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Assessment of rSodC, rPknG, rNanH, and rSpaC as Antigens for Diagnostic Tools Against Caseous Lymphadenitis. Curr Microbiol 2022; 79:283. [PMID: 35934734 DOI: 10.1007/s00284-022-02974-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 07/13/2022] [Indexed: 11/03/2022]
Abstract
Corynebacterium pseudotuberculosis is a bacillus that causes caseous lymphadenitis in small ruminants, leading to great losses to rural producers; thus, an efficient diagnosis is necessary for using disease control measures. This study aimed to evaluate the antigenic potential of four C. pseudotuberculosis recombinant proteins (rSodC, rPknG, rNanH, and rSpaC) against sera of goat and sheep experimentally infected with one of three different C. pseudotuberculosis strains. Goats were infected with CAP76 or CAP21 strain (n = 10), sheep with VD57 strain (n = 6), and a group of not-infected animals (goats and sheep) were kept as a healthy control (healthy n = 12). Sera were collected at 0, 14, 60, 90, 180, or 190 days after inoculation for antigenicity testing using Western blotting and enzyme-linked immunosorbent assay (ELISA) techniques. Cross-reactivity tests with recombinant proteins were performed in goat serum experimentally vaccinated with Nocardia sp. or Rhodococcus equi bacterin. The rSodC protein showed discriminatory antigenic reactivity with a statistically significant difference against three different C. pseudotuberculosis strains evaluated in goats and sheep samples, while rPknG showed statistical significance only against two C. pseudotuberculosis strains evaluated in goats. rSodC was proved to be a strong candidate as a tool for diagnosis of C. pseudotuberculosis infection, once it was able to recognize antibodies against all strains evaluated in goats and sheep.
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Barral TD, Rebouças MF, Loureiro D, Raynal JT, Sousa TJ, Moura-Costa LF, Azevedo V, Meyer R, Portela RW. Chemokine production induced by Corynebacterium pseudotuberculosis in a murine model. Braz J Microbiol 2022; 53:1019-1027. [PMID: 35138630 PMCID: PMC9151972 DOI: 10.1007/s42770-022-00694-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2021] [Accepted: 02/01/2022] [Indexed: 02/01/2023] Open
Abstract
Corynebacterium pseudotuberculosis is the etiological agent of caseous lymphadenitis. The main clinical sign of this disease is the development of granulomas, especially in small ruminants; however, the pathways that are involved in the formation and maintenance of these granulomas are unknown. Cytokines and chemokines are responsible for the migration of immune cells to specific sites and tissues; therefore, it is possible that chemokines participate in abscess formation. This study aimed to evaluate the induction of chemokine production by two C. pseudotuberculosis strains in a murine model. A highly pathogenic (VD57) and an attenuated (T1) strain of C. pseudotuberculosis, as well as somatic and secreted antigens derived from these strains, was used to stimulate murine splenocytes. Then, the concentrations of the chemokines CCL-2, CCL-3, CCL-4, and CCL-5 and the cytokines IL-1 and TNF were measured in the culture supernatants. The VD57 strain had a higher ability to stimulate the production of chemokines when compared to T1 strain, especially in the early stages of stimulation, which can have an impact on granuloma formation. The T1 lysate antigen was able to stimulate most of the chemokines studied herein when compared to the other antigenic fractions of both strains. These results indicate that C. pseudotuberculosis is a chemokine production inducer, and the bacterial strains differ in their induction pattern, a situation that can be related to the specific behavior of each strain.
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Affiliation(s)
- Thiago Doria Barral
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - Miriam Flores Rebouças
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - Dan Loureiro
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - José Tadeu Raynal
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - Thiago Jesus Sousa
- Laboratory of Molecular and Cellular Genetics, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais State, 31270-901, Brazil
| | - Lilia Ferreira Moura-Costa
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - Vasco Azevedo
- Laboratory of Molecular and Cellular Genetics, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais State, 31270-901, Brazil
| | - Roberto Meyer
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil
| | - Ricardo Wagner Portela
- Laboratory of Immunology and Molecular Biology, Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia State, 40110-100, Brazil.
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3
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Marques da Silva W, Seyffert N, Silva A, Azevedo V. A journey through the Corynebacterium pseudotuberculosis proteome promotes insights into its functional genome. PeerJ 2022; 9:e12456. [PMID: 35036114 PMCID: PMC8710256 DOI: 10.7717/peerj.12456] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2021] [Accepted: 10/18/2021] [Indexed: 11/28/2022] Open
Abstract
Background Corynebacterium pseudotuberculosis is a Gram-positive facultative intracellular pathogen and the etiologic agent of illnesses like caseous lymphadenitis in small ruminants, mastitis in dairy cattle, ulcerative lymphangitis in equines, and oedematous skin disease in buffalos. With the growing advance in high-throughput technologies, genomic studies have been carried out to explore the molecular basis of its virulence and pathogenicity. However, data large-scale functional genomics studies are necessary to complement genomics data and better understating the molecular basis of a given organism. Here we summarize, MS-based proteomics techniques and bioinformatics tools incorporated in genomic functional studies of C. pseudotuberculosis to discover the different patterns of protein modulation under distinct environmental conditions, and antigenic and drugs targets. Methodology In this study we performed an extensive search in Web of Science of original and relevant articles related to methods, strategy, technology, approaches, and bioinformatics tools focused on the functional study of the genome of C. pseudotuberculosis at the protein level. Results Here, we highlight the use of proteomics for understating several aspects of the physiology and pathogenesis of C. pseudotuberculosis at the protein level. The implementation and use of protocols, strategies, and proteomics approach to characterize the different subcellular fractions of the proteome of this pathogen. In addition, we have discussed the immunoproteomics, immunoinformatics and genetic tools employed to identify targets for immunoassays, drugs, and vaccines against C. pseudotuberculosis infection. Conclusion In this review, we showed that the combination of proteomics and bioinformatics studies is a suitable strategy to elucidate the functional aspects of the C. pseudotuberculosis genome. Together, all information generated from these proteomics studies allowed expanding our knowledge about factors related to the pathophysiology of this pathogen.
