Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates
Invasive non-typhoidal <i>Salmonella</i> (iNTS) poses a significant threat to global public health. <i>Salmonella enterica</i> Enteritidis and Typhimurium are the primary serovars responsible for both invasive diseases and gastroenteritis. This study aims to investigate the g...
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2024-11-01
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| author | Tongyao Shang Qiuli Chen Weina Shi Yue Wang Ye Feng |
| author_facet | Tongyao Shang Qiuli Chen Weina Shi Yue Wang Ye Feng |
| author_sort | Tongyao Shang |
| collection | DOAJ |
| description | Invasive non-typhoidal <i>Salmonella</i> (iNTS) poses a significant threat to global public health. <i>Salmonella enterica</i> Enteritidis and Typhimurium are the primary serovars responsible for both invasive diseases and gastroenteritis. This study aims to investigate the genomic and transcriptomic differences between isolates associated with these contrasting clinical presentations. We retrieved genomes of <i>Salmonella</i> Enteritidis and <i>Salmonella</i> Typhimurium from Enterobase, utilizing blood and stool isolates as representatives for iNTS and non-iNTS, respectively. An indistinguishable phylogenetic relationship was revealed between the blood and stool isolates for both serovars. Few genes were specifically identified in iNTS. Random forest and principal coordinates analysis permitted moderate discrimination between the two sources of isolates based on overall genome content. Notably, the blood isolates of <i>Salmonella</i> Typhimurium displayed an elevated level of antimicrobial resistance and genome degradation compared to stool isolates. Meanwhile, transcriptome sequencing identified few genes that were differentially expressed between blood and stool isolates. Hierarchical clustering and principal component analysis did not effectively differentiate the expression profile of iNTS from non-iNTS. In summary, few genes could serve as reliable biomarkers to distinguish iNTS and non-iNTS at either the genomic or transcriptomic level. Nevertheless, iNTS has indeed accumulated subtle genomic differences from non-iNTS, which might contribute to invasiveness. |
| format | Article |
| id | doaj-art-ce85e96e500b4e05aa14589145b24029 |
| institution | OA Journals |
| issn | 2076-2607 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microorganisms |
| spelling | doaj-art-ce85e96e500b4e05aa14589145b240292025-08-20T02:04:55ZengMDPI AGMicroorganisms2076-26072024-11-011211228810.3390/microorganisms12112288Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive IsolatesTongyao Shang0Qiuli Chen1Weina Shi2Yue Wang3Ye Feng4Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou 310020, ChinaSir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou 310020, ChinaSir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou 310020, ChinaWomen’s Hospital, Zhejiang University School of Medicine, Hangzhou 310006, ChinaSir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou 310020, ChinaInvasive non-typhoidal <i>Salmonella</i> (iNTS) poses a significant threat to global public health. <i>Salmonella enterica</i> Enteritidis and Typhimurium are the primary serovars responsible for both invasive diseases and gastroenteritis. This study aims to investigate the genomic and transcriptomic differences between isolates associated with these contrasting clinical presentations. We retrieved genomes of <i>Salmonella</i> Enteritidis and <i>Salmonella</i> Typhimurium from Enterobase, utilizing blood and stool isolates as representatives for iNTS and non-iNTS, respectively. An indistinguishable phylogenetic relationship was revealed between the blood and stool isolates for both serovars. Few genes were specifically identified in iNTS. Random forest and principal coordinates analysis permitted moderate discrimination between the two sources of isolates based on overall genome content. Notably, the blood isolates of <i>Salmonella</i> Typhimurium displayed an elevated level of antimicrobial resistance and genome degradation compared to stool isolates. Meanwhile, transcriptome sequencing identified few genes that were differentially expressed between blood and stool isolates. Hierarchical clustering and principal component analysis did not effectively differentiate the expression profile of iNTS from non-iNTS. In summary, few genes could serve as reliable biomarkers to distinguish iNTS and non-iNTS at either the genomic or transcriptomic level. Nevertheless, iNTS has indeed accumulated subtle genomic differences from non-iNTS, which might contribute to invasiveness.https://www.mdpi.com/2076-2607/12/11/2288antimicrobial resistancegenomeinvasivenesspseudogene<i>Salmonella</i>transcriptome |
| spellingShingle | Tongyao Shang Qiuli Chen Weina Shi Yue Wang Ye Feng Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates Microorganisms antimicrobial resistance genome invasiveness pseudogene <i>Salmonella</i> transcriptome |
| title | Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates |
| title_full | Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates |
| title_fullStr | Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates |
| title_full_unstemmed | Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates |
| title_short | Genomic and Transcriptomic Comparison Between Invasive Non-Typhoidal <i>Salmonella</i> and Non-Invasive Isolates |
| title_sort | genomic and transcriptomic comparison between invasive non typhoidal i salmonella i and non invasive isolates |
| topic | antimicrobial resistance genome invasiveness pseudogene <i>Salmonella</i> transcriptome |
| url | https://www.mdpi.com/2076-2607/12/11/2288 |
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