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Lau MML, Kho CJY, Chung HH, Zulkharnain A. Isolation, identification and characterisation of Pseudomonas koreensis CM-01 isolated from diseased Malaysian mahseer (Tor tambroides). FISH & SHELLFISH IMMUNOLOGY 2024; 148:109518. [PMID: 38513913 DOI: 10.1016/j.fsi.2024.109518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Revised: 03/04/2024] [Accepted: 03/18/2024] [Indexed: 03/23/2024]
Abstract
Pseudomonas species are one of the most threatening fish pathogens which reside a wide range of environments. In this study, the dominant bacteria were isolated from diseased Malaysian mahseer (Tor tambroides) and tentatively named CM-01. It was identified as Pseudomonas koreensis based on its biochemical, morphological, genetic and physiological information. Its pathogenicity was found to be correlated with twelve virulence genes identified including iron uptake, protease, acylhomoserine lactone synthase gacS/gacA component regulation system, type IV secretion system, hydrogen cyanide production, exolysin, alginate biosynthesis, flagella and pili. The median lethal dose (LD50) for the CM-01 isolate on Malaysian mahseer was documented at 5.01 × 107 CFU/mL. The experimental infection revealed that CM-01 led to significant histological lesions in the fish, ultimately resulting in death. These lesions comprise necrosis, tissue thickening and aggregation. Drug sensitivity tests had shown its susceptibility to beta-lactam combination agents and further suggest its drug of choice. Its growing features had shown its growth at optimal temperature and pH. To the best of our knowledge, this is the first report of P. koreensis linked to diseased T. tambroides. STATEMENT OF RELEVANCE: In this research, a novel strain of Pseudomonas koreensis, CM-01 was isolated from diseased T. tambroides for the first time. The antimicrobial susceptibility, pathogenicity, virulence genes and growth characteristics of CM-01 were studied. These findings established a scientific foundation for the recognition of P. koreensis and the management of fish infections caused by this pathogen.
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Affiliation(s)
- Melinda Mei Lin Lau
- Faculty of Resource Science and Technology, Universiti Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia.
| | - Cindy Jia Yung Kho
- Faculty of Resource Science and Technology, Universiti Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia.
| | - Hung Hui Chung
- Faculty of Resource Science and Technology, Universiti Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia.
| | - Azham Zulkharnain
- Department of Bioscience and Engineering, College of system Engineering and Science, Shibaura Institute of Technology, 307 Fukasaku, Minuma-ku, Saitama, 337-8570, Japan.
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Draft Genome Sequence of Pseudomonas sp. Strains MWU12-2020 and MWU12-3103b, Isolated from Wild and Cultivated Cranberry Bogs in Massachusetts. Microbiol Resour Announc 2022; 11:e0056822. [PMID: 36125281 PMCID: PMC9584209 DOI: 10.1128/mra.00568-22] [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: 11/20/2022] Open
Abstract
Here, we present the draft genome sequences of
Pseudomonas
sp. strains MWU12-2020 and MWU12-3103b, isolated from the rhizospheres of wild and cultivated cranberry bogs in southeastern Massachusetts; these strains are unrelated to known
Pseudomonas
species. The genomes of both isolates exceed 6 Mbp and contain predicted ice nucleation and type VI and III secretion system genes.