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Affiliation(s)
- Wanderson Marques da Silva
- Institute of Agrobiotechnology and Molecular Biology-(INTA/CONICET), Hurlingham, Buenos Aires, Argentina
| | - Nubia Seyffert
- Institute of Health Sciences, Federal University of Bahia, Salvador, Bahia, Brazil
| | - Artur Silva
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Para, Belém, Pará, Brazil
| | - Vasco Azevedo
- Genetics, Ecology and Evolution, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
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Santos LM, Rodrigues DM, Kalil MA, Azevedo V, Meyer R, Umsza-Guez MA, Machado BA, Seyffert N, Portela RW. Activity of Ethanolic and Supercritical Propolis Extracts in Corynebacterium pseudotuberculosis and Its Associated Biofilm. Front Vet Sci 2021; 8:700030. [PMID: 34540932 PMCID: PMC8440938 DOI: 10.3389/fvets.2021.700030] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2021] [Accepted: 07/28/2021] [Indexed: 12/03/2022] Open
Abstract
Corynebacterium pseudotuberculosis is the etiological agent of caseous lymphadenitis in small ruminants, a chronic disease characterized by the development of granulomas in superficial and visceral lymph nodes as well as in several organs. An important characteristic of the infection with this bacterium is the formation of a biofilm and the absence of effective antibiotic therapy against the disease. From this scenario, the objective of this study was to evaluate the susceptibility of C. pseudotuberculosis to conventional antibiotics and to red, green, and brown propolis extracts obtained by the supercritical and ethanolic extraction methods as well as its activity in the bacterial biofilm. The results of the sensitivity test using antibiotics indicated a sensitivity of C. pseudotuberculosis strains to the antimicrobial agents. The ethanolic extract of green propolis and the supercritical red propolis extract showed the best antibacterial activities against planktonic C. pseudotuberculosis. A lower antimicrobial activity of the brown propolis extract was identified. Propolis extracts were effective in interfering with the formation of the C. pseudotuberculosis biofilm but had little activity on the consolidated biofilm. In conclusion, propolis extracts are more effective against C. pseudotuberculosis in the planktonic stage, being able to interfere with the formation of bacterial biofilm. However, the action of propolis extracts in a sessile and structured microbial biofilm is reduced.
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Affiliation(s)
- Laerte Marlon Santos
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil.,Instituto de Tecnologia em Saúde, CIMATEC-SENAI, Salvador, Brazil
| | - Daniela Méria Rodrigues
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Maurício Alcantara Kalil
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Vasco Azevedo
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Roberto Meyer
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | | | | | - Nubia Seyffert
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Ricardo Wagner Portela
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
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Rebouças MF, Loureiro D, Barral TD, Seyffert N, Raynal JT, Sousa TJ, Figueiredo HCP, Azevedo V, Meyer R, Portela RW. Cell wall glycolipids from Corynebacterium pseudotuberculosis strains with different virulences differ in terms of composition and immune recognition. Braz J Microbiol 2020; 51:2101-2110. [PMID: 32712830 PMCID: PMC7688822 DOI: 10.1007/s42770-020-00343-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Accepted: 07/20/2020] [Indexed: 11/26/2022] Open
Abstract
Caseous lymphadenitis (CLA) is an infectious disease caused by Corynebacterium pseudotuberculosis in small ruminants and is characterized by the development of granulomas in the lymph nodes, spleen, liver, and lungs. Although little is known about the host-pathogen relationship of this bacterium, it was previously reported that the pathogen's lipids are important for its taxonomic classification and survival inside macrophages. However, there are no studies regarding the composition of these molecules. In this study, cell wall glycolipids from two C. pseudotuberculosis strains presenting different virulence profiles were purified and its composition was characterized. A difference was observed between the electrophoretic and chromatogram profiles for cell wall components from the two strains, mainly among molecules with low molecular weights. IgM from sheep with acute CLA recognized antigens with an estimated molecular weight of 11 kDa of the low-pathogenicity strain, while low-molecular weight antigens from the high-pathogenicity strain presented a lower recognition by these antibodies. Mass spectrometry analysis showed that the cell wall of the high-pathogenicity strain contained glycolipids with high amounts of unsaturated fatty acids and glycerophosphoinositols, which may contribute to the capacity of this strain to cause severe disease. In conclusion, it is indicated that cell wall non-protein antigens can play a key role in C. pseudotuberculosis virulence.
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Affiliation(s)
- Miriam Flores Rebouças
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil
| | - Dan Loureiro
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil
| | - Thiago Doria Barral
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil
| | - Nubia Seyffert
- Post-graduation Program in Microbiology, Institute of Biology, Federal University of Bahia, Salvador, Bahia, 40170-115, Brazil
| | - José Tadeu Raynal
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil
| | - Thiago Jesus Sousa
- Laboratory of Cellular and Molecular Genetics, Biological Sciences Institute, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil
| | - Henrique Cesar Pereira Figueiredo
- National Reference Laboratory for Aquatic Animal Diseases, Ministry of Fisheries and Aquaculture, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Vasco Azevedo
- Laboratory of Cellular and Molecular Genetics, Biological Sciences Institute, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, 31270-901, Brazil
| | - Roberto Meyer
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil
| | - Ricardo Wagner Portela
- Laboratory of Immunology and Molecular Biology, Health Sciences Institute, Federal University of Bahia, Salvador, Bahia, 40110-100, Brazil.
