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Rammali S, Kamal FZ, El Aalaoui M, Bencharki B, Burlui V, Khattabi A, Abderrahim A, Saad S, Romila L, Novac B, Aitlhaj-Mhand R, Petroaie AD, Ciobică A. In vitro antimicrobial and antioxidant activities of bioactive compounds extracted from Streptomyces africanus strain E2 isolated from Moroccan soil. Sci Rep 2024; 14:27372. [PMID: 39521814 PMCID: PMC11550811 DOI: 10.1038/s41598-024-77729-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2024] [Accepted: 10/24/2024] [Indexed: 11/16/2024] Open
Abstract
This study aimed to isolate Streptomyces sp. from Moroccan terrestrial ecosystems and identify bioactive compounds through GC-MS analysis. Antimicrobial activity was assessed against various pathogenic microorganisms including Staphylococcus aureus ATCC 25923, Pseudomonas aeruginosa ATCC 27853, Escherichia coli ATCC 25922 and Candida albicans ATCC 60193, and multi-drug resistant strains comprising Listeria monocytogenes, Klebsiella pneumoniae 19K 929, Proteus sp. 19K1313, Klebsiella pneumoniae 20B1572, Proteus vulgaris 16C1737, and Klebsiella pneumoniae 20B1572. Based on the results of the gene sequencing of gene 16S rRNA and phylogenetic analysis, the E2 isolate belongs to the genus Streptomyces with the highest degree of resemblance (97.51%) to the Streptomyces africanus strain NBRC 101005 (NR_112600.1). The isolate exhibited broad-spectrum antibacterial activity, with maximum efficacy against Klebsiella pneumoniae 20B1572 indicated by an inhibition zone diameter of 22.5 ± 0.71mm and a minimum inhibitory concentration (MIC) of 0.0625 mg/mL. The in vitro antioxidant potential of E2 strain was determined through screening of its ethyl acetate extract against sets of antioxidant assays. The results were indicative of E2 strain displaying strong antioxidant activity against ABTS, DPPH free radicals, and FRAP. Furthermore, there was a high significant correlation (p < 0.0001) between the total phenolic and flavonoid content and antioxidant activities. The GC-MS analysis of the extract identified six volatile compounds, with Eugenol (96%) and Maltol (93%) being the most prominent. Additionally, the HPLC-UV/vis analysis revealed six phenolic compounds: gallic acid, chlorogenic acid, vanillic acid, trans-ferulic acid, ellagic acid, and cinnamic acid. Overall, the study highlights Streptomyces sp. strain E2 as a potential source of potent antimicrobial and antioxidant metabolites, offering promise in addressing antibiotic resistance and oxidative stress-related conditions.
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Affiliation(s)
- Said Rammali
- Laboratory of Agro-Alimentary and Health, Faculty of Sciences and Techniques, Hassan First University of Settat, B.P. 539, 26000, Settat, Morocco
| | - Fatima Zahra Kamal
- Higher Institute of Nursing Professions and Health Technical (ISPITS), 40000, Marrakech, Morocco
- Laboratory of Physical Chemistry of Processes and Materials, Faculty of Sciences and Techniques, Hassan First University, 26000, Settat, Morocco
| | - Mohamed El Aalaoui
- Regional Center of Agronomic Research of Settat, Tertiary Road 1406, At 5 Km from Settat, 26400, Settat, Morocco
| | - Bouchaib Bencharki
- Laboratory of Agro-Alimentary and Health, Faculty of Sciences and Techniques, Hassan First University of Settat, B.P. 539, 26000, Settat, Morocco
| | - Vasile Burlui
- Department of Biomaterials, Faculty of Dental Medicine, Apollonia University, 700511, Iasi, Romania
| | - Abdelkrim Khattabi
- Laboratory of Agro-Alimentary and Health, Faculty of Sciences and Techniques, Hassan First University of Settat, B.P. 539, 26000, Settat, Morocco
| | - Aasfar Abderrahim
- Plant and Microbial Biotechnology Center, Moroccan Foundation for Advanced Science, Innovation and Research (MAScIR), Mohammed VI Polytechnic University, Ben Guerir, Morocco
| | - Salhi Saad
- Laboratory of Biochemistry, Neurosciences, Natural Ressources and Environment, Faculty of Sciences and Techniques, Hassan First University of Settat, B.P. 539, 26000, Settat, Morocco
| | - Laura Romila
- Apollonia University, Păcurari Street 11, 700511, Iasi, Romania.
