951
|
Li L, Li L, Wang X, Zhu P, Wu H, Qi S. Plant growth-promoting endophyte Piriformospora indica alleviates salinity stress in Medicago truncatula. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017; 119:211-223. [PMID: 28898746 DOI: 10.1016/j.plaphy.2017.08.029] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2017] [Revised: 08/24/2017] [Accepted: 08/24/2017] [Indexed: 05/24/2023]
Abstract
Piriformospora indica, a cultivable root endophytic fungus, induces growth promotion as well as biotic stress resistance and tolerance to abiotic stress in a broad range of host plants. In this study, the potential protection for M Medicago truncatula plants from salinity stress by P. indica was explored. The improved plant growth under severe saline condition was exhibited in P. indica-colonized lines. Moreover, the antioxidant enzymes activities and hyphae density in roots were increased by the endophyte under high salt concentration. Conversely, reduced malondialdehyde (MDA) activity, Na+ content and relative electrolyte conductivity (REC) were observed in P. indica colonized plants. Especially, osmoprotectant proline accumulated and the expression of Delta 1-Pyrroline-5-carboxylate synthetase gene (P5CS2) was induced. The defense related genes PR1 and PR10 and the transcription factors MtAlfin1-like and C2H2-type zinc finger protein MtZfp-c2h2 were induced by P. indica colonization as well. Further work indicated that salinity resistance was increased in overexpressing P5CS2, MtAlfin1-like and MtZfp-c2h2 transgenic M. truncatula plants. Interestingly, our data showed that the transcription factors MtAlfin1-like and MtZfp-c2h2 were positively contributed to P. indica colonization. These results demonstrate that tolerance to salinity stress was conferred by P. indica in M. truncatula via accumulation of osmoprotectant, stimulating antioxidant enzymes and the expression of defense-related genes. This work revealed the potential application of P. indica's as a plant growth-promoting fungus for the target improvement either in crop protection or in the salinized soil improvement indirectly.
Collapse
Affiliation(s)
- Liang Li
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China.
| | - Lei Li
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China
| | - Xiaoyang Wang
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China
| | - Pengyue Zhu
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China
| | - Hongqing Wu
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China
| | - Shuting Qi
- School of Marine Science and Engineering, Hebei University of Technology, No.8 Guangrongdao, Tianjin 300130, China.
| |
Collapse
|
952
|
Hosseini F, Mosaddeghi MR, Dexter AR. Effect of the fungus Piriformospora indica on physiological characteristics and root morphology of wheat under combined drought and mechanical stresses. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017. [PMID: 28624682 DOI: 10.1016/j.plaphy.2017.06.005] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/01/2023]
Abstract
This study was done to evaluate the effects of the root-colonizing endophytic fungus Piriformospora indica on wheat growth under combined drought and mechanical stresses. Inoculated (colonized) and non-inoculated (uncolonized) wheat (Triticum aestivum L. cv. Chamran) seedlings were planted in growth chambers filled with moist sand (at a matric suction of 20 hPa). Slight, moderate and severe mechanical stresses (i.e., penetration resistance, Qp, of 1.17, 4.17 and 5.96 MPa, respectively) were produced by a dead-load technique (i.e., placing a weight on the sand surface) in the root medium. Slight, moderate and severe drought stresses were induced using PEG 6000 solutions with osmotic potentials of 0, -0.3 and -0.5 MPa, respectively. After 30 days, plant physiological characteristics and root morphology were measured. An increase in Qp from 1.17 to 5.96 MPa led to greater leaf proline concentration and root diameter, and lower relative water content (RWC), leaf water potential (LWP), chlorophyll contents and root volume. Moreover, severe drought stress decreased root and shoot fresh weights, root volume, leaf area, RWC, LWP and chlorophyll content compared to control. Catalase (CAT) and ascorbate peroxidase (APX) activities under severe drought stress were about 1.5 and 2.9 times greater than control. Interaction of the stresses showed that mechanical stress primarily controls plant water status and physiological responses. However, endophyte presence mitigated the adverse effects of individual and combined stresses on plant growth. Colonized plants were better adapted and had greater root length and volume, RWC, LWP and chlorophyll contents under stressful conditions due to higher absorption sites for water and nutrients. Compared with uncolonized plants, colonized plants showed lower CAT activity implying that wheat inoculated with P. indica was more tolerant and experienced less oxidative damage induced by drought and/or mechanical stress.
Collapse
Affiliation(s)
- Fatemeh Hosseini
- Department of Soil Science, College of Agriculture, Isfahan University of Technology, Isfahan 84156-83111, Iran
| | - Mohammad Reza Mosaddeghi
- Department of Soil Science, College of Agriculture, Isfahan University of Technology, Isfahan 84156-83111, Iran.
| | - Anthony Roger Dexter
- Institute of Soil Science and Plant Cultivation (IUNG-PIB), ul. Czartoryskich 8, 24-100 Pulawy, Poland
| |
Collapse
|
953
|
Seetharaman P, Gnanasekar S, Chandrasekaran R, Chandrakasan G, Syed A, Hodhod MS, Ameen F, Sivaperumal S. Isolation of limonoid compound (Hamisonine) from endophytic fungi Penicillium oxalicum LA-1 (KX622790) of Limonia acidissima L. for its larvicidal efficacy against LF vector, Culex quinquefasciatus (Diptera: Culicidae). ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:21272-21282. [PMID: 28741206 DOI: 10.1007/s11356-017-9770-2] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2017] [Accepted: 07/13/2017] [Indexed: 06/07/2023]
Abstract
Upon screening for novel and potential biocompounds with larvicidal activities, we successfully isolated hamisonine (HMSN) a limonoid compound from endophytic fungi Penicillium oxalicum LA-1 of Limonia acidissima. The extracted compound structure was elucidated by spectral studies such as UV-vis spectroscopy, thin-layer chromatography, FTIR, LC-ESI-MS, 1H NMR, and 13C NMR upon comparing with the spectral data available in the literature. Further, the isolated HMSN was tested against III and IV instar Culex quinquefasciatus larvae. The outcome of this study clearly emphasize that the extracted compound HMSN possesses a stupendous larvicidal activity in a dose-dependent manner with the LC50 and LC90 values of 1.779 and 7.685 ppm against III instar larvae and 3.031 and 28.498 ppm against IV instar larvae of C. quinquefasciatus, respectively. Interestingly, the histological studies evidently showing the damage of peritrophic membrane and epithelial cells of testing mosquito larvae.
Collapse
Affiliation(s)
- Prabukumar Seetharaman
- Department of Biotechnology, Bharathidasan University, Tiruchirappalli, Tamil Nadu, 620 024, India
| | - Sathishkumar Gnanasekar
- Department of Biotechnology, Bharathidasan University, Tiruchirappalli, Tamil Nadu, 620 024, India
| | - Rajkuberan Chandrasekaran
- Department of Biotechnology, Bharathidasan University, Tiruchirappalli, Tamil Nadu, 620 024, India
- Department of Biotechnology (FASH), Karpagam Academy of Higher Education, Karpagam University, Coimbatorei, Tamil Nadu, 641021, India
| | - Gobinath Chandrakasan
- Agrifood Biotechnology (Academic Body of Agricultural and Food Biotechnology) Institute of Agricultural Sciences, Universidad Autónoma del Estado de Hidalgo Tulancingo, 43600, Tulancingo, HGO, Mexico
| | - Asad Syed
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. 2455, Riyadh, 11451, Saudi Arabia
| | - Mohamed S Hodhod
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. 2455, Riyadh, 11451, Saudi Arabia
| | - Fuad Ameen
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. 2455, Riyadh, 11451, Saudi Arabia
| | | |
Collapse
|
954
|
Khan Chowdhury MDE, Jeon J, Ok Rim S, Park YH, Kyu Lee S, Bae H. Composition, diversity and bioactivity of culturable bacterial endophytes in mountain-cultivated ginseng in Korea. Sci Rep 2017; 7:10098. [PMID: 28855721 PMCID: PMC5577135 DOI: 10.1038/s41598-017-10280-7] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2017] [Accepted: 07/07/2017] [Indexed: 01/09/2023] Open
Abstract
Plants harbor diverse communities of bacterial species in their internal compartments. Here we isolated and identified bacterial endophytes from mountain-cultivated ginseng (MCG, Panax ginseng Meyer) to make working collection of endophytes and exploit their potentially beneficial properties toward plants and human being. A total of 1,886 bacteria were isolated from root, stem and leaf of MCGs grown in 24 different sites across the nation, using culture-dependent approach. Sequencing of 16S rDNA allowed us to classify them into 252 distinct groups. Taxonomic binning of them resulted in 117 operational taxonomic units (OTUs). Analysis of diversity indices across sampling sites and tissues suggested that composition of bacterial endophyte community within ginseng could differ substantially from one site to the next as well as from one host compartment to another. Assessment of 252 bacterial isolates for their beneficial traits to host plants showed that some bacteria possesses the ability to promote plant growth and produce ß-glucosidase, indicating their potential roles in plant growth promotion and bio-transformation. Taken together, our work provides not only valuable resources for utilization of bacterial endophytes in ginseng but also insights into bacterial communities inside a plant of medicinal importance.
Collapse
Affiliation(s)
- M D Emran Khan Chowdhury
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbook, 38541, Republic of Korea
| | - Junhyun Jeon
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbook, 38541, Republic of Korea
| | - Soon Ok Rim
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbook, 38541, Republic of Korea
| | - Young-Hwan Park
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbook, 38541, Republic of Korea
| | - Seung Kyu Lee
- Division of Forest Diseases & Insect Pests, Korea Forest Research Institute, Seoul, 02455, Republic of Korea
| | - Hanhong Bae
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbook, 38541, Republic of Korea.
| |
Collapse
|
955
|
Moissl-Eichinger C, Pausan M, Taffner J, Berg G, Bang C, Schmitz RA. Archaea Are Interactive Components of Complex Microbiomes. Trends Microbiol 2017; 26:70-85. [PMID: 28826642 DOI: 10.1016/j.tim.2017.07.004] [Citation(s) in RCA: 134] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Revised: 07/06/2017] [Accepted: 07/21/2017] [Indexed: 02/06/2023]
Abstract
Recent findings have shaken our picture of the biology of the archaea and revealed novel traits beyond archaeal extremophily and supposed 'primitiveness'. The archaea constitute a considerable fraction of the Earth's ecosystems, and their potential to shape their surroundings by a profound interaction with their biotic and abiotic environment has been recognized. Moreover, archaea have been identified as a substantial component, or even as keystone species, in complex microbiomes - in the environment or accompanying a holobiont. Species of the Euryarchaeota (methanogens, halophiles) and Thaumarchaeota, in particular, have the capacity to coexist in plant, animal, and human microbiomes, where syntrophy allows them to thrive under energy-deficiency stress. Due to methodological limitations, the archaeome remains mysterious, and many questions with respect to potential pathogenicity, function, and structural interactions with their host and other microorganisms remain.
