scholarly journals Sequence Analysis of 96 Genomic Regions Identifies Distinct Evolutionary Lineages within CC156, the Largest Streptococcus pneumoniae Clonal Complex in the MLST Database

PLoS ONE ◽  
2013 ◽  
Vol 8 (4) ◽  
pp. e61003 ◽  
Author(s):  
Monica Moschioni ◽  
Morena Lo Sapio ◽  
Giovanni Crisafulli ◽  
Giulia Torricelli ◽  
Silvia Guidotti ◽  
...  
Keyword(s):  
Streptococcus Pneumoniae ◽  
Sequence Analysis ◽  
Clonal Complex ◽  
Mlst Database ◽  
Genomic Regions ◽  
Evolutionary Lineages

scholarly journals Whole-Genome Sequence Analysis of Streptococcus pneumoniae Strains That Cause Hospital-Acquired Pneumonia Infections

2018 ◽  
Vol 56 (5) ◽  
Author(s):  
Bin Chang ◽  
Masatomo Morita ◽  
Ken-ichi Lee ◽  
Makoto Ohnishi
Keyword(s):  
Streptococcus Pneumoniae ◽  
Clonal Complex ◽  
Underlying Disease ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Content Type ◽  
Severe Underlying Disease ◽  
Hospital Acquired Pneumonia ◽  
Hospital Acquired

ABSTRACT Streptococcus pneumoniae colonizes the nasopharyngeal mucus in healthy individuals and can cause otitis media, pneumonia, and invasive pneumococcal diseases. In this study, we analyzed S. pneumoniae strains that caused 19 pneumonia episodes in long-term inpatients with severe underlying disease in a hospital during a period of 14 months (from January 2014 to February 2015). Serotyping and whole-genome sequencing analyses revealed that 18 of the 19 pneumonia cases were caused by S. pneumoniae strains belonging to 3 genetically distinct groups: clonal complex 9999 (CC9999), sequence type 282 (ST282), and ST166. The CC9999 and ST282 strains appeared to have emerged separately by a capsule switch from the pandemic PMEN 1 strain (Spain 23F -ST81). After all the long-term inpatients were inoculated with the 23-valent pneumococcal polysaccharide vaccine, no other nosocomial pneumonia infections occurred until March 2016.

Molecular characteristics of penicillin-binding protein 2b, 2x, and 1a sequences in penicillin-nonsusceptible Streptococcus pneumoniae isolates in Shenyang, China

2008 ◽  
Vol 54 (6) ◽  
pp. 489-494 ◽  
Author(s):  
Su Fei Tian ◽  
Yun Zhuo Chu ◽  
Bai Yi Chen
Keyword(s):  
Streptococcus Pneumoniae ◽  
Amino Acid ◽  
Sequence Analysis ◽  
Dna Sequences ◽  
Multilocus Sequence Typing ◽  
Molecular Characteristics ◽  
Penicillin Binding Protein ◽  
Genetic Changes ◽  
Penicillin Binding Proteins ◽  
Amino Acid Profiles

The aim of this sudy was to investigate the nature of the amino acid motifs found in penicillin-binding proteins (PBP) 2b, 2x, and 1a of penicillin-nonsusceptible Streptococcus pneumoniae isolates from Shenyang, China, and to obtain information regarding the prevalence of alterations within the motifs or in positions flanking the motifs. For 18 clinical isolates comprising 4 penicillin-susceptible S. pneumoniae, 5 penicillin-intermediate S. pneumoniae, and 9 penicillin-resistant S. pneumoniae. the DNA sequences of PBP2b, PBP2x, and PBP1a transpeptidase domains were determined and then genotyped by multilocus sequence typing. Sequence analysis revealed that most penicillin-nonsusceptible S. pneumoniae isolates (penicillin MIC ≥ 1.5 μg/mL and cefotaxime MIC ≥ 2 μg/mL) shared identical PBP2b, PBP2x, and PBP1a amino acid profiles. Most penicillin-resistant S. pneumoniae isolates were ST320 (4-16-19-15-6-20-1), the double-locus variant of the Taiwan19F-14 clone. This study will serve as a basis for future monitoring of genetic changes associated with the emergence and spread of β-lactam resistance in Shenyang, China.

