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Criscuolo, A.

Publications and source records attributed to Criscuolo, A..

At least 19 recordsLinked to original sources

A body-brain-behavioral cross-frequency architecture links biological and behavioral periodicities

Spontaneous behaviors, e.g., walking and speaking, are thought to rely on an internal sense of time that provides a scaffold for precise temporal coordination. Yet the endogenous rates of many behavioral processes often diverge from the arbitrarily defined unit of objective time (Chronos), raising a fundamental question: what temporal reference frame coordinates behavior? Recent theoretical work (Buzsaki, 2026) proposed the rich repertoire of subjective time (Kairos) to fluctuate in function of a dynamic cross-frequency architecture linking body-brain periodicities along a lognormal linear progression in the frequency domain. Withing this framework, an emergent sense of time may regulate the rate of semi-periodic behaviors. Using high temporal resolution multimodal recordings, we show that endogenous body-brain periodicities - including pupil fluctuations, saccadic eye movements, respiration, cardiac activity and neural oscillations - as well as spontaneous behaviors such as tapping, walking, and speaking, are organized as an arithmetic progression in a natural logarithmic frequency space. This observation suggests that a unified scaling law may coordinate complex, multi-scale interactions across biological and behavioral timescales. We propose that such organization may provide an emergent temporal reference frame that scaffolds perception and action.

neuroscience↗

Lesions in the cerebellum impact cross-modal temporal predictions

The cerebellum (CE) supports the encoding of the precise sensory event timing and the generation of temporal predictions. Here we investigated whether focal CE lesions impact temporal predictions in a cross-modal context. Individuals with CE lesion (n=9) and healthy-matched controls (HC) were presented with visuo-auditory stimulus pairs, presented in a temporally regular (predictable) or irregular (unpredictable) manner while EEG was recorded. We hypothesized cross-modal temporal predictions to be mediated by pre-stimulus cerebello-cortical beta-band (12-25Hz) activity. In turn, we expected HC, but not CE patients, to show a modulation of pre-stimulus beta power as a function of temporal prediction. HC showed greater pre-stimulus beta-band suppression in anticipation of sound onsets, and stronger post-stimulus delta- and theta-band (1-4Hz; 4-8Hz) power in the predictable than the unpredictable condition. Furthermore, they displayed a significant modulation of pre-stimulus delta-beta cross-frequency coupling as a function of temporal prediction. These effects were not observed in the CE group. Results confirm that cerebellar lesions impair the generation of temporal predictions in cross-modal (visuo-auditory) stimulus processing, extending the role of cerebellar predictive timing from sensorimotor to motor-independent cross-modal perception.

neuroscience↗

Heightened Sensitivity to Voice Loudness Changes in Parkinson's Disease

Parkinsons disease (PD) affects voice and speech production, often resulting in reduced vocal intensity and monotonous speech. Recent studies have suggested that these changes can be partially explained by altered sensory feedback processing when producing speech. Individuals with PD (IwPD) may fail to monitor sensory feedback from their own voice, impairing their ability to adjust voice and speech when sensory input differs from expectations. In this study, we investigated sensory feedback processing in PD by looking at the sensory attenuation typically observed in event-related responses (ERP) to the self-generated voice. When sensory feedback processing is intact, the P50, N100, and P200 ERP responses to the self-generated voice are more attenuated than to an externally-generated voice. Twenty-three IwPD and 23 healthy controls (HCs) participated in a voice playback study that comprised three conditions: self-generated voice (auditory-motor condition; AMC), externally-generated voice (auditory-only condition; AOC), and motor-only. The AMC and AOC conditions also included an amplitude modulation of the voice (0/+15dB). Linear mixed models assessed group differences in ERP morphology. While groups did not differ in their P50 and P200 responses, there was a significant group-condition- loudness interaction for the N100. Follow-up analyses showed that IwPD displayed much larger N100 error responses for unexpected loudness modulations as compared to HC. This observation suggests that IwPD may process voice modulations differently than HC. The hypersensitivity to loudness changes may underlie IwPDs difficulties in processing and adapting their voice acoustics.

neuroscience↗

Genomic Epidemiology and Microevolution of the Zoonotic Pathogen Corynebacterium ulcerans

