Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections
ABSTRACT Escherichia coli, an intestinal Gram-negative bacterium, has been shown to be associated with a variety of diseases in addition to intestinal infections, such as urinary tract infections (UTIs), meningitis in neonates, septicemia, skin and soft tissue infections (SSTIs), and colisepticemia....
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| Format: | Article |
| Language: | English |
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American Society for Microbiology
2017-09-01
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| Series: | mBio |
| Subjects: | |
| Online Access: | https://journals.asm.org/doi/10.1128/mBio.01070-17 |
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| author | Amit Ranjan Sabiha Shaik Nishant Nandanwar Arif Hussain Sumeet K. Tiwari Torsten Semmler Savita Jadhav Lothar H. Wieler Munirul Alam Rita R. Colwell Niyaz Ahmed |
| author_facet | Amit Ranjan Sabiha Shaik Nishant Nandanwar Arif Hussain Sumeet K. Tiwari Torsten Semmler Savita Jadhav Lothar H. Wieler Munirul Alam Rita R. Colwell Niyaz Ahmed |
| author_sort | Amit Ranjan |
| collection | DOAJ |
| description | ABSTRACT Escherichia coli, an intestinal Gram-negative bacterium, has been shown to be associated with a variety of diseases in addition to intestinal infections, such as urinary tract infections (UTIs), meningitis in neonates, septicemia, skin and soft tissue infections (SSTIs), and colisepticemia. Thus, for nonintestinal infections, it is categorized as extraintestinal pathogenic E. coli (ExPEC). It is also an opportunistic pathogen, causing cross infections, notably as an agent of zoonotic diseases. However, comparative genomic data providing functional and genetic coordinates for ExPEC strains associated with these different types of infections have not proven conclusive. In the study reported here, ExPEC E. coli isolated from SSTIs was characterized, including virulence and drug resistance profiles, and compared with isolates from patients suffering either pyelonephritis or septicemia. Results revealed that the majority of the isolates belonged to two pathogenic phylogroups, B2 and D. Approximately 67% of the isolates were multidrug resistant (MDR), with 85% producing extended-spectrum beta-lactamase (ESBL) and 6% producing metallo-beta-lactamase (MBL). The blaCTX-M-15 genotype was observed in at least 70% of the E. coli isolates in each category, conferring resistance to an extended range of beta-lactam antibiotics. Whole-genome sequencing and comparative genomics of the ExPEC isolates revealed that two of the four isolates from SSTIs, NA633 and NA643, belong to pandemic sequence type ST131, whereas functional characteristics of three of the ExPEC pathotypes revealed that they had equal capabilities to form biofilm and were resistant to human serum. Overall, the isolates from a variety of ExPEC infections demonstrated similar resistomes and virulomes and did not display any disease-specific functional or genetic coordinates. IMPORTANCE Infections caused by extraintestinal pathogenic E. coli (ExPEC) are of global concern as they result in significant costs to health care facilities management. The recent emergence of a multidrug-resistant pandemic clone, Escherichia coli ST131, is of primary concern as a global threat. In developing countries, such as India, skin and soft tissue infections (SSTIs) associated with E. coli are marginally addressed. In this study, we employed both genomic analysis and phenotypic assays to determine relationships, if any, among the ExPEC pathotypes. Similarity between antibiotic resistance and virulence profiles was observed, ST131 isolates from SSTIs were reported, and genomic similarities among strains isolated from different disease conditions were detected. This study provides functional molecular infection epidemiology insight into SSTI-associated E. coli compared with ExPEC pathotypes. |
| first_indexed | 2024-12-14T06:03:28Z |
| format | Article |
| id | doaj.art-5c1132869dcc4701a6f5dd715530ef21 |
| institution | Directory Open Access Journal |
| issn | 2150-7511 |
| language | English |
| last_indexed | 2024-12-14T06:03:28Z |
| publishDate | 2017-09-01 |
| publisher | American Society for Microbiology |
| record_format | Article |
| series | mBio |
