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Rodea M GE, González-Villalobos E, Espinoza-Mellado MDR, Hernández-Chiñas U, Eslava-Campos CA, Balcázar JL, Molina-López J. Genomic analysis of a novel phage vB_SenS_ST1UNAM with lytic activity against Salmonella enterica serotypes. Diagn Microbiol Infect Dis 2024; 109:116305. [PMID: 38643675 DOI: 10.1016/j.diagmicrobio.2024.116305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2023] [Revised: 03/09/2024] [Accepted: 04/12/2024] [Indexed: 04/23/2024]
Abstract
In this study, we present the complete annotated genome of a novel Salmonella phage, vB_SenS_ST1UNAM. This phage exhibits lytic activity against several Salmonella enterica serotypes, such as S. Typhi, S. Enteritidis, and S. Typhimurium strains, which are major causes of foodborne illness worldwide. Its genome consists of a linear, double-stranded DNA of 47,877 bp with an average G+C content of 46.6%. A total of 85 coding regions (CDS) were predicted, of which only 43 CDS were functionally assigned. Neither genes involved in the regulation of lysogeny, nor antibiotic resistance genes were identified. This phage harbors a lytic cassette that encodes a type II-holin and a Rz/Rz1-like spanin complex, along with a restriction-modification evasion system and a depolymerase that degrades Salmonella exopolysaccharide. Moreover, the comparative analysis with closely related phage genomes revealed that vB_SenS_ST1UNAM represents a novel genus, for which the genus "Gomezvirus" within the subfamily "ST1UNAM-like" is proposed.
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Affiliation(s)
- Gerardo E Rodea M
- Laboratorio de Patogenicidad Bacteriana, Unidad de Hemato-Oncología e Investigación. Hospital Infantil de México Federico Gómez/Facultad de Medicina UNAM, C.P. 06720 Mexico City, Mexico; Unidad de Investigación en Enfermedades Infecciosas Área de Genética Bacteriana, Hospital Infantil de México Federico Gómez, Ciudad de México, México
| | - Edgar González-Villalobos
- Laboratorio de Epidemiología Molecular División de Investigación, departamento de Salud Pública, Facultad de Medicina UNAM, C.P. 06720 Mexico City, Mexico
| | - María Del Rosario Espinoza-Mellado
- Central de Instrumentación de Microscopía, Depto. Investigación, Instituto Politécnico Nacional-Escuela Nacional de Ciencias Biológicas (IPN-ENCB), Prolongación de Carpio y Plan de Ayala, Mexico City 11340, México
| | - Ulises Hernández-Chiñas
- Unidad Periférica de Investigación Básica y Clínica en Enfermedades Infecciosas; Departamento de Salud Pública/División de Investigación, Facultad de Medicina, UNAM, C.P. 04510. Mexico City, Mexico; Laboratorio de Patogenicidad Bacteriana, Unidad de Hemato-Oncología e Investigación. Hospital Infantil de México Federico Gómez/Facultad de Medicina UNAM, C.P. 06720 Mexico City, Mexico
| | - Carlos Alberto Eslava-Campos
- Unidad Periférica de Investigación Básica y Clínica en Enfermedades Infecciosas; Departamento de Salud Pública/División de Investigación, Facultad de Medicina, UNAM, C.P. 04510. Mexico City, Mexico; Laboratorio de Patogenicidad Bacteriana, Unidad de Hemato-Oncología e Investigación. Hospital Infantil de México Federico Gómez/Facultad de Medicina UNAM, C.P. 06720 Mexico City, Mexico
| | - José Luis Balcázar
- Catalan Institute for Water Research (ICRA). 17003, Girona, Spain; University of Girona. 17004 Girona, Spain
| | - José Molina-López
- Unidad Periférica de Investigación Básica y Clínica en Enfermedades Infecciosas; Departamento de Salud Pública/División de Investigación, Facultad de Medicina, UNAM, C.P. 04510. Mexico City, Mexico; Laboratorio de Patogenicidad Bacteriana, Unidad de Hemato-Oncología e Investigación. Hospital Infantil de México Federico Gómez/Facultad de Medicina UNAM, C.P. 06720 Mexico City, Mexico.