Corynebacterium ulcerans is an emerging zoonotic pathogen that belongs to the Corynebacterium diphtheriae (Cd) species complex (CdSC), and that causes diphtheria-like infections in humans. Our understanding of the transmission, phylogeography and evolution of C. ulcerans remains limited, in part due to the lack of a standardized genomic epidemiology toolkit. The aim of this work was to develop a core genome multi-locus sequence typing (cgMLST) scheme for high-resolution genotyping and classification of C. ulcerans strains, and to explore transmission, spatial spread and genomic evolution among 582 C. ulcerans isolates from sporadic clinical cases and reported case clusters. The cgMLST scheme combines 1,628 loci with highly reproducible allele calls and shows high strain subtyping resolution. We demonstrate its utility for capturing population structure by defining sublineages (SL, maximum 940 allele differences) and clonal groups (CG, 194 allele differences, AD) and for epidemiological surveillance by defining genetic clusters, i.e., previously undetected chains of transmission (25 AD). Genetic clusters correspond to cryptic and case clusters that were associated with specific geographical regions within France. Major C. ulcerans sublineages (SL325, SL331, SL339) and clonal groups (CG325, CG331, CG583) showed strong associations with diphtheria toxin variants and tox-carrying prophages or other genetic elements. The evolutionary dynamics of tox gene presence or absence varied sharply among clonal groups. The cgMLST scheme is publicly available (https://bigsdb.pasteur.fr/diphtheria) and provides a common framework for investigating the ecology, evolution and variations in virulence among C. ulcerans strains. The implementation of a standardized high-resolution genotyping method will also facilitate the tracing of C. ulcerans transmission and spread across hosts and from local to global spatial scales.

microbiology↗

Ageing impacts basic auditory and timing processing

Deterioration in the peripheral and central auditory systems is common in older adults and often leads to hearing and speech comprehension difficulties. Even when hearing remains intact, electrophysiological data of older adults frequently exhibit altered neural responses along the auditory pathway, reflected in variability in phase alignment of neural activity to speech sound onsets. However, it remains unclear whether these challenges in speech processing in aging stem from more fundamental deficits in auditory and timing processes. Here, we investigated if and how aging individuals encoded temporal regularities in isochronous auditory sequences presented at 1.5Hz, and if they employed adaptive mechanisms of neural phase alignment in anticipation of next sound onsets. We recorded EEG in older and young individuals listening to simple isochronous tone sequences. We show that aging individuals displayed increased amplitudes and variability in time-locked responses to sounds, an increased 1/F slope, but reduced phase-coherence in the delta and theta frequency-bands. These observations suggest a lack of repetition-suppression and inhibition when processing repeated and predictable sounds in a sequence and altered mechanisms of continuous phase-alignment to expected sound onsets in aging. Given that deteriorations in these basic timing capacities may affect other higher-order cognitive processes (e.g., attention, perception, and action), these results underscore the need for future research examining the link between basic timing abilities and general cognition across the lifespan. HighligthsO_LIAging individuals (HO) show increased cortical excitability as compared to younger adults (HY); C_LIO_LIHOs neural responses to fully predictable isochronous tones were larger and more variable than HY; C_LIO_LIHO showed reduced phase coherence in delta- and theta-band oscillations during listening to auditory sequence; C_LIO_LIAltogether, these results show altered sensory and timing processes in aging. C_LI

neuroscience↗

Bacterial strain nomenclature in the genomic era: Life Identification Numbers using a gene-by-gene approach

