); (F.t.-C.)
- Correspondence:
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14
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Esmaeel Q, Jacquard C, Sanchez L, Clément C, Ait Barka E. The mode of action of plant associated Burkholderia against grey mould disease in grapevine revealed through traits and genomic analyses. Sci Rep 2020; 10:19393. [PMID: 33173115 PMCID: PMC7655954 DOI: 10.1038/s41598-020-76483-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Accepted: 10/28/2020] [Indexed: 11/09/2022] Open
Abstract
Plant-associated Burkholderia spp. have been shown to offer a promising alternative method that may address concerns with ecological issue associated with pesticide overuse in agriculture. However to date, little work has studied the role of Burkholderia species as biocontrol agents for grapevine pathogens. To this end, two Burkholderia strains, BE17 and BE24 isolated from the maize rhizosphere in France, were investigated to determine their biocontrol potential and their ability to induce systemic resistance against grey mould disease in grapevine. Results showed the capacity of both strains to inhibit spore germination and mycelium growth of Botrytis cinerea. Experimental inoculation with BE17 and BE24 showed a significant protection of bacterized-plantlets against grey mould compared to the non-bacterized control. BE17 and BE24-bacterized plants accumulated more reactive oxygen species and an increased callose deposition was observed in leaves of bacterized plantlets compared to the control plantlets. In bacterized plants, gene expression analysis subsequent to B. cinerea challenge showed that strains BE17 and BE24 significantly increased the relative transcript level of pathogenesis-related (PR) proteins PR5 and PR10, two markers involved in the Salicylic acid (SA)-signaling pathway. Furthermore, in silico analysis of strains revealed the presence of genes involved in plant growth promotion and biocontrol highlighting the attractiveness of these strains for sustainable agricultural applications.
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Affiliation(s)
- Qassim Esmaeel
- Unité de Résistance Induite et Bioprotection des Plantes EA 4707, SFR Condorcet FR CNRS 3417, University of Reims-Champagne-Ardenne, Reims, France.
| | - Cédric Jacquard
- Unité de Résistance Induite et Bioprotection des Plantes EA 4707, SFR Condorcet FR CNRS 3417, University of Reims-Champagne-Ardenne, Reims, France
| | - Lisa Sanchez
- Unité de Résistance Induite et Bioprotection des Plantes EA 4707, SFR Condorcet FR CNRS 3417, University of Reims-Champagne-Ardenne, Reims, France
| | - Christophe Clément
- Unité de Résistance Induite et Bioprotection des Plantes EA 4707, SFR Condorcet FR CNRS 3417, University of Reims-Champagne-Ardenne, Reims, France
| | - Essaid Ait Barka
- Unité de Résistance Induite et Bioprotection des Plantes EA 4707, SFR Condorcet FR CNRS 3417, University of Reims-Champagne-Ardenne, Reims, France.
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15
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Singh RK, Singh P, Li HB, Song QQ, Guo DJ, Solanki MK, Verma KK, Malviya MK, Song XP, Lakshmanan P, Yang LT, Li YR. Diversity of nitrogen-fixing rhizobacteria associated with sugarcane: a comprehensive study of plant-microbe interactions for growth enhancement in Saccharum spp. BMC PLANT BIOLOGY 2020; 20:220. [PMID: 32423383 PMCID: PMC7236179 DOI: 10.1186/s12870-020-02400-9] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Accepted: 04/21/2020] [Indexed: 05/09/2023]
Abstract
BACKGROUND Nitrogen is an essential element for sugarcane growth and development and is generally applied in the form of urea often much more than at recommended rates, causing serious soil degradation, particularly soil acidification, as well as groundwater and air pollution. In spite of the importance of nitrogen for plant growth, fewer reports are available to understand the application and biological role of N2 fixing bacteria to improve N2 nutrition in the sugarcane plant. RESULTS In this study, a total of 350 different bacterial strains were isolated from rhizospheric soil samples of the sugarcane plants. Out of these, 22 isolates were selected based on plant growth promotion traits, biocontrol, and nitrogenase activity. The presence and activity of the nifH gene and the ability of nitrogen-fixation proved that all 22 selected strains have the ability to fix nitrogen. These strains were used to perform 16S rRNA and rpoB genes for their identification. The resulted amplicons were sequenced and phylogenetic analysis was constructed. Among the screened strains for nitrogen fixation, CY5 (Bacillus megaterium) and CA1 (Bacillus mycoides) were the most prominent. These two strains were examined for functional diversity using Biolog phenotyping, which confirmed the consumption of diverse carbon and nitrogen sources and tolerance to low pH and osmotic stress. The inoculated bacterial strains colonized the sugarcane rhizosphere successfully and were mostly located in root and leaf. The expression of the nifH gene in both sugarcane varieties (GT11 and GXB9) inoculated with CY5 and CA1 was confirmed. The gene expression studies showed enhanced expression of genes of various enzymes such as catalase, phenylalanine-ammonia-lyase, superoxide dismutase, chitinase and glucanase in bacterial-inoculated sugarcane plants. CONCLUSION The results showed that a substantial number of Bacillus isolates have N-fixation and biocontrol property against two sugarcane pathogens Sporisorium scitamineum and Ceratocystis paradoxa. The increased activity of genes controlling free radical metabolism may at least in part accounts for the increased tolerance to pathogens. Nitrogen-fixation was confirmed in sugarcane inoculated with B. megaterium and B. mycoides strains using N-balance and 15N2 isotope dilution in different plant parts of sugarcane. This is the first report of Bacillus mycoides as a nitrogen-fixing rhizobacterium in sugarcane.
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Affiliation(s)
- Rajesh Kumar Singh
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Pratiksha Singh
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Hai-Bi Li
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
| | - Qi-Qi Song
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
| | - Dao-Jun Guo
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Manoj K Solanki
- Department of Food Quality and Safety, Institute for Post-harvest and Food Sciences, The Volcani Center, Agricultural Research Organization, 7528809, Rishon LeZion, Israel
| | - Krishan K Verma
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Mukesh K Malviya
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Xiu-Peng Song
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
| | - Prakash Lakshmanan
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, 4072, Australia
| | - Li-Tao Yang
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China
- Guangxi Key Laboratory of Crop Genetic Improvement and Biotechnology, Nanning, 530007, Guangxi, China
| | - Yang-Rui Li
- Key Laboratory of Sugarcane Biotechnology and Genetic Improvement (Guangxi), Ministry of Agriculture, Sugarcane Research Center, Chinese Academy of Agricultural Sciences, Guangxi Key Laboratory of Sugarcane Genetic Improvement, Sugarcane Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China.
- College of Agriculture, State Key Laboratory of Conservation and Utilization of Subtropical Agro-bio resources, Guangxi University, Nanning, 530005, China.
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16
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Yoneyama T, Terakado-Tonooka J, Bao Z, Minamisawa K. Molecular Analyses of the Distribution and Function of Diazotrophic Rhizobia and Methanotrophs in the Tissues and Rhizosphere of Non-Leguminous Plants. PLANTS 2019; 8:plants8100408. [PMID: 31614562 PMCID: PMC6843303 DOI: 10.3390/plants8100408] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2019] [Revised: 09/26/2019] [Accepted: 10/10/2019] [Indexed: 01/16/2023]
Abstract
Biological nitrogen fixation (BNF) by plants and its bacterial associations represent an important natural system for capturing atmospheric dinitrogen (N2) and processing it into a reactive form of nitrogen through enzymatic reduction. The study of BNF in non-leguminous plants has been difficult compared to nodule-localized BNF in leguminous plants because of the diverse sites of N2 fixation in non-leguminous plants. Identification of the involved N2-fixing bacteria has also been difficult because the major nitrogen fixers were often lost during isolation attempts. The past 20 years of molecular analyses has led to the identification of N2 fixation sites and active nitrogen fixers in tissues and the rhizosphere of non-leguminous plants. Here, we examined BNF hotspots in six reported non-leguminous plants. Novel rhizobia and methanotrophs were found to be abundantly present in the free-living state at sites where carbon and energy sources were predominantly available. In the carbon-rich apoplasts of plant tissues, rhizobia such as Bradyrhizobium spp. microaerobically fix N2. In paddy rice fields, methane molecules generated under anoxia are oxidized by xylem aerenchyma-transported oxygen with the simultaneous fixation of N2 by methane-oxidizing methanotrophs. We discuss the effective functions of the rhizobia and methanotrophs in non-legumes for the acquisition of fixed nitrogen in addition to research perspectives.
