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Zelaya-Molina LX, Guerra-Camacho JE, Ortiz-Alvarez JM, Vigueras-Cortés JM, Villa-Tanaca L, Hernández-Rodríguez C. Plant growth-promoting and heavy metal-resistant Priestia and Bacillus strains associated with pioneer plants from mine tailings. Arch Microbiol 2023; 205:318. [PMID: 37615783 DOI: 10.1007/s00203-023-03650-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2023] [Revised: 07/26/2023] [Accepted: 08/06/2023] [Indexed: 08/25/2023]
Abstract
Open mine tailings dams are extreme artificial environments containing sizeable potentially toxic elements (PTEs), including heavy metals (HMs), transition metals, and metalloids. Furthermore, these tailings have nutritional deficiencies, including assimilable phosphorus sources, organic carbon, and combined nitrogen, preventing plant colonization. Bacteria, that colonize these environments, have mechanisms to tolerate the selective pressures of PTEs. In this work, several Priestia megaterium (formerly Bacillus megaterium), Bacillus mojavensis, and Bacillus subtilis strains were isolated from bulk tailings, anthills, rhizosphere, and endosphere of pioneer plants from abandoned mine tailings in Zacatecas, Mexico. Bacillus spp. tolerated moderate HMs concentrations, produced siderophores and indole-3-acetic acid (IAA), solubilized phosphates, and reduced acetylene in the presence of HMs. The strains harbored different PIB-type ATPase genes encoding for efflux pumps and Cation Diffusion Facilitator (CDF) genes. Moreover, nifH and nifD nitrogenase genes were detected in P. megaterium and B. mojavensis genomic DNA. They showed similarity with sequences of the beta-Proteobacteria species, which may represent likely horizontal transfer events. These Bacillus species precede the colonization of mine tailings by plants. Their phenotypic and genotypic features could be essential in the natural recovery of the sites by reducing the oxidative stress of HMs, fixing nitrogen, solubilizing phosphate, and accumulating organic carbon. These traits of the strains reflect the adaptations of Bacillus species to the mine tailings environment and could contribute to the success of phytoremediation efforts.
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Affiliation(s)
- Lily X Zelaya-Molina
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Prol. de Carpio y Plan de Ayala S/N. Col. Sto. Tomás, C.P. 11340, Ciudad de México, México
- Centro Nacional de Recursos Genéticos-INIFAP, Boulevard de La Biodiversidad 400, Rancho Las Cruces, C.P. 47600, Tepatitlán de Morelos, Jalisco, México
| | - Jairo E Guerra-Camacho
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Prol. de Carpio y Plan de Ayala S/N. Col. Sto. Tomás, C.P. 11340, Ciudad de México, México
| | - Jossue M Ortiz-Alvarez
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Prol. de Carpio y Plan de Ayala S/N. Col. Sto. Tomás, C.P. 11340, Ciudad de México, México
- Programa "Investigadoras E Investigadores Por México". Consejo Nacional de Humanidades, Ciencias y Tecnologías (CONAHCyT), Av. de los Insurgentes Sur 1582, Crédito Constructor, Benito Juárez, C.P. 03940, Ciudad de México, México
| | - Juan M Vigueras-Cortés
- Laboratorio de Prototipos de Agua, Centro Interdisciplinario de Investigación Para El Desarrollo Integral Regional, IPN CIIDIR Durango, Sigma 119, Fracc. 20 de Noviembre II, C.P. 34220, Durango, Durango, México
| | - Lourdes Villa-Tanaca
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Prol. de Carpio y Plan de Ayala S/N. Col. Sto. Tomás, C.P. 11340, Ciudad de México, México
| | - César Hernández-Rodríguez
- Departamento de Microbiología, Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional, Prol. de Carpio y Plan de Ayala S/N. Col. Sto. Tomás, C.P. 11340, Ciudad de México, México.
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2
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Oleńska E, Małek W, Wójcik M, Szopa S, Swiecicka I, Aleksandrowicz O, Włostowski T, Zawadzka W, Sillen WMA, Vangronsveld J, Cholakova I, Langill T, Thijs S. Bacteria associated with Zn-hyperaccumulators Arabidopsis halleri and Arabidopsis arenosa from Zn-Pb-Cd waste heaps in Poland as promising tools for bioremediation. Sci Rep 2023; 13:12606. [PMID: 37537323 PMCID: PMC10400580 DOI: 10.1038/s41598-023-39852-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2023] [Accepted: 08/01/2023] [Indexed: 08/05/2023] Open
Abstract
To identify metal adapted bacteria equipped with traits positively influencing the growth of two hyperaccumulator plant species Arabidopsis arenosa and Arabidopsis halleri, we isolated bacteria inhabiting rhizosphere and vegetative tissues (roots, basal and stem leaves) of plants growing on two old Zn-Pb-Cd waste heaps in Bolesław and Bukowno (S. Poland), and characterized their potential plant growth promoting (PGP) traits as well as determined metal concentrations in rhizosphere and plant tissues. To determine taxonomic position of 144 bacterial isolates, 16S rDNA Sanger sequencing was used. A metabolic characterization of isolated strains was performed in vitro using PGP tests. A. arenosa and A. halleri accumulate high amounts of Zn in their tissues, especially in stem leaves. Among in total 22 identified bacterial taxa, the highest level of the taxonomical diversity (H' = 2.01) was revealed in A. halleri basal leaf endophytes originating from Bukowno waste heap area. The 96, 98, 99, and 98% of investigated strains showed tolerant to Cd, Zn, Pb and Cu, respectively. Generally, higher percentages of bacteria could synthesize auxins, siderophores, and acetoin as well as could solubilize phosphate. Nine of waste heap origin bacterial strains were tolerant to toxic metals, showed in vitro PGP traits and are potential candidates for bioremediation.