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de Oliveira Zamprogna T, Ribeiro D, Azevedo VAC, Lara GHB, Motta RG, da Silva RC, Siqueira AK, de Nardi Júnior G, Listoni FJP, de Souza Araújo Martins L, da Silva AV, Portilho FVR, da Rocha Mota A, Rodrigues CA, de Almeida BO, Ribeiro MG. Bacteriological, cytological, and molecular investigation of Corynebacterium pseudotuberculosis, mycobacteria, and other bacteria in caseous lymphadenitis and healthy lymph nodes of slaughtered sheep. Braz J Microbiol 2020; 52:431-438. [PMID: 33185852 DOI: 10.1007/s42770-020-00403-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2020] [Accepted: 11/04/2020] [Indexed: 11/27/2022] Open
Abstract
Caseous lymphadenitis (CL) in sheep is a chronic contagious disease caused by Corynebacterium pseudotuberculosis, commonly characterized by abscess formation in peripheral lymph nodes and disseminated infections. Nonetheless, other microorganisms, including with zoonotic relevance, can be isolated from CL-resembling lymph nodes. Currently, mycobacteria have been reported in visceral granulomatous lesions in small ruminants, a fact that poses a public health issue, particularly in slaughtered sheep intended for human consumption. Cytology using fine needle aspiration and microbiological culturing are suitable tests for routine diagnostic, whereas present drawbacks and molecular methods have been confirmatory. Data about the occurrence of mycobacteria in both lymph nodes with aspect of CL and apparently healthy visceral nodes of sheep slaughtered for human consumption are scarce. In this study, 197 visceral lymph nodes of sheep showed lymphadenitis and 202 healthy visceral lymph nodes of slaughtered sheep intended for human consumption were submitted to conventional bacteriological diagnosis, mycobacteria culturing, and cytological evaluation. Compatible Corynebacterium isolates were subjected to multiplex PCR targeting 16S rRNA, rpoB, and pld genes to detect C. pseudotuberculosis. Based on microbiological identification, C. pseudotuberculosis (86/197; 43.7%), streptococci γ-hemolytic (17/197; 8.6%), and Trueperella pyogenes (12/197; 6.1%) were prevalent in lymph nodes with abscesses, as opposed to staphylococci (53/202; 26.2%) in apparently healthy lymph nodes. No mycobacteria were isolated. Cytology identified 49.2% (97/197) Gram-positive pleomorphic organisms (coryneform aspect). Multiplex PCR confirmed genetic material of C. pseudotuberculosis in 74.4% (64/86) of the samples with C. pseudotuberculosis isolation and 66% (64/97) samples with cytological coryneform aspect (κ = 86.78%; 95% CI = 79.87-93.68%). These findings emphasize the prevalence of C. pseudotuberculosis in abscess formation among peripheral lymph nodes of sheep. Other bacteria were also identified in lymph nodes sampled that resembling C. pseudotuberculosis-induced infections that may difficult the diagnosis. Multiplex PCR revealed a valuable assay to detect C. pseudotuberculosis, in addition to routine methods applied to CL-diagnosis. No mycobacteria were identified in lymph nodes sampled, with and without apparent lesions. Nonetheless, due to public health impacts, this pathogen should be considered as a differential diagnosis of C. pseudotuberculosis-induced infections during inspection procedures of slaughtered sheep intended for human consumption.
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Affiliation(s)
- Thiago de Oliveira Zamprogna
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Dayana Ribeiro
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais (UFMG), Belo Horizonte, MG, Brazil
| | - Vasco A C Azevedo
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais (UFMG), Belo Horizonte, MG, Brazil
| | - Gustavo Henrique Batista Lara
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Rodrigo Garcia Motta
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Rodrigo Costa da Silva
- School of Agrarian Sciences, University of Western São Paulo (UNOESTE), Presidente Prudente, SP, Brazil
| | - Amanda Keller Siqueira
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | | | - Fernando José Paganini Listoni
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Lorrayne de Souza Araújo Martins
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Aristeu Vieira da Silva
- Zoonosis and Public Health Research Group, Department of Biologial Sciences, Feira de Santana State University (UEFS), Feira de Santana, BA, Brazil
| | - Fábio Vinícius Ramos Portilho
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - André da Rocha Mota
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Carolina Aparecida Rodrigues
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Beatriz Oliveira de Almeida
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil
| | - Márcio Garcia Ribeiro
- Department of Animal Production and Preventive Veterinary Medicine, School of Veterinary Medicine and Animal Science, São Paulo State University (UNESP), Botucatu, SP, Brazil.