Collapse
Affiliation(s)
| | - Manuela Pausan
- Medical University Graz, Internal Medicine, Graz, Austria
| | | | | | - Corinna Bang
- Christian-Albrechts-University Kiel, Kiel, Germany
| | | |
Collapse
|
956
|
Brader G, Compant S, Vescio K, Mitter B, Trognitz F, Ma LJ, Sessitsch A. Ecology and Genomic Insights into Plant-Pathogenic and Plant-Nonpathogenic Endophytes. ANNUAL REVIEW OF PHYTOPATHOLOGY 2017; 55:61-83. [PMID: 28489497 DOI: 10.1146/annurev-phyto-080516-035641] [Citation(s) in RCA: 194] [Impact Index Per Article: 27.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Plants are colonized on their surfaces and in the rhizosphere and phyllosphere by a multitude of different microorganisms and are inhabited internally by endophytes. Most endophytes act as commensals without any known effect on their plant host, but multiple bacteria and fungi establish a mutualistic relationship with plants, and some act as pathogens. The outcome of these plant-microbe interactions depends on biotic and abiotic environmental factors and on the genotype of the host and the interacting microorganism. In addition, endophytic microbiota and the manifold interactions between members, including pathogens, have a profound influence on the function of the system plant and the development of pathobiomes. In this review, we elaborate on the differences and similarities between nonpathogenic and pathogenic endophytes in terms of host plant response, colonization strategy, and genome content. We furthermore discuss environmental effects and biotic interactions within plant microbiota that influence pathogenesis and the pathobiome.
Collapse
Affiliation(s)
- Günter Brader
- Center for Health and Bioresources, Bioresources Unit, Austrian Institute of Technology (AIT), 3430 Tulln, Austria
| | - Stéphane Compant
- Center for Health and Bioresources, Bioresources Unit, Austrian Institute of Technology (AIT), 3430 Tulln, Austria
| | - Kathryn Vescio
- Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003;
| | - Birgit Mitter
- Center for Health and Bioresources, Bioresources Unit, Austrian Institute of Technology (AIT), 3430 Tulln, Austria
| | - Friederike Trognitz
- Center for Health and Bioresources, Bioresources Unit, Austrian Institute of Technology (AIT), 3430 Tulln, Austria
| | - Li-Jun Ma
- Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003;
| | - Angela Sessitsch
- Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003;
| |
Collapse
|
957
|
Draft Genome Sequence of an Endophytic Fungus, Gaeumannomyces sp. Strain JS-464, Isolated from a Reed Plant, Phragmites communis. GENOME ANNOUNCEMENTS 2017; 5:5/31/e00734-17. [PMID: 28774982 PMCID: PMC5543644 DOI: 10.1128/genomea.00734-17] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
An endophytic fungus, Gaeumannomyces sp. strain JS-464, is capable of producing a number of secondary metabolites which showed significant nitric oxide reduction activity. The draft genome assembly has a size of 53,151,282 bp, with a G+C content of 53.11% consisting of 80 scaffolds with an N50 of 7.46 Mbp.
Collapse
|
958
|
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.
Collapse
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.
| |
Collapse
|
959
|
Pietro-Souza W, Mello IS, Vendruscullo SJ, da Silva GF, da Cunha CN, White JF, Soares MA. Endophytic fungal communities of Polygonum acuminatum and Aeschynomene fluminensis are influenced by soil mercury contamination. PLoS One 2017; 12:e0182017. [PMID: 28742846 PMCID: PMC5526616 DOI: 10.1371/journal.pone.0182017] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2017] [Accepted: 07/11/2017] [Indexed: 12/31/2022] Open
Abstract
The endophytic fungal communities of Polygonum acuminatum and Aeschynomene fluminensis were examined with respect to soil mercury (Hg) contamination. Plants were collected in places with and without Hg+2 for isolation and identification of their endophytic root fungi. We evaluated frequency of colonization, number of isolates and richness, indices of diversity and similarity, functional traits (hydrolytic enzymes, siderophores, indoleacetic acid, antibiosis and metal tolerance) and growth promotion of Aeschynomene fluminensis inoculated with endophytic fungi on soil with mercury. The frequency of colonization, structure and community function, as well as the abundant distribution of taxa of endophytic fungi were influenced by mercury contamination, with higher endophytic fungi in hosts in soil with mercury. The presence or absence of mercury in the soil changes the profile of the functional characteristics of the endophytic fungal community. On the other hand, tolerance of lineages to multiple metals is not associated with contamination. A. fluminensis depends on its endophytic fungi, since plants free of endophytic fungi grew less than expected due to mercury toxicity. In contrast plants containing certain endophytic fungi showed good growth in soil containing mercury, even exceeding growth of plants cultivated in soil without mercury. The data obtained confirm the hypothesis that soil contamination by mercury alters community structure of root endophytic fungi in terms of composition, abundance and species richness. The inoculation of A. fluminensis with certain strains of stress tolerant endophytic fungi contribute to colonization and establishment of the host and may be used in processes that aim to improve phytoremediation of soils with toxic concentrations of mercury.
Collapse
Affiliation(s)
- William Pietro-Souza
- Department of Botany and Ecology, Laboratory of Biotechnology and Microbial Ecology, Institute of Biosciences, Federal University of Mato Grosso, Cuiabá, Mato Grosso, Brazil
- Department of Botany and Ecology, Institute of Biosciences, Federal University of Mato Grosso, Brazil
| | - Ivani Souza Mello
- Department of Botany and Ecology, Laboratory of Biotechnology and Microbial Ecology, Institute of Biosciences, Federal University of Mato Grosso, Cuiabá, Mato Grosso, Brazil
- Department of Botany and Ecology, Institute of Biosciences, Federal University of Mato Grosso, Brazil
| | | | | | - Cátia Nunes da Cunha
- Department of Botany and Ecology, Institute of Biosciences, Federal University of Mato Grosso, Brazil
| | - James Francis White
- Department of Plant Biology, Rutgers University, New Brunswick, NJ, United States of America
| | - Marcos Antônio Soares
- Department of Botany and Ecology, Laboratory of Biotechnology and Microbial Ecology, Institute of Biosciences, Federal University of Mato Grosso, Cuiabá, Mato Grosso, Brazil
- Department of Botany and Ecology, Institute of Biosciences, Federal University of Mato Grosso, Brazil
| |
Collapse
|
960
|
Campisano A, Albanese D, Yousaf S, Pancher M, Donati C, Pertot I. Temperature drives the assembly of endophytic communities' seasonal succession. Environ Microbiol 2017; 19:3353-3364. [PMID: 28654220 DOI: 10.1111/1462-2920.13843] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Revised: 06/16/2017] [Accepted: 06/17/2017] [Indexed: 12/19/2022]
Abstract
Endophytic microorganisms asymptomatically colonise plant tissues. Exploring the assembly dynamics of bacterial endophytic communities is essential to understand the functioning of the plant holobiont and to optimise their possible use as biopesticides or plant biostimulants. The variation in endophytic communities in above and below-ground organs in Vitis vinifera in the field were studied. To understand the specific effect of temperature on endophytic communities, a separate experiment was set up where grapevine cuttings were grown under controlled conditions at three different temperatures. The findings revealed the succession of endophytic communities over the year. Endophytic communities of roots and stems differ in terms of composition and dynamic response to temperature. Noticeably, compositional differences during the seasons affected bacterial taxa more in stems than in roots, suggesting that roots offer a more stable and less easily perturbed environment. Correlation abundance networks showed that the presence of several taxa (including Bradyrhizobium, Burkholderia, Dyella, Mesorhizobium, Propionibacterium and Ralstonia) is linked in both the field and the greenhouse.
Collapse
Affiliation(s)
- Andrea Campisano
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy
| | - Davide Albanese
- Fondazione Edmund Mach, Computational Biology Unit, Research and Innovation Centre, Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy
| | - Sohail Yousaf
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy.,Department of Environmental Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Michael Pancher
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy
| | - Claudio Donati
- Fondazione Edmund Mach, Computational Biology Unit, Research and Innovation Centre, Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy
| | - Ilaria Pertot
- Department of Sustainable Agro-ecosystems and Bioresources, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via E. Mach 1, S. Michele all'Adige, TN, 38010, Italy
| |
Collapse
|
961
|
Lima AS, Prieto KR, Santos CS, Paula Valerio H, Garcia-Ochoa EY, Huerta-Robles A, Beltran-Garcia MJ, Di Mascio P, Bertotti M. In-vivo electrochemical monitoring of H 2O 2 production induced by root-inoculated endophytic bacteria in Agave tequilana leaves. Biosens Bioelectron 2017; 99:108-114. [PMID: 28746900 DOI: 10.1016/j.bios.2017.07.039] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2017] [Revised: 07/12/2017] [Accepted: 07/14/2017] [Indexed: 01/15/2023]
Abstract
A dual-function platinum disc microelectrode sensor was used for in-situ monitoring of H2O2 produced in A. tequilana leaves after inoculation of their endophytic bacteria (Enterobacter cloacae). Voltammetric experiments were carried out from 0.0 to -1.0V, a potential range where H2O2 is electrochemically reduced. A needle was used to create a small cavity in the upper epidermis of A. tequilana leaves, where the fabricated electrochemical sensor was inserted by using a manual three-dimensional micropositioner. Control experiments were performed with untreated plants and the obtained electrochemical results clearly proved the formation of H2O2 in the leaves of plants 3h after the E. cloacae inoculation, according to a mechanism involving endogenous signaling pathways. In order to compare the sensitivity of the microelectrode sensor, the presence of H2O2 was detected in the root hairs by 3,3-diaminobenzidine (DAB) stain 72h after bacterial inoculation. In-situ pH measurements were also carried out with a gold disc microelectrode modified with a film of iridium oxide and lower pH values were found in A. tequilana leaves treated with bacteria, which may indicate the plant produces acidic substances by biosynthesis of secondary metabolites. This microsensor could be an advantageous tool for further studies on the understanding of the mechanism of H2O2 production during the plant-endophyte interaction.