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Affiliation(s)
- Tadakatsu Yoneyama
- Department of Applied Biological Chemistry, University of Tokyo, Yayoi 1-1-1, Bunkyo-ku, Tokyo 113-8657, Japan.
- National Agriculture and Food Research Organization, Kannondai 3-1-1, Tsukuba, Ibaraki 305-8666, Japan.
| | - Junko Terakado-Tonooka
- National Agriculture and Food Research Organization, Kannondai 3-1-1, Tsukuba, Ibaraki 305-8666, Japan.
| | - Zhihua Bao
- School of Ecology and Environment, Inner Mongolia University, 235 West University Blvd., Hohhot 010021, Inner Mongolia, China.
| | - Kiwamu Minamisawa
- Graduate School of Life Sciences, Tohoku University, Katahira, Aoba-ku, Sendai, Miyagi 980-8577, Japan.
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17
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Pereira LB, Andrade GS, Meneghin SP, Vicentini R, Ottoboni LMM. Prospecting Plant Growth-Promoting Bacteria Isolated from the Rhizosphere of Sugarcane Under Drought Stress. Curr Microbiol 2019; 76:1345-1354. [PMID: 31372732 DOI: 10.1007/s00284-019-01749-x] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Accepted: 07/24/2019] [Indexed: 12/01/2022]
Abstract
In the rhizosphere, the soil bacteria and the plants are closely related, with the plant-associated microbiota playing an important role in promoting plant growth under both normal and stress conditions. In this study, the cultivable bacteria in the sugarcane rhizosphere under different levels of drought stress were characterized and screened for plant growth activities. The results suggested that the microbial community associated with the sugarcane rhizosphere was strongly affected by drought, but some important genera of bacteria such as Arthrobacter, Pseudomonas, Microbacterium, and Bacillus remained present during the entire experiment, indicating the adaptability of these organisms and their importance in the rhizosphere community. Many isolates exhibited positive results for one or more plant growth activity, and they were also capable of growing under simulated drought stress, suggesting that the microorganisms isolated from the sugarcane rhizosphere could be explored for uses such as biofertilizers or biocontrol agents in agriculture.
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Affiliation(s)
- Leticia B Pereira
- Center for Molecular Biology and Genetic Engineering (CBMEG), State University of Campinas (UNICAMP), 400 Candido Rondon Avenue, Campinas, SP, Brazil
| | - Gabriela S Andrade
- Department of Biotechnology and Vegetal and Animal Production, Federal University of São Carlos (UFSCar), Araras, SP, Brazil
| | - Silvana P Meneghin
- Department of Biotechnology and Vegetal and Animal Production, Federal University of São Carlos (UFSCar), Araras, SP, Brazil
| | - Renato Vicentini
- Department of Plant Biology, State University of Campinas (UNICAMP), Campinas, SP, Brazil
| | - Laura M M Ottoboni
- Center for Molecular Biology and Genetic Engineering (CBMEG), State University of Campinas (UNICAMP), 400 Candido Rondon Avenue, Campinas, SP, Brazil.
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18
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Jian L, Bai X, Zhang H, Song X, Li Z. Promotion of growth and metal accumulation of alfalfa by coinoculation with Sinorhizobium and Agrobacterium under copper and zinc stress. PeerJ 2019; 7:e6875. [PMID: 31119081 PMCID: PMC6510217 DOI: 10.7717/peerj.6875] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Accepted: 03/28/2019] [Indexed: 12/31/2022] Open
Abstract
The Legume-Rhizobium symbiosis has been proposed as a promising technique for the phytoremediation of contaminated soils due to its beneficial activity in symbiotic nitrogen fixation. However, numerous studies have shown that excessive heavy metals reduce the efficiency of symbiotic nodulation with Rhizobium and inhibit plant growth. In this study, we aimed to evaluate the synergistic effects of IAA-producing bacteria and Rhizobium on Medicago lupulina growth under Cu and Zn stress. Pot experiments showed that 400 mg kg-1 Cu2 + and Zn2 + greatly inhibited plant growth, but dual inoculation of Medicago lupulina with Sinorhizobium meliloti CCNWSX0020 and Agrobacterium tumefaciens CCNWGS0286 significantly increased the number of nodules and plant biomass by enhancing antioxidant activities. Under double stress of 400 mg kg-1 Cu2 + and Zn2 +, the nodule number and nitrogenase activities of dual-inoculated plants were 48.5% and 154.4% higher, respectively, than those of plants inoculated with Sinorhizobium meliloti. The root and above-ground portion lengths of the dual-inoculated plants were 32.6% and 14.1% greater, respectively, than those of the control, while the root and above-ground portion dry weights were 34.3% and 32.2% greater, respectively, than those of the control. Compared with S. meliloti and A. tumefaciens single inoculation, coinoculation increased total Cu uptake by 39.1% and 47.5% and increased total Zn uptake by 35.4% and 44.2%, respectively, under double metal stress conditions. Therefore, coinoculation with Sinorhizobium meliloti and Agrobacterium tumefaciens enhances metal phytoextraction by increasing plant growth and antioxidant activities under Cu/Zn stress, which provides a new approach for bioremediation in heavy metal-contaminated soil.
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Affiliation(s)
- Liru Jian
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, China
| | - Xiaoli Bai
- Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi, China
| | - Hui Zhang
- Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi, China
| | - Xiuyong Song
- Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi, China
| | - Zhefei Li
- Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi, China
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19
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Esmaeel Q, Jacquard C, Clément C, Sanchez L, Ait Barka E. Genome sequencing and traits analysis of Burkholderia strains reveal a promising biocontrol effect against grey mould disease in grapevine (Vitis vinifera L.). World J Microbiol Biotechnol 2019; 35:40. [DOI: 10.1007/s11274-019-2613-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2018] [Accepted: 02/01/2019] [Indexed: 12/11/2022]
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20
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Rodrigues AA, Araújo MVF, Soares RS, Oliveira BFRDE, Ribeiro IDA, Sibov ST, Vieira JDG. Isolation and prospection of diazotrophic rhizobacteria associated with sugarcane under organic management. AN ACAD BRAS CIENC 2018; 90:3813-3829. [PMID: 30379271 DOI: 10.1590/0001-3765201820180319] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Accepted: 06/27/2018] [Indexed: 11/22/2022] Open
Abstract
Microorganisms associated with organic management are essential in nutrient transformation and release for plant use. The present study aimed to isolate, identify and characterize plant growth promoting diazotrophic rhizobacteria associated with sugarcane under organic management. Rhizospheres of organic sugarcane varieties IAC 911099 and CTC4 were sampled and inoculated onto nitrogen free NFb and Burk media. The isolated microorganisms were screened in vitro concerning their ability to produce plant growth promoting factors. Eighty-one bacteria were isolated; 45.6% were positive for the nifH gene and produced at least one of the evaluated plant growth promotion factors. The production of indole-3-acetic acid was observed in 46% of the isolates, while phosphate solubilization was observed in 86.5%. No isolates were hydrogen cyanide producers, while 81% were ammonia producers, 19% produced cellulases and 2.7%, chitinases. Microorganisms belonging to the Burkholderia genus were able to inhibit Fusarium moniliforme growth in vitro. Plant growth promoting microorganisms associated with organic sugarcane, especially belonging to Burkholderia, Sphingobium, Rhizobium and Enterobacter genera, can be environmentally friendly alternatives to improve sugarcane production.