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Bernardes JS, Eberle RJ, Vieira FRJ, Coronado MA. A comparative pan-genomic analysis of 53 C. pseudotuberculosis strains based on functional domains. J Biomol Struct Dyn 2020; 39:6974-6986. [PMID: 32779519 DOI: 10.1080/07391102.2020.1805017] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Corynebacterium pseudotuberculosis is a pathogenic bacterium with great veterinary and economic importance. It is classified into two biovars: ovis, nitrate-negative, that causes lymphadenitis in small ruminants and equi, nitrate-positive, causing ulcerative lymphangitis in equines. With the explosive growth of available genomes of several strains, pan-genome analysis has opened new opportunities for understanding the dynamics and evolution of C. pseudotuberculosis. However, few pan-genomic studies have compared biovars equi and ovis. Such studies have considered a reduced number of strains and compared entire genomes. Here we conducted an original pan-genome analysis based on protein sequences and their functional domains. We considered 53 C. pseudotuberculosis strains from both biovars isolated from different hosts and countries. We have analysed conserved domains, common domains more frequently found in each biovar and biovar-specific (unique) domains. Our results demonstrated that biovar equi is more variable; there is a significant difference in the number of proteins per strains, probably indicating the occurrence of more gene loss/gain events. Moreover, strains of biovar equi presented a higher number of biovar-specific domains, 77 against only eight in biovar ovis, most of them are associated with virulence mechanisms. With this domain analysis, we have identified functional differences among strains of biovars ovis and equi that could be related to niche-adaptation and probably help to better understanding mechanisms of virulence and pathogenesis. The distribution patterns of functional domains identified in this work might have impacts on bacterial physiology and lifestyle, encouraging the development of new diagnoses, vaccines, and treatments for C. pseudotuberculosis diseases.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Juliana S Bernardes
- Laboratoire de Biologie Computationelle et Quantitative, UMR 7238, CNRS, Sorbonne Université, Paris, France
| | - Raphael J Eberle
- Multiuser Center for Biomolecular Innovation, Department of Physics, Instituto de Biociências, Letras e Ciências Exatas (Ibilce), Universidade Estadual Paulista (UNESP), São Jose do Rio Preto, Brazil
| | - Fabio R J Vieira
- Institut de Biologie de l'École Normale Supérieure (IBENS), Paris, France
| | - Mônika A Coronado
- Multiuser Center for Biomolecular Innovation, Department of Physics, Instituto de Biociências, Letras e Ciências Exatas (Ibilce), Universidade Estadual Paulista (UNESP), São Jose do Rio Preto, Brazil.,Institute of Biological Information Processing (IBI-7: Strucutral Biochemistry), Forschungszentrum Juelich, Juelich, Germany
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Costa L, Huerta B, Galán-Relaño Á, Gómez-Gascón L, Almeida A, Viegas I, Maldonado A. Utility assessment of an Enzyme-linked immunosorbent assay for detection of subclinical cases of caseous lymphadenitis in small ruminant flocks. Vet Med Sci 2020; 6:796-803. [PMID: 32567811 PMCID: PMC7738729 DOI: 10.1002/vms3.297] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2019] [Revised: 03/11/2020] [Accepted: 05/22/2020] [Indexed: 12/20/2022] Open
Abstract
The actual prevalence of CLA (caseous lymphadenitis) in small ruminant flocks is underestimated in many countries, and because it is not a notifiable disease, it will continue to spread without data and information about its real economic impact. The difficulty in the accurate identification of the causative agent in internal subclinical cases allows the disease to spread within and between flocks. This research intends to assess the utility of an ELISA (enzyme‐linked immunosorbent assay) test in the detection of internal subclinical cases of CLA in farms and to simultaneously add data on the seroprevalence of the disease in Portugal. Sera from 756 small ruminants, 70% sheep (528/756) and 30% goats (228/756) were screened for antibodies against Corynebacterium pseudotuberculosis using the ELISA technique based on a recombinant phospholipase D (ELITEST CLA # CK105A®). The animals showing internal lesions (n ꞊ 58) were sampled for the identification of the aetiological agent. In this investigation, the prevalence of CLA was 34% (258/756), with the ELISA test showing a low specificity (78%) and high sensitivity (100%). The proof was able to detect 57% (13/23) of subclinical cases of CLA confirmed by postmortem examination and conventional PCR (polymerase chain reaction). The results also reveal that goats have a higher propensity for the disease, and dairy farms and non‐extensive production units appear to be more susceptible to CLA. This research clarifies an actual problem and pointed out the importance of CLA in small ruminant herds in Portugal. Finally seems to demonstrate that the ELISA test is a good diagnostic tool for use in CLA eradication programmes.
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Affiliation(s)
- Lina Costa
- Department of Agrarian and Veterinary Sciences, Agrarian School of Elvas, Polytechnic Institute of Portalegre, Portalegre, Portugal
| | - Belén Huerta
- Department of Animal Health, Faculty of Veterinary Medicine, University of Córdoba, Cordoba, Spain
| | - Ángela Galán-Relaño
- Department of Animal Health, Faculty of Veterinary Medicine, University of Córdoba, Cordoba, Spain
| | - Lídia Gómez-Gascón
- Department of Animal Health, Faculty of Veterinary Medicine, University of Córdoba, Cordoba, Spain
| | - Anabela Almeida
- Vetdiagnos, Veterinary Diagnostic Laboratory, Cantanhede, Portugal
| | - Inês Viegas
- ICAAM - Institute of Mediterranean Agricultural and Environmental Sciences, Institute of Advanced Research and Training, University of Évora, Évora, Portugal
| | - Alfonso Maldonado
- Department of Animal Health, Faculty of Veterinary Medicine, University of Córdoba, Cordoba, Spain
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Santos LM, Stanisic D, Menezes UJ, Mendonça MA, Barral TD, Seyffert N, Azevedo V, Durán N, Meyer R, Tasic L, Portela RW. Biogenic Silver Nanoparticles as a Post-surgical Treatment for Corynebacterium pseudotuberculosis Infection in Small Ruminants. Front Microbiol 2019; 10:824. [PMID: 31068912 PMCID: PMC6491793 DOI: 10.3389/fmicb.2019.00824] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2018] [Accepted: 04/01/2019] [Indexed: 12/16/2022] Open
Abstract
Caseous lymphadenitis (CL) is an infectious and zoonotic disease characterized by the development of granulomas in the lymph nodes and internal organs of small ruminants. The etiological agent of this disease is Corynebacterium pseudotuberculosis, a Gram-positive and facultative intracellular bacterium. The conventional treatment for CL consists of drainage and chemical cauterization of the lesions using a 10% iodine solution. However, this type of treatment is not effective, due to iodine's cytotoxic profile and low antibacterial activity. Currently, silver nanoparticles (AgNPs) can be seen as an alternative treatment for CL due to their antimicrobial activity and wound healing effects. Therefore, the present study aimed to evaluate AgNPs as a post-surgical treatment for CL. Twenty-nine goats and sheep with clinical signs of CL were selected. Surgical intervention was performed to excise the caseous lesions. To treat the lesions, an ointment formulation based on AgNP mixed with natural waxes and oils was used in the experimental group, and the conventional treatment with 10% iodine was used in the control group. Bacteria were isolated from the excised caseous material. The animals were observed for 8 weeks after the surgical treatment, and blood samples were taken weekly. The surgical wounds of sheep treated with AgNP healed faster, and the surgical wound area was smaller during the observation period; the latter effect was also observed in goats. AgNP-treated animals also had less purulent discharge and less moisture in the surgical wounds. The AgNP-treated animals had lower leukocyte counts and lower titers of anti-C. pseudotuberculosis antibodies. There was no statistically significant difference between the groups with regard to the hemogram results. The results of the susceptibility testing of C. pseudotuberculosis strains (T1, 1002, FRC41, and VD57 strains) and clinical isolates to AgNPs showed growth inhibition, even at low concentrations. It can be concluded that post-surgical treatment of CL using the AgNP-based ointment may be a promising tool in the control of CL, through faster healing, decreased wound contamination, and no apparent toxic effects.