Collapse
Affiliation(s)
- Alex S Lima
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil.
| | - Kátia R Prieto
- Department of Biochemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Carla S Santos
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Hellen Paula Valerio
- Department of Biochemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Evelyn Y Garcia-Ochoa
- Department of Chemistry ICET, Universidad Autonoma de Guadalajara, Patria 1201, Lomas del Valle, Zapopan, Jalisco, Mexico
| | - Aurora Huerta-Robles
- Institute of Engineering, Universidad Autonoma de Baja California, Blvd. B. Juarez y Calle de la Normal s/n, Mexicali, BC, Mexico
| | - Miguel J Beltran-Garcia
- Department of Chemistry ICET, Universidad Autonoma de Guadalajara, Patria 1201, Lomas del Valle, Zapopan, Jalisco, Mexico
| | - Paolo Di Mascio
- Department of Biochemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil
| | - Mauro Bertotti
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, 05508-000 São Paulo, SP, Brazil.
| |
Collapse
|
962
|
Sánchez-Cañizares C, Jorrín B, Poole PS, Tkacz A. Understanding the holobiont: the interdependence of plants and their microbiome. Curr Opin Microbiol 2017; 38:188-196. [PMID: 28732267 DOI: 10.1016/j.mib.2017.07.001] [Citation(s) in RCA: 134] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2017] [Revised: 06/29/2017] [Accepted: 07/04/2017] [Indexed: 01/06/2023]
Abstract
The holobiont is composed by the plant and its microbiome. In a similar way to ecological systems of higher organisms, the holobiont shows interdependent and complex dynamics [1,2]. While plants originate from seeds, the microbiome has a multitude of sources. The assemblage of these communities depends on the interaction between the emerging seedling and its surrounding environment, with soil being the main source. These microbial communities are controlled by the plant through different strategies, such as the specific profile of root exudates and its immune system. Despite this control, the microbiome is still able to adapt and thrive. The molecular knowledge behind these interactions and microbial '-omic' technologies are developing to the point of enabling holobiont engineering. For a long time microorganisms were in the background of plant biology but new multidisciplinary approaches have led to an appreciation of the importance of the holobiont, where plants and microbes are interdependent.
Collapse
Affiliation(s)
- Carmen Sánchez-Cañizares
- Department of Plant Sciences, University of Oxford, South Parks Road, OX1 3RB Oxford, United Kingdom
| | - Beatriz Jorrín
- Department of Plant Sciences, University of Oxford, South Parks Road, OX1 3RB Oxford, United Kingdom
| | - Philip S Poole
- Department of Plant Sciences, University of Oxford, South Parks Road, OX1 3RB Oxford, United Kingdom
| | - Andrzej Tkacz
- Department of Plant Sciences, University of Oxford, South Parks Road, OX1 3RB Oxford, United Kingdom.
| |
Collapse
|
963
|
Proença DN, Francisco R, Kublik S, Schöler A, Vestergaard G, Schloter M, Morais PV. The Microbiome of Endophytic, Wood Colonizing Bacteria from Pine Trees as Affected by Pine Wilt Disease. Sci Rep 2017. [PMID: 28646202 PMCID: PMC5482821 DOI: 10.1038/s41598-017-04141-6] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023] Open
Abstract
Pine wilt disease (PWD) is a devastating forest disease present worldwide. In this study we analyzed the effects of the invasion of the pinewood nematode Bursaphelenchus xylophilus, the major pathogen causing PWD, on the endophytic microbiome of adult P. pinaster trees. Wood samples from trees with different degrees of PWD disease were collected at two sites (A and M) in Portugal. Endophytic bacteria were characterized based on directly extracted DNA by fingerprinting and barcoding using the 16S rRNA gene as marker. Furthermore, cultivation-based approaches were used to obtain isolates of the major taxa to study their ecophysiology. The endophytic microbiome from P. pinaster trees differed significantly between the two sampling sites. Main bacterial OTUs belonged to the Proteobacteria (39% (site M) - 97% (site A)), and Firmicutes (0.70% (site A) - 44% (site M)). However, consequences of the invasion with the pathogen were comparable. Interestingly diversity of wood endophytic bacteria increased with the severity of the diseases, with highest diversity levels observed in in the most affected trees. Our results suggest that in the first stages of the disease, the defence mechanisms of plants are repressed by the pathogen, resulting in a colonization of the wood interior by soil microorganisms.
Collapse
Affiliation(s)
| | | | - Susanne Kublik
- Research Unit Environmental Genomics, Helmholtz Zentrum München, Munich, Germany
| | - Anne Schöler
- Research Unit Environmental Genomics, Helmholtz Zentrum München, Munich, Germany
| | - Gisle Vestergaard
- Research Unit Environmental Genomics, Helmholtz Zentrum München, Munich, Germany
| | - Michael Schloter
- Research Unit Environmental Genomics, Helmholtz Zentrum München, Munich, Germany.
| | - Paula V Morais
- CEMMPRE, University of Coimbra, Coimbra, Portugal.,Department of Life Sciences, University of Coimbra, Coimbra, Portugal
| |
Collapse
|
964
|
Menendez E, Garcia-Fraile P. Plant probiotic bacteria: solutions to feed the world. AIMS Microbiol 2017; 3:502-524. [PMID: 31294173 PMCID: PMC6604988 DOI: 10.3934/microbiol.2017.3.502] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2017] [Accepted: 06/12/2017] [Indexed: 01/10/2023] Open
Abstract
The increasing human population expected in the next decades, the growing demand of livestock products-which production requires higher amounts of feed products fabrication, the collective concern about food quality in industrialized countries together with the need to protect the fertility of soils, in particular, and the environment, in general, constitute as a whole big challenge that worldwide agriculture has to face nowadays. Some soil bacteria harbor mechanisms to promote plant growth, which include phytostimulation, nutrient mobilization, biocontrol of plant pathogens and abiotic stresses protection. These bacteria have also been proved as promoters of vegetable food quality. Therefore, these microbes, also so-called Plant Probiotic Bacteria, applied as biofertilizers in crop production, constitute an environmental friendly manner to contribute to produce the food and feed needed to sustain world population. In this review, we summarize some of the best-known mechanisms of plant probiotic bacteria to improve plant growth and develop a more sustainable agriculture.
Collapse
Affiliation(s)
- Esther Menendez
- Instituto de Ciências Agrárias e Ambientais Mediterrânicas (ICAAM), Universidade de Évora, Évora, Portugal
| | - Paula Garcia-Fraile
- Laboratory of Fungal Genetics and Metabolism, Institute of Microbiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic
| |
Collapse
|
965
|
De Silva DD, Crous PW, Ades PK, Hyde KD, Taylor PW. Life styles of Colletotrichum species and implications for plant biosecurity. FUNGAL BIOL REV 2017. [DOI: 10.1016/j.fbr.2017.05.001] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
|
966
|
Granzow S, Kaiser K, Wemheuer B, Pfeiffer B, Daniel R, Vidal S, Wemheuer F. The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment. Front Microbiol 2017; 8:902. [PMID: 28611735 PMCID: PMC5447230 DOI: 10.3389/fmicb.2017.00902] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2016] [Accepted: 05/03/2017] [Indexed: 11/24/2022] Open
Abstract
Many bacteria and fungi in the plant rhizosphere and endosphere are beneficial to plant nutrient acquisition, health, and growth. Although playing essential roles in ecosystem functioning, our knowledge about the effects of multiple cropping regimes on the plant microbiome and their interactions is still limited. Here, we designed a pot experiment simulating different cropping regimes. For this purpose, wheat and faba bean plants were grown under controlled greenhouse conditions in monocultures and in two intercropping regimes: row and mixed intercropping. Bacterial and fungal communities in bulk and rhizosphere soils as well as in the roots and aerial plant parts were analyzed using large-scale metabarcoding. We detected differences in microbial richness and diversity between the cropping regimes. Generally, observed effects were attributed to differences between mixed and row intercropping or mixed intercropping and monoculture. Bacterial and fungal diversity were significantly higher in bulk soil samples of wheat and faba bean grown in mixed compared to row intercropping. Moreover, microbial communities varied between crop species and plant compartments resulting in different responses of these communities toward cropping regimes. Leaf endophytes were not affected by cropping regime but bacterial and fungal community structures in bulk and rhizosphere soil as well as fungal community structures in roots. We further recorded highly complex changes in microbial interactions. The number of negative inter-domain correlations between fungi and bacteria decreased in bulk and rhizosphere soil in intercropping regimes compared to monocultures due to beneficial effects. In addition, we observed plant species-dependent differences indicating that intra- and interspecific competition between plants had different effects on the plant species and thus on their associated microbial communities. To our knowledge, this is the first study investigating microbial communities in different plant compartments with respect to multiple cropping regimes using large-scale metabarcoding. Although a simple design simulating different cropping regimes was used, obtained results contribute to the understanding how cropping regimes affect bacterial and fungal communities and their interactions in different plant compartments. Nonetheless, we need field experiments to properly quantify observed effects in natural ecosystems.
Collapse
Affiliation(s)
- Sandra Granzow
- Section of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, Germany
| | - Kristin Kaiser
- Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, Germany
| | - Bernd Wemheuer
- Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, Germany
| | - Birgit Pfeiffer
- Plant Nutrition and Crop Physiology, Department of Crop Sciences, University of GöttingenGöttingen, Germany
| | - Rolf Daniel
- Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, University of GöttingenGöttingen, Germany
| | - Stefan Vidal
- Section of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, Germany
| | - Franziska Wemheuer
- Section of Agricultural Entomology, Department of Crop Sciences, University of GöttingenGöttingen, Germany
| |
Collapse
|
967
|
Chagas FO, Caraballo-Rodríguez AM, Dorrestein PC, Pupo MT. Expanding the Chemical Repertoire of the Endophyte Streptomyces albospinus RLe7 Reveals Amphotericin B as an Inducer of a Fungal Phenotype. JOURNAL OF NATURAL PRODUCTS 2017; 80:1302-1309. [PMID: 28375005 DOI: 10.1021/acs.jnatprod.6b00870] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
During an investigation of the chemistry of the endophytic actinobacterium Streptomyces albospinus RLe7, which was isolated from the roots of the Brazilian medicinal plant Lychnophora ericoides, three new natural products, (2R*,4S*)-2-((1'S*)-hydroxy-4'-methylpentyl)-4-(hydroxymethyl)butanolide (1), (3R*,4S*,5R*,6S*)-tetrahydro-4-hydroxy-3,5,6-trimethyl-2-pyranone (2), and 1-O-(phenylacetyl)glycerol (3), together with known secondary metabolites (S)-4-benzyl-3-oxo-3,4-dihydro-1H-pyrrolo[2,1-c][1,4]oxazine-6-carbaldehyde (4), (S)-4-isobutyl-3-oxo-3,4-dihydro-1H-pyrrolo[2,1-c][1,4]oxazine-6-carbaldehyde (5), and the diketopiperazines cyclo(l-Tyr-l-Pro) (6) and cyclo(l-Val-l-Pro) (7), were isolated. The role of isolated natural products in the interaction between S. albospinus RLe7 and the fungus Coniochaeta sp. FLe4, an endophyte from the same plant, was investigated. None of these isolated actinobacterial compounds were able to inhibit the fungus or induce the fungal red pigmentation observed when both endophytes interact. Further investigation using mass spectrometry approaches enabled identifying the well-known antifungal compound amphotericin B (9) as a microbial metabolite of S. albospinus RLe7. Finally, compound 9 was demonstrated as at least one of the agents responsible for both the antifungal activity and induction of red-pigmented fungal phenotype.