Unified strain taxonomies are needed for the epidemiological surveillance of bacterial pathogens and international communication in microbiological research. Core genome multilocus sequence typing (cgMLST) holds great promise for standardized high-resolution strain genotyping. However, this approach faces challenges including classification instability and disconnection of new nomenclature from widely adopted classical MLST identifiers. This essay discusses the cgMLST-based Life Identification Number (LIN) method, recently proposed as a stable multilevel strain taxonomy system applicable to most bacterial pathogens. We describe how LIN codes are implemented and used in practice for precise strain definitions and epidemiological tracking. Glossary Multilocus sequence typing (MLST)A genotyping method applied mostly to microbial strains to study population structure and epidemiology, based on comparing the nucleotide sequences of a small number (typically seven) of housekeeping protein-coding genes. In MLST, allele numbers are assigned to each sequence variant (allele) of a given gene. The MLST genotype of a bacterial strain is defined by the combination of the allele numbers observed at the genes that are included in the genotyping scheme. A sequence type (ST) is assigned to each unique combination of alleles, called an MLST profile. MLST was invented in 1998 and became a de-facto standard taxonomy of bacterial strains, albeit at low resolution. Core genome MLSTAn extension of MLST that analyzes sequence variation across hundreds to thousands of conserved (core) genes, shared by all strains of a species, providing higher resolution typing for genomic epidemiology and evolutionary studies. cgMLST schemes typically comprise 2000 to 4000 genes, depending on the genome size and genetic variation (in terms of presence/absence of genes) within bacterial species. A core genome sequence type (cgST) can be assigned to unique cgMLST profiles, i.e., a unique combination of cgMLST allelic numbers. Whole Genome Sequencing (WGS)A method that determines the complete DNA sequence of an organisms genome in a single process, providing comprehensive information for comparative genetic analyses based on cgMLST or other analytic methods. Single Nucleotide Polymorphisms (SNPs)Variations at a single base position in the DNA sequence among individuals isolates, strains or species, used as genetic markers for studying for example, evolutionary relationships or strain identity. Average nucleotide identity (ANI)A measure of genomic similarity between two organisms, calculated as the average percentage of identical nucleotides in orthologous genomic regions; commonly used to assess species-level relatedness in prokaryotes. TaxonomyHere, we apply the word taxonomy to bacterial strains as a system of classifying, naming and identifying strains based on shared genetic characteristics as defined by e.g., cgMLST.

microbiology↗

Neural and behavioral dynamics of encoding, production and synchronization with external rhythms in subcortical lesion patients

Acting in and adapting to a dynamically changing environment necessitates precise encoding of the timing of unfolding sensory events in our environment, and to time of our own (re-)actions to them. Cerebellar (CE) and basal ganglia (BG) circuitries play fundamental and complementary roles in timing processes. While the CE seems to encode the precise timing of sensory events (when an event occurs), the BG engage in generating temporal predictions (when a next event occurs). However, their contributions are rarely investigated in combination, as it is generally difficult to record data from respective patient groups in parallel. Here we investigated the causal roles of CE and BG in sensory and sensorimotor timing processes. Healthy controls and patients with CE or BG lesions listened to isochronous auditory sequences while their EEG was recorded and later performed a tapping synchronization task. We assessed intra- and inter-individual variabilities, as well as group differences, using event-related responses, delta-band inter-trial phase-coherence and acceleration dynamics while tuning to the stimulation frequency (Sf). CE and BG lesions increased variability in ERP latency and reduced the coherence of delta-band activity. CE but not BG lesions further impacted the stability of delta-band oscillations while tuning to the Sf. These findings show a causal link between subcortical lesions and the capacity to encode and synchronize ongoing neural activity with temporal regularities in the acoustic environment, but do not fully dissociate the specific contributions of the BG and the CE to processing sound in isochronous contexts.

neuroscience↗

Challenging age-related decline in brain function: Evidence from fast neuroimaging of musical sequence recognition

Aging is often associated with decline in brain processing power and neural predictive capabilities. To challenge this notion, we used the excellent temporal resolution of magnetoencephalography (MEG) to record the whole-brain activity of 39 older adults (over 60 years old) and 37 young adults (aged 18-25 years) during recognition of previously memorised and novel musical sequences. Our results demonstrate that independent of behavioural measures, older compared to young adults showed increased rapid auditory cortex responses (around 100 and 250 ms after each tone of the sequence) and decreased later responses (around 250 and 350 ms) in hippocampus, ventromedial prefrontal cortex and inferior frontal gyrus. Working memory abilities were associated with stronger brain activity for both young and older adults. Our findings unpick the complexity of the healthy aging brain, showing age-related neural transformations in predictive and memory processes and challenging simplistic notions that non-pathological aging merely diminishes neural predictive capabilities.