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Affiliation(s)
- Ewa Oleńska
- Faculty of Biology, University of Bialystok, 1J Ciołkowski, 15-245, Bialystok, Poland.
| | - Wanda Małek
- Faculty of Biology and Biotechnology, Institute of Biological Sciences, Maria Curie-Skłodowska University, 19 Akademicka, 20-033, Lublin, Poland
| | - Małgorzata Wójcik
- Faculty of Biology and Biotechnology, Institute of Biological Sciences, Maria Curie-Skłodowska University, 19 Akademicka, 20-033, Lublin, Poland
| | - Sebastian Szopa
- SHIM-POL A.M. Borzymowski, 5 Lubomirski, 05-080, Izabelin, Poland
| | - Izabela Swiecicka
- Faculty of Biology, University of Bialystok, 1J Ciołkowski, 15-245, Bialystok, Poland
- Laboratory of Applied Microbiology, University of Bialystok, 1J Ciołkowski, 15-245, Bialystok, Poland
| | | | - Tadeusz Włostowski
- Faculty of Biology, University of Bialystok, 1J Ciołkowski, 15-245, Bialystok, Poland
| | - Weronika Zawadzka
- Faculty of Biology, University of Bialystok, 1J Ciołkowski, 15-245, Bialystok, Poland
| | - Wouter M A Sillen
- Faculty of Environmental Biology, Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, 3590, Diepenbeek, Belgium
| | - Jaco Vangronsveld
- Faculty of Biology and Biotechnology, Institute of Biological Sciences, Maria Curie-Skłodowska University, 19 Akademicka, 20-033, Lublin, Poland
- Faculty of Environmental Biology, Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, 3590, Diepenbeek, Belgium
| | - Iva Cholakova
- Faculty of Environmental Biology, Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, 3590, Diepenbeek, Belgium
| | - Tori Langill
- Faculty of Environmental Biology, Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, 3590, Diepenbeek, Belgium
| | - Sofie Thijs
- Faculty of Environmental Biology, Centre for Environmental Sciences, Hasselt University, Agoralaan Building D, 3590, Diepenbeek, Belgium
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3
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Dragun Z, Stipaničev D, Fiket Ž, Lučić M, Udiković Kolić N, Puljko A, Repec S, Šoštarić Vulić Z, Ivanković D, Barac F, Kiralj Z, Kralj T, Valić D. Yesterday's contamination-A problem of today? The case study of discontinued historical contamination of the Mrežnica River (Croatia). THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 848:157775. [PMID: 35926611 DOI: 10.1016/j.scitotenv.2022.157775] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2022] [Revised: 07/27/2022] [Accepted: 07/29/2022] [Indexed: 06/15/2023]
Abstract
The remnants of historical industrial contamination can be detected in many aquatic ecosystems worldwide even at present time. Mrežnica is a river in Croatia that has been, for more than a hundred years, continually exposed to effluents of various industries, which have, in modern time, mostly ceased to operate. Our aim was to establish the level of current contamination and pollution of the Mrežnica river-water and sediments. The study of river contamination at three sites (reference site; site nearby former cotton industry facility in Duga Resa - DRF; industrial zone of Karlovac town - KIZ) in three sampling campaigns (May 2020, April and September 2021) encompassed analyses of physico-chemical water parameters, screening of 369 pesticides, measurement of metal (loid) concentrations in the sediments, and in the dissolved and particulate phases of the river-water. The sediment pollution was assessed through the analyses of total bacteria abundance (by targeting 16S rRNA genes), and their associated metal resistance genes (cnrA, pbrT and czcD) and class 1 integrons (intl1). At the DRF site, industrial organic contaminants that can be traced to textile production were detected (dye and nylon components), as well as increased levels of some metals bound to suspended particulate matter and sediments. At the most downstream KIZ site, occasional high level of industrial herbicide neburon was measured in the river-water, and metal contamination of suspended particulate matter and sediments was evident. Although, based on the comparison with legislation and literature data, the level of contamination was rather mild, the effects on microbial communities were unquestionable, confirmed by increased abundance of the czcD gene at DRF site and the intI1 gene at both industrially impacted sites. Obtained results indicated long-term sediment retention of some industrial contaminants at the places of historical freshwater contamination, and, thus, the necessity for their monitoring even after the termination of contamination sources.