Collapse
Affiliation(s)
- Fernanda Oliveira Chagas
- Departamento de Ciências Farmacêuticas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo , Avenida do Café, s/n, Ribeirão Preto, SP 14040-903, Brazil
| | - Andrés Mauricio Caraballo-Rodríguez
- Departamento de Ciências Farmacêuticas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo , Avenida do Café, s/n, Ribeirão Preto, SP 14040-903, Brazil
| | - Pieter C Dorrestein
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego , 9500 Gilman Drive, La Jolla, California 92093-0751, United States
| | - Mônica Tallarico Pupo
- Departamento de Ciências Farmacêuticas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo , Avenida do Café, s/n, Ribeirão Preto, SP 14040-903, Brazil
| |
Collapse
|
968
|
Burkhanova GF, Veselova SV, Sorokan’ AV, Blagova DK, Nuzhnaya TV, Maksimov IV. Strains of Bacillus ssp. regulate wheat resistance to Septoria nodorum Berk. APPL BIOCHEM MICRO+ 2017. [DOI: 10.1134/s0003683817030048] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
969
|
Thomas P, Sekhar AC. Cultivation Versus Molecular Analysis of Banana (Musa sp.) Shoot-Tip Tissue Reveals Enormous Diversity of Normally Uncultivable Endophytic Bacteria. MICROBIAL ECOLOGY 2017; 73:885-899. [PMID: 27833995 DOI: 10.1007/s00248-016-0877-7] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2016] [Accepted: 10/10/2016] [Indexed: 05/06/2023]
Abstract
The interior of plants constitutes a unique environment for microorganisms with various organisms inhabiting as endophytes. Unlike subterranean plant parts, aboveground parts are relatively less explored for endophytic microbial diversity. We employed a combination of cultivation and molecular approaches to study the endophytic bacterial diversity in banana shoot-tips. Cultivable bacteria from 20 sucker shoot-tips of cv. Grand Naine included 37 strains under 16 genera and three phyla (Proteobacteria, Actinobacteria, Firmicutes). 16S rRNA gene-ribotyping approach on 799f and 1492r PCR-amplicons to avoid plant organelle sequences was ineffective showing limited bacterial diversity. 16S rRNA metagene profiling targeting the V3-V4 hypervariable region after filtering out the chloroplast (74.2 %), mitochondrial (22.9 %), and unknown sequences (1.1 %) revealed enormous bacterial diversity. Proteobacteria formed the predominant phylum (64 %) succeeded by Firmicutes (12.1 %), Actinobacteria (9.5 %), Bacteroidetes (6.4 %), Planctomycetes, Cyanobacteria, and minor shares (<1 %) of 14 phyla including several candidate phyla besides the domain Euryarchaeota (0.2 %). Microbiome analysis of single shoot-tips through 16S rRNA V3 region profiling showed similar taxonomic richness and diversity and was less affected by plant sequence interferences. DNA extraction kit ominously influenced the phylogenetic diversity. The study has revealed vast diversity of normally uncultivable endophytic bacteria prevailing in banana shoot-tips (20 phyla, 46 classes) with about 2.6 % of the deciphered 269 genera and 1.5 % of the 656 observed species from the same source of shoot-tips attained through cultivation. The predominant genera included several agriculturally important bacteria. The study reveals an immense ecosystem of endophytic bacteria in banana shoot tissues endorsing the earlier documentation of intracellular "Cytobacts" and "Peribacts" with possible roles in plant holobiome and hologenome.
Collapse
Affiliation(s)
- Pious Thomas
- Endophytic and Molecular Microbiology Laboratory, Division of Biotechnology, ICAR-Indian Institute of Horticultural Research (IIHR), Hessaraghatta Lake, Bengaluru, 560089, India.
| | - Aparna Chandra Sekhar
- Endophytic and Molecular Microbiology Laboratory, Division of Biotechnology, ICAR-Indian Institute of Horticultural Research (IIHR), Hessaraghatta Lake, Bengaluru, 560089, India
| |
Collapse
|
970
|
Feng WW, Wang TT, Bai JL, Ding P, Xing K, Jiang JH, Peng X, Qin S. Glutamicibacter halophytocola sp. nov., an endophytic actinomycete isolated from the roots of a coastal halophyte, Limonium sinense. Int J Syst Evol Microbiol 2017; 67:1120-1125. [DOI: 10.1099/ijsem.0.001775] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Wei-Wei Feng
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Tian-Tian Wang
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Juan-Luan Bai
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Peng Ding
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Ke Xing
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Ji-Hong Jiang
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Xue Peng
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| | - Sheng Qin
- The Key Laboratory of Biotechnology for Medicinal Plant of Jiangsu Province, School of Life Science, Jiangsu Normal University, Xuzhou, Jiangsu, 221116, PR China
| |
Collapse
|
971
|
Garipova SR, Garifullina DV, Baimiev AH, Khairullin RM. Intermicrobial relationships of the pea nodule symbiont Serratia sp. Ent16 and its colonization of the host endorhizosphere. APPL BIOCHEM MICRO+ 2017. [DOI: 10.1134/s0003683817030061] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
972
|
Shade A, Jacques MA, Barret M. Ecological patterns of seed microbiome diversity, transmission, and assembly. Curr Opin Microbiol 2017; 37:15-22. [PMID: 28437661 DOI: 10.1016/j.mib.2017.03.010] [Citation(s) in RCA: 167] [Impact Index Per Article: 23.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Accepted: 03/22/2017] [Indexed: 01/08/2023]
Abstract
Seeds are involved in the transmission of microorganisms from one plant generation to another and consequently act as the initial inoculum for the plant microbiota. The purpose of this mini-review is to provide an overview of current knowledge on the diversity, structure and role of the seed microbiota. The relative importance of the mode of transmission (vertical vs horizontal) of the microbial entities composing the seed microbiota as well as the potential connections existing between seed and other plant habitats such as the anthosphere and the spermosphere is discussed. Finally the governing processes (niche vs neutral) involved in the assembly and the dynamics of the seed microbiota are examined.
Collapse
Affiliation(s)
- Ashley Shade
- Department of Microbiology and Molecular Genetics, Program in Ecology, Evolutionary Biology, and Behavior, The DOE Great Lakes Bioenergy Research Center, The Plant Resilience Institute, Michigan State University, East Lansing MI 48824, United States
| | - Marie-Agnès Jacques
- INRA, UMR1345 Institut de Recherches en Horticulture et Semences, SFR4207 QUASAV, F-49071, Beaucouzé, France
| | - Matthieu Barret
- INRA, UMR1345 Institut de Recherches en Horticulture et Semences, SFR4207 QUASAV, F-49071, Beaucouzé, France.
| |
Collapse
|
973
|
Forest Soil Bacteria: Diversity, Involvement in Ecosystem Processes, and Response to Global Change. Microbiol Mol Biol Rev 2017; 81:81/2/e00063-16. [PMID: 28404790 DOI: 10.1128/mmbr.00063-16] [Citation(s) in RCA: 212] [Impact Index Per Article: 30.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
The ecology of forest soils is an important field of research due to the role of forests as carbon sinks. Consequently, a significant amount of information has been accumulated concerning their ecology, especially for temperate and boreal forests. Although most studies have focused on fungi, forest soil bacteria also play important roles in this environment. In forest soils, bacteria inhabit multiple habitats with specific properties, including bulk soil, rhizosphere, litter, and deadwood habitats, where their communities are shaped by nutrient availability and biotic interactions. Bacteria contribute to a range of essential soil processes involved in the cycling of carbon, nitrogen, and phosphorus. They take part in the decomposition of dead plant biomass and are highly important for the decomposition of dead fungal mycelia. In rhizospheres of forest trees, bacteria interact with plant roots and mycorrhizal fungi as commensalists or mycorrhiza helpers. Bacteria also mediate multiple critical steps in the nitrogen cycle, including N fixation. Bacterial communities in forest soils respond to the effects of global change, such as climate warming, increased levels of carbon dioxide, or anthropogenic nitrogen deposition. This response, however, often reflects the specificities of each studied forest ecosystem, and it is still impossible to fully incorporate bacteria into predictive models. The understanding of bacterial ecology in forest soils has advanced dramatically in recent years, but it is still incomplete. The exact extent of the contribution of bacteria to forest ecosystem processes will be recognized only in the future, when the activities of all soil community members are studied simultaneously.
Collapse
|
974
|
Proença DN, Grass G, Morais PV. Understanding pine wilt disease: roles of the pine endophytic bacteria and of the bacteria carried by the disease-causing pinewood nematode. Microbiologyopen 2017; 6:e00415. [PMID: 27785885 PMCID: PMC5387314 DOI: 10.1002/mbo3.415] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Revised: 09/16/2016] [Accepted: 09/21/2016] [Indexed: 12/03/2022] Open
Abstract
Pine wilt disease (PWD) is one of the most destructive diseases in trees of the genus Pinus and is responsible for environmental and economic losses around the world. The only known causal agent of the disease is the pinewood nematode (PWN) Bursaphelenchus xylophilus. Despite that, bacteria belonging to several different genera have been found associated with PWN and their roles in the development of PWD have been suggested. Molecular methodologies and the new era of genomics have revealed different perspectives to the problem, recognizing the manifold interactions between different organisms involved in the disease. Here, we reviewed the possible roles of nematode-carried bacteria in PWD, what could be the definition of this group of microorganisms and questioned their origin as possible endophytes, discussing their relation within the endophytic community of pine trees. The diversity of the nematode-carried bacteria and the diversity of pine tree endophytes, reported until now, is revised in detail in this review. What could signify a synergetic effect with PWN harming the plant, or what could equip bacteria with functions to control the presence of nematodes inside the tree, is outlined as two possible roles of the microbial community in the etiology of this disease. An emphasis is put on the potential revealed by the genomic data of isolated organisms in their potential activities as effective tools in PWD management.