neuroscience↗

Viral origin of eukaryotic type IIA DNA topoisomerases

Type II DNA topoisomerases of the family A (Topo IIA) are present in all bacteria (DNA gyrase) and eukaryotes. In eukaryotes, they play a major role in transcription, DNA replication, chromosome segregation and modulation of chromosome architecture. The origin of eukaryotic Topo IIA remains mysterious since they are very divergent from their bacterial homologues and have no orthologues in Archaea. Interestingly, eukaryotic Topo IIA have close homologues in viruses of the phylum Nucleocytoviricota, an expansive assemblage of large and giant viruses formerly known as the nucleocytoplasmic large DNA viruses (NCLDV). Topo IIA are also encoded by some bacterioviruses of the class Caudoviricetes (tailed bacteriophages). To elucidate the origin of the eukaryotic Topo IIA, we performed in-depth phylogenetic analyses combining viral and cellular Topo IIA homologs. Topo IIA encoded by bacteria and eukaryotes form two monophyletic groups nested within Topo IIA encoded by Caudoviricetes and Nucleocytoviricota, respectively. Importantly, Nucleocytoviricota remained well separated from eukaryotes after removing both bacteria and Caudoviricetes from the dataset, indicating that the separation of Nucleocytoviricota and eukaryotes is probably not due to long branch attraction artefact. The topology of our tree suggests that the eukaryotic Topo IIA was probably acquired from an ancestral member of the Nucleocytoviricota of the class Megaviricetes, before the emergence of the last eukaryotic common ancestor (LECA). This result further highlights a key role of these viruses in eukaryogenesis and suggests that early proto-eukaryotes used a Topo IIB instead of a Topo IIA for solving their DNA topological problems.

evolutionary biology↗

Individual neurophysiological signatures of spontaneous rhythm processing

When sensory input conveys rhythmic regularity, we can form predictions about the timing of upcoming events. Although rhythm processing capacities differ considerably between individuals, these differences are often obscured by participant- and trial-level data averaging procedures in M/EEG research. Here, we systematically assessed the neurophysiological variability displayed by individuals listening to isochronous equitone sequences interspersed with unexpected deviant tones. We first focused on rhythm tracking and tested the anticipatory phase alignment of delta-band activity to expected tone onsets. These analyses confirmed that individuals encode temporal regularities and form temporal predictions, but highlight clear inter- and intra-participant variability. This observation may indicate individual and flexible tracking mechanisms, which show consistency at the single-trial level, but variability over trials. We then modelled single-trial time-locked neural responses in the beta-band to investigate individual tendencies to spontaneously employ binary grouping ("tic-toc effect"). This approach identified binary (strong-weak), ternary (strong-weak-weak), and mixed accentuation patterns, confirming the superimposition of a basic beat pattern. Furthermore, we characterized individual grouping preferences and tendencies to use binary, ternary, or combined patterns over trials. Importantly, the processing of standard and deviant tones was modulated by the employed pattern. The current approach supports individualized neurophysiological profiling as a sensitive strategy to identify dynamically evolving neural signatures of rhythm and beat processing. We further suggest that close examination of neurophysiological variability is critical to improve our understanding of the individual and flexible mechanisms underlying the capacities to rapidly evaluate and adapt to environmental rhythms. Significance statementFor decades, music, speech and rhythm research investigated how humans process, predict, and adapt to environmental rhythms. By adopting a single-trial and -participant approach, we avert the common pooling of EEG data in favor of individual time-varying neural signatures of rhythm tracking and beat processing. The results highlight large inter- and intra-individual differences in rhythm tracking, arguing against the typically documented phase-specificity for entrainment. On top of that, we characterize individual variability in beat processing, by showing that binary, ternary and other accentuation patterns are used over time, and ultimately affect the processing of (un-)expected auditory events. The approach aids individual neural profiling and may therefore allow identifying altered neural activity and its consequences in natural listening contexts.

neuroscience↗

Characterisation and sequence mapping of large RNA and mRNA therapeutics using mass spectrometry