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Engel DR, Wagenlehner FME, Shevchuk O. Scientific Advances in Understanding the Pathogenesis, Diagnosis, and Prevention of Urinary Tract Infection in the Past 10 Years. Infect Dis Clin North Am 2024; 38:229-240. [PMID: 38575493 DOI: 10.1016/j.idc.2024.03.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/06/2024]
Abstract
Urinary tract infection (UTI) is a very common disease that is accompanied by various complications in the affected person. UTI triggers diverse inflammatory reactions locally in the infected urinary bladder and kidney, causing tissue destruction and organ failure. Moreover, systemic responses in the entire body carry the risk of urosepsis with far-reaching consequences. Understanding the cell-, organ-, and systemic mechanisms in UTI are crucial for prevention, early intervention, and current therapeutic approaches. This review summarizes the scientific advances over the last 10 years concerning pathogenesis, prevention, rapid diagnosis, and new treatment approaches. We also highlight the impact of the immune system and potential new therapies to reduce progressive and recurrent UTI.
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Affiliation(s)
- Daniel R Engel
- Department of Immunodynamics, University Duisburg-Essen, University Hospital Essen, Institute of Experimental Immunology and Imaging, Hufelandstraße 55, 45147 Essen, Germany
| | - Florian M E Wagenlehner
- Justus-Liebig University Giessen, Clinic for Urology, Paediatric Urology and Andrology, Rudolf-Buchheim Straße 7, 35392 Giessen, Germany
| | - Olga Shevchuk
- Department of Immunodynamics, University Duisburg-Essen, University Hospital Essen, Institute of Experimental Immunology and Imaging, Hufelandstraße 55, 45147 Essen, Germany.
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Abdelghafar A, El-Ganiny A, Shaker G, Askoura M. A novel lytic phage exhibiting a remarkable in vivo therapeutic potential and higher antibiofilm activity against Pseudomonas aeruginosa. Eur J Clin Microbiol Infect Dis 2023; 42:1207-1234. [PMID: 37608144 PMCID: PMC10511388 DOI: 10.1007/s10096-023-04649-y] [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: 03/25/2023] [Accepted: 08/07/2023] [Indexed: 08/24/2023]
Abstract
BACKGROUND Pseudomonas aeruginosa is a nosocomial bacterium responsible for variety of infections. Inappropriate use of antibiotics could lead to emergence of multidrug-resistant (MDR) P. aeruginosa strains. Herein, a virulent phage; vB_PaeM_PS3 was isolated and tested for its application as alternative to antibiotics for controlling P. aeruginosa infections. METHODS Phage morphology was observed using transmission electron microscopy (TEM). The phage host range and efficiency of plating (EOP) in addition to phage stability were analyzed. One-step growth curve was performed to detect phage growth kinetics. The impact of isolated phage on planktonic cells and biofilms was assessed. The phage genome was sequenced. Finally, the therapeutic potential of vB_PaeM_PS3 was determined in vivo. RESULTS Isolated phage has an icosahedral head and a contractile tail and was assigned to the family Myoviridae. The phage vB_PaeM_PS3 displayed a broad host range, strong bacteriolytic ability, and higher environmental stability. Isolated phage showed a short latent period and large burst size. Importantly, the phage vB_PaeM_PS3 effectively eradicated bacterial biofilms. The genome of vB_PaeM_PS3 consists of 93,922 bp of dsDNA with 49.39% G + C content. It contains 171 predicted open reading frames (ORFs) and 14 genes as tRNA. Interestingly, the phage vB_PaeM_PS3 significantly attenuated P. aeruginosa virulence in host where the survival of bacteria-infected mice was markedly enhanced following phage treatment. Moreover, the colonizing capability of P. aeruginosa was markedly impaired in phage-treated mice as compared to untreated infected mice. CONCLUSION Based on these findings, isolated phage vB_PaeM_PS3 could be potentially considered for treating of P. aeruginosa infections.
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Affiliation(s)
- Aliaa Abdelghafar
- Department of Microbiology and Immunology, Faculty of Pharmacy, Zagazig University, Zagazig, 44519, Egypt
| | - Amira El-Ganiny
- Department of Microbiology and Immunology, Faculty of Pharmacy, Zagazig University, Zagazig, 44519, Egypt
| | - Ghada Shaker
- Department of Microbiology and Immunology, Faculty of Pharmacy, Zagazig University, Zagazig, 44519, Egypt
| | - Momen Askoura
- Department of Microbiology and Immunology, Faculty of Pharmacy, Zagazig University, Zagazig, 44519, Egypt.
