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Santos DS, Pontes PVM, Leite AMDO, Ferreira AL, de Souza M, Araujo TDSS, dos Santos HF, de Oliveira GC, Bitencourt JA, Cavalcanti AB, Martins RL, Esteves FDA. Bioprospecting for Isoetes cangae Endophytes with Potential to Promote Plant Growth. Int J Microbiol 2023; 2023:5992113. [PMID: 37644978 PMCID: PMC10462435 DOI: 10.1155/2023/5992113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2022] [Revised: 06/29/2023] [Accepted: 07/22/2023] [Indexed: 08/31/2023] Open
Abstract
Isoetes cangae is a native plant found only in a permanent pond in Serra dos Carajás in the Amazon region. Plant-associated microbial communities are recognized to be responsible for biological processes essential for the health, growth, and even adaptation of plants to environmental stresses. In this sense, the aims of this work were to isolate, identify, and evaluate the properties of endophytic bacteria isolated from I. cangae. The bioprospecting of potentially growth-promoting endophytes required the following steps to be taken: isolation of endophytic colonies, molecular identification by 16S rDNA sequence analysis, and evaluation of the bacterial potential for nitrogen fixation, production of indole acetic acid and siderophores, as well as phosphate solubilization and mineralization. Bacillus sp., Rhizobium sp., Priestia sp., Acinetobacter sp., Rossellomorea sp., Herbaspirillum sp., Heyndrickxia sp., and Metabacillus sp., among other bacterial species, were identified. The isolates showed to be highly promising, evidencing the physiological importance for the plant and having the potential to promote plant growth.
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Affiliation(s)
- Danielle Silveira Santos
- Federal University of Rio de Janeiro, Instituto de Biodiversidade e Sustentabilidade, Macaé 27965-045, Brazil
| | | | | | - Aline Lemos Ferreira
- Federal University of Rio de Janeiro, Instituto de Biodiversidade e Sustentabilidade, Macaé 27965-045, Brazil
| | - Mariana de Souza
- Federal University of Rio de Janeiro, Instituto de Biodiversidade e Sustentabilidade, Macaé 27965-045, Brazil
| | | | | | | | | | | | - Rodrigo Lemes Martins
- Federal University of Rio de Janeiro, Instituto de Biodiversidade e Sustentabilidade, Macaé 27965-045, Brazil
| | - Francisco De Assis Esteves
- Federal University of Rio de Janeiro, Instituto de Biodiversidade e Sustentabilidade, Macaé 27965-045, Brazil
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TAŞKIN T, KAHVECİOĞLU D, TÜRKOĞLU EA, DOĞAN A, KUZU M. In vitro Biological Activities of Different Extracts from Alcea dissecta. CLINICAL AND EXPERIMENTAL HEALTH SCIENCES 2022. [DOI: 10.33808/clinexphealthsci.787845] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Jibrin MO, Liu Q, Guingab-Cagmat J, Jones JB, Garrett TJ, Zhang S. Metabolomics Insights into Chemical Convergence in Xanthomonas perforans and Metabolic Changes Following Treatment with the Small Molecule Carvacrol. Metabolites 2021; 11:879. [PMID: 34940636 PMCID: PMC8706651 DOI: 10.3390/metabo11120879] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2021] [Revised: 12/12/2021] [Accepted: 12/13/2021] [Indexed: 01/20/2023] Open
Abstract
Microbes are natural chemical factories and their metabolome comprise diverse arrays of chemicals. The genus Xanthomonas comprises some of the most important plant pathogens causing devastating yield losses globally and previous studies suggested that species in the genus are untapped chemical minefields. In this study, we applied an untargeted metabolomics approach to study the metabolome of a globally spread important xanthomonad, X. perforans. The pathogen is difficult to manage, but recent studies suggest that the small molecule carvacrol was efficient in disease control. Bacterial strains were treated with carvacrol, and samples were taken at time intervals (1 and 6 h). An untreated control was also included. There were five replicates for each sample and samples were prepared for metabolomics profiling using the standard procedure. Metabolomics profiling was carried out using a thermo Q-Exactive orbitrap mass spectrometer with Dionex ultra high-performance liquid chromatography (UHPLC) and an autosampler. Annotation of significant metabolites using the Metabolomics Standards Initiative level 2 identified an array of novel metabolites that were previously not reported in Xanthomonas perforans. These metabolites include methoxybrassinin and cyclobrassinone, which are known metabolites of brassicas; sarmentosin, a metabolite of the Passiflora-heliconiine butterfly system; and monatin, a naturally occurring sweetener found in Sclerochiton ilicifolius. To our knowledge, this is the first report of these metabolites in a microbial system. Other significant metabolites previously identified in non-Xanthomonas systems but reported in this study include maculosin; piperidine; β-carboline alkaloids, such as harman and derivatives; and several important medically relevant metabolites, such as valsartan, metharbital, pirbuterol, and ozagrel. This finding is consistent with convergent evolution found in reported biological systems. Analyses of the effect of carvacrol in time-series and associated pathways suggest that carvacrol has a global effect on the metabolome of X. perforans, showing marked changes in metabolites that are critical in energy biosynthesis and degradation pathways, amino acid pathways, nucleic acid pathways, as well as the newly identified metabolites whose pathways are unknown. This study provides the first insight into the X. perforans metabolome and additionally lays a metabolomics-guided foundation for characterization of novel metabolites and pathways in xanthomonad systems.