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Kaningini A, Azizi S, Sintwa N, Mokalane K, Mohale KC, Mudau FN, Maaza M. Effect of Optimized Precursor Concentration, Temperature, and Doping on Optical Properties of ZnO Nanoparticles Synthesized via a Green Route Using Bush Tea ( Athrixia phylicoides DC.) Leaf Extracts. ACS OMEGA 2022; 7:31658-31666. [PMID: 36120056 PMCID: PMC9475638 DOI: 10.1021/acsomega.2c00530] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Nanoparticles possess several properties, such as antimicrobial, anti-inflammatory, wound healing, catalytic, magnetic, optical, and electronic properties, that have allowed them to be used in different fields. Among them, zinc oxide (ZnO) has received copious consideration due to its technological and medicinal applications. Plant-mediated synthesis of ZnO nanoparticles has provided a cost-effective and eco-friendly method. Therefore, the objective of the study is to assess the effect of the precursor concentration and silver and cerium doping on the optical properties of ZnO nanoparticles synthesized via a green process using bush tea leaf extract as the chelating agent. Zinc nitrate hexahydrate was used as the precursor. Quasi-spherical-shaped ZnO nanoparticles were obtained with an average crystallite size ranging between 24.53 and 63.02 nm. The crystallite size was found to decrease with the increase of precursor concentration at 43.82 nm (0.05 g), 37.25 nm (0.10 g), 26.53 nm (0.50 g), and 24.53 nm (1 g); thereafter, the size increases with an increase in precursor concentration. The optimum precursor concentration was 1 g with the smallest grain size and a high purity level. The increase in annealing temperature induced an increase in the crystallite size of ZnO nanoparticles from 24.53 nm (600 °C) to 34.24 nm (800 °C), however, increasing the level of purity of the nanopowders. The band gap energies were 2.75 and 3.17 eV as calculated using the Tauc plot with variations due to the precursor concentrations. Doping with both silver and cerium increased the band gap of ZnO nanoparticles up to 3.19 eV and the increase in annealing temperature slightly augmented the band gap energy from 3.00 and 3.16 eV, respectively. Hence, doping with Ag and Ce induced the formation of nanorods at higher concentrations. This study successfully demonstrated that the natural plant extract of bush tea can be used in the bioreduction of zinc nitrate hexahydrate to prepare pure ZnO nanoparticles, thus extending the use of this plant to the nano producing industry.
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Affiliation(s)
- Amani
Gabriel Kaningini
- UNESCO-UNISA
Africa Chair in Nanoscience and Nanotechnology College of Graduates
Studies, University of South Africa, Muckleneuk Ridge, Pretoria 392, South Africa
- Nanosciences
African Network (NANOAFNET), iThemba LABS-National Research Foundation, 1 Old Faure Road, P.O. Box 722, Somerset West 7129, Western Cape, South Africa
| | - Shohreh Azizi
- UNESCO-UNISA
Africa Chair in Nanoscience and Nanotechnology College of Graduates
Studies, University of South Africa, Muckleneuk Ridge, Pretoria 392, South Africa
- Nanosciences
African Network (NANOAFNET), iThemba LABS-National Research Foundation, 1 Old Faure Road, P.O. Box 722, Somerset West 7129, Western Cape, South Africa
| | - Nolufundo Sintwa
- UNESCO-UNISA
Africa Chair in Nanoscience and Nanotechnology College of Graduates
Studies, University of South Africa, Muckleneuk Ridge, Pretoria 392, South Africa
- Nanosciences
African Network (NANOAFNET), iThemba LABS-National Research Foundation, 1 Old Faure Road, P.O. Box 722, Somerset West 7129, Western Cape, South Africa
| | - Kagiso Mokalane
- Nanotechnology
and Water Sustainability Research (NanoWS) Unit, College of Science,
Engineering and Technology, University of
South Africa, Johannesburg 1709, South Africa
| | - Keletso Cecilia Mohale
- Department
of Agriculture and Animal Health, College of Agriculture and Environmental
Sciences, University of South Africa, Private Bag X6, Florida 1710, South Africa
| | - Fhatuwani Nixwell Mudau
- Department
of Agriculture and Animal Health, College of Agriculture and Environmental
Sciences, University of South Africa, Private Bag X6, Florida 1710, South Africa
- School
of Agricultural, Earth and Environmental Sciences, University of KwaZulu-Natal, Private Bag X01, Scottsville 3209, Pietermaritzburg 3201, South Africa
| | - Malik Maaza
- UNESCO-UNISA
Africa Chair in Nanoscience and Nanotechnology College of Graduates
Studies, University of South Africa, Muckleneuk Ridge, Pretoria 392, South Africa
- Nanosciences
African Network (NANOAFNET), iThemba LABS-National Research Foundation, 1 Old Faure Road, P.O. Box 722, Somerset West 7129, Western Cape, South Africa
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Investigation of bacterial diversity using 16S rRNA sequencing and prediction of its functionalities in Moroccan phosphate mine ecosystem. Sci Rep 2022; 12:3741. [PMID: 35260670 PMCID: PMC8904503 DOI: 10.1038/s41598-022-07765-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Accepted: 02/21/2022] [Indexed: 11/28/2022] Open
Abstract
Native plants in extreme environments may harbor some unique microbial communities with particular functions to sustain their growth and tolerance to harsh conditions. The aim of this study was to investigate the bacterial communities profiles in some native plants and samples of the Moroccan phosphate mine ecosystem by assessing the percentages of taxonomic identification using six hypervariable regions of the 16S rRNA. The rhizosphere of the three wild plants in the Moroccan phosphate mine is characterized by interesting bacterial diversity including Proteobacteria (62.24%, 71.15% and 65.61%), Actinobacteria (22.53%, 15.24%, 22.30%), Bacteroidetes (7.57%; 4.23%; 7.63%), and Firmicutes (5.82%; 1.17%; 2.83%). The bulk phosphate mine samples were dominated by Actinobacteria with average relative abundance of 97.73% that are different from those inferred in the rhizosphere samples of the native plants. The regions V3, V4 and V67 performed better in the taxonomic profiling at different taxonomic levels. Results indicated that both plant genotype and mainly soil conditions may be involved in the shaping of bacterial diversity. Such indication was also confirmed by the prediction of functional profiles that showed enrichment of many functions related to biological nitrogen fixation in the rhizosphere of native plants and the stress related functions in the bulk phosphate mine in comparison with the wheat rhizosphere samples.
