Draft Genome Sequences of Seven Streptococcus agalactiae Strains Isolated from Camelus dromedarius at the Horn of Africa

Rothen, Julian; Schindler, Tobias; Pothier, Joël F.; Younan, Mario; Certa, Ulrich; Daubenberger, Claudia; Pflüger, Valentin; Jores, Joerg

doi:10.1128/genomea.00525-17

Cited by 4 publications

(1 citation statement)

References 8 publications

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“…Genomic DNA was extracted using the QIAamp DSP DNA minikit (Qiagen, Hilden, Germany). A first batch of three isolates was processed as described in Rothen et al (2017) . For a second batch of 15 isolates, paired-end libraries constructed by the Nextera XT DNA library prep kit (Illumina, San Diego, CA, United States) were sequenced on a MiSeq system (Illumina) using a 600-cycle MiSeq reagent kit v3 (Illumina).…”

Section: Methodsmentioning

confidence: 99%

Subspecies Typing of Streptococcus agalactiae Based on Ribosomal Subunit Protein Mass Variation by MALDI-TOF MS

Rothen

Pothier

Foucault³

et al. 2019

Front. Microbiol.

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Background: A ribosomal subunit protein (rsp)-based matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) method was developed for fast subspecies-level typing of Streptococcus agalactiae (Group B Streptococcus, GBS), a major cause of neonatal sepsis and meningitis.Methods: A total of 796 GBS whole genome sequences, covering the genetic diversity of the global GBS population, were used to in silico predict molecular mass variability of 28 rsp and to identify unique rsp mass combinations, termed “rsp-profiles”. The in silico established GBS typing scheme was validated by MALDI-TOF MS analysis of GBS isolates at two independent research sites in Europe and South East Asia.Results: We identified in silico 62 rsp-profiles, with the majority (>80%) of the 796 GBS isolates displaying one of the six rsp-profiles 1–6. These dominant rsp-profiles classify GBS strains in high concordance with the core-genome based phylogenetic clustering. Validation of our approach by in-house MALDI-TOF MS analysis of 248 GBS isolates and external analysis of 8 GBS isolates showed that across different laboratories and MALDI-TOF MS platforms, the 28 rsp were detected reliably in the mass spectra, allowing assignment of clinical isolates to rsp-profiles at high sensitivity (99%) and specificity (97%). Our approach distinguishes the major phylogenetic GBS genotypes, identifies hyper-virulent strains, predicts the probable capsular serotype and surface protein variants and distinguishes between GBS genotypes of human and animal origin.Conclusion: We combine the information depth of whole genome sequences with the highly cost efficient, rapid and robust MALDI-TOF MS approach facilitating high-throughput, inter-laboratory, large-scale GBS epidemiological and clinical studies based on pre-defined rsp-profiles.

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Section: Methodsmentioning

confidence: 99%

Subspecies Typing of Streptococcus agalactiae Based on Ribosomal Subunit Protein Mass Variation by MALDI-TOF MS

Rothen

Pothier

Foucault³

et al. 2019

Front. Microbiol.

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A simple, rapid typing method for Streptococcus agalactiae based on ribosomal subunit proteins by MALDI-TOF MS

Rothen

Sapugahawatte

et al. 2020

Sci Rep

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Streptococcus agalactiae (Group B Streptococcus, GBS), is a frequent human colonizer and a leading cause of neonatal meningitis as well as an emerging pathogen in non-pregnant adults. GBS possesses a broad animal host spectrum, and recent studies proved atypical GBS genotypes can cause human invasive diseases through animal sources as food-borne zoonotic infections. We applied a MALDI-TOF MS typing method, based on molecular weight variations of predefined 28 ribosomal subunit proteins (rsp) to classify GBS strains of varying serotypes into major phylogenetic lineages. A total of 249 GBS isolates of representative and varying capsular serotypes from patients and animal food sources (fish and pig) collected during 2016-2018 in Hong Kong were analysed. Over 84% (143/171) noninvasive carriage GBS strains from patients were readily typed into 5 globally dominant rsp-profiles. Among GBS strains from food animals, over 90% (57/63) of fish and 13% (2/15) of pig GBS matched with existing rsp-profiles, while the remainder were classified into two novel rsp-profiles and we failed to assign a fish strain into any cluster. MALDI-TOF MS allowed for high-throughput screening and simultaneous detection of novel, so far not well described GBS genotypes. The method shown here is rapid, simple, readily transferable and adapted for use in a diagnostic microbiology laboratory with potential for the surveillance of emerging GBS genotypes with zoonotic potential. Streptococcus agalactiae (Group B Streptococcus, GBS), is a frequent colonizer of the human gastrointestinal and genitourinary tracts 1. GBS possesses a broad animal host spectrum including cattle 2 , pigs 3 , camel 4 and various freshwater fish species 5,6. Besides being a leading cause of neonatal meningitis and sepsis 7 , GBS is an emerging infectious disease in non-pregnant adults, and in the elderly 8,9. GBS disease in non-pregnant adults prerequisites the switch of GBS from a harmless commensal to an invasive pathogen, a mechanism that remains poorly understood 10. However, there is increasing evidence that GBS disease can also occur through nosocomial and food-borne infection 11. The GBS clone belonging to Sequence type ST283 exemplifies the threat of zoonotic infection in adults. During 1993-2012, this clone accounted for a significant number of invasive disease cases in non-pregnant adults in Hong Kong 8,12. ST283 was previously described as a disease-causing strain in farmed freshwater fish 6 , and subsequent proof was confirmed in 2015 when ST283 was linked to an outbreak of adult GBS infections in Singapore, unequivocally linking to the consumption of raw fish 11. Genomic analysis of human and fish ST283 strains later confirmed freshwater fish as reservoir of ST283, declaring this zoonotic clone a major infectious disease threat 13. Large-scale epidemiological studies will be essential to gain insight into GBS transmission dynamics, in particular regarding the significance of animal reservoirs for emerging hyper-virulent GBS clones.

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Genomic Insights Into the Distribution and Evolution of Group B Streptococcus

Chen

2019

Front. Microbiol.

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Streptococcus agalactiae, also known as Group B Streptococcus (GBS), is a bacteria with truly protean biology. It infects a variety of hosts, among which the most commonly studied are humans, cattle, and fish. GBS holds a singular position in the history of bacterial genomics, as it was the substrate used to describe one of the first major conceptual advances of comparative genomics, the idea of the pan-genome. In this review, I describe a brief history of GBS and the major contributions of genomics to understanding its genome plasticity and evolution as well as its molecular epidemiology, focusing on the three hosts mentioned above. I also discuss one of the major recent paradigm shifts in our understanding of GBS evolution and disease burden: foodborne GBS can cause invasive infections in humans.

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Draft Genome Sequences of Seven Streptococcus agalactiae Strains Isolated from Camelus dromedarius at the Horn of Africa

Cited by 4 publications

References 8 publications

Subspecies Typing of Streptococcus agalactiae Based on Ribosomal Subunit Protein Mass Variation by MALDI-TOF MS

Subspecies Typing of Streptococcus agalactiae Based on Ribosomal Subunit Protein Mass Variation by MALDI-TOF MS

A simple, rapid typing method for Streptococcus agalactiae based on ribosomal subunit proteins by MALDI-TOF MS

Genomic Insights Into the Distribution and Evolution of Group B Streptococcus

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