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Affiliation(s)
- Ariana A Rodrigues
- Laboratório de Microbiologia Ambiental e Biotecnologia, Departamento de Biotecnologia, Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Av. Universitária, s/n, 74605-050 Goiânia, GO, Brazil
| | - Marcus Vinícius F Araújo
- Laboratório de Microbiologia Ambiental e Biotecnologia, Departamento de Biotecnologia, Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Av. Universitária, s/n, 74605-050 Goiânia, GO, Brazil
| | - Renan S Soares
- Laboratório de Microbiologia Ambiental e Biotecnologia, Departamento de Biotecnologia, Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Av. Universitária, s/n, 74605-050 Goiânia, GO, Brazil
| | - Bruno F R DE Oliveira
- Laboratório de Bacteriologia Molecular e Marinha, Departamento de Microbiologia Médica, Instituto de Microbiologia Paulo de Goés, Universidade Federal do Rio de Janeiro, Rua Professor Rodolpho Paulo Rocco, 373, 21941-590 Rio de Janeiro, RJ, Brazil
| | - Igor D A Ribeiro
- Centro de Microbiologia Agrícola, Departamento de Genética, Universidade Federal do Rio Grande do Sul, Av. Bento Gonçalves, 9500, 91540-000 Porto Alegre, RS, Brazil
| | - Sergio T Sibov
- Laboratório de Cultura de Tecidos, Departamento de Genética e Melhoramento de Plantas, Escola de Agronomia, Universidade Federal de Goiás, Av. Esperança, s/n, 74690-900 Goiânia, GO, Brazil
| | - José Daniel G Vieira
- Laboratório de Microbiologia Ambiental e Biotecnologia, Departamento de Biotecnologia, Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Av. Universitária, s/n, 74605-050 Goiânia, GO, Brazil
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21
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Draft Genome Sequence of Plant Growth-Promoting Burkholderia sp. Strain BE12, Isolated from the Rhizosphere of Maize. GENOME ANNOUNCEMENTS 2018; 6:6/17/e00299-18. [PMID: 29700147 PMCID: PMC5920190 DOI: 10.1128/genomea.00299-18] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
Burkholderia sp. strain BE12, isolated from a French agricultural soil, possesses antifungal activity against a set of phytopathogenic fungi and has friendly interactions with grapevine. Here, we present the draft genome sequence of BE12, along with genes related to plant growth-promoting traits and siderophores that this strain contains, supporting its plant growth and antifungal activities.
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22
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Xu J, Kloepper JW, Huang P, McInroy JA, Hu CH. Isolation and characterization of N 2 -fixing bacteria from giant reed and switchgrass for plant growth promotion and nutrient uptake. J Basic Microbiol 2018; 58:459-471. [PMID: 29473969 DOI: 10.1002/jobm.201700535] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2017] [Revised: 01/31/2018] [Accepted: 02/03/2018] [Indexed: 12/18/2022]
Abstract
The aims of this study were to isolate and characterize N2 -fixing bacteria from giant reed and switchgrass and evaluate their plant growth promotion and nutrient uptake potential for use as biofertilizers. A total of 190 bacteria were obtained from rhizosphere soil and inside stems and roots of giant reed and switchgrass. All the isolates were confirmed to have nitrogenase activity, 96.9% produced auxin, and 85% produced siderophores. Then the top six strains, including Sphingomonas trueperi NNA-14, Sphingomonas trueperi NNA-19, Sphingomonas trueperi NNA-17, Sphingomonas trueperi NNA-20, Psychrobacillus psychrodurans NP-3, and Enterobacter oryzae NXU-38, based on nitrogenase activity, were inoculated on maize and wheat seeds in greenhouse tests to assess their potential benefits to plants. All the selected strains promoted plant growth by increasing at least one plant growth parameter or increasing the nutrient concentration of maize or wheat plants. NNA-14 outperformed others in promoting early growth and nutrient uptake by maize. Specifically, NNA-14 significantly increased root length, surface area, and fine roots of maize by 14%, 12%, and 17%, respectively, and enhanced N, Ca, S, B, Cu, and Zn in maize. NNA-19 and NXU-38 outperformed others in promoting both early growth and nutrient uptake by wheat. Specifically, NNA-19 significantly increased root dry weight and number of root tips of wheat by 25% and 96%, respectively, and enhanced Ca in wheat. NXU-38 significantly increased root length, surface area, and fine roots of wheat by 21%, 13%, and 26%, respectively, and enhanced levels of Ca and Mg in wheat. It is concluded that switchgrass and giant reed are colonized by N2 -fixing bacteria that have the potential to contribute to plant growth and nutrient uptake by agricultural crops.
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Affiliation(s)
- Jia Xu
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Joseph W Kloepper
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Ping Huang
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - John A McInroy
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
| | - Chia H Hu
- Department of Entomology and Plant Pathology, Auburn University, Auburn, Alabama
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Manogaran M, Shukor MY, Yasid NA, Khalil KA, Ahmad SA. Optimisation of culture composition for glyphosate degradation by Burkholderia vietnamiensis strain AQ5-12. 3 Biotech 2018; 8:108. [PMID: 29430369 DOI: 10.1007/s13205-018-1123-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2017] [Accepted: 01/16/2018] [Indexed: 10/18/2022] Open
Abstract
The herbicide glyphosate is often used to control weeds in agricultural lands. However, despite its ability to effectively kill weeds at low cost, health problems are still reported due to its toxicity level. The removal of glyphosate from the environment is usually done by microbiological process since chemical process of degradation is ineffective due to the presence of highly stable bonds. Therefore, finding glyphosate-degrading microorganisms in the soil of interest is crucial to remediate this glyphosate. Burkholderia vietnamiensis strain AQ5-12 was found to have glyphosate-degrading ability. Optimisation of biodegradation condition was carried out utilising one factor at a time (OFAT) and response surface methodology (RSM). Five parameters including carbon and nitrogen source, pH, temperature and glyphosate concentration were optimised. Based on OFAT result, glyphosate degradation was observed to be optimum at fructose concentration of 6, 0.5 g/L ammonia sulphate, pH 6.5, temperature of 32 °C and glyphosate concentration at 100 ppm. Meanwhile, RSM resulted in a better degradation with 92.32% of 100 ppm glyphosate compared to OFAT. The bacterium was seen to tolerate up to 500 ppm glyphosate while increasing concentration results in reduced degradation and bacterial growth rate.
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24
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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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25
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Xiao X, Fan M, Wang E, Chen W, Wei G. Interactions of plant growth-promoting rhizobacteria and soil factors in two leguminous plants. Appl Microbiol Biotechnol 2017; 101:8485-8497. [PMID: 29038972 DOI: 10.1007/s00253-017-8550-8] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2017] [Revised: 09/08/2017] [Accepted: 09/17/2017] [Indexed: 12/20/2022]
Abstract
Although the rhizomicrobiome has been extensively studied, little is known about the interactions between soil properties and the assemblage of plant growth-promoting microbes in the rhizosphere. Herein, we analysed the composition and structure of rhizomicrobiomes associated with soybean and alfalfa plants growing in different soil types using deep Illumina 16S rRNA sequencing. Soil pH, P and K significantly affected the composition of the soybean rhizomicrobiome, whereas soil pH and N had a significant effect on the alfalfa rhizomicrobiome. Plant biomass was influenced by plant species, the composition of the rhizomicrobiome, soil pH, N, P and plant growth stage. The beta diversity of the rhizomicrobiome was the second most influential factor on plant growth (biomass). Rhizomicrobes associated with plant biomass were identified and divided into four groups: (1) positively associated with soybean biomass; (2) negatively associated with soybean biomass; (3) positively associated with alfalfa biomass; and (4) negatively associated with alfalfa biomass. Genera assemblages among the four groups differentially responded to soil properties; Group 1 and Group 2 were significantly correlated with soil pH and P, whereas Group 3 and Group 4 were significantly correlated with soil N, K and C. The influence of soil properties on the relative abundance of plant biomass-associated rhizomicrobes differed between soybean and alfalfa. The results suggest the rhizomicrobiome has a pronounced influence on plant growth, and the rhizomicrobiome assemblage and plant growth-associated microbes are differentially structured by soil properties and leguminous plant species.