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Changes in Metabolic Regulation and the Microbiota Composition after Supplementation with Different Fatty Acids in db/db Mice. INTERNATIONAL JOURNAL OF FOOD SCIENCE 2022; 2022:3336941. [PMID: 35036426 PMCID: PMC8759926 DOI: 10.1155/2022/3336941] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/17/2021] [Accepted: 12/15/2021] [Indexed: 12/20/2022]
Abstract
Introduction The effects of fatty acids on health vary and depend on the type, amount, and route of consumption. EPA and DHA have a defined role in health, unlike coconut oil. Objective The aim was to investigate the changes in metabolic regulation and the composition of the culture-dependent microbiota after supplementation with different fatty acids in db/db mice. Material and Methods. We were using 32 8-week-old db/db mice, supplemented for eight weeks with EPA/DHA derived from microalgae as well as coconut oil. The lipid, hormonal profiles, and composition of the culture-dependent microbiota and the phylogenetic analysis based on the 16S rRNA gene sequencing were determined for identification of the intestinal microbiota. Results Enriched diet with EPA/DHA reduced TNF-α, C-peptide, insulin resistance, resistin, and the plasma atherogenic index, but increased TC, LDL-c, VLDL-c, and TG without changes in HDL-c. Coconut oil raised the HDL-c, GIP, and TNF-α, with TG, insulin resistance, adiponectin, and C-peptide reduced. Conclusion The most abundant microbial populations were Firmicutes and the least Proteobacteria. EPA/DHA derived from microalgae contributes to improving the systemic inflammatory status, but depressed the diversity of the small intestine microbiota. Coconut oil only decreased the C-peptide, raising TNF-α, with an unfavorable hormonal and lipid profile.
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Sweet Sorghum Genotypes Tolerant and Sensitive to Nitrogen Stress Select Distinct Root Endosphere and Rhizosphere Bacterial Communities. Microorganisms 2021; 9:microorganisms9061329. [PMID: 34207412 PMCID: PMC8234256 DOI: 10.3390/microorganisms9061329] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 06/14/2021] [Accepted: 06/15/2021] [Indexed: 12/17/2022] Open
Abstract
The belowground microbiomes have many beneficial functions that assist plant growth, including nutrient cycling, acquisition and transport, as well as alleviation of stresses caused by nutrient limitations such as nitrogen (N). Here we analyzed the root endosphere, rhizosphere and soil bacterial communities of seven sweet sorghum genotypes differing in sensitivity to N-stress. Sorghum genotypes were grown in fields with no (low-N) or sufficient (high-N) N. The dry shoot weight ratio (low-N/high-N) was used to determine N-stress sensitivity. Our hypothesis was that genotypes tolerant and sensitive to N-stress select distinct bacterial communities. The endosphere and rhizosphere bacterial community structure were significantly different between the N-stress sensitive and tolerant genotypes in the high-N field, but not in the low-N field. However, significant changes in the relative abundance of specific bacterial taxa were observed in both fields. Streptomyces, a bacterial genus known to alleviate plant abiotic stresses, was enriched in the endosphere and rhizosphere of the tolerant genotypes in the low-N field. Our study indicates that sweet sorghum genotypes tolerant to N-stress select taxa that can potentially mitigate the N-stress, suggesting that the interactions between N-stress tolerant lines and the root-associated microbiome might be vital for coping with N-stress.
