Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases
Strains 335427<sup>T</sup> and 234509<sup>T</sup>, isolated from two 76-year-old patients with chronic pulmonary diseases, were the subject of polyphasic taxonomic studies and comparative genomic analyses for virulence factors. The 16 rRNA gene sequence similarity between str...
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| Format: | Article |
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MDPI AG
2020-10-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/8/10/1517 |
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| author | Imen Nouioui Carlos Cortés-Albayay Meina Neumann-Schaal Diego Vicente Gustavo Cilla Hans-Peter Klenk Jose María Marimón Maria Ercibengoa |
| author_facet | Imen Nouioui Carlos Cortés-Albayay Meina Neumann-Schaal Diego Vicente Gustavo Cilla Hans-Peter Klenk Jose María Marimón Maria Ercibengoa |
| author_sort | Imen Nouioui |
| collection | DOAJ |
| description | Strains 335427<sup>T</sup> and 234509<sup>T</sup>, isolated from two 76-year-old patients with chronic pulmonary diseases, were the subject of polyphasic taxonomic studies and comparative genomic analyses for virulence factors. The 16 rRNA gene sequence similarity between strains 335427<sup>T</sup> and 234509<sup>T</sup> and their closest phylogenetic neighbors <i>Nocardia asiatica</i> NBRC 100129<sup>T</sup> and <i>Nocardia abscessus</i> NBRC 100374<sup>T</sup> were 99.5% and 100%, respectively. Digital DNA–DNA hybridization values between the aforementioned studied strains were well below the 70% threshold for assigning prokaryotic strains to a novel species. Strains 335427<sup>T</sup> and 234509<sup>T</sup> have genome sizes of 8.49 Mpb and 8.07 Mpb, respectively, with G + C content of 68.5%. Isolate 335427<sup>T</sup> has C<sub>16:0</sub>, C<sub>18:1</sub> ω<sub>9</sub>c, C<sub>18:0</sub> and C<sub>18:0</sub> 10 methyl as major fatty acids (>15%) and mycolic acids formed of 52–54 carbon atoms. However, only C<sub>18:1</sub> ω<sub>9</sub>c was detected for isolate 234509<sup>T</sup>, which had mycolic acids with 44–56 carbon. Based on phenotypic and genetic data, strains 335427<sup>T</sup> (DSM 109819<sup>T</sup> = CECT 9924<sup>T</sup>) and 234509<sup>T</sup> (DSM 111366<sup>T</sup> = CECT 30129<sup>T</sup>) merit recognition as novel species, which are named <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., respectively. All the strains studied had homologous VF-associated genes to those described in <i>M. tuberculosis</i>, including experimentally verified virulence genes in humans related to tuberculosis. The <i>nar</i>GHIJ (nitrate reduction pathway) and <i>gvp</i>AFGOJLMK (gas vesicles) genetic maps of strains 335427<sup>T</sup>, 234509<sup>T</sup>, NBRC 100129<sup>T</sup> and NBRC 100374<sup>T</sup> showed the same syntenic block and raise the question of whether their functions are interlinked during the infection of the human host. However, further research is required to decipher the role of the gas vesicle in the pathogenicity mechanism of <i>Nocardia</i> spp. |
| first_indexed | 2024-03-10T15:53:28Z |
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| spelling | doaj.art-fd80a61e88304475aa16a106f06d5b222023-11-20T15:52:10ZengMDPI AGMicroorganisms2076-26072020-10-01810151710.3390/microorganisms8101517Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary DiseasesImen Nouioui0Carlos Cortés-Albayay1Meina Neumann-Schaal2Diego Vicente3Gustavo Cilla4Hans-Peter Klenk5Jose María Marimón6Maria Ercibengoa7Leibniz Institute DSMZ–German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, GermanyLaboratory of Microbial Complexity and Functional Ecology, Antofagasta Institute, University of Antofagasta, Antofagasta 1240000, ChileLeibniz Institute DSMZ–German Collection of Microorganisms and Cell Cultures, 38124 Braunschweig, GermanyBiodonostia, Infectious Diseases Area, Respiratory Infection and Antimicrobial Resistance Group; Osakidetza Basque Health Service, Donostialdea Integrated Health Organisation, Microbiology Department, 20014 San Sebastian, SpainBiodonostia, Infectious