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Affiliation(s)
- Zrinka Dragun
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia.
| | | | - Željka Fiket
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Mavro Lučić
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Nikolina Udiković Kolić
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Ana Puljko
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Siniša Repec
- Croatian Waters, Central Water Management Laboratory, Zagreb, Croatia
| | - Zvjezdana Šoštarić Vulić
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Dušica Ivanković
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Fran Barac
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Zoran Kiralj
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Tomislav Kralj
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia
| | - Damir Valić
- Ruđer Bošković Institute, Division for Marine and Environmental Research, Bijenička cesta 54, Zagreb, Croatia.
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4
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Guzmán-Moreno J, García-Ortega LF, Torres-Saucedo L, Rivas-Noriega P, Ramírez-Santoyo RM, Sánchez-Calderón L, Quiroz-Serrano IN, Vidales-Rodríguez LE. Bacillus megaterium HgT21: a Promising Metal Multiresistant Plant Growth-Promoting Bacteria for Soil Biorestoration. Microbiol Spectr 2022; 10:e0065622. [PMID: 35980185 PMCID: PMC9604106 DOI: 10.1128/spectrum.00656-22] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2022] [Accepted: 07/26/2022] [Indexed: 12/30/2022] Open
Abstract
The environmental deterioration produced by heavy metals derived from anthropogenic activities has gradually increased. The worldwide dissemination of toxic metals in crop soils represents a threat for sustainability and biosafety in agriculture and requires strategies for the recovery of metal-polluted crop soils. The biorestoration of metal-polluted soils using technologies that combine plants and microorganisms has gained attention in recent decades due to the beneficial and synergistic effects produced by its biotic interactions. In this context, native and heavy metal-resistant plant growth-promoting bacteria (PGPB) play a crucial role in the development of strategies for sustainable biorestoration of metal-contaminated soils. In this study, we present a genomic analysis and characterization of the rhizospheric bacterium Bacillus megaterium HgT21 isolated from metal-polluted soil from Zacatecas, Mexico. The results reveal that this autochthonous bacterium contains an important set of genes related to a variety of operons associated with mercury, arsenic, copper, cobalt, cadmium, zinc and aluminum resistance. Additionally, halotolerance-, beta-lactam resistance-, phosphate solubilization-, and plant growth-promotion-related genes were identified. The analysis of resistance to metal ions revealed resistance to mercury (HgII+), arsenate [AsO4]³-, cobalt (Co2+), zinc (Zn2+), and copper (Cu2+). Moreover, the ability of the HgT21 strain to produce indole acetic acid (a phytohormone) and promote the growth of Arabidopsis thaliana seedlings in vitro was also demonstrated. The genotype and phenotype of Bacillus megaterium HgT21 reveal its potential to be used as a model of both plant growth-promoting and metal multiresistant bacteria. IMPORTANCE Metal-polluted environments are natural sources of a wide variety of PGPB adapted to cope with toxic metal concentrations. In this work, the bacterial strain Bacillus megaterium HgT21 was isolated from metal-contaminated soil and is proposed as a model for the study of metal multiresistance in spore-forming Gram-positive bacteria due to the presence of a variety of metal resistance-associated genes similar to those encountered in the metal multiresistant Gram-negative Cupriavidus metallidurans CH34. The ability of B. megaterium HgT21 to promote the growth of plants also makes it suitable for the study of plant-bacteria interactions in metal-polluted environments, which is key for the development of techniques for the biorestoration of metal-contaminated soils used for agriculture.
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Affiliation(s)
- Jesús Guzmán-Moreno
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Luis Fernando García-Ortega
- Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV), Irapuato, Guanajuato, Mexico
| | - Lilia Torres-Saucedo
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Paulina Rivas-Noriega
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Rosa María Ramírez-Santoyo
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Lenin Sánchez-Calderón
- Laboratorio de Genómica Evolutiva, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Iliana Noemi Quiroz-Serrano
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
| | - Luz Elena Vidales-Rodríguez
- Laboratorio de Biología de Bacterias y Hongos Filamentosos, Unidad Académica de Ciencias Biológicas, Universidad Autónoma de Zacatecas, Zacatecas, Zacatecas, Mexico
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5
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Cufaoglu G, Cengiz G, Onaran Acar B, Yesilkaya B, Ayaz ND, Levent G, Goncuoglu M. Antibiotic, heavy metal, and disinfectant resistance in chicken, cattle, and sheep origin
E. coli
and whole‐genome sequencing analysis of a multidrug‐resistant
E. coli
O100:H25 strain. J Food Saf 2022. [DOI: 10.1111/jfs.12995] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Gizem Cufaoglu
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Kirikkale University Kirikkale Turkey
| | - Gorkem Cengiz
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Ankara University Ankara Turkey
| | - Bahar Onaran Acar
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Ankara University Ankara Turkey
| | - Busra Yesilkaya
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Ankara University Ankara Turkey
| | - Naim Deniz Ayaz
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Kirikkale University Kirikkale Turkey
| | - Gizem Levent
- Department of Veterinary Pathobiology, College of Veterinary Medicine and Biomedical Sciences Texas A&M University College Station Texas USA
- School of Veterinary Medicine Texas Tech University Amarillo Texas USA
| | - Muammer Goncuoglu
- Department of Food Hygiene and Technology, Faculty of Veterinary Medicine Ankara University Ankara Turkey
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6