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Cavé-Radet A, Correa-Garcia S, Monard C, El Amrani A, Salmon A, Ainouche M, Yergeau É. Phenanthrene contamination and ploidy level affect the rhizosphere bacterial communities of Spartina spp. FEMS Microbiol Ecol 2021; 96:5895320. [PMID: 32821911 DOI: 10.1093/femsec/fiaa156] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2020] [Accepted: 08/18/2020] [Indexed: 11/13/2022] Open
Abstract
Spartina spp. are widely distributed salt marsh plants that have a recent history of hybridization and polyploidization. These events have resulted in a heightened tolerance to hydrocarbon contaminants, but the effects of this phenomenon on the rhizosphere microbial communities are unknown. Here, we grew two parental Spartina species, their hybrid and the resulting allopolyploid in salt marsh sediments that were contaminated or not with phenanthrene. The DNA from the rhizosphere soil was extracted and the bacterial 16S rRNA gene was amplified and sequenced, whereas the abundances of the genes encoding for the PAH (polycyclic aromatic hydrocarbon) ring-hydroxylating dioxygenase (RHD) of Gram-negative and Gram-positive bacteria were quantified by real-time PCR. Both the contamination and the plant genotype significantly affected the bacterial communities. In particular, the allopolyploid S. anglica harbored a more diverse bacterial community in its rhizosphere. The interspecific hybrid and the allopolyploid also harbored significantly more copies of the PAH-RHD gene of Gram-negative bacteria in their rhizosphere than the parental species, irrespective of the contamination treatments. Overall, our results are showing that the recent polyploidization events in the Spartina affected its rhizosphere bacterial communities, both under normal and contaminated conditions, possibly increasing its phytoremediation potential.
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Affiliation(s)
- Armand Cavé-Radet
- University of Rennes 1, CNRS/UMR 6553/OSUR, Ecosystems - Biodiversity - Evolution, 35042 Rennes Cedex, France
| | - Sara Correa-Garcia
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 Boulevard des Prairies, Laval, Québec H7V 1B7, Canada
| | - Cécile Monard
- University of Rennes 1, CNRS/UMR 6553/OSUR, Ecosystems - Biodiversity - Evolution, 35042 Rennes Cedex, France
| | - Abdelhak El Amrani
- University of Rennes 1, CNRS/UMR 6553/OSUR, Ecosystems - Biodiversity - Evolution, 35042 Rennes Cedex, France
| | - Armel Salmon
- University of Rennes 1, CNRS/UMR 6553/OSUR, Ecosystems - Biodiversity - Evolution, 35042 Rennes Cedex, France
| | - Malika Ainouche
- University of Rennes 1, CNRS/UMR 6553/OSUR, Ecosystems - Biodiversity - Evolution, 35042 Rennes Cedex, France
| | - Étienne Yergeau
- Institut national de la recherche scientifique, Centre Armand-Frappier Santé Biotechnologie, 531 Boulevard des Prairies, Laval, Québec H7V 1B7, Canada
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8
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Endo A, Koizumi R, Nakazawa Y, Shiwa Y, Maeno S, Kido Y, Irisawa T, Muramatsu Y, Tada K, Yamazaki M, Myoda T. Characterization of the microbiota and chemical properties of pork loins during dry aging. Microbiologyopen 2021; 10:e1157. [PMID: 33415844 PMCID: PMC7914123 DOI: 10.1002/mbo3.1157] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 12/10/2020] [Accepted: 12/21/2020] [Indexed: 12/14/2022] Open
Abstract
Dry aging (DA) allows for the storage of meat without packaging at 0 to 3°C for several weeks. It enhances the production of pleasant flavors, tenderness, and juiciness in meat. Due to the long storage period and roles of indigenous microbiota in the maturation of several meat products, the microbiota of DA meat is of interest in terms of microbial contributions and food hygiene but has not yet been characterized in detail. This study identified the microbiota of pork loins during DA using culturing and culture‐independent meta‐16S rRNA gene sequencing and elucidated its characteristics. The amounts of free amino acids and profiles of aroma‐active compounds were also monitored by high‐performance liquid chromatography and gas chromatography, respectively. The meta‐16S rRNA gene sequencing revealed that Pseudomonas spp. generally dominated the microbiota throughout DA; however, the culturing analysis showed marked changes in the species composition during DA. Acinetobacter spp. were the second most dominant bacteria before DA in the culture‐independent analysis but became a minor population during DA. The cell numbers of yeasts showed an increased tendency during DA, and Debaryomyces hansenii was the only microorganism isolated from all meat samples throughout DA. Well‐known foodborne pathogens were not observed in two microbiota analyses. The amounts of free amino acids were increased by DA, and the number of aroma‐active compounds and their flavor dilution values markedly changed during DA. Most microbial isolates showed positive reactions with proteolytic and lipolytic activities, suggesting their contribution to tenderness and aroma production in DA meats.