| | - Bogdan Novac
- Grigore T. Popa University of Medicine and Pharmacy, 16, Universitatii Street, 700115, Iasi, Romania
| | | | - Antoneta Dacia Petroaie
- Grigore T. Popa University of Medicine and Pharmacy, 16, Universitatii Street, 700115, Iasi, Romania
| | - Alin Ciobică
- Department of Biology, Faculty of Biology, Alexandru Ioan Cuza University of Iasi, 20th Carol I Avenue, 700506, Iasi, Romania
- Academy of Romanian Scientists, 3 Ilfov, 050044, Bucharest, Romania
- Clinical Department, Apollonia University, Păcurari Street 11, 700511, Iasi, Romania
- CENEMED Platform for Interdisciplinary Research, "Grigore T. Popa" University of Medicine and Pharmacy of Iasi, 16th Universitatii Street, 700115, Iasi, Romania
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Genetic Diversity and Anti-Oxidative Potential of Streptomyces spp. Isolated from Unexplored Niches of Meghalaya, India. Curr Microbiol 2022; 79:379. [DOI: 10.1007/s00284-022-03088-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2021] [Accepted: 10/11/2022] [Indexed: 11/06/2022]
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Wang Y, Ma L, Liu Z, Chen J, Song H, Wang J, Cui H, Yang Z, Xiao S, Liu K, An L, Chen S. Microbial interactions play an important role in regulating the effects of plant species on soil bacterial diversity. Front Microbiol 2022; 13:984200. [PMID: 36187969 PMCID: PMC9521175 DOI: 10.3389/fmicb.2022.984200] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Accepted: 08/12/2022] [Indexed: 11/29/2022] Open
Abstract
Plant species and microbial interactions have significant impacts on the diversity of bacterial communities. However, few studies have explored interactions among these factors, such the role of microbial interactions in regulating the effects of plant species on soil bacterial diversity. We assumed that plant species not only affect bacterial community diversity directly, but also influence bacterial community diversity indirectly through changing microbial interactions. Specifically, we collected soil samples associated with three different plant species, one evergreen shrub (Rhododendron simsii) and the other two deciduous shrubs (Dasiphora fruticosa and Salix oritrepha). Soil bacterial community composition and diversity were examined by high-throughput sequencing. Moreover, soil bacterial antagonistic interactions and soil edaphic characteristics were evaluated. We used structural equation modeling (SEM) to disentangle and compare the direct effect of different plant species on soil bacterial community diversity, and their indirect effects through influence on soil edaphic characteristics and microbial antagonistic interactions. The results showed that (1) Plant species effects on soil bacterial diversity were significant; (2) Plant species effects on soil microbial antagonistic interactions were significant; and (3) there was not only a significant direct plant species effect on bacterial diversity, but also a significant indirect effect on bacterial diversity through influence on microbial antagonistic interactions. Our study reveals the difference among plant species in their effects on soil microbial antagonistic interactions and highlights the vital role of microbial interactions on shaping soil microbial community diversity.
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Affiliation(s)
- Yajun Wang
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
| | - Lan Ma
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Ziyang Liu
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Jingwei Chen
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Hongxian Song
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
| | - Jiajia Wang
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
| | - Hanwen Cui
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Zi Yang
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
| | - Sa Xiao
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Kun Liu
- College of Ecology, Lanzhou University, Lanzhou, Gansu, China
| | - Lizhe An
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
| | - Shuyan Chen
- School of Life Sciences, Lanzhou University, Lanzhou, Gansu, China
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Fahmy NM, Abdel-Tawab AM. Isolation and characterization of marine sponge-associated Streptomyces sp. NMF6 strain producing secondary metabolite(s) possessing antimicrobial, antioxidant, anticancer, and antiviral activities. J Genet Eng Biotechnol 2021; 19:102. [PMID: 34264405 PMCID: PMC8281025 DOI: 10.1186/s43141-021-00203-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Accepted: 06/30/2021] [Indexed: 12/24/2022]
Abstract
Background Actinomycetes associated with marine sponge represent a promising source of bioactive compounds. Herein, we report the isolation, identification, and bioactivity evaluation of Streptomyces sp. NMF6 associated with the marine sponge Diacarnus ardoukobae. Results Results showed that the strain belonged to the genus Streptomyces, and it was designated as Streptomyces sp. NMF6 with the GenBank accession number MW015111. Ethyl acetate (EtOAc) extract of the strain NMF6 demonstrated a promising antimicrobial activity against Staphylococcus aureus, Enterococcus faecalis, Vibrio damsela, and Candida albicans and a strong antioxidant activity, which were confirmed by DPPH, ferric-reducing power, and phosphomolybdenum assays; results are expressed as ascorbic acid equivalents. NMF6 extract also demonstrated cytotoxicity against breast cancer cell line (MCF-7), hepatocellular carcinoma cell line (Hep-G2), and human colon carcinoma cell line (HCT-116); the selectivity index values were < 2. The extract showed promising antiviral activity against HSV-1, CoxB4, and hepatitis A viruses at concentrations that were nontoxic to the host cells, with the selectivity index values being 13.25, 9.42, and 8.25, respectively. GC-MS analysis of the extract showed the presence of 20 compounds, with bis(2-ethylhexyl) phthalate being the major component (48%). Conclusions Our study indicates that the marine sponge–associated Streptomyces sp. NMF6 strain is a potential source of bioactive compounds that could be developed into therapeutic agents.