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Affiliation(s)
- Xiao Xiao
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Miaochun Fan
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China
| | - Entao Wang
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, 11340, México, D.F., Mexico
| | - Weimin Chen
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
| | - Gehong Wei
- State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling, 712100, Shaanxi, People's Republic of China.
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26
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Yeoh YK, Dennis PG, Paungfoo-Lonhienne C, Weber L, Brackin R, Ragan MA, Schmidt S, Hugenholtz P. Evolutionary conservation of a core root microbiome across plant phyla along a tropical soil chronosequence. Nat Commun 2017; 8:215. [PMID: 28790312 PMCID: PMC5548757 DOI: 10.1038/s41467-017-00262-8] [Citation(s) in RCA: 146] [Impact Index Per Article: 20.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Accepted: 06/14/2017] [Indexed: 11/30/2022] Open
Abstract
Culture-independent molecular surveys of plant root microbiomes indicate that soil type generally has a stronger influence on microbial communities than host phylogeny. However, these studies have mostly focussed on model plants and crops. Here, we examine the root microbiomes of multiple plant phyla including lycopods, ferns, gymnosperms, and angiosperms across a soil chronosequence using 16S rRNA gene amplicon profiling. We confirm that soil type is the primary determinant of root-associated bacterial community composition, but also observe a significant correlation with plant phylogeny. A total of 47 bacterial genera are associated with roots relative to bulk soil microbial communities, including well-recognized plant-associated genera such as Bradyrhizobium, Rhizobium, and Burkholderia, and major uncharacterized lineages such as WPS-2, Ellin329, and FW68. We suggest that these taxa collectively constitute an evolutionarily conserved core root microbiome at this site. This lends support to the inference that a core root microbiome has evolved with terrestrial plants over their 400 million year history. Yeoh et al. study root microbiomes of different plant phyla across a tropical soil chronosequence. They confirm that soil type is the primary determinant of root-associated bacterial communities, but also observe a clear correlation with plant phylogeny and define a core root microbiome at this site.
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Affiliation(s)
- Yun Kit Yeoh
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Paul G Dennis
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | | | - Lui Weber
- Biodiversity Assessment and Management, 26-40 Delancey Street, Cleveland, QLD, 4163, Australia
| | - Richard Brackin
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Mark A Ragan
- Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Susanne Schmidt
- School of Agriculture and Food Sciences, The University of Queensland, Brisbane, QLD, 4072, Australia
| | - Philip Hugenholtz
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, 4072, Australia.
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27
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Dos-Santos CM, de Souza DG, Balsanelli E, Cruz LM, de Souza EM, Baldani JI, Schwab S. A Culture-Independent Approach to Enrich Endophytic Bacterial Cells from Sugarcane Stems for Community Characterization. MICROBIAL ECOLOGY 2017; 74:453-465. [PMID: 28160057 DOI: 10.1007/s00248-017-0941-y] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2016] [Accepted: 01/19/2017] [Indexed: 05/16/2023]
Abstract
Bacterial endophytes constitute a very diverse community and they confer important benefits which help to improve agricultural yield. Some of these benefits remain underexplored or little understood, mainly due to the bottlenecks associated with the plant feature, a low number of endophytic bacterial cells in relation to the plant, and difficulties in accessing these bacteria using cultivation-independent methods. Enriching endophytic bacterial cells from plant tissues, based on a non-biased, cultivation-independent physical enrichment method, may help to circumvent those problems, especially in the case of sugarcane stems, which have a high degree of interfering factors, such as polysaccharides, phenolic compounds, nucleases, and fibers. In the present study, an enrichment approach for endophytic bacterial cells from sugarcane lower stems is described. The results demonstrate that the enriched bacterial cells are suitable for endophytic community characterization. A community analysis revealed the presence of previously well-described but also novel endophytic bacteria in sugarcane tissues which may exert functions such as plant growth promotion and biological control, with a predominance of the Proteobacterial phylum, but also Actinobacteria, Bacteroidetes, and Firmicutes, among others. In addition, by comparing the present and literature data, it was possible to list the most frequently detected bacterial endophyte genera in sugarcane tissues. The presented enrichment approach paves the way for improved future research toward the assessment of endophytic bacterial community in sugarcane and other biofuel crops.
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Affiliation(s)
- Carlos M Dos-Santos
- Pró-Reitoria de Pesquisa e Pós-Graduação, Universidade Federal Rural do Rio de Janeiro, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23897-000, Brazil
- Embrapa Agrobiologia, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23891-000, Brazil
| | - Daniel G de Souza
- Embrapa Agrobiologia, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23891-000, Brazil
- Instituto de Agronomia, Universidade Federal Rural do Rio de Janeiro, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23891-000, Brazil
| | - Eduardo Balsanelli
- Departamento de Bioquímica e Biologia Molecular, Setor de Ciências Biológicas, Universidade Federal do Paraná, Centro Politécnico, Jardim das Américas, Curitiba, PR, CEP 81531-980, Brazil
| | - Leonardo Magalhães Cruz
- Departamento de Bioquímica e Biologia Molecular, Setor de Ciências Biológicas, Universidade Federal do Paraná, Centro Politécnico, Jardim das Américas, Curitiba, PR, CEP 81531-980, Brazil
| | - Emanuel M de Souza
- Departamento de Bioquímica e Biologia Molecular, Setor de Ciências Biológicas, Universidade Federal do Paraná, Centro Politécnico, Jardim das Américas, Curitiba, PR, CEP 81531-980, Brazil
| | - José I Baldani
- Embrapa Agrobiologia, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23891-000, Brazil
| | - Stefan Schwab
- Embrapa Agrobiologia, Rodovia BR 465, Km 7, Seropédica, RJ, CEP 23891-000, Brazil.
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28
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De Gregorio PR, Michavila G, Ricciardi Muller L, de Souza Borges C, Pomares MF, Saccol de Sá EL, Pereira C, Vincent PA. Beneficial rhizobacteria immobilized in nanofibers for potential application as soybean seed bioinoculants. PLoS One 2017; 12:e0176930. [PMID: 28472087 PMCID: PMC5417607 DOI: 10.1371/journal.pone.0176930] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2016] [Accepted: 04/19/2017] [Indexed: 11/18/2022] Open
Abstract
Seed inoculation with plant growth promoting rhizobacteria (PGPR) is an ideal tool to supply the soil with a high density of beneficial microorganisms. However, maintaining viable microorganisms is a major problem during seed treatment and storage. In this work, an evaluation was made of the effect of bacterial immobilization in nanofibers on the stability (viability and maintenance of beneficial properties) of two potential PGPR, Pantoea agglomerans ISIB55 and Burkholderia caribensis ISIB40. Moreover, the impact of soybean seed coating with nanofiber-immobilized rhizobacteria on bacterial survival during seed storage and on germination and plant growth parameters was determined. Bacterial nanoimmobilization and subsequent seed coating with nanofiber-immobilized rhizobacteria were carried out by electrospinning. The results demonstrate that this technique successfully immobilized P. agglomerans ISIB55 and B. caribensis ISIB40 because it did not affect the viability or beneficial properties of either rhizobacteria. Seed coating with nanofiber-immobilized rhizobacteria improved P. agglomerans ISIB55 and B. caribensis ISIB40 survival on seeds stored for 30 days and contributed to the successful colonization of both bacteria on the plant root. Moreover, seed coating with P. agglomerans ISIB55 increased germination, length and dry weight of the root. Furthermore, seed coating with B. caribensis ISIB40 increased leaf number and dry weight of the shoot. Therefore, the technique applied in the present work to coat seeds with nanofiber-immobilized PGPR could be considered a promising eco-friendly approach to improve soybean production using a microbial inoculant.