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Affiliation(s)
- Akihito Endo
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
| | - Ryosuke Koizumi
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan.,Department of Agricultural Innovation for Sustainability, Faculty of Agriculture, Tokyo University of Agriculture, Kanagawa, Japan
| | - Yozo Nakazawa
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
| | - Yuh Shiwa
- Department of Molecular Microbiology, Faculty of Life Sciences, Tokyo University of Agriculture, Tokyo, Japan.,NODAI Genome Research Center, Tokyo University of Agriculture, Tokyo, Japan
| | - Shintaro Maeno
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
| | - Yoshihiko Kido
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
| | - Tomohiro Irisawa
- Department of Agricultural Innovation for Sustainability, Faculty of Agriculture, Tokyo University of Agriculture, Kanagawa, Japan
| | - Yoshiki Muramatsu
- Department of Bioproduction and Environment Engineering, Faculty of Regional Environment Science, Tokyo University of Agriculture, Tokyo, Japan
| | - Kotaro Tada
- Department of Agricultural Innovation for Sustainability, Faculty of Agriculture, Tokyo University of Agriculture, Kanagawa, Japan
| | - Masao Yamazaki
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
| | - Takao Myoda
- Department of Food, Aroma and Cosmetic Chemistry, Faculty of Bioindustry, Tokyo University of Agriculture, Hokkaido, Japan
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Fluit AC, Rogers MRC, Díez-Aguilar M, Cantón R, Benaissa-Trouw BJ, Bayjanov JR, Ekkelenkamp MB. Draft genome sequence of the strain 16-537536, isolated from a patient with bronchiectasis and its relationship to the Pseudomonas koreensis group of the Pseudomonas fluorescens complex. BMC Res Notes 2020; 13:10. [PMID: 31907003 PMCID: PMC6945793 DOI: 10.1186/s13104-019-4863-2] [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: 10/18/2019] [Accepted: 12/16/2019] [Indexed: 11/10/2022] Open
Abstract
Abstract
Objective
The Pseudomonas koreensis group bacteria are usually found in soil and are associated with plants. Currently they are poorly described. Here we report on the whole genome sequence of a bacterial isolate from a patient with bronchiectasis that was first identified as P. koreensis, and on its position in the P. koreensis group.
Results
Strain 16-537536 was isolated from a patient with bronchiectasis from Spain and initially identified by MALDI-TOF as P. koreensis, a member of the Pseudomonas fluorescens complex. However, the average nucleotide identity analysis (ANIb) and whole genome alignments of the draft genome sequence of this strain showed it to be a member of the P. koreensis group of the P. fluorescens complex, but belonging to an undescribed species. In addition, based on ANIb analysis, the P. koreensis group contains several other unnamed species. Several genes for putative virulence factors were identified. The only antibiotic resistance gene present in strain 16-537536 was a class C β-lactamase. The correct identification of bacterial species from patients is of utmost importance in order to understand their pathogenesis and to track the potential spread of pathogens between patients. Whole genome sequence data should be included for the description of new species.