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Affiliation(s)
- Nayer Mohamed Fahmy
- Marine Microbiology Laboratory, National Institute of Oceanography and Fisheries, Cairo, Egypt.
| | - Asmaa Mohamed Abdel-Tawab
- Marine Biotechnology and Natural Products Laboratory, National Institute of Oceanography and Fisheries, Cairo, Egypt
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Gieske MF, Kinkel LL. Long-term nitrogen addition in maize monocultures reduces in vitro inhibition of actinomycete standards by soil-borne actinomycetes. FEMS Microbiol Ecol 2021; 96:5898669. [PMID: 32857848 DOI: 10.1093/femsec/fiaa181] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2020] [Accepted: 08/25/2020] [Indexed: 12/15/2022] Open
Abstract
Management of soil microbial communities for enhanced crop disease suppression is an attractive approach to biocontrol, but the effects of agricultural practices on the disease-suppressive potential of the soil microbial community remain unknown. We investigated the effects of long-term nitrogen addition (103 kg ha-1 nitrogen as urea vs. no fertilizer) and crop residue incorporation vs. removal on in vitro antibiotic inhibitory capacities of actinomycetes from 57-year maize (Zea mays L.) monocultures in southeastern Minnesota. We hypothesized that both nitrogen and crop residue addition would increase inhibitor frequencies by increasing microbial population densities and thus increasing the importance of competitive interactions among microbes to their fitness. We found that although soil carbon and nitrogen and microbial densities (actinomycete and total colony-forming units) tended to be greater with nitrogen fertilizer, the frequency of in vitro inhibitory phenotypes among culturable actinomycetes in fertilized plots was approximately half that in non-fertilized plots. Residue incorporation had little to no effect on soil chemistry, microbial density and inhibitor frequency. These results suggest that density-mediated processes alone cannot explain the effects of amendments on inhibitor frequencies. Fitness costs and benefits of inhibitory phenotypes may vary over time and may depend on the type of resource amendment.
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Affiliation(s)
- Miriam F Gieske
- Division of Science and Mathematics, University of Minnesota Morris, 600 East 4th St, Morris MN 56267, USA
| | - Linda L Kinkel
- Department of Plant Pathology, University of Minnesota, 495 Borlaug Hall, 1991 Upper Buford Circle, St. Paul, MN 55108, USA
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Otto-Hanson LK, Kinkel LL. Densities and inhibitory phenotypes among indigenous Streptomyces spp. vary across native and agricultural habitats. MICROBIAL ECOLOGY 2020; 79:694-705. [PMID: 31656973 DOI: 10.1007/s00248-019-01443-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Accepted: 09/20/2019] [Indexed: 06/10/2023]
Abstract
Streptomyces spp. perform vital roles in natural and agricultural soil ecosystems including in decomposition and nutrient cycling, promotion of plant growth and fitness, and plant disease suppression. Streptomyces densities can vary across the landscape, and inhibitory phenotypes are often a result of selection mediated by microbial competitive interactions in soil communities. Diverse environmental factors, including those specific to habitat, are likely to determine microbial densities in the soil and the outcomes of microbial species interactions. Here, we characterized indigenous Streptomyces densities and inhibitory phenotypes from soil samples (n = 82) collected in 6 distinct habitats across the Cedar Creek Ecosystem Science Reserve (CCESR; agricultural, prairie, savanna, wetland, wet-woodland, and forest). Significant variation in Streptomyces density and the frequency of antagonistic Streptomyces were observed among habitats. There was also significant variation in soil chemical properties among habitats, including percent carbon, percent nitrogen, available phosphorus, extractable potassium, and pH. Density and frequency of antagonists were significantly correlated with one or more environmental parameters across all habitats, though relationships with some parameters differed among habitats. In addition, we found that habitat rather than spatial proximity was a better predictor of variation in Streptomyces density and inhibitory phenotypes. Moreover, habitats least conducive for Streptomyces growth and proliferation, as determined by population density, had increased frequencies of inhibitory phenotypes. Identifying environmental parameters that structure variation in density and frequency of antagonistic Streptomyces can provide insight for determining factors that mediate selection for inhibitory phenotypes across the landscape.
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Affiliation(s)
- L K Otto-Hanson
- University of Minnesota-Twin Cities, 1991 Upper Buford Circle, 495 Borlaug Hall, Saint Paul, MN, 55108, USA.
| | - L L Kinkel
- University of Minnesota-Twin Cities, 1991 Upper Buford Circle, 495 Borlaug Hall, Saint Paul, MN, 55108, USA
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Carpentieri-Pipolo V, de Almeida Lopes KB, Degrassi G. Phenotypic and genotypic characterization of endophytic bacteria associated with transgenic and non-transgenic soybean plants. Arch Microbiol 2019; 201:1029-1045. [PMID: 31111187 DOI: 10.1007/s00203-019-01672-6] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2018] [Revised: 04/29/2019] [Accepted: 05/06/2019] [Indexed: 02/03/2023]
Abstract
Endophytic bacteria isolated from non-transgenic and transgenic Roundup Ready® glyphosate-resistant (GR) soybean plants were investigated to analyze the correspondence between phenotypic and genotypic characteristics and to determine whether or not the strains could be grouped based on the source of isolation in transgenic or non-transgenic plants, respectively. Most of the strains recovered from GR plants have shown the ability for plant growth promotion (PGP) by means of IAA production and inorganic phosphate solubilization, and 100% of the strains showed great motility (swarm or swim); in addition, 90% of the strains were able to metabolize the majority of carbon sources tested. GR soybean fields showed higher endophytes abundance than non-transgenic; however, analyzing the phylogenetic trees constructed using the partial 16SrRNA gene sequences, higher diversity was observed in non-transgenic soybean fields. Overall the majority of isolated endophytes could utilize multiple patterns of carbon sources and express resistance to antibiotics, while isolates varied widely in the PGP ability. The greater pattern and frequency of utilization of carbon sources and frequency and intensity of antibiotic resistance compared with PGP ability within the soybean endophytes community suggest that carbon sources metabolism and antibiotic resistance confer a greater relative fitness benefit than PGP ability. In conclusion, cluster analysis of the phenotypes and 16SrRNA gene sequences reveals lack of correspondence between the pattern of bacterial isolates and the transgenic character of plants, and the heterogeneity of clustering suggested that various adaptive processes, such as stress response, could have contributed to generate phenotypic variability to enhance endophytes overall fitness.
