The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen
Corynebacterium striatum is a Gram-positive bacterium that is straight or slightly curved and non-spore-forming. Although it was originally believed to be a part of the normal microbiome of human skin, a growing number of studies have identified it as a cause of various chronic diseases, bacteremia,...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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SAGE Publishing
2023-08-01
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| Series: | Evolutionary Bioinformatics |
| Online Access: | https://doi.org/10.1177/11769343231191481 |
| _version_ | 1797744877613613056 |
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| author | Junhui Qiu Yulan Shi Fei Zhao Yi Xu Hui Xu Yan Dai Yi Cao |
| author_facet | Junhui Qiu Yulan Shi Fei Zhao Yi Xu Hui Xu Yan Dai Yi Cao |
| author_sort | Junhui Qiu |
| collection | DOAJ |
| description | Corynebacterium striatum is a Gram-positive bacterium that is straight or slightly curved and non-spore-forming. Although it was originally believed to be a part of the normal microbiome of human skin, a growing number of studies have identified it as a cause of various chronic diseases, bacteremia, and respiratory infections. However, despite its increasing importance as a pathogen, the genetic characteristics of the pathogen population, such as genomic characteristics and differences, the types of resistance genes and virulence factors carried by the pathogen and their distribution in the population are poorly understood. To address these knowledge gaps, we conducted a pan-genomic analysis of 314 strains of C. striatum isolated from various tissues and geographic locations. Our analysis revealed that C. striatum has an open pan-genome, comprising 5692 gene families, including 1845 core gene families, 2362 accessory gene families, and 1485 unique gene families. We also found that C. striatum exhibits a high degree of diversity across different sources, but strains isolated from skin tissue are more conserved. Furthermore, we identified 53 drug resistance genes and 42 virulence factors by comparing the strains to the drug resistance gene database (CARD) and the pathogen virulence factor database (VFDB), respectively. We found that these genes and factors are widely distributed among C. striatum , with 77.7% of strains carrying 2 or more resistance genes and displaying primary resistance to aminoglycosides, tetracyclines, lincomycin, macrolides, and streptomycin. The virulence factors are primarily associated with pathogen survival within the host, iron uptake, pili, and early biofilm formation. In summary, our study provides insights into the population diversity, resistance genes, and virulence factors of C. striatum from different sources. Our findings could inform future research and clinical practices in the diagnosis, prevention, and treatment of C. striatum -associated diseases. |
| first_indexed | 2024-03-12T15:16:17Z |
| format | Article |
| id | doaj.art-b439407cc1ba4ff2a6991d8944f9dac9 |
| institution | Directory Open Access Journal |
| issn | 1176-9343 |
| language | English |
| last_indexed | 2024-03-12T15:16:17Z |
| publishDate | 2023-08-01 |
| publisher | SAGE Publishing |
| record_format | Article |
| series | Evolutionary Bioinformatics |
| spelling | doaj.art-b439407cc1ba4ff2a6991d8944f9dac92023-08-11T13:04:06ZengSAGE PublishingEvolutionary Bioinformatics1176-93432023-08-011910.1177/11769343231191481The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant PathogenJunhui Qiu0Yulan Shi1Fei Zhao2Yi Xu3Hui Xu4Yan Dai5Yi Cao6Microbiology and Metabolic Engineering Key Laboratory of Sichuan Provence, College of Life Science, Sichuan University, Chengdu, Sichuan, ChinaWound Treatment Center of West China Hospital of Sichuan University, West China College of Nursing, Sichuan University, Chengdu, Sichuan, ChinaMicrobiology and Metabolic Engineering Key Laboratory of Sichuan Provence, College of Life Science, Sichuan University, Chengdu, Sichuan, ChinaMicrobiology and Metabolic Engineering Key Laboratory of Sichuan Provence, College of Life Science, Sichuan University, Chengdu, Sichuan, ChinaMicrobiology and Metabolic Engineering Key Laboratory of Sichuan Provence, College of Life Science, Sichuan University, Chengdu, Sichuan, ChinaWound Treatment Center of West China Hospital of Sichuan University, West China College of Nursing, Sichuan University, Chengdu, Sichuan, ChinaMicrobiology and Metabolic Engineering Key Laboratory of Sichuan Provence, College of Life Science, Sichuan University, Chengdu, Sichuan, ChinaCorynebacterium striatum is a Gram-positive bacterium that is straight or slightly curved and non-spore-forming. Although it was originally believed to be a part of the normal microbiome of human skin, a growing number of studies have identified it as a cause of various chronic diseases, bacteremia, and respiratory infections. However, despite its increasing importance as a pathogen, the genetic characteristics of the pathogen population, such as genomic characteristics and differences, the types of resistance genes and virulence factors carried by the pathogen and their distribution in the population are poorly understood. To address these knowledge gaps, we conducted a pan-genomic analysis of 314 strains of C. striatum isolated from various tissues and geographic locations. Our analysis revealed that C. striatum has an open pan-genome, comprising 5692 gene families, including 1845 core gene families, 2362 accessory gene families, and 1485 unique gene families. We also found that C. striatum exhibits a high degree of diversity across different sources, but strains isolated from skin tissue are more conserved. Furthermore, we identified 53 drug resistance genes and 42 virulence factors by comparing the strains to the drug resistance gene database (CARD) and the pathogen virulence factor database (VFDB), respectively. We found that these genes and factors are widely distributed among C. striatum , with 77.7% of strains carrying 2 or more resistance genes and displaying primary resistance to aminoglycosides, tetracyclines, lincomycin, macrolides, and streptomycin. The virulence factors are primarily associated with pathogen survival within the host, iron uptake, pili, and early biofilm formation. In summary, our study provides insights into the population diversity, resistance genes, and virulence factors of C. striatum from different sources. Our findings could inform future research and clinical practices in the diagnosis, prevention, and treatment of C. striatum -associated diseases.https://doi.org/10.1177/11769343231191481 |
| spellingShingle | Junhui Qiu Yulan Shi Fei Zhao Yi Xu Hui Xu Yan Dai Yi Cao The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen Evolutionary Bioinformatics |
| title | The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen |
| title_full | The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen |
| title_fullStr | The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen |
| title_full_unstemmed | The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen |
| title_short | The Pan-Genomic Analysis of Revealed its Genetic Characteristics as an Emerging Multidrug-Resistant Pathogen |
| title_sort | pan genomic analysis of revealed its genetic characteristics as an emerging multidrug resistant pathogen |
| url | https://doi.org/10.1177/11769343231191481 |
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