Collapse
Affiliation(s)
- Diogo N. Proença
- CEMUCUniversity of CoimbraCoimbraPortugal
- Department of Biology and CESAMUniversity of AveiroAveiroPortugal
| | - Gregor Grass
- Bundeswehr Institute of MicrobiologyMunichGermany
| | - Paula V. Morais
- CEMUCUniversity of CoimbraCoimbraPortugal
- Department of Life SciencesUniversity of CoimbraCoimbraPortugal
| |
Collapse
|
975
|
Feng NX, Yu J, Zhao HM, Cheng YT, Mo CH, Cai QY, Li YW, Li H, Wong MH. Efficient phytoremediation of organic contaminants in soils using plant-endophyte partnerships. THE SCIENCE OF THE TOTAL ENVIRONMENT 2017; 583:352-368. [PMID: 28117167 DOI: 10.1016/j.scitotenv.2017.01.075] [Citation(s) in RCA: 90] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2016] [Revised: 01/11/2017] [Accepted: 01/12/2017] [Indexed: 05/20/2023]
Abstract
Soil pollution with organic contaminants is one of the most intractable environmental problems today, posing serious threats to humans and the environment. Innovative strategies for remediating organic-contaminated soils are critically needed. Phytoremediation, based on the synergistic actions of plants and their associated microorganisms, has been recognized as a powerful in situ approach to soil remediation. Suitable combinations of plants and their associated endophytes can improve plant growth and enhance the biodegradation of organic contaminants in the rhizosphere and/or endosphere, dramatically expediting the removal of organic pollutants from soils. However, for phytoremediation to become a more widely accepted and predictable alternative, a thorough understanding of plant-endophyte interactions is needed. Many studies have recently been conducted on the mechanisms of endophyte-assisted phytoremediation of organic contaminants in soils. In this review, we highlight the superiority of organic pollutant-degrading endophytes for practical applications in phytoremediation, summarize alternative strategies for improving phytoremediation, discuss the fundamental mechanisms of endophyte-assisted phytoremediation, and present updated information regarding the advances, challenges, and new directions in the field of endophyte-assisted phytoremediation technology.
Collapse
Affiliation(s)
- Nai-Xian Feng
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Jiao Yu
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Hai-Ming Zhao
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Yu-Ting Cheng
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Ce-Hui Mo
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China.
| | - Quan-Ying Cai
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Yan-Wen Li
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Hui Li
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China
| | - Ming-Hung Wong
- Guangdong Provincial Research Center for Environment Pollution Control and Remediation Materials, School of Environment, Jinan University, Guangzhou 510632, China; Consortium on Health, Environment, Education and Research (CHEER), Department of Science and Environmental Studies, The Education University of Hong Kong, Tai Po, Hong Kong, China
| |
Collapse
|
976
|
Shehata HR, Griffiths MW, Raizada MN. Seeds of the Wild Progenitor of Maize Possess Bacteria That Antagonize Foodborne Pathogens. Foodborne Pathog Dis 2017; 14:202-209. [DOI: 10.1089/fpd.2016.2225] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Affiliation(s)
- Hanan R. Shehata
- Department of Plant Agriculture, University of Guelph, Guelph, Ontario, Canada
- Department of Microbiology, School of Pharmacy, Mansoura University, Mansoura, Egypt
| | - Mansel W. Griffiths
- Department of Food Science, University of Guelph, Guelph, Ontario, Canada
- Canadian Research Institute for Food Safety, University of Guelph, Guelph, Ontario, Canada
| | - Manish N. Raizada
- Department of Plant Agriculture, University of Guelph, Guelph, Ontario, Canada
| |
Collapse
|
977
|
Le Cocq K, Gurr SJ, Hirsch PR, Mauchline TH. Exploitation of endophytes for sustainable agricultural intensification. MOLECULAR PLANT PATHOLOGY 2017; 18:469-473. [PMID: 27559722 PMCID: PMC5347965 DOI: 10.1111/mpp.12483] [Citation(s) in RCA: 68] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2016] [Revised: 08/22/2016] [Accepted: 08/23/2016] [Indexed: 05/14/2023]
Abstract
Intensive agriculture, which depends on unsustainable levels of agrochemical inputs, is environmentally harmful, and the expansion of these practices to meet future needs is not economically feasible. Other options should be considered to meet the global food security challenge. The plant microbiome has been linked to improved plant productivity and, in this microreview, we consider the endosphere - a subdivision of the plant microbiome. We suggest a new definition of microbial endophyte status, the need for synergy between fungal and bacterial endophyte research efforts, as well as potential strategies for endophyte application to agricultural systems.
Collapse
Affiliation(s)
- Kate Le Cocq
- Rothamsted ResearchNorth WykeOkehamptonDevon EX202SBUK
| | - Sarah J. Gurr
- Rothamsted ResearchNorth WykeOkehamptonDevon EX202SBUK
- Department of BiosciencesGeoffrey Pope Building, University of ExeterExeter EX44QDUK
| | - Penny R. Hirsch
- Rothamsted ResearchWest CommonHarpendenHertfordshire AL52JQUK
| | | |
Collapse
|
978
|
Ferreira MC, Cantrell CL, Wedge DE, Gonçalves VN, Jacob MR, Khan S, Rosa CA, Rosa LH. Diversity of the endophytic fungi associated with the ancient and narrowly endemic neotropical plant Vellozia gigantea from the endangered Brazilian rupestrian grasslands. BIOCHEM SYST ECOL 2017. [DOI: 10.1016/j.bse.2017.02.006] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
979
|
Rocha SL, Evans HC, Jorge VL, Cardoso LAO, Pereira FST, Rocha FB, Barreto RW, Hart AG, Elliot SL. Recognition of endophytic Trichoderma species by leaf-cutting ants and their potential in a Trojan-horse management strategy. ROYAL SOCIETY OPEN SCIENCE 2017; 4:160628. [PMID: 28484603 PMCID: PMC5414240 DOI: 10.1098/rsos.160628] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 03/09/2017] [Indexed: 05/14/2023]
Abstract
Interactions between leaf-cutting ants, their fungal symbiont (Leucoagaricus) and the endophytic fungi within the vegetation they carry into their colonies are still poorly understood. If endophytes antagonistic to Leucoagaricus were found in plant material being carried by these ants, then this might indicate a potential mechanism for plants to defend themselves from leaf-cutter attack. In addition, it could offer possibilities for the management of these important Neotropical pests. Here, we show that, for Atta sexdens rubropilosa, there was a significantly greater incidence of Trichoderma species in the vegetation removed from the nests-and deposited around the entrances-than in that being transported into the nests. In a no-choice test, Trichoderma-infested rice was taken into the nest, with deleterious effects on both the fungal gardens and ant survival. The endophytic ability of selected strains of Trichoderma was also confirmed, following their inoculation and subsequent reisolation from seedlings of eucalyptus. These results indicate that endophytic fungi which pose a threat to ant fungal gardens through their antagonistic traits, such as Trichoderma, have the potential to act as bodyguards of their plant hosts and thus might be employed in a Trojan-horse strategy to mitigate the negative impact of leaf-cutting ants in both agriculture and silviculture in the Neotropics. We posit that the ants would detect and evict such 'malign' endophytes-artificially inoculated into vulnerable crops-during the quality-control process within the nest, and, moreover, that the foraging ants may then be deterred from further harvesting of 'Trichoderma-enriched' plants.
Collapse
Affiliation(s)
- Silma L. Rocha
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Harry C. Evans
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
- Department of Phytopathology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
- CAB International, E-UK, Egham, Surrey TW20 9TY, UK
| | - Vanessa L. Jorge
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Lucimar A. O. Cardoso
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Fernanda S. T. Pereira
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Fabiano B. Rocha
- Department of Phytopathology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Robert W. Barreto
- Department of Phytopathology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| | - Adam G. Hart
- Department of Natural and Social Sciences, University of Gloucestershire, The Park, Cheltenham, Gloucestershire GL50 2RH, UK
| | - Simon L. Elliot
- Department of Entomology, Universidade Federal de Viçosa, Viçosa, 36570-900 Minas Gerais, Brazil
| |
Collapse
|
980
|
Dinesh R, Srinivasan V, T E S, Anandaraj M, Srambikkal H. Endophytic actinobacteria: Diversity, secondary metabolism and mechanisms to unsilence biosynthetic gene clusters. Crit Rev Microbiol 2017; 43:546-566. [PMID: 28358596 DOI: 10.1080/1040841x.2016.1270895] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Endophytic actinobacteria, which reside in the inner tissues of host plants, are gaining serious attention due to their capacity to produce a plethora of secondary metabolites (e.g. antibiotics) possessing a wide variety of biological activity with diverse functions. This review encompasses the recent reports on endophytic actinobacterial species diversity, in planta habitats and mechanisms underlying their mode of entry into plants. Besides, their metabolic potential, novel bioactive compounds they produce and mechanisms to unravel their hidden metabolic repertoire by activation of cryptic or silent biosynthetic gene clusters (BGCs) for eliciting novel secondary metabolite production are discussed. The study also reviews the classical conservative techniques (chemical/biological/physical elicitation, co-culturing) as well as modern microbiology tools (e.g. next generation sequencing) that are being gainfully employed to uncover the vast hidden scaffolds for novel secondary metabolites produced by these endophytes, which would subsequently herald a revolution in drug engineering. The potential role of these endophytes in the agro-environment as promising biological candidates for inhibition of phytopathogens and the way forward to thoroughly exploit this unique microbial community by inducing expression of cryptic BGCs for encoding unseen products with novel therapeutic properties are also discussed.
Collapse
Affiliation(s)
- Raghavan Dinesh
- a ICAR-Indian Institute of Spices Research , Kozhikode, Kerala , India
| | | | - Sheeja T E
- a ICAR-Indian Institute of Spices Research , Kozhikode, Kerala , India
| | | | - Hamza Srambikkal
- a ICAR-Indian Institute of Spices Research , Kozhikode, Kerala , India
| |
Collapse
|
981
|
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.