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Lopes LD, Weisberg AJ, Davis EW, Varize CDS, Pereira e Silva MDC, Chang JH, Loper JE, Andreote FD. Genomic and metabolic differences between Pseudomonas putida populations inhabiting sugarcane rhizosphere or bulk soil. PLoS One 2019; 14:e0223269. [PMID: 31581220 PMCID: PMC6776310 DOI: 10.1371/journal.pone.0223269] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Accepted: 09/17/2019] [Indexed: 11/19/2022] Open
Abstract
Pseudomonas putida is one of 13 major groups of Pseudomonas spp. and contains numerous species occupying diverse niches and performing many functions such as plant growth promotion and bioremediation. Here we compared a set of 19 P. putida isolates obtained from sugarcane rhizosphere or bulk soil using a population genomics approach aiming to assess genomic and metabolic differences between populations from these habitats. Phylogenomics placed rhizosphere versus bulk soil strains in separate clades clustering with different type strains of the P. putida group. Multivariate analyses indicated that the rhizosphere and bulk soil isolates form distinct populations. Comparative genomics identified several genetic functions (GO-terms) significantly different between populations, including some exclusively present in the rhizosphere or bulk soil strains, such as D-galactonic acid catabolism and cellulose biosynthesis, respectively. The metabolic profiles of rhizosphere and bulk soil populations analyzed by Biolog Ecoplates also differ significantly, most notably by the higher oxidation of D-galactonic/D-galacturonic acid by the rhizosphere population. Accordingly, D-galactonate catabolism operon (dgo) was present in all rhizosphere isolates and absent in the bulk soil population. This study showed that sugarcane rhizosphere and bulk soil harbor different populations of P. putida and identified genes and functions potentially associated with their soil niches.
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Affiliation(s)
- Lucas Dantas Lopes
- Department of Soil Science, “Luiz de Queiroz” College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States of America
- * E-mail: (LDL); (FDA)
| | - Alexandra J. Weisberg
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States of America
| | - Edward W. Davis
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States of America
| | - Camila de S. Varize
- Department of Soil Science, “Luiz de Queiroz” College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil
| | - Michele de C. Pereira e Silva
- Department of Soil Science, “Luiz de Queiroz” College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil
| | - Jeff H. Chang
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States of America
| | - Joyce E. Loper
- Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR, United States of America
| | - Fernando D. Andreote
- Department of Soil Science, “Luiz de Queiroz” College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil
- * E-mail: (LDL); (FDA)
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11
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Jing X, Cui Q, Li X, Yin J, Ravichandran V, Pan D, Fu J, Tu Q, Wang H, Bian X, Zhang Y. Engineering Pseudomonas protegens Pf-5 to improve its antifungal activity and nitrogen fixation. Microb Biotechnol 2018; 13:118-133. [PMID: 30461205 PMCID: PMC6984399 DOI: 10.1111/1751-7915.13335] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2018] [Revised: 10/21/2018] [Accepted: 10/21/2018] [Indexed: 11/26/2022] Open
Abstract
In agricultural production, sustainability is currently one of the most significant concerns. The genetic modification of plant growth‐promoting rhizobacteria may provide a novel way to use natural bacteria as microbial inoculants. In this study, the root‐colonizing strain Pseudomonas protegens Pf‐5 was genetically modified to act as a biocontrol agent and biofertilizer with biological nitrogen fixation activity. Genetic inactivation of retS enhanced the production of 2,4‐diacetylphloroglucinol, which contributed for the enhanced antifungal activity. Then, the entire nitrogenase island with native promoter from Pseudomonas stutzeri DSM4166 was introduced into a retS mutant strain for expression. Root colonization patterns assessed via confocal laser scanning microscopy confirmed that GFP‐tagged bacterial were mainly located on root surfaces and at the junctions between epidermal root cells. Moreover, under pathogen and N‐limited double treatment conditions, the fresh weights of seedlings inoculated with the recombinant retS mutant‐nif strain were increased compared with those of the control. In conclusion, this study has innovatively developed an eco‐friendly alternative to the agrochemicals that will benefit global plant production significantly.
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Affiliation(s)
- Xiaoshu Jing
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Qingwen Cui
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Xiaochen Li
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Jia Yin
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Vinothkannan Ravichandran
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Deng Pan
- Jinan Yian Biology Institute, Shandong Yian Biological Engineering Co. Ltd., Jinan, 250100, China
| | - Jun Fu
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Qiang Tu
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Hailong Wang
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Xiaoying Bian
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
| | - Youming Zhang
- State Key Laboratory of Microbial Technology, School of Life Science, Shandong University-Helmholtz Institute of Biotechnology, Shandong University, 266237, Qingdao, China
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