Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center
(1) Objective: ST11 carbapenem-resistant <i>Klebsiella pneumoniae</i> (CRKP) is widespread throughout the world, and the mechanisms for the transmission and evolution of major serotypes, ST11-KL47 and ST11-KL64, were analyzed to investigate the global distribution and evolutionary charac...
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MDPI AG
2022-09-01
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| Series: | Genes |
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| Online Access: | https://www.mdpi.com/2073-4425/13/9/1624 |
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| author | Na Zhang Yue Tang Xiaojing Yang Meiling Jin Jiali Chen Shiyu Qin Fangni Liu Xiong Liu Jinpeng Guo Changjun Wang Yong Chen |
| author_facet | Na Zhang Yue Tang Xiaojing Yang Meiling Jin Jiali Chen Shiyu Qin Fangni Liu Xiong Liu Jinpeng Guo Changjun Wang Yong Chen |
| author_sort | Na Zhang |
| collection | DOAJ |
| description | (1) Objective: ST11 carbapenem-resistant <i>Klebsiella pneumoniae</i> (CRKP) is widespread throughout the world, and the mechanisms for the transmission and evolution of major serotypes, ST11-KL47 and ST11-KL64, were analyzed to investigate the global distribution and evolutionary characteristics of ST11 CRKP; (2) Methods: The Pathosystems Resource Integration Center (PATRIC) database was downloaded and all <i>K. pneumoniae</i> from 2011 to 2020 were screened to obtain ST11 CRKP genome assemblies with basic information. The relationship of serotype evolution between KL47 and KL64 was then investigated using statistical and bioinformatic analysis; (3) Results: In total, 386 ST11 CRKP isolates were included for analysis. Blood (31.09%, 120/386), respiratory tract (23.06%, 89/386), and feces (20.21%, 78/386) were the major sources of samples. China was the leading country where ST11 CRKP was isolated. KL47 and KL64 were found to be the most prevalent serotypes. ST11-KL64 CRKP [median 78(<i>P</i><sub>25</sub>~<i>P</i><sub>75</sub>: 72~79.25)] had remarkably more virulence genes than the KL47 [median 63(<i>P</i><sub>25</sub>~<i>P</i><sub>75</sub>: 63~69)], and the distinction was statistically significant (<i>p</i> < 0.001). A differential comparison of virulence genes between KL47 and KL64 revealed 35 differential virulence genes, including <i>rmpA</i>/<i>rmpA2</i>, <i>iucABCD</i>, <i>iutA</i>, etc. The comparison of the recombination of serotype-determining regions between the two serotypes revealed that KL64 CRKP carried more nucleotide sequences in the CD1-VR2-CD2 region than KL47 CRKP. More nucleotide sequences added approximately 303 base pairs (bp) with higher GC content (58.14%), which might facilitate the evolution of the serotype toward KL64; (4) Conclusions: KL47 and KL64 have become the predominant serotypes of ST11 CRKP. KL64 CRKP carries more virulence genes than KL47 and has increased by approximately 303 bp through recombinant mutations, thus facilitating the evolution of KL47 to KL64. Stricter infection prevention and control measures should be developed to deal with the epidemic transmission of ST11-KL64 CRKP. |
| first_indexed | 2024-03-09T23:55:14Z |
| format | Article |
| id | doaj.art-2a5c52e015a3405fb6d9770f1a3c3458 |
| institution | Directory Open Access Journal |
| issn | 2073-4425 |
| language | English |
| last_indexed | 2024-03-09T23:55:14Z |
| publishDate | 2022-09-01 |
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| series | Genes |