Collapse
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
| |
Collapse
|
982
|
Xu T, Li Y, Zeng X, Yang X, Yang Y, Yuan S, Hu X, Zeng J, Wang Z, Liu Q, Liu Y, Liao H, Tong C, Liu X, Zhu Y. Isolation and evaluation of endophytic Streptomyces endus OsiSh-2 with potential application for biocontrol of rice blast disease. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2017; 97:1149-1157. [PMID: 27293085 DOI: 10.1002/jsfa.7841] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Revised: 06/01/2016] [Accepted: 06/05/2016] [Indexed: 05/13/2023]
Abstract
BACKGROUND Biocontrol is a promising strategy in the control of rice blast disease. In the present study, we isolated and characterized a novel antagonist to the pathogen Magnaporthe oryzae from rice endophytic actinomycetes. RESULTS Out of 482 endophytic actinomycetes isolated from rice blast infected and healthy rice, Streptomyces endus OsiSh-2 exhibited remarkable in vitro antagonistic activity. Scanning electron microscopy observations of M. oryzae treated by OsiSh-2 revealed significant morphological alterations in hyphae. In 2-year field tests, the spraying of OsiSh-2 spore solution (107 spores mL-1 ) is capable of reducing rice blast disease severity by 59.64%. In addition, a fermentation broth of OsiSh-2 and its cell-free filtrates could inhibit the growth of M. oryzae, suggesting the presence of active enzymes and secondary metabolites. OsiSh-2 tested positive for polyketide synthase-I and nonribosomal peptide synthetase genes and can produce cellulase, protease, gelatinase, siderophore, indole-3-acetic acid and 1-amino-cyclopropane-1-carboxylate deaminase. A preliminary separation indicated that the methanol extract of OsiSh-2 could suppress the growth of pathogens. The major active component was identified as nigericin. CONCLUSION Endophytic S. endus OsiSh-2 has potential as a biocontrol agent against rice blast in agriculture. © 2016 Society of Chemical Industry.
Collapse
Affiliation(s)
- Ting Xu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Yan Li
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Xiadong Zeng
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Xiaolu Yang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Yuanzhu Yang
- Yahua Seeds Science Academy of Hunan, Changsha, 410119, Hunan, PR China
| | - Shanshan Yuan
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Xiaochun Hu
- Yahua Seeds Science Academy of Hunan, Changsha, 410119, Hunan, PR China
| | - Jiarui Zeng
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Zhenzhen Wang
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Qian Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Yuqing Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Hongdong Liao
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Chunyi Tong
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Xuanming Liu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| | - Yonghua Zhu
- Hunan Province Key Laboratory of Plant Functional Genomics and Developmental Regulation, College of Biology, Hunan University, Changsha, 410082, Hunan, PR China
| |
Collapse
|
983
|
López-García P, Eme L, Moreira D. Symbiosis in eukaryotic evolution. J Theor Biol 2017; 434:20-33. [PMID: 28254477 DOI: 10.1016/j.jtbi.2017.02.031] [Citation(s) in RCA: 83] [Impact Index Per Article: 11.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2017] [Revised: 02/19/2017] [Accepted: 02/25/2017] [Indexed: 01/27/2023]
Abstract
Fifty years ago, Lynn Margulis, inspiring in early twentieth-century ideas that put forward a symbiotic origin for some eukaryotic organelles, proposed a unified theory for the origin of the eukaryotic cell based on symbiosis as evolutionary mechanism. Margulis was profoundly aware of the importance of symbiosis in the natural microbial world and anticipated the evolutionary significance that integrated cooperative interactions might have as mechanism to increase cellular complexity. Today, we have started fully appreciating the vast extent of microbial diversity and the importance of syntrophic metabolic cooperation in natural ecosystems, especially in sediments and microbial mats. Also, not only the symbiogenetic origin of mitochondria and chloroplasts has been clearly demonstrated, but improvement in phylogenomic methods combined with recent discoveries of archaeal lineages more closely related to eukaryotes further support the symbiogenetic origin of the eukaryotic cell. Margulis left us in legacy the idea of 'eukaryogenesis by symbiogenesis'. Although this has been largely verified, when, where, and specifically how eukaryotic cells evolved are yet unclear. Here, we shortly review current knowledge about symbiotic interactions in the microbial world and their evolutionary impact, the status of eukaryogenetic models and the current challenges and perspectives ahead to reconstruct the evolutionary path to eukaryotes.
Collapse
Affiliation(s)
- Purificación López-García
- Ecologie Systématique Evolution, CNRS, Université Paris-Sud, Université Paris-Saclay, AgroParisTech, 91400 Orsay, France.
| | - Laura Eme
- Centre for Comparative Genomics and Evolutionary Bioinformatics, Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Canada NS B3H 4R2
| | - David Moreira
- Ecologie Systématique Evolution, CNRS, Université Paris-Sud, Université Paris-Saclay, AgroParisTech, 91400 Orsay, France
| |
Collapse
|
984
|
Vinale F, Nicoletti R, Lacatena F, Marra R, Sacco A, Lombardi N, d’Errico G, Digilio MC, Lorito M, Woo SL. Secondary metabolites from the endophytic fungus Talaromyces pinophilus. Nat Prod Res 2017; 31:1778-1785. [DOI: 10.1080/14786419.2017.1290624] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- F. Vinale
- Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Portici, Italy
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - R. Nicoletti
- Consiglio per la Ricerca in Agricoltura e l’Analisi dell’Economia Agraria, Rome, Italy
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - F. Lacatena
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - R. Marra
- Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Portici, Italy
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - A. Sacco
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - N. Lombardi
- Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Portici, Italy
| | - G. d’Errico
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - M. C. Digilio
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - M. Lorito
- Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Portici, Italy
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| | - S. L. Woo
- Istituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, Portici, Italy
- Dipartimento di Agraria, Università degli Studi di Napoli ‘Federico II’, Portici, Italy
| |
Collapse
|
985
|
Soil microbial communities alter leaf chemistry and influence allelopathic potential among coexisting plant species. Oecologia 2017; 183:1155-1165. [PMID: 28191585 DOI: 10.1007/s00442-017-3833-4] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Accepted: 01/26/2017] [Indexed: 10/20/2022]
Abstract
While both plant-soil feedbacks and allelochemical interactions are key drivers of plant community dynamics, the potential for these two drivers to interact with each other remains largely unexplored. If soil microbes influence allelochemical production, this would represent a novel dimension of heterogeneity in plant-soil feedbacks. To explore the linkage between soil microbial communities and plant chemistry, we experimentally generated soil microbial communities and evaluated their impact on leaf chemical composition and allelopathic potential. Four native perennial old-field species (two each of Aster and Solidago) were grown in pairwise combination with each species' soil microbial community as well as a sterilized inoculum. We demonstrated unequivocally that variation in soil microbial communities altered leaf chemical fingerprints for all focal plant species and also changed their allelopathic potential. Soil microbes reduced allelopathic potential in bioassays by increasing germination 25-54% relative to sterile control soils in all four species. Plants grown with their own microbial communities had the lowest allelopathic potential, suggesting that allelochemical production may be lessened when growing with microbes from conspecifics. The allelopathic potential of plants grown in congener and confamilial soils was indistinguishable from each other, indicating an equivalent response to all non-conspecific microbial communities within these closely related genera. Our results clearly demonstrated that soil microbial communities cause changes in leaf tissue chemistry that altered their allelopathic properties. These findings represent a new mechanism of plant-soil feedbacks that may structure perennial plant communities over very small spatial scales that must be explored in much more detail.
Collapse
|
986
|
Battu L, Reddy MM, Goud BS, Ulaganathan K, Kandasamy U. Genome inside genome: NGS based identification and assembly of endophytic Sphingopyxis granuli and Pseudomonas aeruginosa genomes from rice genomic reads. Genomics 2017; 109:141-146. [PMID: 28192179 DOI: 10.1016/j.ygeno.2017.02.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Revised: 02/09/2017] [Accepted: 02/09/2017] [Indexed: 11/24/2022]
Abstract
The interactions between crop plants and the endophytic bacteria colonizing them are poorly understood and experimental methods were found to be inadequate to meet the complexities associated with the interaction. Moreover, research on endophytic bacteria was focused at host plant species level and not at cultivar level which is essential for understanding the role played by them on the productivity of specific crop genotype. High throughput genomics offers valuable tools for identification, characterization of endophytic bacteria and understand their interaction with host plants. In this paper we report the use of high throughput plant genomic data for identification of endophytic bacteria colonizing rice plants. Using this novel next generation sequencing based computational method Sphingopyxis granuli and Pseudomonas aeruginosa were identified as endophytes colonizing the elite indica rice cultivar RP Bio-226 and their draft genome sequences were assembled.
Collapse
Affiliation(s)
- Latha Battu
- Centre for Plant Molecular Biology, Osmania University, Hyderabad 500007, Telangana, India
| | - Mettu Madhavi Reddy
- Centre for Plant Molecular Biology, Osmania University, Hyderabad 500007, Telangana, India
| | | | - Kayalvili Ulaganathan
- Centre for Plant Molecular Biology, Osmania University, Hyderabad 500007, Telangana, India
| | - Ulaganathan Kandasamy
- Centre for Plant Molecular Biology, Osmania University, Hyderabad 500007, Telangana, India.
| |
Collapse
|
987
|
Egamberdieva D, Wirth S, Behrendt U, Ahmad P, Berg G. Antimicrobial Activity of Medicinal Plants Correlates with the Proportion of Antagonistic Endophytes. Front Microbiol 2017; 8:199. [PMID: 28232827 PMCID: PMC5298987 DOI: 10.3389/fmicb.2017.00199] [Citation(s) in RCA: 70] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2016] [Accepted: 01/27/2017] [Indexed: 11/18/2022] Open
Abstract
Medicinal plants are known to harbor potential endophytic microbes, due to their bioactive compounds. In a first study of ongoing research, endophytic bacteria were isolated from two medicinal plants, Hypericum perforatum and Ziziphora capitata with contrasting antimicrobial activities from the Chatkal Biosphere Reserve of Uzbekistan, and their plant-specific traits involved in biocontrol and plant growth promotion were evaluated. Plant extracts of H. perforatum exhibited a remarkable activity against bacterial and fungal pathogens, whereas extracts of Z. capitata did not exhibit any potential antimicrobial activity. Matrix-assisted laser desorption ionization (MALDI) time-of-flight (TOF) mass spectrometry (MS) was used to identify plant associated culturable endophytic bacteria. The isolated culturable endophytes associated with H. perforatum belong to eight genera (Arthrobacter, Achromobacter, Bacillus, Enterobacter, Erwinia, Pseudomonas, Pantoea, Serratia, and Stenotrophomonas). The endophytic isolates from Z. capitata also contain those genera except Arthrobacter, Serratia, and Stenotrophomonas. H. perforatum with antibacterial activity supported more bacteria with antagonistic activity, as compared to Z. capitata. The antagonistic isolates were able to control tomato root rot caused by Fusarium oxysporum and stimulated plant growth under greenhouse conditions and could thus be a cost-effective source for agro-based biological control agents.