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Affiliation(s)
- Mustafa Ojonuba Jibrin
- Tropical Research and Education Center, IFAS, University of Florida, Homestead, FL 33031, USA; (M.O.J.); (Q.L.)
- Department of Crop Protection, Ahmadu Bello University, Zaria 810103, Nigeria
| | - Qingchun Liu
- Tropical Research and Education Center, IFAS, University of Florida, Homestead, FL 33031, USA; (M.O.J.); (Q.L.)
| | - Joy Guingab-Cagmat
- Department of Pathology, Immunology, and Laboratory Medicine, University of Florida, Gainesville, FL 32610, USA; (J.G.-C.); (T.J.G.)
| | - Jeffrey B. Jones
- Plant Pathology Department, University of Florida, Gainesville, FL 32611, USA;
| | - Timothy J. Garrett
- Department of Pathology, Immunology, and Laboratory Medicine, University of Florida, Gainesville, FL 32610, USA; (J.G.-C.); (T.J.G.)
| | - Shouan Zhang
- Tropical Research and Education Center, IFAS, University of Florida, Homestead, FL 33031, USA; (M.O.J.); (Q.L.)
- Plant Pathology Department, University of Florida, Gainesville, FL 32611, USA;
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Zhang L, Wang Z, Chang L, Wei Y. The complete chloroplast genome sequence of medicinal plant: Peganum nigellastrum (Zygophyllaceae). Mitochondrial DNA B Resour 2021; 6:2387-2388. [PMID: 34350349 PMCID: PMC8291069 DOI: 10.1080/23802359.2021.1950061] [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] [Indexed: 11/16/2022] Open
Abstract
Peganum nigellastrum is a medicinal plant. The total chloroplast (cp) genome length of P. nigellastrum is 160,066 bp, Containing a large single copy region of 88,275 bp, two inverted repeat regions of 26,486 bp and a small single copy region of 18,855 bp. The chloroplast genome contains 132 complete genes, including 87 protein-coding genes (87 PCGs), 8 ribosomal RNA genes (8 rRNAs), and 37 tRNA genes (37 tRNAs). The overall GC content of cp DNA is 37.5%, the corresponding values of the LSC, SSC, and IR regions are 35.6%, 31.4%, and 42.8%. Phylogenetic tree shows that P. nigellastrum has the closest relationship with P. harmala.