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Affiliation(s)
| | - Karla Bianca de Almeida Lopes
- Agronomy Department, Londrina State University, Rodovia Celso Garcia Cid, Pr 445 km 380, PO Box 10.011, Londrina, PR, 86057-970, Brazil
| | - Giuliano Degrassi
- IBioBA-ICGEB, International Centre for Genetic Engineering and Biotechnology, Polo Cientifico Tecnologico, Godoy Cruz 2390, C1425FQD, Buenos Aires, Argentina.
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Tan LTH, Chan KG, Pusparajah P, Yin WF, Khan TM, Lee LH, Goh BH. Mangrove derived Streptomyces sp. MUM265 as a potential source of antioxidant and anticolon-cancer agents. BMC Microbiol 2019; 19:38. [PMID: 30760201 PMCID: PMC6375222 DOI: 10.1186/s12866-019-1409-7] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2018] [Accepted: 01/31/2019] [Indexed: 01/11/2023] Open
Abstract
Background Colon cancer is the third most commonly diagnosed cancer worldwide, with a commensurately high mortality rate. The search for novel antioxidants and specific anticancer agents which may inhibit, delay or reverse the development of colon cancer is thus an area of great interest; Streptomyces bacteria have been demonstrated to be a source of such agents. Results The extract from Streptomyces sp. MUM265— a strain which was isolated and identified from Kuala Selangor mangrove forest, Selangor, Malaysia— was analyzed and found to exhibit antioxidant properties as demonstrated via metal-chelating ability as well as superoxide anion, DPPH and ABTS radical scavenging activities. This study also showed that MUM265 extract demonstrated cytotoxicity against colon cancer cells as evidenced by the reduced cell viability of Caco-2 cell line. Treatment with MUM265 extract induced depolarization of mitochondrial membrane potential and accumulation of subG1 cells in cell cycle analysis, suggesting that MUM265 exerted apoptosis-inducing effects on Caco-2 cells. Conclusion These findings indicate that mangrove derived Streptomyces sp. MUM265 represents a valuable bioresource of bioactive compounds for the future development of chemopreventive agents, with particular promise suggested for treatment of colon cancer. Electronic supplementary material The online version of this article (10.1186/s12866-019-1409-7) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Loh Teng-Hern Tan
- Institute of Biomedical and Pharmaceutical Sciences, Guangdong University of Technology, Guangzhou, 510006, People's Republic of China.,Biofunctional Molecule Exploratory (BMEX) Research Group, School of Pharmacy, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia.,Novel Bacteria and Drug Discovery (NBDD) Research Group, Microbiome and Bioresource Research Strength, Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Kok-Gan Chan
- International Genome Centre, Jiangsu University, Zhenjiang, China. .,Division of Genetics and Molecular Biology, Faculty of Science, Institute of Biological Sciences, University of Malaya, Kuala Lumpur, Malaysia.
| | - Priyia Pusparajah
- Medical Health and Translational Research Group, Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Wai-Fong Yin
- Division of Genetics and Molecular Biology, Faculty of Science, Institute of Biological Sciences, University of Malaya, Kuala Lumpur, Malaysia
| | - Tahir Mehmood Khan
- Institute of Biomedical and Pharmaceutical Sciences, Guangdong University of Technology, Guangzhou, 510006, People's Republic of China.,Biofunctional Molecule Exploratory (BMEX) Research Group, School of Pharmacy, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia.,Medical Health and Translational Research Group, Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Learn-Han Lee
- Novel Bacteria and Drug Discovery (NBDD) Research Group, Microbiome and Bioresource Research Strength, Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia. .,Institute of Pharmaceutical Science, University of Veterinary and Animal Science, Lahore, Pakistan. .,Center of Health Outcomes Research and Therapeutic Safety (Cohorts), School of Pharmaceutical Sciences, University of Phayao, Phayao, Thailand.
| | - Bey-Hing Goh
- Biofunctional Molecule Exploratory (BMEX) Research Group, School of Pharmacy, Monash University Malaysia, 47500, Bandar Sunway, Selangor Darul Ehsan, Malaysia. .,Institute of Pharmaceutical Science, University of Veterinary and Animal Science, Lahore, Pakistan. .,Center of Health Outcomes Research and Therapeutic Safety (Cohorts), School of Pharmaceutical Sciences, University of Phayao, Phayao, Thailand.