Collapse
Affiliation(s)
- Dilfuza Egamberdieva
- Institute of Landscape Biogeochemistry, Leibniz Centre for Agricultural Landscape ResearchMüncheberg, Germany
| | - Stephan Wirth
- Institute of Landscape Biogeochemistry, Leibniz Centre for Agricultural Landscape ResearchMüncheberg, Germany
| | - Undine Behrendt
- Institute of Landscape Biogeochemistry, Leibniz Centre for Agricultural Landscape ResearchMüncheberg, Germany
| | - Parvaiz Ahmad
- Department of Botany and Microbiology, Faculty of Science, King Saud UniversityRiyadh, Saudi Arabia
- Department of Botany, Sri Pratap CollegeSrinagar, India
| | - Gabriele Berg
- Institute of Environmental Biotechnology, Graz University of TechnologyGraz, Austria
| |
Collapse
|
988
|
Schmid J, Day R, Zhang N, Dupont PY, Cox MP, Schardl CL, Minards N, Truglio M, Moore N, Harris DR, Zhou Y. Host Tissue Environment Directs Activities of an Epichloë Endophyte, While It Induces Systemic Hormone and Defense Responses in Its Native Perennial Ryegrass Host. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2017; 30:138-149. [PMID: 28027026 DOI: 10.1094/mpmi-10-16-0215-r] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Increased resilience of pasture grasses mediated by fungal Epichloë endophytes is crucial to pastoral industries. The underlying mechanisms are only partially understood and likely involve very different activities of the endophyte in different plant tissues and responses of the plant to these. We analyzed the transcriptomes of Epichloë festucae and its host, Lolium perenne, in host tissues of different function and developmental stages. The endophyte contributed approximately 10× more to the transcriptomes than to the biomass of infected tissues. Proliferating mycelium in growing host tissues highly expressed genes involved in hyphal growth. Nonproliferating mycelium in mature plant tissues, transcriptionally equally active, highly expressed genes involved in synthesizing antiherbivore compounds. Transcripts from the latter accounted for 4% of fungal transcripts. Endophyte infection systemically but moderately increased transcription of L. perenne genes with roles in hormone biosynthesis and perception as well as stress and pathogen resistance while reducing expression of genes involved in photosynthesis. There was a good correlation between transcriptome-based observations and physiological observations. Our data indicate that the fitness-enhancing effects of the endophyte are based both on its biosynthetic activities, predominantly in mature host tissues, and also on systemic alteration of the host's hormonal responses and induction of stress response genes. [Formula: see text] Copyright © 2017 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .
Collapse
Affiliation(s)
- Jan Schmid
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| | - Robert Day
- 2 School of Medical Sciences, University of Otago, Dunedin 9054, New Zealand
| | - Ningxin Zhang
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| | - Pierre-Yves Dupont
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| | - Murray P Cox
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| | - Christopher L Schardl
- 3 Department of Plant Pathology, University of Kentucky, Lexington 40546-0312, U.S.A
| | - Niki Minards
- 4 Manawatu Microscopy and Imaging Centre, Palmerston North 4410, New Zealand
| | - Mauro Truglio
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| | - Neil Moore
- 5 Computer Science Department, University of Kentucky; and
| | - Daniel R Harris
- 6 Institute for Pharmaceutical Outcomes & Policy, University of Kentucky
| | - Yanfei Zhou
- 1 Institute of Fundamental Sciences, Massey University, Palmerston North 4410, New Zealand
| |
Collapse
|
989
|
Kumar M, Brader G, Sessitsch A, Mäki A, van Elsas JD, Nissinen R. Plants Assemble Species Specific Bacterial Communities from Common Core Taxa in Three Arcto-Alpine Climate Zones. Front Microbiol 2017; 8:12. [PMID: 28174556 PMCID: PMC5258723 DOI: 10.3389/fmicb.2017.00012] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2016] [Accepted: 01/03/2017] [Indexed: 02/01/2023] Open
Abstract
Evidence for the pivotal role of plant-associated bacteria to plant health and productivity has accumulated rapidly in the last years. However, key questions related to what drives plant bacteriomes remain unanswered, among which is the impact of climate zones on plant-associated microbiota. This is particularly true for wild plants in arcto-alpine biomes. Here, we hypothesized that the bacterial communities associated with pioneer plants in these regions have major roles in plant health support, and this is reflected in the formation of climate and host plant specific endophytic communities. We thus compared the bacteriomes associated with the native perennial plants Oxyria digyna and Saxifraga oppositifolia in three arcto-alpine regions (alpine, low Arctic and high Arctic) with those in the corresponding bulk soils. As expected, the bulk soil bacterial communities in the three regions were significantly different. The relative abundances of Proteobacteria decreased progressively from the alpine to the high-arctic soils, whereas those of Actinobacteria increased. The candidate division AD3 and Acidobacteria abounded in the low Arctic soils. Furthermore, plant species and geographic region were the major determinants of the structures of the endophere communities. The plants in the alpine region had higher relative abundances of Proteobacteria, while plants from the low- and high-arctic regions were dominated by Firmicutes. A highly-conserved shared set of ubiquitous bacterial taxa (core bacteriome) was found to occur in the two plant species. Burkholderiales, Actinomycetales and Rhizobiales were the main taxa in this core, and they were also the main contributors to the differences in the endosphere bacterial community structures across compartments as well as regions. We postulate that the composition of this core is driven by selection by the two plants.
Collapse
Affiliation(s)
- Manoj Kumar
- Department of Microbial Ecology, University of GroningenGroningen, Netherlands
- Department of Biological and Environmental Science, University of JyväskyläJyväskylä, Finland
| | - Günter Brader
- Health and Environment Department, AIT Austrian Institute of TechnologyTulln, Austria
| | - Angela Sessitsch
- Health and Environment Department, AIT Austrian Institute of TechnologyTulln, Austria
| | - Anita Mäki
- Department of Biological and Environmental Science, University of JyväskyläJyväskylä, Finland
| | - Jan D. van Elsas
- Department of Microbial Ecology, University of GroningenGroningen, Netherlands
| | - Riitta Nissinen
- Department of Biological and Environmental Science, University of JyväskyläJyväskylä, Finland
| |
Collapse
|
990
|
Samad A, Trognitz F, Compant S, Antonielli L, Sessitsch A. Shared and host-specific microbiome diversity and functioning of grapevine and accompanying weed plants. Environ Microbiol 2017; 19:1407-1424. [PMID: 27871147 DOI: 10.1111/1462-2920.13618] [Citation(s) in RCA: 72] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Revised: 10/11/2016] [Accepted: 11/16/2016] [Indexed: 11/30/2022]
Abstract
Weeds and crop plants select their microbiota from the same pool of soil microorganisms, however, the ecology of weed microbiomes is poorly understood. We analysed the microbiomes associated with roots and rhizospheres of grapevine and four weed species (Lamium amplexicaule L., Veronica arvensis L., Lepidium draba L. and Stellaria media L.) growing in proximity in the same vineyard using 16S rRNA gene sequencing. We also isolated and characterized 500 rhizobacteria and root endophytes from L. draba and grapevine. Microbiome data analysis revealed that all plants hosted significantly different microbiomes in the rhizosphere as well as in root compartment, however, differences were more pronounced in the root compartment. The shared microbiome of grapevine and the four weed species contained 145 OTUs (54.2%) in the rhizosphere, but only nine OTUs (13.2%) in the root compartment. Seven OTUs (12.3%) were shared in all plants and compartments. Approximately 56% of the major OTUs (>1%) showed more than 98% identity to bacteria isolated in this study. Moreover, weed-associated bacteria generally showed a higher species richness in the rhizosphere, whereas the root-associated bacteria were more diverse in the perennial plants grapevine and L. draba. Overall, weed isolates showed more plant growth-promoting characteristics compared with grapevine isolates.
Collapse
Affiliation(s)
- Abdul Samad
- AIT Austrian Institute of Technology GmbH, Bioresources Unit, Konrad-Lorenz-Straße 24, Tulln, 3430, Austria
| | - Friederike Trognitz
- AIT Austrian Institute of Technology GmbH, Bioresources Unit, Konrad-Lorenz-Straße 24, Tulln, 3430, Austria
| | - Stéphane Compant
- AIT Austrian Institute of Technology GmbH, Bioresources Unit, Konrad-Lorenz-Straße 24, Tulln, 3430, Austria
| | - Livio Antonielli
- AIT Austrian Institute of Technology GmbH, Bioresources Unit, Konrad-Lorenz-Straße 24, Tulln, 3430, Austria
| | - Angela Sessitsch
- AIT Austrian Institute of Technology GmbH, Bioresources Unit, Konrad-Lorenz-Straße 24, Tulln, 3430, Austria
| |
Collapse
|
991
|
Mitter B, Pfaffenbichler N, Flavell R, Compant S, Antonielli L, Petric A, Berninger T, Naveed M, Sheibani-Tezerji R, von Maltzahn G, Sessitsch A. A New Approach to Modify Plant Microbiomes and Traits by Introducing Beneficial Bacteria at Flowering into Progeny Seeds. Front Microbiol 2017; 8:11. [PMID: 28167932 PMCID: PMC5253360 DOI: 10.3389/fmicb.2017.00011] [Citation(s) in RCA: 158] [Impact Index Per Article: 22.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2016] [Accepted: 01/03/2017] [Indexed: 11/13/2022] Open
Abstract
The microbial component of healthy seeds - the seed microbiome - appears to be inherited between plant generations and can dynamically influence germination, plant performance, and survival. As such, methods to optimize the seed microbiomes of major crops could have far-reaching implications for plant breeding and crop improvement to enhance agricultural food, feed, and fiber production. Here, we describe a new approach to modulate seed microbiomes of elite crop seed embryos and concomitantly design the traits to be mediated by seed microbiomes. Specifically, we discovered that by introducing the endophyte Paraburkholderia phytofirmans PsJN to the flowers of parent plants we could drive its inclusion in progeny seed microbiomes, thereby inducing vertical inheritance to the offspring generation. We demonstrated the introduction of PsJN to seeds of monocot and dicot plant species and the consequential modifications to seed microbiome composition and growth traits in wheat, illustrating the potential role of novel seed-based microbiomes in determining plant traits.