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Affiliation(s)
- Laerte Marlon Santos
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Danijela Stanisic
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas, Campinas, Brazil
| | - Ulisses José Menezes
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Marcos Antônio Mendonça
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Thiago Doria Barral
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Núbia Seyffert
- Programa de Pós-Graduação em Microbiologia, Instituto de Biologia, Universidade Federal da Bahia, Salvador, Brazil
| | - Vasco Azevedo
- Laboratório de Genética Celular e Molecular, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Nelson Durán
- Laboratório de Biologia Estrutural e Funcional, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Roberto Meyer
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
| | - Ljubica Tasic
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas, Campinas, Brazil
| | - Ricardo Wagner Portela
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia, Salvador, Brazil
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10
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Stanisic D, Fregonesi NL, Barros CHN, Pontes JGM, Fulaz S, Menezes UJ, Nicoleti JL, Castro TLP, Seyffert N, Azevedo V, Durán N, Portela RW, Tasic L. NMR insights on nano silver post-surgical treatment of superficial caseous lymphadenitis in small ruminants. RSC Adv 2018; 8:40778-40786. [PMID: 35557902 PMCID: PMC9091626 DOI: 10.1039/c8ra08218a] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2018] [Accepted: 11/24/2018] [Indexed: 11/21/2022] Open
Abstract
Caseous lymphadenitis (CL), caused by a pathogen of the second class of biosafety – Corynebacterium pseudotuberculosis, is a chronic and severe infectious disease that affects small ruminants and requires long, ineffective treatment which generally leads to animal sacrifice so as to stop the disease spreading. The infected animals suffer the excision of affected superficial lymph nodes and post-surgical treatment with iodine (10% solution in ethanol) and, sometimes, prolonged antibiotic use, but only if the sick animals are of great importance to breeding. Herein, we propose a cheap and easy to apply treatment of CL with excellent results using biogenic silver nanoparticles (AgNP) based technology. AgNP antibacterial properties were investigated in vitro against Corynebacterium pseudotuberculosis cells and in vivo on small ruminants with CL. Treatment of surgical wounds resulting from the excision of superficial CL lesions with a AgNP-based cream was compared to the standard post-surgical treatment method by iodine. Also, the effects of AgNP-based cream treatment were evaluated and compared with the effects of the iodine CL treatment by serum NMR-based metabolomics. Serum samples were collected from 29 animals, 9 sheep and 20 goats, during the treatments and analyzed. All animals showed stable serum metabolomes when iodine or AgNP-based cream effects were compared. The AgNP-based cream treatment showed excellent results, especially in accelerating the healing of wounds, which occurred two to three times faster in comparison with the iodine treatment. AgNP-based cream treatment also prevented CL reappearance and did not cause any side effects on animals. This is the first report on very effective post-surgical treatment of superficial CL in small ruminants based on biogenic silver nanoparticles, which might open up the possibility for a safe veterinary application of AgNP-based cream. Biogenic nanosilver in a pharmaceutical cream for wound healing in animal and human healthcare.![]()
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Affiliation(s)
- Danijela Stanisic
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil
| | - Natália L Fregonesi
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil
| | - Caio H N Barros
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil
| | - João G M Pontes
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil
| | - Stephanie Fulaz
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil
| | - Ulisses J Menezes
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia Salvador BA Brazil
| | - Jorge L Nicoleti
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia Salvador BA Brazil
| | - Thiago L P Castro
- Departamento de Biologia Geral, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais Belo Horizonte MG Brazil
| | - Núbia Seyffert
- Laboratório de Bacteriologia e Saúde, Instituto de Biologia, Universidade Federal da Bahia Brazil
| | - Vasco Azevedo
- Departamento de Biologia Geral, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais Belo Horizonte MG Brazil
| | - Nelson Durán
- NanoBioss - Institute of Chemistry, University of Campinas Campinas SP Brazil.,UFABC São Paulo SP Brazil
| | - Ricardo W Portela
- Laboratório de Imunologia e Biologia Molecular, Instituto de Ciências da Saúde, Universidade Federal da Bahia Salvador BA Brazil
| | - Ljubica Tasic
- Laboratório de Química Biológica, Departamento de Química Orgânica, Instituto de Química, Universidade Estadual de Campinas Campinas SP Brazil .,NanoBioss - Institute of Chemistry, University of Campinas Campinas SP Brazil
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11
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Parise D, Parise MTD, Viana MVC, Muñoz-Bucio AV, Cortés-Pérez YA, Arellano-Reynoso B, Díaz-Aparicio E, Dorella FA, Pereira FL, Carvalho AF, Figueiredo HCP, Ghosh P, Barh D, Gomide ACP, Azevedo VAC. First genome sequencing and comparative analyses of Corynebacterium pseudotuberculosis strains from Mexico. Stand Genomic Sci 2018; 13:21. [PMID: 30338024 PMCID: PMC6180578 DOI: 10.1186/s40793-018-0325-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2017] [Accepted: 09/24/2018] [Indexed: 12/20/2022] Open
Abstract
Corynebacterium pseudotuberculosis is a pathogenic bacterium which has been rapidly spreading all over the world, causing economic losses in the agricultural sector and sporadically infecting humans. Six C. pseudotuberculosis strains were isolated from goats, sheep, and horses with distinct abscess locations. For the first time, Mexican genomes of this bacterium were sequenced and studied in silico. All strains were sequenced using Ion Personal Genome Machine sequencer, assembled using Newbler and SPAdes software. The automatic genome annotation was done using the software RAST and in-house scripts for transference, followed by manual curation using Artemis software and BLAST against NCBI and UniProt databases. The six genomes are publicly available in NCBI database. The analysis of nucleotide sequence similarity and the generated phylogenetic tree led to the observation that the Mexican strains are more similar between strains from the same host, but the genetic structure is probably more influenced by transportation of animals between farms than host preference. Also, a putative drug target was predicted and in silico analysis of 46 strains showed two gene clusters capable of differentiating the biovars equi and ovis: Restriction Modification system and CRISPR-Cas cluster.