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Affiliation(s)
- Priscilla Romina De Gregorio
- Instituto Superior de Investigaciones Biológicas (INSIBIO), CONICET-UNT and Instituto de Química Biológica "Dr. Bernabé Bloj", Facultad de Bioquímica, Química y Farmacia, UNT. Chacabuco 461, San Miguel de Tucumán, Tucumán, Argentina
| | - Gabriela Michavila
- Instituto Superior de Investigaciones Biológicas (INSIBIO), CONICET-UNT and Instituto de Química Biológica "Dr. Bernabé Bloj", Facultad de Bioquímica, Química y Farmacia, UNT. Chacabuco 461, San Miguel de Tucumán, Tucumán, Argentina
| | | | - Clarissa de Souza Borges
- Departamento de Solos, Faculdade de Agronomia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, 7712, Porto Alegre, RS, Brazil
| | - María Fernanda Pomares
- Instituto Superior de Investigaciones Biológicas (INSIBIO), CONICET-UNT and Instituto de Química Biológica "Dr. Bernabé Bloj", Facultad de Bioquímica, Química y Farmacia, UNT. Chacabuco 461, San Miguel de Tucumán, Tucumán, Argentina
| | - Enilson Luiz Saccol de Sá
- Departamento de Solos, Faculdade de Agronomia, Universidade Federal do Rio Grande do Sul, Avenida Bento Gonçalves, 7712, Porto Alegre, RS, Brazil
| | - Claudio Pereira
- Tecnano Produtos e Serviços Ltda, Rua Washington Luiz, 675, Porto Alegre, RS, Brazil
| | - Paula Andrea Vincent
- Instituto Superior de Investigaciones Biológicas (INSIBIO), CONICET-UNT and Instituto de Química Biológica "Dr. Bernabé Bloj", Facultad de Bioquímica, Química y Farmacia, UNT. Chacabuco 461, San Miguel de Tucumán, Tucumán, Argentina
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Kandel SL, Firrincieli A, Joubert PM, Okubara PA, Leston ND, McGeorge KM, Mugnozza GS, Harfouche A, Kim SH, Doty SL. An In vitro Study of Bio-Control and Plant Growth Promotion Potential of Salicaceae Endophytes. Front Microbiol 2017; 8:386. [PMID: 28348550 PMCID: PMC5347143 DOI: 10.3389/fmicb.2017.00386] [Citation(s) in RCA: 58] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2016] [Accepted: 02/23/2017] [Indexed: 11/13/2022] Open
Abstract
Microbial communities in the endosphere of Salicaceae plants, poplar (Populus trichocarpa) and willow (Salix sitchensis), have been demonstrated to be important for plant growth promotion, protection from biotic and abiotic stresses, and degradation of toxic compounds. Our study aimed to investigate bio-control activities of Salicaceae endophytes against various soil borne plant pathogens including Rhizoctonia solani AG-8, Fusarium culmorum, Gaeumannomyces graminis var. tritici, and Pythium ultimum. Additionally, different plant growth promoting traits such as biological nitrogen fixation (BNF), indole-3-acetic acid (IAA) biosynthesis, phosphate solubilization, and siderophore production were assessed in all bio-control positive strains. Burkholderia, Rahnella, Pseudomonas, and Curtobacterium were major endophyte genera that showed bio-control activities in the in-vitro assays. The bio-control activities of Burkholderia strains were stronger across all tested plant pathogens as compared to other stains. Genomes of sequenced Burkholderia strains WP40 and WP42 were surveyed to identify the putative genes involved in the bio-control activities. The ocf and hcnABC gene clusters responsible for biosynthesis of the anti-fungal metabolites, occidiofungin and hydrogen cyanide, are present in the genomes of WP40 and WP42. Nearly all endophyte strains showing the bio-control activities produced IAA, solubilized tricalcium phosphate, and synthesized siderophores in the culture medium. Moreover, some strains reduced acetylene into ethylene in the acetylene reduction assay, a common assay used for BNF. Salicaceae endophytes could be useful for bio-control of various plant pathogens, and plant growth promotion possibly through the mechanisms of BNF, IAA production, and nutrient acquisition.
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Affiliation(s)
- Shyam L Kandel
- School of Environmental and Forest Sciences, College of the Environment, University of Washington Seattle, WA, USA
| | - Andrea Firrincieli
- Department for Innovation in Biological, Agro-Food and Forest Systems, University of Tuscia Viterbo, Italy
| | - Pierre M Joubert
- Department of Biology, University of Washington Seattle, WA, USA
| | - Patricia A Okubara
- Wheat Health, Genetics and Quality Research Unit, USDA-ARS Pullman, WA, USA
| | - Natalie D Leston
- Department of Plant Pathology, Washington State University Pullman, WA, USA
| | - Kendra M McGeorge
- Department of Plant Pathology, Washington State University Pullman, WA, USA
| | - Giuseppe S Mugnozza
- Department for Innovation in Biological, Agro-Food and Forest Systems, University of Tuscia Viterbo, Italy
| | - Antoine Harfouche
- Department for Innovation in Biological, Agro-Food and Forest Systems, University of Tuscia Viterbo, Italy
| | - Soo-Hyung Kim
- School of Environmental and Forest Sciences, College of the Environment, University of Washington Seattle, WA, USA
| | - Sharon L Doty
- School of Environmental and Forest Sciences, College of the Environment, University of Washington Seattle, WA, USA
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Armanhi JSL, de Souza RSC, Damasceno NDB, de Araújo LM, Imperial J, Arruda P. A Community-Based Culture Collection for Targeting Novel Plant Growth-Promoting Bacteria from the Sugarcane Microbiome. FRONTIERS IN PLANT SCIENCE 2017; 8:2191. [PMID: 29354144 PMCID: PMC5759035 DOI: 10.3389/fpls.2017.02191] [Citation(s) in RCA: 62] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2017] [Accepted: 12/12/2017] [Indexed: 05/08/2023]
Abstract
The soil-plant ecosystem harbors an immense microbial diversity that challenges investigative approaches to study traits underlying plant-microbe association. Studies solely based on culture-dependent techniques have overlooked most microbial diversity. Here we describe the concomitant use of culture-dependent and -independent techniques to target plant-beneficial microbial groups from the sugarcane microbiome. The community-based culture collection (CBC) approach was used to access microbes from roots and stalks. The CBC recovered 399 unique bacteria representing 15.9% of the rhizosphere core microbiome and 61.6-65.3% of the endophytic core microbiomes of stalks. By cross-referencing the CBC (culture-dependent) with the sugarcane microbiome profile (culture-independent), we designed a synthetic community comprised of naturally occurring highly abundant bacterial groups from roots and stalks, most of which has been poorly explored so far. We then used maize as a model to probe the abundance-based synthetic inoculant. We show that when inoculated in maize plants, members of the synthetic community efficiently colonize plant organs, displace the natural microbiota and dominate at 53.9% of the rhizosphere microbial abundance. As a result, inoculated plants increased biomass by 3.4-fold as compared to uninoculated plants. The results demonstrate that abundance-based synthetic inoculants can be successfully applied to recover beneficial plant microbes from plant microbiota.