scholarly journals Pan-genome sequence analysis using Panseq: an online tool for the rapid analysis of core and accessory genomic regions

2010 ◽  
Vol 11 (1) ◽  
pp. 461 ◽  
Author(s):  
Chad Laing ◽  
Cody Buchanan ◽  
Eduardo N Taboada ◽  
Yongxiang Zhang ◽  
Andrew Kropinski ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Genome Sequence ◽  
Rapid Analysis ◽  
Online Tool ◽  
Genome Sequence Analysis ◽  
Pan Genome ◽  
Genomic Regions

Sequence Analysis of Genomic Regions Containing Trinucleotide Repeats Isolated by a Novel Cloning Method

Genomics ◽  
1999 ◽  
Vol 57 (1) ◽  
pp. 169-172 ◽  
Author(s):  
Shinichi Inoue ◽  
Kazuhiko Takahashi ◽  
Masataka Ohta
Keyword(s):  
Sequence Analysis ◽  
Trinucleotide Repeats ◽  
Cloning Method ◽  
Genomic Regions

scholarly journals Characterization of Streptococcus pneumoniae isolates from India with special reference to their sequence types

2013 ◽  
Vol 7 (02) ◽  
pp. 101-109 ◽  
Author(s):  
Malini Shariff ◽  
Jyoti Choudhary ◽  
Shazia Zahoor ◽  
Monorama Deb
Keyword(s):  
Streptococcus Pneumoniae ◽  
Multilocus Sequence Typing ◽  
Clonal Complex ◽  
The Elderly ◽  
New Delhi ◽  
Broth Microdilution ◽  
Mortality And Morbidity ◽  
Resistance To Penicillin ◽  
Sequence Types

Introduction: Streptococcus pneumoniae is a major cause of mortality and morbidity in young children and the elderly. In the present study we evaluated antimicrobial susceptibilities, serotypes, and sequence types of pneumococcal isolates recovered in New Delhi, India. Methodology: A total of 126 clinical isolates of Streptococcus pneumoniae were investigated. They were subjected to disk diffusion susceptibility testing, broth microdilution testing, serotyping and multilocus sequence typing. Results: Broth microdilution assay showed that 5%, 20% and 23% of the isolates exhibited resistance to penicillin, erythromycin and ciprofloxacin, respectively. Serotypes19, 1 and 6 were more frequently isolated. Thirty per cent of the strains were comprised of serotypes 1, 3, 5, 19A and 7F, which are not included in the seven-valent vaccine. Fifty-nine isolates were typed using multilocus sequence typing. Thirty new sequence types were encountered in this study. Only one clonal complex with 4 isolates was seen; 11 clonal complexes and 96 sequence types (STs) were observed among 115 Indian isolates. Only 18 of the 96 STs were found globally, of which only 4 STs were found in many countries with larger numbers. Conclusions: This study identifies the non-vaccine serotypes of Streptococcus pneumoniae circulating in India. It is important that an appropriate vaccine which covers all serotypes is used in the region.

scholarly journals Penicillin-Binding Protein 1A, 2B, and 2X Alterations in Canadian Isolates of Penicillin-Resistant Streptococcus pneumoniae

2002 ◽  
Vol 46 (10) ◽  
pp. 3261-3264 ◽  
Author(s):  
Kimberly A. Nichol ◽  
George G. Zhanel ◽  
Daryl J. Hoban
Keyword(s):  
Streptococcus Pneumoniae ◽  
Sequence Analysis ◽  
Binding Protein ◽  
Binding Domain ◽  
Penicillin Binding Protein

ABSTRACT Alterations within the penicillin-binding domain of penicillin-binding protein (PBP) genes pbp1a, pbp2b, and pbp2x were determined for 15 Canadian isolates of Streptococcus pneumoniae. All penicillin-nonsusceptible S. pneumoniae isolates showed a variety of PBP 2X substitutions and contained a Thr445-Ala change after the PBP 2B SSN motif. Only isolates for which penicillin MICs were ≥0.5 μg/ml had PBP 1A alterations near the STMK and SRN motifs. Sequence analysis revealed identical PBP 1A, PBP 2B, and PBP 2X substitution patterns among all isolates for which penicillin MICs were ≥1 μg/ml.

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