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Tree species effects on pathogen-suppressive capacities of soil bacteria across two tropical dry forests in Costa Rica. Oecologia 2016; 182:789-802. [PMID: 27573616 DOI: 10.1007/s00442-016-3702-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Accepted: 08/08/2016] [Indexed: 10/21/2022]
Abstract
Antibiotic-producing bacteria in the genus Streptomyces can inhibit soil-borne plant pathogens, and have the potential to mediate the impacts of disease on plant communities. Little is known about how antibiotic production varies among soil communities in tropical forests, despite a long history of interest in the role of soil-borne pathogens in these ecosystems. Our objective was to determine how tree species and soils influence variation in antibiotic-mediated pathogen suppression among Streptomyces communities in two tropical dry forest sites (Santa Rosa and Palo Verde). We targeted tree species that co-occur in both sites and used a culture-based functional assay to quantify pathogen-suppressive capacities of Streptomyces communities beneath 50 focal trees. We also measured host-associated litter and soil element concentrations as potential mechanisms by which trees may influence soil microbes. Pathogen-suppressive capacities of Streptomyces communities varied within and among tree species, and inhibitory phenotypes were significantly related to soil and litter element concentrations. Average proportions of inhibitory Streptomyces in soils from the same tree species varied between 1.6 and 3.3-fold between sites. Densities and proportions of pathogen-suppressive bacteria were always higher in Santa Rosa than Palo Verde. Our results suggest that spatial heterogeneity in the potential for antibiotic-mediated disease suppression is shaped by tree species, site, and soil characteristics, which could have significant implications for understanding plant community composition and diversity in tropical dry forests.
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Schlatter DC, Kinkel LL. Do tradeoffs structure antibiotic inhibition, resistance, and resource use among soil-borne Streptomyces? BMC Evol Biol 2015; 15:186. [PMID: 26370703 PMCID: PMC4570699 DOI: 10.1186/s12862-015-0470-6] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2015] [Accepted: 08/27/2015] [Indexed: 01/01/2023] Open
Abstract
Background Tradeoffs among competing traits are believed to be crucial to the maintenance of diversity in complex communities. The production of antibiotics to inhibit competitors and resistance to antibiotic inhibition are two traits hypothesized to be critical to microbial fitness in natural habitats, yet data on costs or tradeoffs associated with these traits are limited. In this work we characterized tradeoffs between antibiotic inhibition or resistance capacities and growth efficiencies or niche widths for a broad collection of Streptomyces from soil. Results Streptomyces isolates tended to have either very little or very high inhibitory capacity. In contrast, Streptomyces isolates were most commonly resistant to antibiotic inhibition by an intermediate number of other isolates. Streptomyces with either very high antibiotic inhibitory or resistance capacities had less efficient growth and utilized a smaller number of resources for growth (smaller niche width) than those with low inhibition or resistance capacities, suggesting tradeoffs between antibiotic inhibitory or resistance and resource use phenotypes. Conclusions This work suggests that life-history tradeoffs may be crucial to the maintenance of the vast diversity of antibiotic inhibitory and resistance phenotypes found among Streptomyces in natural communities. Electronic supplementary material The online version of this article (doi:10.1186/s12862-015-0470-6) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Daniel C Schlatter
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, MN, 55108, USA
| | - Linda L Kinkel
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, MN, 55108, USA.
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Sun P, Zhao X, Shangguan N, Chang D, Ma Q. The roles of inoculants’ carbon source use in the biocontrol of potato scab disease. Can J Microbiol 2015; 61:257-62. [DOI: 10.1139/cjm-2014-0655] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Despite the application of multiple strains in the biocontrol of plant diseases, multistrain inoculation is still constrained by its inconsistency in the field. Nutrients, especially carbons, play an important role in the biocontrol processes. However, little work has been done on the systematic estimation of inoculants’ carbon source use on biocontrol efficacies in vivo. In the present study, 7 nonpathogenic Streptomyces strains alone and in different combinations were inoculated as biocontrol agents against the potato scab disease, under field conditions and greenhouse treatments. The influence of the inoculants’ carbon source use properties on biocontrol efficacies was investigated. The results showed that increasing the number of inoculated strains did not necessarily result in greater biocontrol efficacy in vivo. However, single strains with higher growth rates or multiple strains with less carbon source competition had positive effects on the biocontrol efficacies. These findings may shed light on optimizing the consistent biocontrol of plant disease with the consideration of inoculants’ carbon source use properties.