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Rivas-Castillo AM, Gómez-Ramírez M, Lucas-Gómez IM, Carrillo-Vega Y, Rojas-Avelizapa NG. A new technique to evaluate Acidithiobacillus thiooxidans growth during a bioleaching process based on DNA quantification. METHODS IN MICROBIOLOGY 2022; 198:106494. [DOI: 10.1016/j.mimet.2022.106494] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/05/2022] [Revised: 05/16/2022] [Accepted: 05/23/2022] [Indexed: 10/18/2022]
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7
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Mitra M, Nguyen KMAK, Box TW, Berry TL, Fujita M. Isolation and characterization of a heavy metal- and antibiotic-tolerant novel bacterial strain from a contaminated culture plate of Chlamydomonas reinhardtii, a green micro-alga. F1000Res 2021; 10:533. [PMID: 34540203 PMCID: PMC8424464 DOI: 10.12688/f1000research.53779.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 06/24/2021] [Indexed: 11/04/2023] Open
Abstract
Background:Chlamydomonas reinhardtii, a green micro-alga, is normally cultured in laboratories in Tris-Acetate Phosphate (TAP), a medium which contains acetate as the sole carbon source. Acetate in TAP can lead to occasional bacterial and fungal contamination. We isolated a yellow-pigmented bacterium from a Chlamydomonas TAP plate. It was named Clip185 based on the Chlamydomonas strain plate it was isolated from. In this article we present our work on the isolation, taxonomic identification and physiological and biochemical characterizations of Clip185. Methods: We measured sensitivities of Clip185 to five antibiotics and performed standard microbiological tests to characterize it. We partially sequenced the 16S rRNA gene of Clip185. We identified the yellow pigment of Clip185 by spectrophotometric analyses. We tested tolerance of Clip185 to six heavy metals by monitoring its growth on Lysogeny Broth (LB) media plates containing 0.5 mM -10 mM concentrations of six different heavy metals. Results: Clip185 is an aerobic, gram-positive rod, oxidase-negative, mesophilic, alpha-hemolytic bacterium. It can ferment glucose, sucrose and mannitol. It is starch hydrolysis-positive. It is very sensitive to vancomycin but resistant to penicillin and other bacterial cell membrane- and protein synthesis-disrupting antibiotics. Clip185 produces a C50 carotenoid, decaprenoxanthin, which is a powerful anti-oxidant with a commercial demand. Decaprenoxanthin production is induced in Clip185 under light. NCBI-BLAST analyses of the partial 16S rRNA gene sequence of Clip185 revealed a 99% sequence identity to that of Microbacterium binotii strain PK1-12M and Microbacterium sp. strain MDP6. Clip185 is able to tolerate toxic concentrations of six heavy metals. Conclusions: Our results show that Clip185 belongs to the genus Microbacterium. In the future, whole genome sequencing of Clip185 will clarify if Clip185 is a new Microbacterium species or a novel strain of Microbacterium binotii, and will reveal its genes involved in antibiotic-resistance, heavy-metal tolerance and regulation of decaprenoxanthin biosynthesis.
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Affiliation(s)
- Mautusi Mitra
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
| | - Kevin Manoap-Anh-Khoa Nguyen
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
- Department of Mechanical Engineering, Kennesaw State University, Marietta, Georgia, 30060, USA
| | - Taylor Wayland Box
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
| | - Taylor Lynne Berry
- Carrollton High School, Carrollton, Georgia, 30117, USA
- Department of Chemistry and Biochemistry, University of North Georgia, Dahlonega, Georgia, 30597, USA
| | - Megumi Fujita
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
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8
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Mitra M, Nguyen KMAK, Box TW, Berry TL, Fujita M. Isolation and characterization of a heavy metal- and antibiotic-tolerant novel bacterial strain from a contaminated culture plate of Chlamydomonas reinhardtii, a green micro-alga. F1000Res 2021; 10:533. [PMID: 34540203 PMCID: PMC8424464 DOI: 10.12688/f1000research.53779.2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Accepted: 08/27/2021] [Indexed: 11/20/2022] Open
Abstract
Background:Chlamydomonas reinhardtii, a green micro-alga, is normally cultured in laboratories in Tris-Acetate Phosphate (TAP), a medium which contains acetate as the sole carbon source. Acetate in TAP can lead to occasional bacterial and fungal contamination. We isolated a yellow-pigmented bacterium from a Chlamydomonas TAP plate. It was named Clip185 based on the Chlamydomonas strain plate it was isolated from. In this article we present our work on the isolation, taxonomic identification and physiological and biochemical characterizations of Clip185. Methods: We measured sensitivities of Clip185 to five antibiotics and performed standard microbiological tests to characterize it. We partially sequenced the 16S rRNA gene of Clip185. We identified the yellow pigment of Clip185 by spectrophotometric analyses. We tested tolerance of Clip185 to six heavy metals by monitoring its growth on Lysogeny Broth (LB) media plates containing 0.5 mM -10 mM concentrations of six different heavy metals. Results: Clip185 is an aerobic, gram-positive rod, oxidase-negative, mesophilic, alpha-hemolytic bacterium. It can ferment glucose, sucrose and mannitol. It is starch hydrolysis-positive. It is very sensitive to vancomycin but resistant to penicillin and other bacterial cell membrane- and protein synthesis-disrupting antibiotics. Clip185 produces a C50 carotenoid, decaprenoxanthin, which is a powerful anti-oxidant with a commercial demand. Decaprenoxanthin production is induced in Clip185 under light. NCBI-BLAST analyses of the partial 16S rRNA gene sequence of Clip185 revealed a 99% sequence identity to that of Microbacterium binotii strain PK1-12M and Microbacterium sp. strain MDP6. Clip185 is able to tolerate toxic concentrations of six heavy metals. Conclusions: Our results show that Clip185 belongs to the genus Microbacterium. In the future, whole genome sequencing of Clip185 will clarify if Clip185 is a new Microbacterium species or a novel strain of Microbacterium binotii, and will reveal its genes involved in antibiotic-resistance, heavy-metal tolerance and regulation of decaprenoxanthin biosynthesis.