| spelling | doaj.art-5c1132869dcc4701a6f5dd715530ef212022-12-21T23:14:21ZengAmerican Society for MicrobiologymBio2150-75112017-09-018410.1128/mBio.01070-17Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal InfectionsAmit Ranjan0Sabiha Shaik1Nishant Nandanwar2Arif Hussain3Sumeet K. Tiwari4Torsten Semmler5Savita Jadhav6Lothar H. Wieler7Munirul Alam8Rita R. Colwell9Niyaz Ahmed10Pathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaPathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaPathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaPathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaPathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaCentre for Infection Medicine, Institute of Microbiology and Epizootics, Freie Universität Berlin, Berlin, GermanyDepartment of Microbiology, Dr. D. Y. Patil Medical College, Hospital and Research Centre Pimpri (Dr. D. Y. Patil Vidyapeeth), Pune, IndiaCentre for Infection Medicine, Institute of Microbiology and Epizootics, Freie Universität Berlin, Berlin, GermanyInternational Centre for Diarrheal Disease Research, Bangladesh (icddr,b), Mohakhali, Dhaka, BangladeshMaryland Pathogen Research Institute, University of Maryland, College Park, Maryland, USAPathogen Biology Laboratory, Department of Biotechnology and Bioinformatics, University of Hyderabad, Gachibowli, Hyderabad, IndiaABSTRACT Escherichia coli, an intestinal Gram-negative bacterium, has been shown to be associated with a variety of diseases in addition to intestinal infections, such as urinary tract infections (UTIs), meningitis in neonates, septicemia, skin and soft tissue infections (SSTIs), and colisepticemia. Thus, for nonintestinal infections, it is categorized as extraintestinal pathogenic E. coli (ExPEC). It is also an opportunistic pathogen, causing cross infections, notably as an agent of zoonotic diseases. However, comparative genomic data providing functional and genetic coordinates for ExPEC strains associated with these different types of infections have not proven conclusive. In the study reported here, ExPEC E. coli isolated from SSTIs was characterized, including virulence and drug resistance profiles, and compared with isolates from patients suffering either pyelonephritis or septicemia. Results revealed that the majority of the isolates belonged to two pathogenic phylogroups, B2 and D. Approximately 67% of the isolates were multidrug resistant (MDR), with 85% producing extended-spectrum beta-lactamase (ESBL) and 6% producing metallo-beta-lactamase (MBL). The blaCTX-M-15 genotype was observed in at least 70% of the E. coli isolates in each category, conferring resistance to an extended range of beta-lactam antibiotics. Whole-genome sequencing and comparative genomics of the ExPEC isolates revealed that two of the four isolates from SSTIs, NA633 and NA643, belong to pandemic sequence type ST131, whereas functional characteristics of three of the ExPEC pathotypes revealed that they had equal capabilities to form biofilm and were resistant to human serum. Overall, the isolates from a variety of ExPEC infections demonstrated similar resistomes and virulomes and did not display any disease-specific functional or genetic coordinates. IMPORTANCE Infections caused by extraintestinal pathogenic E. coli (ExPEC) are of global concern as they result in significant costs to health care facilities management. The recent emergence of a multidrug-resistant pandemic clone, Escherichia coli ST131, is of primary concern as a global threat. In developing countries, such as India, skin and soft tissue infections (SSTIs) associated with E. coli are marginally addressed. In this study, we employed both genomic analysis and phenotypic assays to determine relationships, if any, among the ExPEC pathotypes. Similarity between antibiotic resistance and virulence profiles was observed, ST131 isolates from SSTIs were reported, and genomic similarities among strains isolated from different disease conditions were detected. This study provides functional molecular infection epidemiology insight into SSTI-associated E. coli compared with ExPEC pathotypes.https://journals.asm.org/doi/10.1128/mBio.01070-17Escherichia coligenomicssepsis |
| spellingShingle | Amit Ranjan Sabiha Shaik Nishant Nandanwar Arif Hussain Sumeet K. Tiwari Torsten Semmler Savita Jadhav Lothar H. Wieler Munirul Alam Rita R. Colwell Niyaz Ahmed Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections mBio Escherichia coli genomics sepsis |
| title | Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections |
| title_full | Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections |
| title_fullStr | Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections |
| title_full_unstemmed | Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections |
| title_short | Comparative Genomics of <italic toggle="yes">Escherichia coli</italic> Isolated from Skin and Soft Tissue and Other Extraintestinal Infections |
| title_sort | comparative genomics of italic toggle yes escherichia coli italic isolated from skin and soft tissue and other extraintestinal infections |
| topic | Escherichia coli genomics sepsis |
| url | https://journals.asm.org/doi/10.1128/mBio.01070-17 |
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