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Affiliation(s)
- Pingping Sun
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
| | - Xinbei Zhao
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
| | - Nini Shangguan
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
| | - Dongwei Chang
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
| | - Qing Ma
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
- State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, Shaanxi 712100, People’s Republic of China
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Schlatter DC, Bakker MG, Bradeen JM, Kinkel LL. Plant community richness and microbial interactions structure bacterial communities in soil. Ecology 2015; 96:134-42. [DOI: 10.1890/13-1648.1] [Citation(s) in RCA: 143] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Affiliation(s)
- Daniel C. Schlatter
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, Minnesota 55108 USA
| | - Matthew G. Bakker
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, Minnesota 55108 USA
| | - James M. Bradeen
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, Minnesota 55108 USA
| | - Linda L. Kinkel
- Department of Plant Pathology, University of Minnesota, 1991 Upper Buford Circle, Saint Paul, Minnesota 55108 USA
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Schlatter DC, Kinkel LL. Global biogeography ofStreptomycesantibiotic inhibition, resistance, and resource use. FEMS Microbiol Ecol 2014; 88:386-97. [DOI: 10.1111/1574-6941.12307] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2013] [Revised: 01/10/2014] [Accepted: 02/13/2014] [Indexed: 11/27/2022] Open
Affiliation(s)
| | - Linda L. Kinkel
- Department of Plant Pathology; University of Minnesota; Saint Paul MN USA
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14
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Bakker MG, Schlatter DC, Otto-Hanson L, Kinkel LL. Diffuse symbioses: roles of plant-plant, plant-microbe and microbe-microbe interactions in structuring the soil microbiome. Mol Ecol 2013; 23:1571-1583. [DOI: 10.1111/mec.12571] [Citation(s) in RCA: 110] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2013] [Revised: 09/20/2013] [Accepted: 09/20/2013] [Indexed: 11/28/2022]
Affiliation(s)
- Matthew G. Bakker
- Center for Rhizosphere Biology; Colorado State University; Fort Collins CO 80523-1173 USA
| | - Daniel C. Schlatter
- Department of Plant Pathology; University of Minnesota; Saint Paul MN 55108 USA
| | - Lindsey Otto-Hanson
- Department of Plant Pathology; University of Minnesota; Saint Paul MN 55108 USA
| | - Linda L. Kinkel
- Department of Plant Pathology; University of Minnesota; Saint Paul MN 55108 USA
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15
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Messis A, Bettache A, Brahami A, Kecha M, Benallaoua S. Optimization of antifungal production from a novel strain Streptomyces sp. TKJ2 using response surface methodology. Med Chem Res 2013. [DOI: 10.1007/s00044-013-0627-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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16
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Otto-Hanson LK, Grabau Z, Rosen C, Salomon CE, Kinkel LL. Pathogen variation and urea influence selection and success of Streptomyces mixtures in biological control. PHYTOPATHOLOGY 2013; 103:34-42. [PMID: 23035630 DOI: 10.1094/phyto-06-12-0129-r] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Success in biological control of plant diseases remains inconsistent in the field. A collection of well-characterized Streptomyces antagonists (n = 19 isolates) was tested for their capacities to inhibit pathogenic Streptomyces scabies (n = 15 isolates). There was significant variation among antagonists in ability to inhibit pathogen isolates and among pathogens in their susceptibility to inhibition. Only one antagonist could inhibit all pathogens, and antagonist-pathogen interactions were highly specific, highlighting the limitations of single-strain inoculum in biological control. However, the collection of pathogens could be inhibited by several combinations of antagonists, suggesting the potential for successful antagonist mixtures. Urea generally increased effectiveness of antagonists at inhibiting pathogens in vitro (increased mean inhibition zones) but its specific effects varied among antagonist-pathogen combinations. In greenhouse trials, urea enhanced the effectiveness of antagonist mixtures relative to individual antagonists in controlling potato scab. Although antagonist mixtures were frequently antagonistic in the absence of urea, all n= 2 and n = 3 antagonist-isolate combinations were synergistic in the presence of urea. This work provides insights into the efficacy of single- versus multiple-strain inocula in biological control and on the potential for nutrients to influence mixture success.
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Affiliation(s)
- L K Otto-Hanson
- Department of Plant Pathology, University of Minnesota, St. Paul 55108, USA.
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17
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Distinct growth strategies of soil bacteria as revealed by large-scale colony tracking. Appl Environ Microbiol 2011; 78:1345-52. [PMID: 22194284 DOI: 10.1128/aem.06585-11] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Our understanding of microbial ecology has been significantly furthered in recent years by advances in sequencing techniques, but comprehensive surveys of the phenotypic characteristics of environmental bacteria remain rare. Such phenotypic data are crucial for understanding the microbial strategies for growth and the diversity of microbial ecosystems. Here, we describe a high-throughput measurement of the growth of thousands of bacterial colonies using an array of flat-bed scanners coupled with automated image analysis. We used this system to investigate the growth properties of members of a microbial community from untreated soil. The system provides high-quality measurements of the number of CFU, colony growth rates, and appearance times, allowing us to directly study the distribution of these properties in mixed environmental samples. We find that soil bacteria display a wide range of growth strategies which can be grouped into several clusters that cannot be reduced to any of the classical dichotomous divisions of soil bacteria, e.g., into copiotophs and oligotrophs. We also find that, at early times, cells are most likely to form colonies when other, nearby colonies are present but not too dense. This maximization of culturability at intermediate plating densities suggests that the previously observed tendency for high density to lead to fewer colonies is partly offset by the induction of colony formation caused by interactions between microbes. These results suggest new types of growth classification of soil bacteria and potential effects of species interactions on colony growth.
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18
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Antimicrobial potentiality of a halophilic strain of Streptomyces sp. VPTSA18 isolated from the saltpan environment of Vedaranyam, India. ANN MICROBIOL 2011. [DOI: 10.1007/s13213-011-0345-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022] Open
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19
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Rapid and specific method for evaluating Streptomyces competitive dynamics in complex soil communities. Appl Environ Microbiol 2010; 76:2009-12. [PMID: 20080993 DOI: 10.1128/aem.02320-09] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Quantifying target microbial populations in complex communities remains a barrier to studying species interactions in soil environments. Quantitative PCR (qPCR) assays were developed for quantifying pathogenic Streptomyces scabiei and antibiotic-producing Streptomyces lavendulae strains in complex soil communities. This assay will be useful for evaluating the competitive dynamics of streptomycetes in soil.