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Affiliation(s)
- Mautusi Mitra
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
| | - Kevin Manoap-Anh-Khoa Nguyen
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
- Department of Mechanical Engineering, Kennesaw State University, Marietta, Georgia, 30060, USA
| | - Taylor Wayland Box
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
| | - Taylor Lynne Berry
- Carrollton High School, Carrollton, Georgia, 30117, USA
- Department of Chemistry and Biochemistry, University of North Georgia, Dahlonega, Georgia, 30597, USA
| | - Megumi Fujita
- Department of Mathematics, Sciences and Technology, University of West Georgia, Carrollton, Georgia, 30118, USA
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9
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Corretto E, Antonielli L, Sessitsch A, Höfer C, Puschenreiter M, Widhalm S, Swarnalakshmi K, Brader G. Comparative Genomics of Microbacterium Species to Reveal Diversity, Potential for Secondary Metabolites and Heavy Metal Resistance. Front Microbiol 2020; 11:1869. [PMID: 32903828 PMCID: PMC7438953 DOI: 10.3389/fmicb.2020.01869] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Accepted: 07/16/2020] [Indexed: 12/11/2022] Open
Abstract
Microbacterium species have been isolated from a wide range of hosts and environments, including heavy metal-contaminated sites. Here, we present a comprehensive analysis on the phylogenetic distribution and the genetic potential of 70 Microbacterium belonging to 20 different species isolated from heavy metal-contaminated and non-contaminated sites with particular attention to secondary metabolites gene clusters. The analyzed Microbacterium species are divided in three main functional clades. They share a small core genome (331 gene families covering basic functions) pointing to high genetic diversity. The most common secondary metabolite gene clusters encode pathways for the production of terpenoids, type III polyketide synthases and non-ribosomal peptide synthetases, potentially responsible of the synthesis of siderophore-like compounds. In vitro tests showed that many Microbacterium strains produce siderophores, ACC deaminase, auxins (IAA) and are able to solubilize phosphate. Microbacterium isolates from heavy metal contaminated sites are on average more resistant to heavy metals and harbor more genes related to metal homeostasis (e.g., metalloregulators). On the other hand, the ability to increase the metal mobility in a contaminated soil through the secretion of specific molecules seems to be widespread among all. Despite the widespread capacity of strains to mobilize several metals, plants inoculated with selected Microbacterium isolates showed only slightly increased iron concentrations, whereas concentrations of zinc, cadmium and lead were decreased.
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Affiliation(s)
- Erika Corretto
- Bioresouces Unit, Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Livio Antonielli
- Bioresouces Unit, Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Angela Sessitsch
- Bioresouces Unit, Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Christoph Höfer
- Institute of Soil Research, Department of Forest- and Soil Sciences, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Markus Puschenreiter
- Institute of Soil Research, Department of Forest- and Soil Sciences, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Siegrid Widhalm
- Bioresouces Unit, Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | | | - Günter Brader
- Bioresouces Unit, Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
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10
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Martínez-Rodríguez P, Sánchez-Castro I, Descostes M, Merroun ML. Draft genome sequence data of Microbacterium sp. strain Be9 isolated from uranium-mill tailings porewaters. Data Brief 2020; 31:105732. [PMID: 32478160 PMCID: PMC7248652 DOI: 10.1016/j.dib.2020.105732] [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: 03/30/2020] [Revised: 05/07/2020] [Accepted: 05/13/2020] [Indexed: 12/03/2022] Open
Abstract
Microbacterium are Gram-positive, nonspore-forming, rod-shaped bacteria inhabiting a wide range of environments including soil, water, dairy products, other living organisms, etc. Microbacterium sp. strain Be9, isolated from mill tailings porewaters in France, shows a remarkable behavior in presence of uranium under distinct conditions, which is the main reason for the interest in sequencing its genome. In this work, we describe the draft genome sequence of Be9, comprising 4,046,806 bp, with a G+C content of 68.10% and containing 3,947 protein-coding sequences. The preliminary genome annotation analysis identified some genes encoding for resistance to antibiotics and toxic compounds like heavy metals. This draft genome has been deposited at DDBJ/ENA/GenBank under the accession PRJNA590666.