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Affiliation(s)
- Jaderson Silveira Leite Armanhi
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Rafael Soares Correa de Souza
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Natália de Brito Damasceno
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Laura M. de Araújo
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Juan Imperial
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, Spain
- Consejo Superior de Investigaciones Científicas, Madrid, Spain
| | - Paulo Arruda
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, Campinas, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
- *Correspondence: Paulo Arruda
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Gordon ERL, McFrederick Q, Weirauch C. Phylogenetic Evidence for Ancient and Persistent Environmental Symbiont Reacquisition in Largidae (Hemiptera: Heteroptera). Appl Environ Microbiol 2016; 82:7123-7133. [PMID: 27694238 PMCID: PMC5118923 DOI: 10.1128/aem.02114-16] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 09/27/2016] [Indexed: 11/20/2022] Open
Abstract
The insect order Hemiptera, one of the best-studied insect lineages with respect to bacterial symbioses, still contains major branches that lack comprehensive characterization of associated bacterial symbionts. The Pyrrhocoroidea (Largidae [220 species] and Pyrrhocoridae [∼300 species]) is a clade of the hemipteran infraorder Pentatomomorpha. Studies on bacterial symbionts of this group have focused on members of Pyrrhocoridae, but recent examination of species of two genera of Largidae demonstrated divergent symbiotic complexes in these putative sister families. We surveyed the associated bacterial diversity of this group using paired-end Illumina sequencing and targeted Sanger sequencing of bacterial 16S rRNA amplicons of 30 pyrrhocoroid taxa, including 17 species of Largidae, in order to determine bacterial associates and the similarity of associated microbial communities among species. We also used molecular data (4,800 bp in 5 loci, for 57 ingroup and 12 outgroup taxa) to infer a phylogeny of the host superfamily, in order to trace the evolution of symbiotic complexes among Pentatomomorpha species. We undertook multiple lines of investigation (i.e., experimental rearing, fluorescence in situ hybridization microscopy, and phylogenetic and coevolutionary analyses) to elucidate potential transmission routes for largid symbionts. We found a prevalent and specific association of Largidae with Burkholderia strains of the plant-associated beneficial and environmental clade, housed in midgut tubules. As in other distantly related Heteroptera, symbiotic bacteria seem to be acquired from the environment every generation. We review the current understanding of symbiotic complexes within Pentatomomorpha and discuss means to further investigate the evolution and function of these symbioses. IMPORTANCE Obligate symbioses with bacteria are common in insects, particularly Hemiptera, in which various forms of symbiosis occur. However, knowledge regarding symbionts remains incomplete for major hemipteran lineages. Thus, an accurate understanding of how these partnerships evolved and changed over millions of years is not yet achievable. We contribute to our understanding of the evolution of symbiotic complexes in Hemiptera by characterizing bacterial associates of Pyrrhocoroidea, focusing on the family Largidae. Members of Largidae are associated with specific symbiotic Burkholderia strains from a different clade than Burkholderia symbionts in other Burkholderia-associated Hemiptera. Evidence suggests that species of Largidae reacquire specific symbiotic bacteria from the environment every generation, which is a rare strategy for insects, with potentially volatile evolutionary ramifications, but one that must have persisted in Largidae and related lineages since their origin in the Cretaceous Period.
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Affiliation(s)
| | - Quinn McFrederick
- Department of Entomology, University of California-Riverside, Riverside, California, USA
| | - Christiane Weirauch
- Department of Entomology, University of California-Riverside, Riverside, California, USA
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Crosstalk between sugarcane and a plant-growth promoting Burkholderia species. Sci Rep 2016; 6:37389. [PMID: 27869215 PMCID: PMC5116747 DOI: 10.1038/srep37389] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2016] [Accepted: 10/27/2016] [Indexed: 12/03/2022] Open
Abstract
Bacterial species in the plant-beneficial-environmental clade of Burkholderia represent a substantial component of rhizosphere microbes in many plant species. To better understand the molecular mechanisms of the interaction, we combined functional studies with high-resolution dual transcriptome analysis of sugarcane and root-associated diazotrophic Burkholderia strain Q208. We show that Burkholderia Q208 forms a biofilm at the root surface and suppresses the virulence factors that typically trigger immune response in plants. Up-regulation of bd-type cytochromes in Burkholderia Q208 suggests an increased energy production and creates the microaerobic conditions suitable for BNF. In this environment, a series of metabolic pathways are activated in Burkholderia Q208 implicated in oxalotrophy, microaerobic respiration, and formation of PHB granules, enabling energy production under microaerobic conditions. In the plant, genes involved in hypoxia survival are up-regulated and through increased ethylene production, larger aerenchyma is produced in roots which in turn facilitates diffusion of oxygen within the cortex. The detected changes in gene expression, physiology and morphology in the partnership are evidence of a sophisticated interplay between sugarcane and a plant-growth promoting Burkholderia species that advance our understanding of the mutually beneficial processes occurring in the rhizosphere.
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de Souza RSC, Okura VK, Armanhi JSL, Jorrín B, Lozano N, da Silva MJ, González-Guerrero M, de Araújo LM, Verza NC, Bagheri HC, Imperial J, Arruda P. Unlocking the bacterial and fungal communities assemblages of sugarcane microbiome. Sci Rep 2016; 6:28774. [PMID: 27358031 PMCID: PMC4928081 DOI: 10.1038/srep28774] [Citation(s) in RCA: 148] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2016] [Accepted: 06/10/2016] [Indexed: 12/13/2022] Open
Abstract
Plant microbiome and its manipulation herald a new era for plant biotechnology with the potential to benefit sustainable crop production. However, studies evaluating the diversity, structure and impact of the microbiota in economic important crops are still rare. Here we describe a comprehensive inventory of the structure and assemblage of the bacterial and fungal communities associated with sugarcane. Our analysis identified 23,811 bacterial OTUs and an unexpected 11,727 fungal OTUs inhabiting the endophytic and exophytic compartments of roots, shoots, and leaves. These communities originate primarily from native soil around plants and colonize plant organs in distinct patterns. The sample type is the primary driver of fungal community assemblage, and the organ compartment plays a major role in bacterial community assemblage. We identified core bacterial and fungal communities composed of less than 20% of the total microbial richness but accounting for over 90% of the total microbial relative abundance. The roots showed 89 core bacterial families, 19 of which accounted for 44% of the total relative abundance. Stalks are dominated by groups of yeasts that represent over 12% of total relative abundance. The core microbiome described here comprise groups whose biological role underlies important traits in plant growth and fermentative processes.