Collapse
Affiliation(s)
- Birgit Mitter
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Nikolaus Pfaffenbichler
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | | | - Stéphane Compant
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Livio Antonielli
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Alexandra Petric
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Teresa Berninger
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Muhammad Naveed
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | - Raheleh Sheibani-Tezerji
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| | | | - Angela Sessitsch
- Bioresources, Center for Health & Bioresources, Austrian Institute of Technology GmbHTulln, Austria
| |
Collapse
|
992
|
Paulo SBM, Julio CD, Marcelo NVDO, Bruno CM, Arnaldo CB, Marcos RT, Julio CLN, Mauricio DC. Diversity and distribution of the endophytic fungal community in eucalyptus leaves. ACTA ACUST UNITED AC 2017. [DOI: 10.5897/ajmr2016.8353] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
|
993
|
Wemheuer F, Kaiser K, Karlovsky P, Daniel R, Vidal S, Wemheuer B. Bacterial endophyte communities of three agricultural important grass species differ in their response towards management regimes. Sci Rep 2017; 7:40914. [PMID: 28102323 PMCID: PMC5244420 DOI: 10.1038/srep40914] [Citation(s) in RCA: 62] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2016] [Accepted: 12/13/2016] [Indexed: 11/09/2022] Open
Abstract
Endophytic bacteria are critical for plant growth and health. However, compositional and functional responses of bacterial endophyte communities towards agricultural practices are still poorly understood. Hence, we analyzed the influence of fertilizer application and mowing frequency on bacterial endophytes in three agriculturally important grass species. For this purpose, we examined bacterial endophytic communities in aerial plant parts of Dactylis glomerata L., Festuca rubra L., and Lolium perenne L. by pyrotag sequencing of bacterial 16S rRNA genes over two consecutive years. Although management regimes influenced endophyte communities, observed responses were grass species-specific. This might be attributed to several bacteria specifically associated with a single grass species. We further predicted functional profiles from obtained 16S rRNA data. These profiles revealed that predicted abundances of genes involved in plant growth promotion or nitrogen metabolism differed between grass species and between management regimes. Moreover, structural and functional community patterns showed no correlation to each other indicating that plant species-specific selection of endophytes is driven by functional rather than phylogenetic traits. The unique combination of 16S rRNA data and functional profiles provided a holistic picture of compositional and functional responses of bacterial endophytes in agricultural relevant grass species towards management practices.
Collapse
Affiliation(s)
- Franziska Wemheuer
- Section of Agricultural Entomology, Department of Crop Sciences, Georg-August-University Göttingen, Grisebachstr. 6, D-37077 Göttingen, Germany
| | - Kristin Kaiser
- Department of Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, Georg-August-University Göttingen, Grisebachstr. 8, D-37077 Göttingen, Germany
| | - Petr Karlovsky
- Molecular Phytopathology and Mycotoxin Research, Department of Crop Sciences, Georg-August-University Göttingen, Grisebachstr. 6, D-37077 Göttingen, Germany
| | - Rolf Daniel
- Department of Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, Georg-August-University Göttingen, Grisebachstr. 8, D-37077 Göttingen, Germany
| | - Stefan Vidal
- Section of Agricultural Entomology, Department of Crop Sciences, Georg-August-University Göttingen, Grisebachstr. 6, D-37077 Göttingen, Germany
| | - Bernd Wemheuer
- Department of Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, Georg-August-University Göttingen, Grisebachstr. 8, D-37077 Göttingen, Germany
| |
Collapse
|
994
|
Abstract
Fungal plant pathogens are ubiquitous and highly diverse. Key to their success is high host density, which notably is the case in agroecosystems. Several hypotheses related to the effects of plant pathogens on plant diversity (the Janzen-Connell hypothesis, the dilution effect hypothesis) and the phenomenon of higher biomass in plant mixtures (i.e., overyielding) can all be explained by the quantitative interplay between host and pathogen density. In many agroecosystems, fungal plant pathogens cause great losses, since in monocultures diseased plants cannot be replaced by healthy plants. On the other hand, in natural ecosystems fungal plant pathogens shape the succession of vegetation and enhance the biodiversity of forests and grasslands. When pathogens are introduced into areas outside their natural range, they may behave differently, causing severe damage. Once introduced, changes may occur such as hybridization with other closely related pathogens or host shifts, host jumps, or horizontal gene transfer. Such changes can be hazardous for both agricultural and natural ecosystems.
Collapse
|
995
|
Chaudhry V, Sharma S, Bansal K, Patil PB. Glimpse into the Genomes of Rice Endophytic Bacteria: Diversity and Distribution of Firmicutes. Front Microbiol 2017; 7:2115. [PMID: 28105024 PMCID: PMC5215499 DOI: 10.3389/fmicb.2016.02115] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2016] [Accepted: 12/15/2016] [Indexed: 01/28/2023] Open
Affiliation(s)
- Vasvi Chaudhry
- Bacterial Genomics and Evolution Laboratory, CSIR-Institute of Microbial Technology Chandigarh, India
| | - Shikha Sharma
- Bacterial Genomics and Evolution Laboratory, CSIR-Institute of Microbial Technology Chandigarh, India
| | - Kanika Bansal
- Bacterial Genomics and Evolution Laboratory, CSIR-Institute of Microbial Technology Chandigarh, India
| | - Prabhu B Patil
- Bacterial Genomics and Evolution Laboratory, CSIR-Institute of Microbial Technology Chandigarh, India
| |
Collapse
|
996
|
Thijs S, Sillen W, Weyens N, Vangronsveld J. Phytoremediation: State-of-the-art and a key role for the plant microbiome in future trends and research prospects. INTERNATIONAL JOURNAL OF PHYTOREMEDIATION 2017; 19:23-38. [PMID: 27484694 DOI: 10.1080/15226514.2016.1216076] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Phytoremediation is increasingly adopted as a more sustainable approach for soil remediation. However, significant advances in efficiency are still necessary to attain higher levels of environmental and economic sustainability. Current interventions do not always give the expected outcomes in field settings due to an incomplete understanding of the multicomponent biological interactions. New advances in -omics are gradually implemented for studying microbial communities of polluted land in situ. This opens new perspectives for the discovery of biodegradative strains and provides us new ways of interfering with microbial communities to enhance bioremediation rates. This review presents retrospectives and future perspectives for plant microbiome studies relevant to phytoremediation, as well as some knowledge gaps in this promising research field. The implementation of phytoremediation in soil clean-up management systems is discussed, and an overview of the promoting factors that determine the growth of the phytoremediation market is given. Continuous growth is expected since elimination of contaminants from the environment is demanded. The evolution of scientific thought from a reductionist view to a more holistic approach will boost phytoremediation as an efficient and reliable phytotechnology. It is anticipated that phytoremediation will prove the most promising for organic contaminant degradation and bioenergy crop production on marginal land.
Collapse
Affiliation(s)
- Sofie Thijs
- a Centre for Environmental Sciences, Hasselt University , Diepenbeek , Belgium
| | - Wouter Sillen
- a Centre for Environmental Sciences, Hasselt University , Diepenbeek , Belgium
| | - Nele Weyens
- a Centre for Environmental Sciences, Hasselt University , Diepenbeek , Belgium
| | - Jaco Vangronsveld
- a Centre for Environmental Sciences, Hasselt University , Diepenbeek , Belgium
| |
Collapse
|
997
|
Bacterial Endophytes of Plants: Diversity, Invasion Mechanisms and Effects on the Host. SUSTAINABLE DEVELOPMENT AND BIODIVERSITY 2017. [DOI: 10.1007/978-3-319-66541-2_2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
|
998
|
Dombrowski JE, Hollenbeck VG, Martin RC. Isolation and Identification of Bacterial Endophytes from Grasses along the Oregon Coast. ACTA ACUST UNITED AC 2017. [DOI: 10.4236/ajps.2017.83040] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
|
999
|
Abstract
Plants are colonized various microorganisms including endophytes. These microbes can play an important role in agricultural production as they promote plant growth and/or enhance the resistance of their host plant against diseases and environmental stress conditions. Although culture-independent molecular approaches such as DNA barcoding have greatly enhanced our understanding of bacterial and fungal endophyte communities, there are some methodical problems when investigating endophyte diversity. One main issue are sequence contaminations such as plastid-derived rRNA gene sequences which are co-amplified due to their high homology to bacterial 16S rRNA genes. The same is true for plant and fungal ITS sequences. The application of highly specific-primers suppressing co-amplification of these sequence contaminations is a good solution for this issue. Here, we describe a detailed protocol for assessing bacterial and fungal endophyte diversity in plants using these primers in combination with next-generation sequencing.
Collapse
Affiliation(s)
- Bernd Wemheuer
- Institut für Mikrobiologie und Genetik, Georg-August-Universität Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany
| | - Franziska Wemheuer
- Institut für Mikrobiologie und Genetik, Georg-August-Universität Göttingen, Grisebachstr. 8, 37077, Göttingen, Germany.
| |
Collapse
|
1000
|
Yang L, Danzberger J, Schöler A, Schröder P, Schloter M, Radl V. Dominant Groups of Potentially Active Bacteria Shared by Barley Seeds become Less Abundant in Root Associated Microbiome. FRONTIERS IN PLANT SCIENCE 2017; 8:1005. [PMID: 28663753 PMCID: PMC5471333 DOI: 10.3389/fpls.2017.01005] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 05/26/2017] [Indexed: 05/19/2023]
Abstract
Endophytes are microorganisms colonizing plant internal tissues. They are ubiquitously associated with plants and play an important role in plant growth and health. In this work, we grew five modern cultivars of barley in axenic systems using sterile sand mixture as well as in greenhouse with natural soil. We characterized the potentially active microbial communities associated with seeds and roots using rRNA based amplicon sequencing. The seeds of the different cultivars share a great part of their microbiome, as we observed a predominance of a few bacterial OTUs assigned to Phyllobacterium, Paenibacillus, and Trabusiella. Seed endophytes, particularly members of the Enterobacteriacea and Paenibacillaceae, were important members of root endophytes in axenic systems, where there were no external microbes. However, when plants were grown in soil, seed endophytes became less abundant in root associated microbiome. We observed a clear enrichment of Actinobacteriacea and Rhizobiaceae, indicating a strong influence of the soil bacterial communities on the composition of the root microbiome. Two OTUs assigned to Phyllobacteriaceae were found in all seeds and root samples growing in soil, indicating a relationship between seed-borne and root associated microbiome in barley. Even though the role of endophytic bacteria remains to be clarified, it is known that many members of the genera detected in our study produce phytohormones, shape seedling exudate profile and may play an important role in germination and establishment of the seedlings.
Collapse
|