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Affiliation(s)
- Pablo Martínez-Rodríguez
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071 Granada, Spain
- Corresponding author(s):
| | - Iván Sánchez-Castro
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071 Granada, Spain
| | | | - Mohamed L. Merroun
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071 Granada, Spain
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11
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Fierros-Romero G, Gómez-Ramírez M, Sharma A, Pless RC, Rojas-Avelizapa NG. czcD gene from Bacillus megaterium and Microbacterium liquefaciens as a potential nickel-vanadium soil pollution biomarker. J Basic Microbiol 2019; 60:22-26. [PMID: 31692013 DOI: 10.1002/jobm.201900323] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Accepted: 10/09/2019] [Indexed: 01/22/2023]
Abstract
Metals are among the most prevalent pollutants released into the environment. For these reasons, the use of biomarkers for environmental monitoring of individuals and populations exposed to metal pollution has gained considerable attention, offering fast and sensitive detection of chemical stress in organisms. There are different metal resistance genes in bacteria that can be used as biomarkers, including cation diffusion facilitators carrying metal ions; the prototype is the cobalt-zinc-cadmium transporter (czcD). The present study reports the expression changes in the czcD gene in Bacillus megaterium and Microbacterium liquefaciens under nickel and vanadium exposure by real-time polymerase chain reaction. The nickel-vanadium-resistant strains of B. megaterium and M. liquefaciens used in this study were isolated from mine tailings in Guanajuato, Mexico. The czcD gene showed high expression under exposure to 200 ppm of Ni and 200 ppm of V during the logarithmic growth phase of M. liquefaciens in PHGII liquid media. In contrast, no changes were observed in B. megaterium during logarithmic and stationary growth, perhaps due to the gene having differential expression during the growth phases. The expression profiles obtained for czcD show the possibility of using this gene from M. liquefaciens as a biomarker of nickel and vanadium pollution in microorganisms.
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Affiliation(s)
- Grisel Fierros-Romero
- Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada, Instituto Politécnico Nacional, Querétaro, Mexico.,School of Engineering and Sciences, Tecnologico de Monterrey, Campus Querétaro, Querétaro, Mexico
| | - Marlenne Gómez-Ramírez
- Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada, Instituto Politécnico Nacional, Querétaro, Mexico
| | - Ashutosh Sharma
- School of Engineering and Sciences, Tecnologico de Monterrey, Campus Querétaro, Querétaro, Mexico
| | - Reynaldo C Pless
- Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada, Instituto Politécnico Nacional, Querétaro, Mexico
| | - Norma G Rojas-Avelizapa
- Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada, Instituto Politécnico Nacional, Querétaro, Mexico
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12
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Gómez-Ramírez M, Rojas-Avelizapa NG, Hernández-Gama R, Tenorio-Sánchez SA, López-Villegas EO. Potential use of Bacillus genera for metals removal from spent catalysts. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART A, TOXIC/HAZARDOUS SUBSTANCES & ENVIRONMENTAL ENGINEERING 2019; 54:701-710. [PMID: 31094278 DOI: 10.1080/10934529.2019.1585720] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2018] [Revised: 02/02/2019] [Accepted: 02/08/2019] [Indexed: 06/09/2023]
Abstract
The aim of the present study was to isolate microorganisms able to tolerate Ni2+ and V5+ from different sites located close to a mineral mine in Guanajuato, Mexico, and then to evaluate their ability to remove metals contained in a spent catalyst. Seventeen isolates were obtained; among them seven presented a minimum inhibitory concentration (MIC) higher than 200 mg/L of Ni2+ and V5+ each. Nickel and Vanadium removal was evaluated in 9 K liquid medium added with spent catalyst at 16% (s/v) pulp density and incubated at 30 °C, 150 rpm for 7 days. Only three isolates which were coded as PRGSd-MS-2, MNSH2-AH-3, and MNSS-AH-4 showed a significant removal at the end of treatment corresponding in mg kg-1 (or percentage metal removal) of 138 (32%), 123 (29%), and 101 (24%) for Ni, respectively; and 557 (26%), 737 (34%), and 456 (21%) mg kg-1 for V, respectively. The same isolates were capable to remove also Al, Fe, As, and Mg at different extent. Cell morphology changes were observed, in comparison to the control system at the end of biological treatment as a higher quantity of spores for MNSH2-AH-3, 2 μm cells in pairs for MNSS-AH-4, also long chain-vegetative cells having inclusions into the cell surface were observed for PRGSd-MS-2. The three isolated microorganisms were identified by sequencing of the 16S gene as Bacillus thuringiensis, Bacillus megaterium, and Bacillus sp, respectively, suggesting its potential use in the treatment of this solid industrial waste.