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Affiliation(s)
- Rafael Soares Correa de Souza
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | - Vagner Katsumi Okura
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | - Jaderson Silveira Leite Armanhi
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | - Beatriz Jorrín
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA Campus Montegancedo UPM, 28223 -Pozuelo de Alarcón (Madrid), Spain
| | - Núria Lozano
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA Campus Montegancedo UPM, 28223 -Pozuelo de Alarcón (Madrid), Spain
| | - Márcio José da Silva
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | - Manuel González-Guerrero
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA Campus Montegancedo UPM, 28223 -Pozuelo de Alarcón (Madrid), Spain
| | - Laura Migliorini de Araújo
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | - Natália Cristina Verza
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
| | | | - Juan Imperial
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM) - Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA Campus Montegancedo UPM, 28223 -Pozuelo de Alarcón (Madrid), Spain
- Consejo Superior de Investigaciones Científicas, Madrid, Spain
| | - Paulo Arruda
- Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas (UNICAMP), 13083-875, Campinas, SP, Brazil
- Departamento de Genética e Evolução, Instituto de Biologia, Universidade Estadual de Campinas (UNICAMP), 13083-970, Campinas, SP, Brazil
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Bissett A, Fitzgerald A, Court L, Meintjes T, Mele PM, Reith F, Dennis PG, Breed MF, Brown B, Brown MV, Brugger J, Byrne M, Caddy-Retalic S, Carmody B, Coates DJ, Correa C, Ferrari BC, Gupta VVSR, Hamonts K, Haslem A, Hugenholtz P, Karan M, Koval J, Lowe AJ, Macdonald S, McGrath L, Martin D, Morgan M, North KI, Paungfoo-Lonhienne C, Pendall E, Phillips L, Pirzl R, Powell JR, Ragan MA, Schmidt S, Seymour N, Snape I, Stephen JR, Stevens M, Tinning M, Williams K, Yeoh YK, Zammit CM, Young A. Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database. Gigascience 2016; 5:21. [PMID: 27195106 PMCID: PMC4870752 DOI: 10.1186/s13742-016-0126-5] [Citation(s) in RCA: 109] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2015] [Accepted: 05/02/2016] [Indexed: 01/27/2023] Open
Abstract
Background Microbial inhabitants of soils are important to ecosystem and planetary functions, yet there are large gaps in our knowledge of their diversity and ecology. The ‘Biomes of Australian Soil Environments’ (BASE) project has generated a database of microbial diversity with associated metadata across extensive environmental gradients at continental scale. As the characterisation of microbes rapidly expands, the BASE database provides an evolving platform for interrogating and integrating microbial diversity and function. Findings BASE currently provides amplicon sequences and associated contextual data for over 900 sites encompassing all Australian states and territories, a wide variety of bioregions, vegetation and land-use types. Amplicons target bacteria, archaea and general and fungal-specific eukaryotes. The growing database will soon include metagenomics data. Data are provided in both raw sequence (FASTQ) and analysed OTU table formats and are accessed via the project’s data portal, which provides a user-friendly search tool to quickly identify samples of interest. Processed data can be visually interrogated and intersected with other Australian diversity and environmental data using tools developed by the ‘Atlas of Living Australia’. Conclusions Developed within an open data framework, the BASE project is the first Australian soil microbial diversity database. The database will grow and link to other global efforts to explore microbial, plant, animal, and marine biodiversity. Its design and open access nature ensures that BASE will evolve as a valuable tool for documenting an often overlooked component of biodiversity and the many microbe-driven processes that are essential to sustain soil function and ecosystem services.
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Affiliation(s)
- Andrew Bissett
- CSIRO, Oceans and Atmosphere, Hobart, Tasmania Australia
| | | | | | - Thys Meintjes
- Centre for Comparative Genomics, Murdoch University, Perth, Western Australia Australia
| | - Pauline M Mele
- Victorian Department of Economic Development, Jobs, Transport and Resources and La Trobe University, Agribio Centre, Bundoora, Victoria 3083 Australia
| | - Frank Reith
- CSIRO Land and Water, Adelaide, South Australia Australia ; School of Biological Sciences and the Environment Institute, University of Adelaide, North Terrace Adelaide, South Australia 5005 Australia
| | - Paul G Dennis
- School of Agriculture and Food Science, The University of Queensland, St Lucia, Queensland 4072 Australia
| | - Martin F Breed
- School of Biological Sciences and the Environment Institute, University of Adelaide, North Terrace Adelaide, South Australia 5005 Australia
| | - Belinda Brown
- Parks Australia, Department of the Environment, Canberra, ACT 2601 Australia
| | - Mark V Brown
- School of Biotechnology and Biomolecular Sciences, UNSW Australia, Sydney, New South Wales 2052 Australia
| | - Joel Brugger
- School of Earth, Atmosphere and Environment, Monash University, Clayton, Victoria 3800 Australia
| | - Margaret Byrne
- Science and Conservation Division, Department of Parks and Wildlife, Perth, Western Australia Australia
| | - Stefan Caddy-Retalic
- School of Biological Sciences and the Environment Institute, University of Adelaide, North Terrace Adelaide, South Australia 5005 Australia
| | | | - David J Coates
- Science and Conservation Division, Department of Parks and Wildlife, Perth, Western Australia Australia
| | - Carolina Correa
- Ramaciotti Centre for Genomics, University of New South Wales, Sydney, New South Wales Australia
| | - Belinda C Ferrari
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052 Australia
| | | | - Kelly Hamonts
- CSIRO, National Research Collections Australia, Canberra, Australian Capital Territory Australia ; Hawkesbury Institute for the Environment, Western Sydney University, Penrith, New South Wales Australia
| | - Asha Haslem
- Australian Genome Research Facility Ltd, Walter and Eliza Hall Institute, Parkville, Victoria Australia
| | - Philip Hugenholtz
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072 Australia ; Institute for Molecular Bioscience, The University of Queensland, St Lucia, Queensland 4072 Australia
| | - Mirko Karan
- Australian SuperSite Network, James Cook University, Townsville, Queensland Australia
| | - Jason Koval
- Ramaciotti Centre for Genomics, University of New South Wales, Sydney, New South Wales Australia
| | - Andrew J Lowe
- School of Biological Sciences and the Environment Institute, University of Adelaide, North Terrace Adelaide, South Australia 5005 Australia
| | | | - Leanne McGrath
- Australian Genome Research Facility Ltd, Adelaide, South Australia Australia
| | - David Martin
- Atlas of Living Australia, CSIRO, Canberra, Australian Capital Territory Australia
| | - Matt Morgan
- CSIRO Land and Water, Canberra, ACT Australia
| | - Kristin I North
- Ramaciotti Centre for Genomics, University of New South Wales, Sydney, New South Wales Australia
| | | | - Elise Pendall
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, New South Wales Australia
| | - Lori Phillips
- DEDJTR Rutherglen, Melbourne, Victoria Australia ; Agriculture and Agri-food Canada, Science and Technology branch, 2585 County Road 20, Harrow, ON N0R 1G0 Canada
| | - Rebecca Pirzl
- Atlas of Living Australia, CSIRO, Canberra, Australian Capital Territory Australia
| | - Jeff R Powell
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, New South Wales Australia
| | - Mark A Ragan
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, Queensland 4072 Australia
| | - Susanne Schmidt
- School of Agriculture and Food Science, The University of Queensland, St Lucia, Queensland 4072 Australia
| | - Nicole Seymour
- Department of Agriculture and Fisheries, Brisbane, Queensland Australia
| | - Ian Snape
- Australian Antarctic Division, Department of Sustainability, Environment, Water, Population and Communities, 203 Channel Highway, Kingston, Tasmania 7050 Australia
| | - John R Stephen
- Australian Genome Research Facility Ltd, Adelaide, South Australia Australia
| | - Matthew Stevens
- Australian Genome Research Facility Ltd, Walter and Eliza Hall Institute, Parkville, Victoria Australia
| | - Matt Tinning
- Australian Genome Research Facility Ltd, Walter and Eliza Hall Institute, Parkville, Victoria Australia
| | | | - Yun Kit Yeoh
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Queensland 4072 Australia ; Institute for Molecular Bioscience, The University of Queensland, St Lucia, Queensland 4072 Australia
| | - Carla M Zammit
- University of Queensland, Earth Sciences, St Lucia, Brisbane, Queensland 4072 Australia
| | - Andrew Young
- CSIRO, National Research Collections Australia, Canberra, Australian Capital Territory Australia
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Chalk PM. The strategic role of 15N in quantifying the contribution of endophytic N2 fixation to the N nutrition of non-legumes. Symbiosis 2016. [DOI: 10.1007/s13199-016-0397-8] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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36