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20
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Schlatter D, Fubuh A, Xiao K, Hernandez D, Hobbie S, Kinkel L. Resource amendments influence density and competitive phenotypes of Streptomyces in soil. MICROBIAL ECOLOGY 2009; 57:413-420. [PMID: 18704556 DOI: 10.1007/s00248-008-9433-4] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2008] [Revised: 07/09/2008] [Accepted: 07/14/2008] [Indexed: 05/26/2023]
Abstract
Carbon from plant rhizospheres is a source of energy for soil microbial communities in native habitats. Soil amendments have been used as a means for deliberately altering soil community composition in agricultural soils to enhance plant health. However, little information is available in agricultural or natural soils on how specific carbon compounds or quantities influence soil microbial communities. Streptomyces are important soil saprophytes noted for their ability to produce antibiotics and influence plant health. To explore how specific types and amounts of carbon compounds influence Streptomyces in soil, glucose, cellulose, and lignin were added alone and in combination with six other carbon substrates of varying complexity to mesocosms of native prairie soil for 9 months at amounts equivalent to natural inputs from plants. Estimated culturable population densities, antibiotic inhibitory phenotypes, and resource utilization profiles were examined for Streptomyces communities from each treatment. The type and quantity of carbon compounds influenced densities, proportions, antibiotic phenotypes, and substrate utilization profiles of Streptomyces. Cellulose and lignin inputs produced the largest Streptomyces densities. Also, Streptomyces communities receiving high-resource inputs were more inhibitory whereas those receiving low-resource inputs used substrates more efficiently. Knowledge of how the availability and quantity of particular carbon compounds influences Streptomyces communities and their function, specifically resource use and inhibitory phenotypes, may be helpful in understanding the roles of resource availability in Streptomyces community dynamics and the potential of Streptomyces to suppress pathogens and enhance plant fitness in native and agricultural soils.
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Affiliation(s)
- Daniel Schlatter
- Deparment of Plant Pathology, University of Minnesota, St Paul, MN 55108, USA
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21
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Haesler F, Hagn A, Frommberger M, Hertkorn N, Schmitt-Kopplin P, Munch JC, Schloter M. In vitro antagonism of an actinobacterial Kitasatospora isolate against the plant pathogen Phytophthora citricola as elucidated with ultrahigh resolution mass spectrometry. J Microbiol Methods 2008; 75:188-95. [PMID: 18588924 DOI: 10.1016/j.mimet.2008.05.028] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2008] [Revised: 05/29/2008] [Accepted: 05/29/2008] [Indexed: 11/19/2022]
Abstract
Many soil microorganisms antagonistic to soil borne plant pathogens are well known for their ability to control diseases in situ. A variety of substances, like lytic enzymes, siderophores and antibiotics, produced by these organisms have the potential to protect roots against pathogens. Understanding the ecology and a functional assessment of antagonistic microbial communities in soil requires in-depth knowledge of the mechanisms involved in these interactions, a challenging task in complex systems if low-resolution methods are applied. We propose an information-rich strategy of general relevance, composed of adequate preconcentration in conjunction with ultrahigh resolution ion cyclotron resonance Fourier transform mass spectrometry (ICR-FT/MS) and nuclear magnetic resonance (NMR) spectroscopy to identify any bioactive substances in complex systems. This approach is demonstrated on the specific example of substance identification considered responsible for in vitro antagonism of an actinobacterial antagonist isolated from European beech (Fagus sylvatica) rhizosphere soil against the oomycetous root rot pathogen Phytophthora citricola. The isolate belonging to the genus Kitasatospora exhibited strong antibiosis against the oomycete in vitro. The bioactive substance was observed to exhibit a molar mass of 281.1699 g/mol in positive electrospray ionization mass spectra, and the high mass accuracy of the ICR-FT/MS measurements allowed a precise assignment of a molecular formula that was found identical to the macrolide polyketide cycloheximide C(15)H(23)NO(4)+H(+); its identity was then unequivocally confirmed by the information-rich atomic signature of proton NMR spectroscopy. In conclusion, the combination of the near orthogonal methods (pre)fractionation, ultrahigh-resolution ICR-FT mass spectrometry (yielding molecular and MS(n) fragment signatures) and nuclear magnetic resonance spectroscopy (providing atomic signatures) has been found capable of identifying a biocontrol active compound of Kitasatospora active against Phytophthora citricola expediently, quickly, and accurately. This straightforward approach is of general applicability to elucidate biocontrol mechanisms in any complex system with improved efficiency.
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Affiliation(s)
- Felix Haesler
- Department of Terrestrial Ecogenetics, Institute of Soil Ecology, Helmholtz Zentrum München - German Research Center for Environmental Health (GmbH), Germany.