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Affiliation(s)
- Doglas Parise
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Mariana T D Parise
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Marcus V C Viana
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Adrian V Muñoz-Bucio
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine and Zootechnics, National Autonomous University of Mexico, Mexico City, Mexico
| | - Yazmin A Cortés-Pérez
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine and Zootechnics, National Autonomous University of Mexico, Mexico City, Mexico
| | - Beatriz Arellano-Reynoso
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine and Zootechnics, National Autonomous University of Mexico, Mexico City, Mexico
| | - Efrén Díaz-Aparicio
- Department of Microbiology and Immunology, Faculty of Veterinary Medicine and Zootechnics, National Autonomous University of Mexico, Mexico City, Mexico
| | - Fernanda A Dorella
- Aquacen - National Reference Laboratory for Aquatic Animal Diseases, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Felipe L Pereira
- Aquacen - National Reference Laboratory for Aquatic Animal Diseases, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Alex F Carvalho
- Aquacen - National Reference Laboratory for Aquatic Animal Diseases, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Henrique C P Figueiredo
- Aquacen - National Reference Laboratory for Aquatic Animal Diseases, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Preetam Ghosh
- Department of Computer Science, Virginia Commonwealth University, Richmond, VA-23284 USA
| | - Debmalya Barh
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
- Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology (IIOAB), Nonakuri, Purba Medinipur, West Bengal 721172 India
- Division of Bioinformatics and Computational Genomics, NITTE University Center for Science Education and Research (NUCSER), NITTE (Deemed to be University), Deralakatte, Mangaluru, Karnataka India
| | - Anne C P Gomide
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
| | - Vasco A C Azevedo
- Laboratory of Cellular and Molecular Genetics, Institute of Biologic Sciences, Federal University of Minas Gerais, Belo Horizonte, MG Brazil
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12
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Raynal JT, Bastos BL, Vilas-Boas PCB, Sousa TDJ, Costa-Silva M, de Sá MDCA, Portela RW, Moura-Costa LF, Azevedo V, Meyer R. Identification of membrane-associated proteins with pathogenic potential expressed by Corynebacterium pseudotuberculosis grown in animal serum. BMC Res Notes 2018; 11:73. [PMID: 29368627 PMCID: PMC5784612 DOI: 10.1186/s13104-018-3180-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2017] [Accepted: 01/16/2018] [Indexed: 11/10/2022] Open
Abstract
Objective Previous works defining antigens that might be used as vaccine targets against Corynebacterium pseudotuberculosis, which is the causative agent of sheep and goat caseous lymphadenitis, have focused on secreted proteins produced in a chemically defined culture media. Considering that such antigens might not reflect the repertoire of proteins expressed during infection conditions, this experiment aimed to investigate the membrane-associated proteins with pathogenic potential expressed by C. pseudotuberculosis grown directly in animal serum. Results Its membrane-associated proteins have been extracted using an organic solvent enrichment methodology, followed by LC–MS/MS and bioinformatics analysis for protein identification and classification. The results revealed 22 membrane-associated proteins characterized as potentially pathogenic. An interaction network analysis indicated that the four potentially pathogenic proteins ciuA, fagA, OppA4 and OppCD were biologically connected within two distinct network pathways, which were both associated with the ABC Transporters KEGG pathway. These results suggest that C. pseudotuberculosis pathogenesis might be associated with the transport and uptake of nutrients; other seven identified potentially pathogenic membrane proteins also suggest that pathogenesis might involve events of bacterial resistance and adhesion. The proteins herein reported potentially reflect part of the protein repertoire expressed during real infection conditions and might be tested as vaccine antigens. Electronic supplementary material The online version of this article (10.1186/s13104-018-3180-5) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- José Tadeu Raynal
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Bruno Lopes Bastos
- Laboratório de Biotecnologia e Genética (LABIOGENE), Instituto Multidisciplinar em Saúde - Campus Anísio Teixeira (IMS/CAT), Universidade Federal da Bahia (UFBA), Rua Rio de Contas, Quadra 17, Nº 58, Bairro Candeias, Vitória da Conquista, BA, CEP 45029-094, Brazil.
