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Martínez-Guitián M, Vázquez-Ucha JC, Álvarez-Fraga L, Conde-Pérez K, Vallejo JA, Perina A, Bou G, Poza M, Beceiro A. Global Transcriptomic Analysis During Murine Pneumonia Infection Reveals New Virulence Factors in Acinetobacter baumannii. J Infect Dis 2020; 223:1356-1366. [DOI: 10.1093/infdis/jiaa522] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2020] [Accepted: 08/13/2020] [Indexed: 12/15/2022] Open
Abstract
Abstract
Background
Infections caused by multidrug-resistant pathogens such as Acinetobacter baumannii constitute a major health problem worldwide. In this study we present a global in vivo transcriptomic analysis of A. baumannii isolated from the lungs of mice with pneumonia infection.
Methods
Mice were infected with A. baumannii ATCC 17978 and AbH12O-A2 strains and the total bacterial RNA were analyzed by RNA sequencing. Lists of differentially expressed genes were obtained and 14 of them were selected for gene deletion and further analysis.
Results
Transcriptomic analysis revealed a specific gene expression profile in A. baumannii during lung infection with upregulation of genes involved in iron acquisition and host invasion. Mutant strains lacking feoA, mtnN, yfgC, basB, hisF, oatA, and bfnL showed a significant loss of virulence in murine pneumonia. A decrease in biofilm formation, adherence to human epithelial cells, and growth rate was observed in selected mutants.
Conclusions
This study provides an insight into A. baumannii gene expression profile during murine pneumonia infection. Data revealed that 7 in vivo upregulated genes were involved in virulence and could be considered new therapeutic targets.
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Affiliation(s)
- Marta Martínez-Guitián
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Juan C Vázquez-Ucha
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Laura Álvarez-Fraga
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Kelly Conde-Pérez
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Juan A Vallejo
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | | | - Germán Bou
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Margarita Poza
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
| | - Alejandro Beceiro
- Servicio de Microbiología del Complejo Hospitalario Universitario, Instituto de Investigación Biomédica, Centro de Investigaciones Científicas Avanzadas, Universidad de A Coruña, A Coruña, Spain
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Yoo D, Bagon BB, Valeriano VDV, Oh JK, Kim H, Cho S, Kang DK. Complete genome analysis of Lactobacillus fermentum SK152 from kimchi reveals genes associated with its antimicrobial activity. FEMS Microbiol Lett 2018; 364:4094913. [PMID: 28934382 DOI: 10.1093/femsle/fnx185] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2017] [Accepted: 08/23/2017] [Indexed: 12/22/2022] Open
Abstract
Research findings on probiotics highlight their importance in repressing harmful bacteria, leading to more extensive research on their potential applications. We analysed the genome of Lactobacillus fermentum SK152, which was isolated from the Korean traditional fermented vegetable dish kimchi, to determine the genetic makeup and genetic factors responsible for the antimicrobial activity of L. fermentum SK152 and performed a comparative genome analysis with other L. fermentum strains. The genome of L. fermentum SK152 was found to comprise a complete circular chromosome of 2092 273 bp, with an estimated GC content of 51.9% and 2184 open reading frames. It consisted of 2038 protein-coding genes and 73 RNA-coding genes. Moreover, a gene encoding a putative endolysin was found. A comparative genome analysis with other L. fermentum strains showed that SK152 is closely related to L. fermentum 3872 and F-6. An evolutionary analysis identified five positively selected genes that encode proteins associated with transport, survival and stress resistance. These positively selected genes may be essential for L. fermentum to colonise and survive in the stringent environment of the human gut and exert its beneficial effects. Our findings highlight the potential benefits of SK152.
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Affiliation(s)
- DongAhn Yoo
- CHO&KIM genomics, Main Bldg. #514, SNU Research Park, Seoul National University Mt.4-2, NakSeoungDae, Seoul 151-919, Gwanakgu, Republic of Korea.,Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 151-742, Korea
| | - Bernadette B Bagon
- Department of Animal Resources Science, Dankook University, Cheonan 31116, Republic of Korea
| | | | - Ju Kyoung Oh
- Department of Animal Resources Science, Dankook University, Cheonan 31116, Republic of Korea
| | - Heebal Kim
- Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 151-742, Korea.,Department of Agricultural Biotechnology and Research Institute of Population Genomics, Seoul National University, Seoul 151-742, Republic of Korea
| | - Seoae Cho
- Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul 151-742, Korea
| | - Dae-Kyung Kang
- Department of Animal Resources Science, Dankook University, Cheonan 31116, Republic of Korea
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Lee SW, Shet UK, Park SW, Lim HP, Yun KD, Kang SS, Kim SE. Identification of Enterococcus faecalis antigens specifically expressed in vivo. Restor Dent Endod 2015; 40:306-11. [PMID: 26587417 PMCID: PMC4650527 DOI: 10.5395/rde.2015.40.4.306] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2015] [Accepted: 08/10/2015] [Indexed: 01/05/2023] Open
Abstract
Objectives Molecular mechanism of the pathogenicity of Enterococcus faecalis (E. faecalis), a suspected endodontic pathogen, has not yet been adequately elucidated due to limited information on its virulence factors. Here we report the identification of in vivo expressed antigens of E. faecalis by using a novel immunoscreening technique called change-mediated antigen technology (CMAT) and an experimental animal model of endodontic infection. Materials and Methods Among 4,500 E. coli recombinant clones screened, 19 positive clones reacted reproducibly with hyperimmune sera obtained from rabbits immunized with E. faecalis cells isolated from an experimental endodontic infection. DNA sequences from 16 of these in vivo-induced (IVI) genes were determined. Results Identified protein antigens of E. faecalis included enzymes involved in housekeeping functions, copper resistance protein, putative outer membrane proteins, and proteins of unknown function. Conclusions In vivo expressed antigens of E. faecalis could be identified by using a novel immune-screening technique CMAT and an experimental animal model of endodontic infection. Detailed analysis of these IVI genes will lead to a better understanding of the molecular mechanisms involved in the endodontic infection of E. faecalis.
