Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China
Mycoplasma pneumoniae (M. pneumoniae), a slow-growing, fastidious Gram-negative bacterium and a leading cause of community-acquired pneumonia globally, remains understudied and underreported across numerous geographical areas in China despite its worldwide significance. This study employed probe cap...
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Frontiers Media S.A.
2025-05-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2025.1589971/full |
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| author | Guilan Zhou Guilan Zhou Yan Yu Yan Yu Teng Ge Teng Ge Chenyu Tang Chenyu Tang Hongbo Zhang Hongbo Zhang Min He Min He |
| author_facet | Guilan Zhou Guilan Zhou Yan Yu Yan Yu Teng Ge Teng Ge Chenyu Tang Chenyu Tang Hongbo Zhang Hongbo Zhang Min He Min He |
| author_sort | Guilan Zhou |
| collection | DOAJ |
| description | Mycoplasma pneumoniae (M. pneumoniae), a slow-growing, fastidious Gram-negative bacterium and a leading cause of community-acquired pneumonia globally, remains understudied and underreported across numerous geographical areas in China despite its worldwide significance. This study employed probe capture sequencing for targeted enrichment and direct sequencing of M. pneumoniae from clinical samples, combined with comparative genomic analyses of contemporary and historical global genomes. Core genome and pan-genome revealed that the M. pneumoniae genomes were classified into two distinct clades, P1-I and P1-II, each associated with a specific sequence type (ST). Most of the genomes sequenced in this study were identified as P1-I (86.96%, 20/23), contrasting with the previously reported predominance of P1-II in the area. A limited number of single-nucleotide variations were identified in the virulence-associated genes between P1-I and P1-II, leading to amino acid substitutions. The A2063G point mutation in the 23S rRNA gene was detected in all sequenced genomes (23/23), demonstrating a 100% mutation rate. This study provides the first reported application of probe capture methodology for M. pneumoniae, highlighting the critical importance of sustained surveillance efforts to monitor the evolution and epidemiology of this pathogen. |
| format | Article |
| id | doaj-art-1f4df22a4ad6405dbd89da45ae31844c |
| institution | Kabale University |
| issn | 1664-302X |
| language | English |
| publishDate | 2025-05-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Microbiology |
| spelling | doaj-art-1f4df22a4ad6405dbd89da45ae31844c2025-08-20T03:49:42ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2025-05-011610.3389/fmicb.2025.15899711589971Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, ChinaGuilan Zhou0Guilan Zhou1Yan Yu2Yan Yu3Teng Ge4Teng Ge5Chenyu Tang6Chenyu Tang7Hongbo Zhang8Hongbo Zhang9Min He10Min He11Nanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaNanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaNanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaNanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaNanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaNanjing Center for Disease Control and Prevention, Nanjing, Jiangsu, ChinaNanjing Municipal Key Laboratory for Public Health Laboratory Technology, Nanjing, Jiangsu, ChinaMycoplasma pneumoniae (M. pneumoniae), a slow-growing, fastidious Gram-negative bacterium and a leading cause of community-acquired pneumonia globally, remains understudied and underreported across numerous geographical areas in China despite its worldwide significance. This study employed probe capture sequencing for targeted enrichment and direct sequencing of M. pneumoniae from clinical samples, combined with comparative genomic analyses of contemporary and historical global genomes. Core genome and pan-genome revealed that the M. pneumoniae genomes were classified into two distinct clades, P1-I and P1-II, each associated with a specific sequence type (ST). Most of the genomes sequenced in this study were identified as P1-I (86.96%, 20/23), contrasting with the previously reported predominance of P1-II in the area. A limited number of single-nucleotide variations were identified in the virulence-associated genes between P1-I and P1-II, leading to amino acid substitutions. The A2063G point mutation in the 23S rRNA gene was detected in all sequenced genomes (23/23), demonstrating a 100% mutation rate. This study provides the first reported application of probe capture methodology for M. pneumoniae, highlighting the critical importance of sustained surveillance efforts to monitor the evolution and epidemiology of this pathogen.https://www.frontiersin.org/articles/10.3389/fmicb.2025.1589971/fullMycoplasma pneumoniaeprobe capture sequencinggenomic characteristicsP1 genotype23S rRNA gene |
| spellingShingle | Guilan Zhou Guilan Zhou Yan Yu Yan Yu Teng Ge Teng Ge Chenyu Tang Chenyu Tang Hongbo Zhang Hongbo Zhang Min He Min He Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China Frontiers in Microbiology Mycoplasma pneumoniae probe capture sequencing genomic characteristics P1 genotype 23S rRNA gene |
| title | Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China |
| title_full | Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China |
| title_fullStr | Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China |
| title_full_unstemmed | Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China |
| title_short | Whole-genome probe capture sequencing reveals genomic diversity and characteristics of Mycoplasma pneumoniae in Nanjing, China |
| title_sort | whole genome probe capture sequencing reveals genomic diversity and characteristics of mycoplasma pneumoniae in nanjing china |
| topic | Mycoplasma pneumoniae probe capture sequencing genomic characteristics P1 genotype 23S rRNA gene |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2025.1589971/full |
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