| | - Priscilla Carolinne Bagano Vilas-Boas
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Thiago de Jesus Sousa
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Marcos Costa-Silva
- Departamento de Ciências da Vida, Universidade do Estado da Bahia (UNEB), Rua Silveira Martins, Bairro Cabula, Salvador, BA, CEP 41150-000, Brazil
| | - Maria da Conceição Aquino de Sá
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Ricardo Wagner Portela
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Lília Ferreira Moura-Costa
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
| | - Vasco Azevedo
- Laboratório de Genética Molecular e Celular (LGMC), Departamento de Biologia Geral, Instituto de Ciências Biológicas (ICB), Universidade Federal de Minas Gerais (UFMG), Avenida Antonio Carlos, 6627, Pampulha, Belo Horizonte, MG, Brazil
| | - Roberto Meyer
- Laboratório de Imunologia e Biologia Molecular (LABIMUNO), Departamento de Biointeração, Instituto de Ciências da Saúde (ICS), Universidade Federal da Bahia (UFBA), Av. Reitor Miguel Calmon, S/N, Vale do Canela, Salvador, BA, CEP 40140-100, Brazil
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13
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Baraúna RA, Ramos RTJ, Veras AAO, Pinheiro KC, Benevides LJ, Viana MVC, Guimarães LC, Edman JM, Spier SJ, Azevedo V, Silva A. Assessing the Genotypic Differences between Strains of Corynebacterium pseudotuberculosis biovar equi through Comparative Genomics. PLoS One 2017; 12:e0170676. [PMID: 28125655 PMCID: PMC5268413 DOI: 10.1371/journal.pone.0170676] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2016] [Accepted: 01/09/2017] [Indexed: 12/21/2022] Open
Abstract
Seven genomes of Corynebacterium pseudotuberculosis biovar equi were sequenced on the Ion Torrent PGM platform, generating high-quality scaffolds over 2.35 Mbp. This bacterium is the causative agent of disease known as "pigeon fever" which commonly affects horses worldwide. The pangenome of biovar equi was calculated and two phylogenomic approaches were used to identify clustering patterns within Corynebacterium genus. Furthermore, other comparative analyses were performed including the prediction of genomic islands and prophages, and SNP-based phylogeny. In the phylogenomic tree, C. pseudotuberculosis was divided into two distinct clades, one formed by nitrate non-reducing species (biovar ovis) and another formed by nitrate-reducing species (biovar equi). In the latter group, the strains isolated from California were more related to each other, while the strains CIP 52.97 and 1/06-A formed the outermost clade of the biovar equi. A total of 1,355 core genes were identified, corresponding to 42.5% of the pangenome. This pangenome has one of the smallest core genomes described in the literature, suggesting a high genetic variability of biovar equi of C. pseudotuberculosis. The analysis of the similarity between the resistance islands identified a higher proximity between the strains that caused more severe infectious conditions (infection in the internal organs). Pathogenicity islands were largely conserved between strains. Several genes that modulate the pathogenicity of C. pseudotuberculosis were described including peptidases, recombination enzymes, micoside synthesis enzymes, bacteriocins with antimicrobial activity and several others. Finally, no genotypic differences were observed between the strains that caused the three different types of infection (external abscess formation, infection with abscess formation in the internal organs, and ulcerative lymphangitis). Instead, it was noted that there is a higher phenetic correlation between strains isolated at California compared to the other strains. Additionally, high variability of resistance islands suggests gene acquisition through several events of horizontal gene transfer.
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Affiliation(s)
- Rafael A. Baraúna
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Rommel T. J. Ramos
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Adonney A. O. Veras
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Kenny C. Pinheiro
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Leandro J. Benevides
- Laboratory of Cellular and Molecular Genetics, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Marcus V. C. Viana
- Laboratory of Cellular and Molecular Genetics, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Luís C. Guimarães
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
| | - Judy M. Edman
- School of Veterinary Medicine, Department of Medicine and Epidemiology, University of California Davis, Davis, California, United States of America
| | - Sharon J. Spier
- School of Veterinary Medicine, Department of Medicine and Epidemiology, University of California Davis, Davis, California, United States of America
| | - Vasco Azevedo
- Laboratory of Cellular and Molecular Genetics, Institute of Biological Sciences, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Artur Silva
- Laboratory of Genomics and Bioinformatics, Center of Genomics and Systems Biology, Institute of Biological Sciences, Federal University of Pará, Belém, Pará, Brazil
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14
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Mariano DCB, Pereira FL, Aguiar EL, Oliveira LC, Benevides L, Guimarães LC, Folador EL, Sousa TJ, Ghosh P, Barh D, Figueiredo HCP, Silva A, Ramos RTJ, Azevedo VAC. SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology. BMC Bioinformatics 2016; 17:456. [PMID: 28105921 PMCID: PMC5249034 DOI: 10.1186/s12859-016-1344-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The evolution of Next-Generation Sequencing (NGS) has considerably reduced the cost per sequenced-base, allowing a significant rise of sequencing projects, mainly in prokaryotes. However, the range of available NGS platforms requires different strategies and software to correctly assemble genomes. Different strategies are necessary to properly complete an assembly project, in addition to the installation or modification of various software. This requires users to have significant expertise in these software and command line scripting experience on Unix platforms, besides possessing the basic expertise on methodologies and techniques for genome assembly. These difficulties often delay the complete genome assembly projects. RESULTS In order to overcome this, we developed SIMBA (SImple Manager for Bacterial Assemblies), a freely available web tool that integrates several component tools for assembling and finishing bacterial genomes. SIMBA provides a friendly and intuitive user interface so bioinformaticians, even with low computational expertise, can work under a centralized administrative control system of assemblies managed by the assembly center head. SIMBA guides the users to execute assembly process through simple and interactive pages. SIMBA workflow was divided in three modules: (i) projects: allows a general vision of genome sequencing projects, in addition to data quality analysis and data format conversions; (ii) assemblies: allows de novo assemblies with the software Mira, Minia, Newbler and SPAdes, also assembly quality validations using QUAST software; and (iii) curation: presents methods to finishing assemblies through tools for scaffolding contigs and close gaps. We also presented a case study that validated the efficacy of SIMBA to manage bacterial assemblies projects sequenced using Ion Torrent PGM. CONCLUSION Besides to be a web tool for genome assembly, SIMBA is a complete genome assemblies project management system, which can be useful for managing of several projects in laboratories. SIMBA source code is available to download and install in local webservers at http://ufmg-simba.sourceforge.net .