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Affiliation(s)
- Marlenne Gómez-Ramírez
- a Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada de Instituto Politécnico Nacional , Santiago de Querétaro , Querétaro , México
| | - Norma G Rojas-Avelizapa
- a Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada de Instituto Politécnico Nacional , Santiago de Querétaro , Querétaro , México
| | - Regina Hernández-Gama
- a Centro de Investigación en Ciencia Aplicada y Tecnología Avanzada de Instituto Politécnico Nacional , Santiago de Querétaro , Querétaro , México
| | - Sergio A Tenorio-Sánchez
- b Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional , Ciudad de México , México
| | - Edgar O López-Villegas
- b Escuela Nacional de Ciencias Biológicas, Instituto Politécnico Nacional , Ciudad de México , México
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13
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Brito EMS, Romero-Núñez VM, Caretta CA, Bertin P, Valerdi-Negreros JC, Guyoneaud R, Goñi-Urriza M. The bacterial diversity on steam vents from Paricutín and Sapichu volcanoes. Extremophiles 2019; 23:249-263. [PMID: 30712189 DOI: 10.1007/s00792-019-01078-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2018] [Accepted: 01/22/2019] [Indexed: 01/30/2023]
Abstract
Vapor steam vents are prevailing structures on geothermal sites in which local geochemical conditions allow the development of extremophilic microorganisms. We describe the structure of the prokaryotic community able to grow on the walls and rocks of such microecosystems in two terrestrial Mexican volcanoes: Paricutín (PI and PII samples) and its satellite Sapichu (S sample). The investigated samples showed similar diversity indices, with few dominant OTUs (abundance > 1%): 21, 16 and 23, respectively for PI, PII and S. However, each steam vent showed a particular community profile: PI was dominated by photosynthetic bacteria (Cyanobacteria and Chloroflexia class), PII by Actinobacteria and Proteobacteria, and S by Ktedonobacteria class, Acidobacteria and Cyanobacteria phyla. Concerning the predicted metabolic potential, we found a dominance of cellular pathways, especially the ones for energy generation with metabolisms for sulfur respiration, nitrogen fixation, methanogenesis, carbon fixation, photosynthesis, and metals, among others. We suggest a different maturity stage for the three studied fumaroles, from the youngest (PI) to the oldest (S and PII), also influenced by the temperature and other geochemical parameters. Furthermore, four anaerobic strains were isolated, belonging to Clostridia class (Clostridium sphenoides, C. swellfunanium and Anaerocolumna cellulosilytica) and to Bacilli class (Paenibacillus azoreducens).
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Affiliation(s)
| | - Víctor Manuel Romero-Núñez
- Ingeniería Ambiental, División de Ingenierías (CGT), Universidad de Guanajuato, Guanajuato, Gto., Mexico
| | - César Augusto Caretta
- Departamento de Astronomía, División de Ciencias Naturales y Exactas (CGT), Universidad de Guanajuato, Guanajuato, Gto., Mexico
| | - Pierre Bertin
- Equipe Génomique, Structure et Traduction, Inst. Biologie Intégrative de la Cellule (I2BC) CNRS-UMR9198, Universitè Paris-Sud, 91405, Orsay Cedex, France
| | | | - Rémy Guyoneaud
- CNRS/Universitè de Pau et des Pays de l'Adour/E2S, Institut des Sciences Analytiques et de Physicochimie pour l'Environnement et les Matériaux, Environmental Microbiology Group, UMR 5254, 64000, Pau, France
| | - Marisol Goñi-Urriza
- CNRS/Universitè de Pau et des Pays de l'Adour/E2S, Institut des Sciences Analytiques et de Physicochimie pour l'Environnement et les Matériaux, Environmental Microbiology Group, UMR 5254, 64000, Pau, France
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14
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Chen D, Xiao Z, Wang H, Yang K. Toxic effects of vanadium (V) on a combined autotrophic denitrification system using sulfur and hydrogen as electron donors. BIORESOURCE TECHNOLOGY 2018; 264:319-326. [PMID: 29859503 DOI: 10.1016/j.biortech.2018.05.093] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Revised: 05/24/2018] [Accepted: 05/26/2018] [Indexed: 05/13/2023]
Abstract
Vanadium (V) is a common heavy metal and often co-occurs with nitrate in effluents from mining and metal finishing industry. In the present study, the toxic effects of V(V) were examined in a sulfur and hydrogen based autotrophic denitrification system. This combined system achieved simultaneously microbial denitrification and V(V) reduction. High concentration of V(V) (60 and 100 mg/L) inhibited the denitrification activities, while 30 mg/L V(V) had a very slight effect. V(V) induced increases of lactate dehydrogenase release and reactive oxygen species production, which may inhibit nitrate and nitrite reductases activities and abundances of denitrifying functional genes. Moreover, the extracellular polymeric substance production was also suppressed under V(V) stress, thereby decreasing the amount of biofilm biomass. Microbial community analyses suggesting the genus Bacillus may have higher tolerance to V(V). These findings can provide scientific basis for the optimized design of treatment system to remove nitrate and V(V) simultaneously.