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Li Y, Wang S, Zhang K, Yin Y, Zhang X, Zhang Q, Kong X, Tang L, Zhang R, Zhang Z. Serratia marcescens in the intestine of housefly larvae inhibits host growth by interfering with gut microbiota. Parasit Vectors 2023; 16:196. [PMID: 37301969 DOI: 10.1186/s13071-023-05781-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2023] [Accepted: 04/20/2023] [Indexed: 06/12/2023] Open
Abstract
BACKGROUND The structure of gut microbiota is highly complex. Insects have ubiquitous associations with intestinal symbiotic bacteria, which play essential roles. Thus, understanding how changes in the abundance of a single bacterium interfere with bacterial interactions in the insect's gut is important. METHODS Here, we analyzed the effects of Serratia marcescens on the growth and development of housefly larvae using phage technology. We used 16S rRNA gene sequencing technology to explore dynamic diversity and variation in gut bacterial communities and performed plate confrontation assays to study the interaction between S. marcescens and intestinal microorganisms. Furthermore, we performed phenoloxidase activity assay, crawling assay, and trypan blue staining to explore the negative effects of S. marcescens on housefly larvae's humoral immunity, motility, and intestinal organization. RESULTS The growth and development of housefly larvae were inhibited after feeding on S. marcescens, and their intestinal bacterial composition changed with increasing abundance of Providencia and decreasing abundance of Enterobacter and Klebsiella. Meanwhile, the depletion of S. marcescens by phages promoted the reproduction of beneficial bacteria. CONCLUSIONS In our study, using phage as a tool to regulate the abundance of S. marcescens, we highlighted the mechanism by which S. marcescens inhibits the growth and development of housefly larvae and illustrated the importance of intestinal flora for larval development. Furthermore, by studying the dynamic diversity and variation in gut bacterial communities, we improved our understanding of the possible relationship between the gut microbiome and housefly larvae when houseflies are invaded by exogenous pathogenic bacteria.
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Affiliation(s)
- Ying Li
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Shumin Wang
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- School of Life Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
| | - Kexin Zhang
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Yansong Yin
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Xinyu Zhang
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Qian Zhang
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Xinxin Kong
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China
| | - Luyao Tang
- Weifang Medical University, Weifang, 261021, Shandong, China
| | - Ruiling Zhang
- School of Basic Medical Science, (Shandong Academy of Medical Sciences), Shandong First Medical University, Taian, 271016, Shandong, China.
- Collaborative Innovation Center for the Origin and Control of Emerging Infectious Diseases, (Shandong Academy of Medical Sciences), Shandong First Medical University, No. 619, Changchen Road, Taian, 271016, Shandong, China.
| | - Zhong Zhang
- Weifang Medical University, Weifang, 261021, Shandong, China.
- The First Affiliated Hospital of Shandong First Medical University, Jinan, 250014, Shandong, China.
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Maganha de Almeida Kumlien AC, Pérez-Vega C, González-Villalobos E, Borrego CM, Balcázar JL. Genome analysis of a new Escherichia phage vB_EcoM_C2-3 with lytic activity against multidrug-resistant Escherichia coli. Virus Res 2022; 307:198623. [PMID: 34762992 DOI: 10.1016/j.virusres.2021.198623] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Revised: 11/03/2021] [Accepted: 11/04/2021] [Indexed: 11/20/2022]
Abstract
In this study, we present the complete, annotated genome of a new member of the Tequatrovirus (T4-like) genus, Escherichia phage vB_EcoM_C2-3. This phage has an isometric head (92 nm in diameter) and a contractile tail (114 nm in length). Its genome consists of a linear, double-stranded DNA of 167,069bp with an average G+C content of 35.3%. There are 267 predicted genes, of which 125 encode functional proteins, including those for DNA replication, transcription and packaging, phage morphogenesis and cell lysis. Neither genes involved in the regulation of lysogeny nor antibiotic resistance genes were identified. Based on our results, its genomic features provide valuable insights into the use of a potential biocontrol agent, as Escherichia phage vB_EcoM_C2-3 exhibited lytic activity against E. coli, including multidrug-resistant strains.
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Affiliation(s)
| | - Clara Pérez-Vega
- Catalan Institute for Water Research (ICRA), Girona, Spain; University of Girona, Girona, Spain
| | | | - Carles M Borrego
- Catalan Institute for Water Research (ICRA), Girona, Spain; Group of Molecular Microbial Ecology, Institute of Aquatic Ecology, University of Girona, Girona, Spain
| | - José Luis Balcázar
- Catalan Institute for Water Research (ICRA), Girona, Spain; University of Girona, Girona, Spain.
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