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Castanheira N, Dourado A, Kruz S, Alves P, Delgado-Rodríguez A, Pais I, Semedo J, Scotti-Campos P, Sánchez C, Borges N, Carvalho G, Barreto Crespo M, Fareleira P. Plant growth-promoting Burkholderia
species isolated from annual ryegrass in Portuguese soils. J Appl Microbiol 2016; 120:724-39. [DOI: 10.1111/jam.13025] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 11/25/2015] [Accepted: 12/09/2015] [Indexed: 02/05/2023]
Affiliation(s)
- N. Castanheira
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
- Instituto de Tecnologia Química e Biológica António Xavier; Universidade Nova de Lisboa; Oeiras Portugal
| | - A.C. Dourado
- iBET-Instituto de Biologia Experimental e Tecnológica; Oeiras Portugal
| | - S. Kruz
- Instituto de Tecnologia Química e Biológica António Xavier; Universidade Nova de Lisboa; Oeiras Portugal
- iBET-Instituto de Biologia Experimental e Tecnológica; Oeiras Portugal
| | - P.I.L. Alves
- Instituto de Tecnologia Química e Biológica António Xavier; Universidade Nova de Lisboa; Oeiras Portugal
- iBET-Instituto de Biologia Experimental e Tecnológica; Oeiras Portugal
| | | | - I. Pais
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
| | - J. Semedo
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
| | - P. Scotti-Campos
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
| | - C. Sánchez
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
| | - N. Borges
- Instituto de Tecnologia Química e Biológica António Xavier; Universidade Nova de Lisboa; Oeiras Portugal
| | - G. Carvalho
- UCBIO; REQUIMTE; Department of Chemistry; Faculdade de Ciências e Tecnologia; Universidade Nova de Lisboa; Caparica Portugal
| | - M.T. Barreto Crespo
- Instituto de Tecnologia Química e Biológica António Xavier; Universidade Nova de Lisboa; Oeiras Portugal
- iBET-Instituto de Biologia Experimental e Tecnológica; Oeiras Portugal
| | - P. Fareleira
- Instituto Nacional de Investigação Agrária e Veterinária, I.P.; Oeiras Portugal
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Yeoh YK, Paungfoo-Lonhienne C, Dennis PG, Robinson N, Ragan MA, Schmidt S, Hugenholtz P. The core root microbiome of sugarcanes cultivated under varying nitrogen fertilizer application. Environ Microbiol 2015; 18:1338-51. [PMID: 26032777 DOI: 10.1111/1462-2920.12925] [Citation(s) in RCA: 101] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2015] [Revised: 05/26/2015] [Accepted: 05/26/2015] [Indexed: 12/01/2022]
Abstract
Diazotrophic bacteria potentially supply substantial amounts of biologically fixed nitrogen to crops, but their occurrence may be suppressed by high nitrogen fertilizer application. Here, we explored the impact of high nitrogen fertilizer rates on the presence of diazotrophs in field-grown sugarcane with industry-standard or reduced nitrogen fertilizer application. Despite large differences in soil microbial communities between test sites, a core sugarcane root microbiome was identified. The sugarcane root-enriched core taxa overlap with those of Arabidopsis thaliana raising the possibility that certain bacterial families have had long association with plants. Reduced nitrogen fertilizer application had remarkably little effect on the core root microbiome and did not increase the relative abundance of root-associated diazotrophs or nif gene counts. Correspondingly, low nitrogen fertilizer crops had lower biomass and nitrogen content, reflecting a lack of major input of biologically fixed nitrogen, indicating that manipulating nitrogen fertilizer rates does not improve sugarcane yields by enriching diazotrophic populations under the test conditions. Standard nitrogen fertilizer crops had improved biomass and nitrogen content, and corresponding soils had higher abundances of nitrification and denitrification genes. These findings highlight that achieving a balance in maximizing crop yields and minimizing nutrient pollution associated with nitrogen fertilizer application requires understanding of how microbial communities respond to fertilizer use.
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Affiliation(s)
- Yun Kit Yeoh
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Qld., 4072, Australia.,Institute for Molecular Bioscience, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Chanyarat Paungfoo-Lonhienne
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, Qld., 4072, Australia.,School of Agriculture and Food Sciences, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Paul G Dennis
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Qld., 4072, Australia.,School of Agriculture and Food Sciences, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Nicole Robinson
- School of Agriculture and Food Sciences, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Mark A Ragan
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Susanne Schmidt
- School of Agriculture and Food Sciences, The University of Queensland, St Lucia, Qld., 4072, Australia
| | - Philip Hugenholtz
- Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, St Lucia, Qld., 4072, Australia.,Institute for Molecular Bioscience, The University of Queensland, St Lucia, Qld., 4072, Australia
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Farrar K, Bryant D, Cope-Selby N. Understanding and engineering beneficial plant-microbe interactions: plant growth promotion in energy crops. PLANT BIOTECHNOLOGY JOURNAL 2014; 12:1193-206. [PMID: 25431199 PMCID: PMC4265282 DOI: 10.1111/pbi.12279] [Citation(s) in RCA: 96] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Revised: 08/22/2014] [Accepted: 10/09/2014] [Indexed: 05/16/2023]
Abstract
Plant production systems globally must be optimized to produce stable high yields from limited land under changing and variable climates. Demands for food, animal feed, and feedstocks for bioenergy and biorefining applications, are increasing with population growth, urbanization and affluence. Low-input, sustainable, alternatives to petrochemical-derived fertilizers and pesticides are required to reduce input costs and maintain or increase yields, with potential biological solutions having an important role to play. In contrast to crops that have been bred for food, many bioenergy crops are largely undomesticated, and so there is an opportunity to harness beneficial plant-microbe relationships which may have been inadvertently lost through intensive crop breeding. Plant-microbe interactions span a wide range of relationships in which one or both of the organisms may have a beneficial, neutral or negative effect on the other partner. A relatively small number of beneficial plant-microbe interactions are well understood and already exploited; however, others remain understudied and represent an untapped reservoir for optimizing plant production. There may be near-term applications for bacterial strains as microbial biopesticides and biofertilizers to increase biomass yield from energy crops grown on land unsuitable for food production. Longer term aims involve the design of synthetic genetic circuits within and between the host and microbes to optimize plant production. A highly exciting prospect is that endosymbionts comprise a unique resource of reduced complexity microbial genomes with adaptive traits of great interest for a wide variety of applications.
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Affiliation(s)
- Kerrie Farrar
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth UniversityAberystwyth, UK
- *Correspondence (Tel +0044 (0)1970 823097; fax 0044 (0)1970 828357; email )
| | - David Bryant
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth UniversityAberystwyth, UK
| | - Naomi Cope-Selby
- Institute of Biological, Environmental & Rural Sciences (IBERS), Aberystwyth UniversityAberystwyth, UK
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Meng X, Yan D, Long X, Wang C, Liu Z, Rengel Z. Colonization by endophytic Ochrobactrum anthropi Mn1 promotes growth of Jerusalem artichoke. Microb Biotechnol 2014; 7:601-10. [PMID: 25073416 PMCID: PMC4265078 DOI: 10.1111/1751-7915.12145] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2014] [Revised: 06/07/2014] [Accepted: 06/19/2014] [Indexed: 12/01/2022] Open
Abstract
The Ochrobactrum anthropi Mn1 strain, taxonomically identified using 16S ribosomal DNA sequence, was isolated from roots of Jerusalem artichoke. Its endophytic colonization was investigated microscopically using green fluorescent protein introduced by vector pHC60. The strain entered Jerusalem artichoke tissues through the root, and was localized in the roots and stems. The plant growth-promoting (PGP) effects of O. anthropi Mn1 were assessed in greenhouse as well as field trials with different nitrogen supplies. Only under moderate to ample nitrogen supply, could O. anthropi Mn1 promoted growth of host plant. The PGP effects of the strain were symbiotic nitrogen fixation, root morphological optimization and enhanced nutrient uptake. We hypothesize that the symbiotic interspecies interaction might be quorum sensing related.
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Affiliation(s)
- Xianfa Meng
- Jiangsu Provincial Key Laboratory of Marine Biology, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
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