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Affiliation(s)
- Lei Zhang
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, College of Biological Science & Engineering, North Minzu University, Yinchuan, PR China
| | - Zhiheng Wang
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, College of Biological Science & Engineering, North Minzu University, Yinchuan, PR China
| | - Linxin Chang
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, College of Biological Science & Engineering, North Minzu University, Yinchuan, PR China
| | - Yuqing Wei
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, College of Biological Science & Engineering, North Minzu University, Yinchuan, PR China
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Jinal NH, Amaresan N. Evaluation of biocontrol Bacillus species on plant growth promotion and systemic-induced resistant potential against bacterial and fungal wilt-causing pathogens. Arch Microbiol 2020; 202:1785-1794. [DOI: 10.1007/s00203-020-01891-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Revised: 04/08/2020] [Accepted: 04/27/2020] [Indexed: 11/28/2022]
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Saline and Arid Soils: Impact on Bacteria, Plants, and their Interaction. BIOLOGY 2020; 9:biology9060116. [PMID: 32498442 PMCID: PMC7344409 DOI: 10.3390/biology9060116] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Revised: 05/26/2020] [Accepted: 05/29/2020] [Indexed: 12/11/2022]
Abstract
Salinity and drought are the most important abiotic stresses hampering crop growth and yield. It has been estimated that arid areas cover between 41% and 45% of the total Earth area worldwide. At the same time, the world’s population is going to soon reach 9 billion and the survival of this huge amount of people is dependent on agricultural products. Plants growing in saline/arid soil shows low germination rate, short roots, reduced shoot biomass, and serious impairment of photosynthetic efficiency, thus leading to a substantial loss of crop productivity, resulting in significant economic damage. However, plants should not be considered as single entities, but as a superorganism, or a holobiont, resulting from the intimate interactions occurring between the plant and the associated microbiota. Consequently, it is very complex to define how the plant responds to stress on the basis of the interaction with its associated plant growth-promoting bacteria (PGPB). This review provides an overview of the physiological mechanisms involved in plant survival in arid and saline soils and aims at describing the interactions occurring between plants and its bacteriome in such perturbed environments. The potential of PGPB in supporting plant survival and fitness in these environmental conditions has been discussed.
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Stanisavljević N, Soković Bajić S, Jovanović Ž, Matić I, Tolinački M, Popović D, Popović N, Terzić-Vidojević A, Golić N, Beškoski V, Samardžić J. Antioxidant and Antiproliferative Activity of Allium ursinum and Their Associated Microbiota During Simulated in vitro Digestion in the Presence of Food Matrix. Front Microbiol 2020; 11:601616. [PMID: 33335521 PMCID: PMC7736176 DOI: 10.3389/fmicb.2020.601616] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Accepted: 11/09/2020] [Indexed: 12/29/2022] Open
Abstract
In this study, for the first time, the comprehensive analysis of antiproliferative and antioxidant activities of ramson, followed by the analysis of its associated microbiota and health-promoting effects of lactic acid bacteria (LAB), was performed. Ramson (Allium ursinum) is recognized as a medicinal plant with a long history of use in traditional medicine due to its antimicrobial and antioxidant activity. In this study the influence of in vitro gastrointestinal digestion on the cytotoxic activity of A. ursinum extracts against human malignant cell lines was demonstrated. Seven sulfur compounds, the degradation products of thiosulfinates, including diallyl disulfide were shown to inhibit proliferation of malignant cells by inducing accumulation within G2/M phase as well as to induce apoptosis through activation of caspase-3 and mitochondrial signaling pathway. Further, the A. ursinum microbiota, particularly LAB with potential probiotic effects, was analyzed by culture-dependent method and culture-independent method [denaturing gradient gel electrophoresis (DGGE)]. The obtained results revealed that the most abundant genera were Streptococcus, Lactobacillus, and Bacillus. The Lactobacillus genus was mainly represented by L. fermentum. The pulsed-field gel electrophoresis (PFGE) analysis revealed the presence of two PFGE pulsotypes. The probiotic potential of the strain L. fermentum BGSR163 belonging to PFGE pulsotype 1 and the strain L. fermentum BGSR227 belonging to the PFGE pulsotype 2 was characterized. The results revealed that both strains are safe for human use, successfully survive the simulated gastrointestinal conditions, have potential to transiently colonize the gastrointestinal tract (GIT) and have a protective immunomodulatory effect, inducing the production of proinflammatory cytokine IL17 and regulatory cytokine IL10, while decreasing the production of proinflammatory cytokine IFN-γ. In conclusion, the results of this study suggest that consumption of A. ursinum might have health-promoting properties, including anticancer effects, while L. fermentum strains isolated from A. ursinum leaves could be used as probiotics for human consumption.