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Affiliation(s)
- Diego C. B. Mariano
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Felipe L. Pereira
- National Reference Laboratory for Aquatic Animal Diseases of Ministry of Agriculture, Livestock and Food Supply, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Edgar L. Aguiar
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Letícia C. Oliveira
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Leandro Benevides
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Luís C. Guimarães
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Edson L. Folador
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Thiago J. Sousa
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Preetam Ghosh
- Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology (IIOAB), Nonakuri, PurbaMedinipur WB-721172 India
- Department of Computer Science, Virginia Commonwealth University, Richmond, VA USA
| | - Debmalya Barh
- Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology (IIOAB), Nonakuri, PurbaMedinipur WB-721172 India
| | - Henrique C. P. Figueiredo
- National Reference Laboratory for Aquatic Animal Diseases of Ministry of Agriculture, Livestock and Food Supply, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
| | - Artur Silva
- Institute of Biological Sciences, Federal University of Pará, Belém, Pará Brazil
| | - Rommel T. J. Ramos
- Institute of Biological Sciences, Federal University of Pará, Belém, Pará Brazil
| | - Vasco A. C. Azevedo
- Laboratory of Cellular and Molecular Genetics, Department of General Biology, Institute of Biological Sciences, Federal University of Minas Gerais, CEP 31270-901 Belo Horizonte, Minas Gerais Brazil
- Federal University of Minas Gerais, Institute of Biological Sciences, Antônio Carlos 6627, Pampulha, 30161-970 Belo Horizonte, Minas Gerais Brazil
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15
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Oliveira A, Teixeira P, Azevedo M, Jamal SB, Tiwari S, Almeida S, Silva A, Barh D, Dorneles EMS, Haas DJ, Heinemann MB, Ghosh P, Lage AP, Figueiredo H, Ferreira RS, Azevedo V. Corynebacterium pseudotuberculosis may be under anagenesis and biovar Equi forms biovar Ovis: a phylogenic inference from sequence and structural analysis. BMC Microbiol 2016; 16:100. [PMID: 27251711 PMCID: PMC4890528 DOI: 10.1186/s12866-016-0717-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2015] [Accepted: 05/25/2016] [Indexed: 11/21/2022] Open
Abstract
BACKGROUND Corynebacterium pseudotuberculosis can be classified into two biovars or biovars based on their nitrate-reducing ability. Strains isolated from sheep and goats show negative nitrate reduction and are termed biovar Ovis, while strains from horse and cattle exhibit positive nitrate reduction and are called biovar Equi. However, molecular evidence has not been established so far to understand this difference, specifically if these C. pseudotuberculosis strains are under an evolutionary process. RESULTS The ERIC 1 + 2 Minimum-spanning tree from 367 strains of C. pseudotuberculosis showed that the great majority of biovar Ovis strains clustered together, but separately from biovar Equi strains that also clustered amongst themselves. Using evolutionarily conserved genes (rpoB, gapA, fusA, and rsmE) and their corresponding amino acid sequences, we analyzed the phylogenetic relationship among eighteen strains of C. pseudotuberculosis belonging to both biovars Ovis and Equi. Additionally, conserved point mutation based on structural variation analysis was also carried out to elucidate the genotype-phenotype correlations and speciation. We observed that the biovars are different at the molecular phylogenetic level and a probable anagenesis is occurring slowly within the species C. pseudotuberculosis. CONCLUSIONS Taken together the results suggest that biovar Equi is forming the biovar Ovis. However, additional analyses using other genes and other bacterial strains are required to further support our anagenesis hypothesis in C. pseudotuberculosis.
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Affiliation(s)
- Alberto Oliveira
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Pammella Teixeira
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Marcela Azevedo
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Syed Babar Jamal
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Sandeep Tiwari
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Sintia Almeida
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Artur Silva
- Departmento de Genética, Universidade Federal do Pará, Pará, Brazil
| | - Debmalya Barh
- Centre for Genomics and Applied Gene Technology, Institute of Integrative Omics and Applied Biotechnology (IIOAB), Nonakuri, Purba, Medinipur, WB-721172, India
| | - Elaine Maria Seles Dorneles
- Departamento de Medicina Veterinária Preventiva, Escola de Veterinária - Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Dionei Joaquim Haas
- Departamento de Medicina Veterinária Preventiva, Escola de Veterinária - Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Marcos Bryan Heinemann
- Departamento de Medicina Veterinária Preventiva e Saúde Animal, Faculdade de Medicina Veterinária e Zootecnia - Universidade de São Paulo, São Paulo, Brazil
| | - Preetam Ghosh
- Department of Computer Science, Virginia Commonwealth University, Richmond, VA, USA
| | - Andrey Pereira Lage
- Departamento de Medicina Veterinária Preventiva, Escola de Veterinária - Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Henrique Figueiredo
- Aquacen, National Reference Laboratory for Aquatic Animal Diseases, Federal University of Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Rafaela Salgado Ferreira
- Departamento de Bioquímica e Imunologia, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - Vasco Azevedo
- Departamento de Biologia Geral, Laboratório de Genética Celular e Molecular, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.
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