Diseases Area, Respiratory Infection and Antimicrobial Resistance Group; Osakidetza Basque Health Service, Donostialdea Integrated Health Organisation, Microbiology Department, 20014 San Sebastian, SpainSchool of Natural and Environmental Sciences, Newcastle University, Newcastle upon Tyne NE1 7RU, UKBiodonostia, Infectious Diseases Area, Respiratory Infection and Antimicrobial Resistance Group; Osakidetza Basque Health Service, Donostialdea Integrated Health Organisation, Microbiology Department, 20014 San Sebastian, SpainBiodonostia, Infectious Diseases Area, Respiratory Infection and Antimicrobial Resistance Group; Osakidetza Basque Health Service, Donostialdea Integrated Health Organisation, Microbiology Department, 20014 San Sebastian, SpainStrains 335427<sup>T</sup> and 234509<sup>T</sup>, isolated from two 76-year-old patients with chronic pulmonary diseases, were the subject of polyphasic taxonomic studies and comparative genomic analyses for virulence factors. The 16 rRNA gene sequence similarity between strains 335427<sup>T</sup> and 234509<sup>T</sup> and their closest phylogenetic neighbors <i>Nocardia asiatica</i> NBRC 100129<sup>T</sup> and <i>Nocardia abscessus</i> NBRC 100374<sup>T</sup> were 99.5% and 100%, respectively. Digital DNA–DNA hybridization values between the aforementioned studied strains were well below the 70% threshold for assigning prokaryotic strains to a novel species. Strains 335427<sup>T</sup> and 234509<sup>T</sup> have genome sizes of 8.49 Mpb and 8.07 Mpb, respectively, with G + C content of 68.5%. Isolate 335427<sup>T</sup> has C<sub>16:0</sub>, C<sub>18:1</sub> ω<sub>9</sub>c, C<sub>18:0</sub> and C<sub>18:0</sub> 10 methyl as major fatty acids (>15%) and mycolic acids formed of 52–54 carbon atoms. However, only C<sub>18:1</sub> ω<sub>9</sub>c was detected for isolate 234509<sup>T</sup>, which had mycolic acids with 44–56 carbon. Based on phenotypic and genetic data, strains 335427<sup>T</sup> (DSM 109819<sup>T</sup> = CECT 9924<sup>T</sup>) and 234509<sup>T</sup> (DSM 111366<sup>T</sup> = CECT 30129<sup>T</sup>) merit recognition as novel species, which are named <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., respectively. All the strains studied had homologous VF-associated genes to those described in <i>M. tuberculosis</i>, including experimentally verified virulence genes in humans related to tuberculosis. The <i>nar</i>GHIJ (nitrate reduction pathway) and <i>gvp</i>AFGOJLMK (gas vesicles) genetic maps of strains 335427<sup>T</sup>, 234509<sup>T</sup>, NBRC 100129<sup>T</sup> and NBRC 100374<sup>T</sup> showed the same syntenic block and raise the question of whether their functions are interlinked during the infection of the human host. However, further research is required to decipher the role of the gas vesicle in the pathogenicity mechanism of <i>Nocardia</i> spp.https://www.mdpi.com/2076-2607/8/10/1517actinobacteriaphylogenomicspolyphasic taxonomyinfection |
| spellingShingle | Imen Nouioui Carlos Cortés-Albayay Meina Neumann-Schaal Diego Vicente Gustavo Cilla Hans-Peter Klenk Jose María Marimón Maria Ercibengoa Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases Microorganisms actinobacteria phylogenomics polyphasic taxonomy infection |
| title | Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases |
| title_full | Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases |
| title_fullStr | Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases |
| title_full_unstemmed | Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases |
| title_short | Genomic Virulence Features of Two Novel Species <i>Nocardia barduliensis</i> sp. nov. and <i>Nocardia gipuzkoensis</i> sp. nov., Isolated from Patients with Chronic Pulmonary Diseases |
| title_sort | genomic virulence features of two novel species i nocardia barduliensis i sp nov and i nocardia gipuzkoensis i sp nov isolated from patients with chronic pulmonary diseases |
| topic | actinobacteria phylogenomics polyphasic taxonomy infection |
| url | https://www.mdpi.com/2076-2607/8/10/1517 |
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