| spelling | doaj.art-2a5c52e015a3405fb6d9770f1a3c34582023-11-23T16:25:19ZengMDPI AGGenes2073-44252022-09-01139162410.3390/genes13091624Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration CenterNa Zhang0Yue Tang1Xiaojing Yang2Meiling Jin3Jiali Chen4Shiyu Qin5Fangni Liu6Xiong Liu7Jinpeng Guo8Changjun Wang9Yong Chen10School of Public Health, China Medical University, Shenyang 110122, ChinaDepartment of Emergency Response, Chinese PLA Center for Disease Control and Prevention, Beijing 100071, ChinaSchool of Public Health, China Medical University, Shenyang 110122, ChinaSchool of Public Health, China Medical University, Shenyang 110122, ChinaSchool of Public Health, China Medical University, Shenyang 110122, ChinaDepartment of Emergency Response, Chinese PLA Center for Disease Control and Prevention, Beijing 100071, ChinaSchool of Public Health, China Medical University, Shenyang 110122, ChinaDepartment of Information, Chinese PLA Center for Disease Control and Prevention, Beijing 100071, ChinaDepartment of Emergency Response, Chinese PLA Center for Disease Control and Prevention, Beijing 100071, ChinaSchool of Public Health, China Medical University, Shenyang 110122, ChinaDepartment of Emergency Response, Chinese PLA Center for Disease Control and Prevention, Beijing 100071, China(1) Objective: ST11 carbapenem-resistant <i>Klebsiella pneumoniae</i> (CRKP) is widespread throughout the world, and the mechanisms for the transmission and evolution of major serotypes, ST11-KL47 and ST11-KL64, were analyzed to investigate the global distribution and evolutionary characteristics of ST11 CRKP; (2) Methods: The Pathosystems Resource Integration Center (PATRIC) database was downloaded and all <i>K. pneumoniae</i> from 2011 to 2020 were screened to obtain ST11 CRKP genome assemblies with basic information. The relationship of serotype evolution between KL47 and KL64 was then investigated using statistical and bioinformatic analysis; (3) Results: In total, 386 ST11 CRKP isolates were included for analysis. Blood (31.09%, 120/386), respiratory tract (23.06%, 89/386), and feces (20.21%, 78/386) were the major sources of samples. China was the leading country where ST11 CRKP was isolated. KL47 and KL64 were found to be the most prevalent serotypes. ST11-KL64 CRKP [median 78(<i>P</i><sub>25</sub>~<i>P</i><sub>75</sub>: 72~79.25)] had remarkably more virulence genes than the KL47 [median 63(<i>P</i><sub>25</sub>~<i>P</i><sub>75</sub>: 63~69)], and the distinction was statistically significant (<i>p</i> < 0.001). A differential comparison of virulence genes between KL47 and KL64 revealed 35 differential virulence genes, including <i>rmpA</i>/<i>rmpA2</i>, <i>iucABCD</i>, <i>iutA</i>, etc. The comparison of the recombination of serotype-determining regions between the two serotypes revealed that KL64 CRKP carried more nucleotide sequences in the CD1-VR2-CD2 region than KL47 CRKP. More nucleotide sequences added approximately 303 base pairs (bp) with higher GC content (58.14%), which might facilitate the evolution of the serotype toward KL64; (4) Conclusions: KL47 and KL64 have become the predominant serotypes of ST11 CRKP. KL64 CRKP carries more virulence genes than KL47 and has increased by approximately 303 bp through recombinant mutations, thus facilitating the evolution of KL47 to KL64. Stricter infection prevention and control measures should be developed to deal with the epidemic transmission of ST11-KL64 CRKP.https://www.mdpi.com/2073-4425/13/9/1624globalwhole-genome sequenceserotypedistribution characteristicsevolution |
| spellingShingle | Na Zhang Yue Tang Xiaojing Yang Meiling Jin Jiali Chen Shiyu Qin Fangni Liu Xiong Liu Jinpeng Guo Changjun Wang Yong Chen Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center Genes global whole-genome sequence serotype distribution characteristics evolution |
| title | Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center |
| title_full | Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center |
| title_fullStr | Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center |
| title_full_unstemmed | Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center |
| title_short | Genomic Evolution of ST11 Carbapenem-Resistant <i>Klebsiella pneumoniae</i> from 2011 to 2020 Based on Data from the Pathosystems Resource Integration Center |
| title_sort | genomic evolution of st11 carbapenem resistant i klebsiella pneumoniae i from 2011 to 2020 based on data from the pathosystems resource integration center |
| topic | global whole-genome sequence serotype distribution characteristics evolution |
| url | https://www.mdpi.com/2073-4425/13/9/1624 |
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