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22
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Farris MH, Olson JB. Detection of Actinobacteria cultivated from environmental samples reveals bias in universal primers. Lett Appl Microbiol 2007; 45:376-81. [PMID: 17897379 DOI: 10.1111/j.1472-765x.2007.02198.x] [Citation(s) in RCA: 61] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
AIMS The aims of this study were to develop media to cultivate actinomycetes, screen the resulting isolates with Actinobacteria-specific primers, and examine the efficacy of detection of the actinobacterial isolates with universal primers. METHODS AND RESULTS Soil-extract medium was developed for a terrestrial bluff environment. Recovered isolates were subjected to polymerase chain reaction (PCR) with taxon-specific primers to identify Actinobacteria. Universal bacterial primers 24f and 1492r (modified and original versions) were used to amplify the 16S rRNA gene from the putative Actinobacteria. While both reverse primers failed to provide amplification products from 20% to 50% of the isolates, the 1492r primer detected Actinobacteria more effectively than 1492r-mod. The region of the gene containing the annealing site for the 1492r primers from 15 isolates that failed to amplify showed no differences in nucleotide sequence to the original 1492r primer. CONCLUSIONS Universal 16S rRNA gene primers are not capable of amplifying this gene from all bacteria within an environmental sample. Some Actinobacteria may share 100% sequence similarity to universal primers but remain undetected. SIGNIFICANCE AND IMPACT OF THE STUDY These findings are important for studies of particular taxa in environmental samples where reactions utilizing universal primers may not reveal the extent of their presence and diversity.
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Affiliation(s)
- M H Farris
- Department of Biological Sciences, The University of Alabama, Tuscaloosa, Alabama 35487, USA
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23
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Poulsen M, Erhardt DP, Molinaro DJ, Lin TL, Currie CR. Antagonistic bacterial interactions help shape host-symbiont dynamics within the fungus-growing ant-microbe mutualism. PLoS One 2007; 2:e960. [PMID: 17896000 PMCID: PMC1978530 DOI: 10.1371/journal.pone.0000960] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2007] [Accepted: 09/03/2007] [Indexed: 11/18/2022] Open
Abstract
Conflict within mutually beneficial associations is predicted to destabilize relationships, and theoretical and empirical work exploring this has provided significant insight into the dynamics of cooperative interactions. Within mutualistic associations, the expression and regulation of conflict is likely more complex than in intraspecific cooperative relationship, because of the potential presence of: i) multiple genotypes of microbial species associated with individual hosts, ii) multiple species of symbiotic lineages forming cooperative partner pairings, and iii) additional symbiont lineages. Here we explore complexity of conflict expression within the ancient and coevolved mutualistic association between attine ants, their fungal cultivar, and actinomycetous bacteria (Pseudonocardia). Specifically, we examine conflict between the ants and their Pseudonocardia symbionts maintained to derive antibiotics against parasitic microfungi (Escovopsis) infecting the ants' fungus garden. Symbiont assays pairing isolates of Pseudonocardia spp. associated with fungus-growing ants spanning the phylogenetic diversity of the mutualism revealed that antagonism between strains is common. In contrast, antagonism was substantially less common between more closely related bacteria associated with Acromyrmex leaf-cutting ants. In both experiments, the observed variation in antagonism across pairings was primarily due to the inhibitory capabilities and susceptibility of individual strains, but also the phylogenetic relationships between the ant host of the symbionts, as well as the pair-wise genetic distances between strains. The presence of antagonism throughout the phylogenetic diversity of Pseudonocardia symbionts indicates that these reactions likely have shaped the symbiosis from its origin. Antagonism is expected to prevent novel strains from invading colonies, enforcing single-strain rearing within individual ant colonies. While this may align ant-actinomycete interests in the bipartite association, the presence of single strains of Pseudonocardia within colonies may not be in the best interest of the ants, because increasing the diversity of bacteria, and thereby antibiotic diversity, would help the ant-fungus mutualism deal with the specialized parasites.
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Affiliation(s)
- Michael Poulsen
- Department of Bacteriology, University of Wisconsin-Madison, Madison, Wisconsin, USA.
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Davelos Baines AL, Xiao K, Kinkel LL. Lack of correspondence between genetic and phenotypic groups amongst soil-borne streptomycetes. FEMS Microbiol Ecol 2007; 59:564-75. [PMID: 17381515 DOI: 10.1111/j.1574-6941.2006.00231.x] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
Correspondence between two distinct genetic traits, 16S rRNA gene sequences and repetitive element-sequence-based BOX-PCR DNA fingerprints, and antibiotic inhibition and resistance phenotypes was explored for a spatially explicit sample of Streptomyces from a prairie soil. There was no correspondence between 16S rRNA gene sequence groups and antibiotic phenotypes. However, 16S rRNA gene sequence groups differed significantly in mean inhibition zone sizes. Specific antibiotic phenotypes may reflect local selection pressures, as suggested by the significant differences in mean inhibition zone sizes against specific test isolates by Streptomyces from the same 16S rRNA gene sequence group but from different locations in soil. Significant correlations between antibiotic phenotypes and BOX-PCR fingerprints were found, but were small (r=0.19-0.22). Although genetic characterizations alone were not predictive of specific antibiotic phenotypes, 16S rRNA gene sequence analyses may identify isolates that are most or least likely to possess substantial inhibitory potential, providing insight into the broad ecological strategy for individual isolates.
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