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Affiliation(s)
- Seok-Woo Lee
- Department of Dental Education, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea. ; Department of Periodontology, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea
| | - Uttom K Shet
- Department of Maxillofacial Surgery, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea
| | - Sang-Won Park
- Department of Prosthodontics, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea
| | - Hyun-Pil Lim
- Department of Prosthodontics, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea
| | - Kwi-Dug Yun
- Department of Prosthodontics, Dental Science Research Institute and BK21 Project, School of Dentistry, Gwangju, Korea
| | - Seong Soo Kang
- Department of Veterinary Medicine, Chonnam National University, Gwangju, Korea
| | - Se Eun Kim
- Department of Veterinary Medicine, Chonnam National University, Gwangju, Korea
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Malamud F, Homem RA, Conforte VP, Yaryura PM, Castagnaro AP, Marano MR, do Amaral AM, Vojnov AA. Identification and characterization of biofilm formation-defective mutants of Xanthomonas citri subsp. citri. Microbiology (Reading) 2013; 159:1911-1919. [DOI: 10.1099/mic.0.064709-0] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Florencia Malamud
- Instituto de Ciencia y Tecnología Dr César Milstein, Fundación Pablo Cassará, CONICET, Saladillo 2468, C1440FFX Ciudad de Buenos Aires, Argentina
| | - Rafael Augusto Homem
- Embrapa Recursos Genéticos e Biotecnología and Centro APTA Citros Sylvio Moreira, Instituto Agronômico de Campinas, Cordeiropolis, Sao Pablo, Brazil
| | - Valeria Paola Conforte
- Instituto de Ciencia y Tecnología Dr César Milstein, Fundación Pablo Cassará, CONICET, Saladillo 2468, C1440FFX Ciudad de Buenos Aires, Argentina
| | - Pablo Marcelo Yaryura
- Instituto de Ciencia y Tecnología Dr César Milstein, Fundación Pablo Cassará, CONICET, Saladillo 2468, C1440FFX Ciudad de Buenos Aires, Argentina
| | - Atilio Pedro Castagnaro
- Estación Experimental Agroindustrial Obispo Colombres, Av. William Cross 3150, Las Talitas, Tucumán, Argentina
| | - María Rosa Marano
- IBR-Depto Microbiología, Facultad de Ciencias, Bioquímicas y Farmacéuticas, U.N.R. Suipacha 531, S2002LRK Rosario, Argentina
| | - Alexandre Morais do Amaral
- Embrapa Recursos Genéticos e Biotecnología and Centro APTA Citros Sylvio Moreira, Instituto Agronômico de Campinas, Cordeiropolis, Sao Pablo, Brazil
| | - Adrián Alberto Vojnov
- Instituto de Ciencia y Tecnología Dr César Milstein, Fundación Pablo Cassará, CONICET, Saladillo 2468, C1440FFX Ciudad de Buenos Aires, Argentina
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Klebsiella pneumoniae yggG gene product: a zinc-dependent metalloprotease. Int J Mol Sci 2011; 12:4441-55. [PMID: 21845088 PMCID: PMC3155361 DOI: 10.3390/ijms12074441] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2011] [Revised: 06/02/2011] [Accepted: 06/07/2011] [Indexed: 12/23/2022] Open
Abstract
Klebsiella pneumoniae causes neonatal sepsis and nosocomial infections. One of the strains, K. pneumoniae MGH 78578, shows high level of resistance to multiple microbial agents. In this study, domain family, amino acid sequence and topology analyses were performed on one of its hypothetical protein, YggG (KPN_03358). Structural bioinformatics approaches were used to predict the structure and functionality of YggG protein. The open reading frame (ORF) of yggG, which was a putative metalloprotease gene, was also cloned, expressed and characterized. The ORF was PCR amplified from K. pneumoniae MGH 78578 genomic DNA and cloned into a pET14-b vector for heterologous expression in Escherichia coli. The purified YggG protein was subsequently assayed for casein hydrolysis under different conditions. This protein was classified as peptidase M48 family and subclan gluzincin. It was predicted to contain one transmembrane domain by TMpred. Optimal protein expression was achieved by induction with 0.6 mM isopropyl thiogalactoside (IPTG) at 25 °C for six hours. YggG was purified as soluble protein and confirmed to be proteolytically active under the presence of 1.25 mM zinc acetate and showed optimum activity at 37 °C and pH 7.4. We confirmed for the first time that the yggG gene product is a zinc-dependent metalloprotease.
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