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Affiliation(s)
- Nemanja Stanisavljević
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
- *Correspondence: Nemanja Stanisavljević,
| | - Svetlana Soković Bajić
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | - Živko Jovanović
- Faculty of Biology, University of Belgrade, Belgrade, Serbia
| | - Ivana Matić
- Institute of Oncology and Radiology of Serbia, Belgrade, Serbia
| | - Maja Tolinački
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | - Dušanka Popović
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | - Nikola Popović
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | - Amarela Terzić-Vidojević
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | - Nataša Golić
- Laboratory for Molecular Microbiology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
| | | | - Jelena Samardžić
- Laboratory for Plant Molecular Biology, Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, Belgrade, Serbia
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Alijani Z, Amini J, Ashengroph M, Bahramnejad B. Antifungal activity of volatile compounds produced by Staphylococcus sciuri strain MarR44 and its potential for the biocontrol of Colletotrichum nymphaeae, causal agent strawberry anthracnose. Int J Food Microbiol 2019; 307:108276. [DOI: 10.1016/j.ijfoodmicro.2019.108276] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2019] [Revised: 06/27/2019] [Accepted: 07/27/2019] [Indexed: 10/26/2022]
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Jackson SA, Crossman L, Almeida EL, Margassery LM, Kennedy J, Dobson ADW. Diverse and Abundant Secondary Metabolism Biosynthetic Gene Clusters in the Genomes of Marine Sponge Derived Streptomyces spp. Isolates. Mar Drugs 2018; 16:E67. [PMID: 29461500 PMCID: PMC5852495 DOI: 10.3390/md16020067] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2017] [Revised: 02/07/2018] [Accepted: 02/16/2018] [Indexed: 12/15/2022] Open
Abstract
The genus Streptomyces produces secondary metabolic compounds that are rich in biological activity. Many of these compounds are genetically encoded by large secondary metabolism biosynthetic gene clusters (smBGCs) such as polyketide synthases (PKS) and non-ribosomal peptide synthetases (NRPS) which are modular and can be highly repetitive. Due to the repeats, these gene clusters can be difficult to resolve using short read next generation datasets and are often quite poorly predicted using standard approaches. We have sequenced the genomes of 13 Streptomyces spp. strains isolated from shallow water and deep-sea sponges that display antimicrobial activities against a number of clinically relevant bacterial and yeast species. Draft genomes have been assembled and smBGCs have been identified using the antiSMASH (antibiotics and Secondary Metabolite Analysis Shell) web platform. We have compared the smBGCs amongst strains in the search for novel sequences conferring the potential to produce novel bioactive secondary metabolites. The strains in this study recruit to four distinct clades within the genus Streptomyces. The marine strains host abundant smBGCs which encode polyketides, NRPS, siderophores, bacteriocins and lantipeptides. The deep-sea strains appear to be enriched with gene clusters encoding NRPS. Marine adaptations are evident in the sponge-derived strains which are enriched for genes involved in the biosynthesis and transport of compatible solutes and for heat-shock proteins. Streptomyces spp. from marine environments are a promising source of novel bioactive secondary metabolites as the abundance and diversity of smBGCs show high degrees of novelty. Sponge derived Streptomyces spp. isolates appear to display genomic adaptations to marine living when compared to terrestrial strains.
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Affiliation(s)
- Stephen A Jackson
- School of Microbiology, University College Cork, National University of Ireland, Cork, T12 YN60, Ireland.
| | - Lisa Crossman
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ, UK.
- SequenceAnalysis.co.uk, NRP Innovation Centre, Norwich NR4 7UG, UK.
| | - Eduardo L Almeida
- School of Microbiology, University College Cork, National University of Ireland, Cork, T12 YN60, Ireland.
| | - Lekha Menon Margassery
- School of Microbiology, University College Cork, National University of Ireland, Cork, T12 YN60, Ireland.
| | - Jonathan Kennedy
- Invista Performance Technologies, The Wilton Centre, Wilton, Redcar, Cleveland TS10 4RF, UK.
| | - Alan D W Dobson
- School of Microbiology, University College Cork, National University of Ireland, Cork, T12 YN60, Ireland.
- Environmental Research Institute, University College Cork, National University of Ireland, Lee Road, Cork T23 XE10, Ireland.
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