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Affiliation(s)
- Dan Chen
- College of Urban Construction, Nanjing Tech University, Nanjing 211816, China
| | - Zhixing Xiao
- College of Urban Construction, Nanjing Tech University, Nanjing 211816, China.
| | - Hongyu Wang
- School of Civil Engineering, Wuhan University, Wuhan 430072, China
| | - Kai Yang
- School of Civil Engineering, Wuhan University, Wuhan 430072, China
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15
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Deng W, Quan Y, Yang S, Guo L, Zhang X, Liu S, Chen S, Zhou K, He L, Li B, Gu Y, Zhao S, Zou L. Antibiotic Resistance in Salmonella from Retail Foods of Animal Origin and Its Association with Disinfectant and Heavy Metal Resistance. Microb Drug Resist 2017; 24:782-791. [PMID: 29039715 DOI: 10.1089/mdr.2017.0127] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
This study aims to demonstrate the antibiotic resistance and its association with disinfectant and heavy metal resistance in 152 Salmonella isolates recovered from retail foods of animal origins. Susceptibility testing demonstrated that 92.8% isolates were resistant to at least one antibiotic, and the resistance was highest to oxytetracycline (80.9%), followed by trimethoprim (64.5%), amoxicillin (28.9%), ampicillin (28.3%), levofloxacin (21.7%), ciprofloxacin (16.4%), and gentamicin (10.5%), respectively. The blaTEM and tetA genes (44.7%) were commonly present. The qacF and qacEΔ1 genes were detected in 18.4% and 8.6% of all isolates. The Cu-resistance genes pcoR, pcoC, and pcoA were the most prevalent (20.4-40.8%), followed by Hg-resistance gene merA (17.8%) and As-resistance genes arsB (6.6%). The antibiotic resistance was highly associated with disinfectant or certain heavy metal resistance genes. Most notably, the association among Cu-resistance genes (pcoC, pcoR), disinfectant resistance genes (qacF, qacEΔ1), and tetracycline and sulfonamide resistance genes (tet, sul) was significant (p < 0.05). Pulsed-field gel electrophoresis revealed that Salmonella isolates was associated with supermarkets indicating the possibility of crosscontamination in farms or processing environment. This study indicated that retail meats may be a reservoir for the dissemination of antibiotic-resistant Salmonella and using disinfectants for decontamination or metals in livestock may provide a pressure for coselecting strains with acquired resistance to other antimicrobials.
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Affiliation(s)
- Wenwen Deng
- 1 Department of Applied Microbiology, College of Resources, Sichuan Agricultural University , Chengdu, People's Republic of China
| | - Yuan Quan
- 2 Clinical Laboratory, Taizhou Second People's Hospital , Jiangyan, People's Republic of China
| | - Shengzhi Yang
- 1 Department of Applied Microbiology, College of Resources, Sichuan Agricultural University , Chengdu, People's Republic of China
| | - Lijuan Guo
- 1 Department of Applied Microbiology, College of Resources, Sichuan Agricultural University , Chengdu, People's Republic of China
| | - Xiuli Zhang
- 3 Inspection and Testing Center, Henan Center for Disease Control and Prevention , Zhengzhou, People's Republic of China
| | - Shuliang Liu
- 4 College of Food Science, Sichuan Agricultural University , Ya'an, Sichuan, People's Republic of China
| | - Shujuan Chen
- 4 College of Food Science, Sichuan Agricultural University , Ya'an, Sichuan, People's Republic of China
| | - Kang Zhou
- 4 College of Food Science, Sichuan Agricultural University , Ya'an, Sichuan, People's Republic of China
| | - Li He
- 4 College of Food Science, Sichuan Agricultural University , Ya'an, Sichuan, People's Republic of China
| | - Bei Li
- 5 Lab of Microbiology, Dujiangyan Campus of Sichuan Agricultural University , Dujiangyan, Sichuan, People's Republic of China
| | - Yunfu Gu
- 1 Department of Applied Microbiology, College of Resources, Sichuan Agricultural University , Chengdu, People's Republic of China
| | - Shaohua Zhao
- 6 Division of Animal and Food Microbiology, Office of Research, Center for Veterinary Medicine , U.S. Food and Drug Administration, Laurel, Maryland
| | - Likou Zou
- 1 Department of Applied Microbiology, College of Resources, Sichuan Agricultural University , Chengdu, People's Republic of China
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16
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Diverse molecular resistance mechanisms of Bacillus megaterium during metal removal present in a spent catalyst. BIOTECHNOL BIOPROC E 2017. [DOI: 10.1007/s12257-016-0019-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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17
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Fierros-Romero G, Wrosek-Cabrera JA, Gómez-Ramírez M, Pless RC, Rivas-Castillo AM, Rojas-Avelizapa NG. Expression Changes in Metal-Resistance Genes in Microbacterium liquefaciens Under Nickel and Vanadium Exposure. Curr Microbiol 2017; 74:840-847. [DOI: 10.1007/s00284-017-1252-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2016] [Accepted: 04/11/2017] [Indexed: 02/04/2023]
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