Large RNA including messenger RNA (mRNA) has emerged as an important new class of therapeutic. Recently this has been demonstrated by two highly efficacious vaccines based on mRNA sequences encoding for a modified version of the SARS-CoV-2 spike protein. There is currently significant demand for the development of new and improved analytical methods for the characterization of large RNA including mRNA therapeutics. In this study we have developed an automated, high throughput workflow for the rapid characterisation and direct sequence mapping of large RNA and mRNA therapeutics. Partial RNase digestions using RNase T1 immobilised on magnetic particles was performed in conjunction with high resolution liquid chromatography mass spectrometry analysis. Sequence mapping was performed using automated oligoribonucleotide annotation and identifications based on MS/MS spectra. Using this approach >80% sequence of coverage of a range of large RNAs and mRNA therapeutics including the SARS Co-V2 spike protein was obtained in a single analysis. The analytical workflow, including automated sample preparation can be completed within 90 minutes. The ability to rapidly identify, characterise and sequence map large mRNA therapeutics with high sequence coverage provides important information for identity testing, sequence validation and impurity analysis.

biochemistry↗

Epilipidomics platform for holistic profiling of oxidized complex lipids in blood plasma of obese individuals

Lipids are a structurally diverse class of biomolecules which can undergo a variety of chemical modifications. Among them, lipid (per)oxidation attracts most of the attention due to its significance in regulation of inflammation, cell proliferation and death programs. Despite their apparent regulatory significance, the molecular repertoire of oxidized lipids remains largely elusive as accurate annotation of lipid modifications is challenged by their low abundance and largely unknown, biological context-dependent structural diversity. Here we provide a holistic workflow based on the combination of bioinformatics and LC-MS/MS technologies to support identification and relative quantification of oxidized complex lipids in a modification type- and position-specific manner. The developed methodology was used to identify epilipidomics signatures of lean and obese individuals with and without type II diabetes. Characteristic signature of lipid modifications in lean individuals, dominated by the presence of modified octadecanoid acyl chains in phospho- and neutral lipids, was drastically shifted towards lipid peroxidation-driven accumulation of oxidized eicosanoids, suggesting significant alteration of endocrine signalling by oxidized lipids in metabolic disorders.

biochemistry↗

A dual barcoding approach to bacterial strain nomenclature: Genomic taxonomy of Klebsiella pneumoniae strains

Sublineages within microbial species can differ widely in their ecology and pathogenicity, and their precise definition is important in basic research and industrial or public health applications. Whereas the classification and naming of prokaryotes is unified at the species level and higher taxonomic ranks, universally accepted definitions of sublineages within species are largely missing, which introduces confusion in population biology and epidemiological surveillance. Here we propose a broadly applicable genomic classification and nomenclature approach for bacterial strains, using the prominent public health threat Klebsiella pneumoniae as a model. Based on a 629-gene core genome multilocus sequence typing (cgMLST) scheme, we devised a dual barcoding system that combines multilevel single linkage (MLSL) clustering and life identification numbers (LIN). Phylogenetic and clustering analyses of >7,000 genome sequences captured population structure discontinuities, which were used to guide the definition of 10 infra-specific genetic dissimilarity thresholds. The widely used 7-gene multilocus sequence typing (MLST) nomenclature was mapped onto MLSL sublineages (threshold: 190 allelic mismatches) and clonal group (threshold: 43) identifiers for backwards nomenclature compatibility. The taxonomy is publicly accessible through a community-curated platform (https://bigsdb.pasteur.fr/klebsiella), which also enables external users genomic sequences identification. The proposed strain taxonomy combines two phylogenetically informative barcodes systems that provide full stability (LIN codes) and nomenclatural continuity with previous nomenclature (MLSL). This species-specific dual barcoding strategy for the genomic taxonomy of microbial strains is broadly applicable and should contribute to unify global and cross-sector collaborative knowledge on the emergence and microevolution of bacterial pathogens.

microbiology↗

Genomic epidemiology and strain taxonomy of Corynebacterium diphtheriae

BackgroundCorynebacterium diphtheriae is highly transmissible and can cause large diphtheria outbreaks where vaccination coverage is insufficient. Sporadic cases or small clusters are observed in high-vaccination settings. The phylogeography and short timescale evolution of C. diphtheriae are not well understood, in part due to a lack of harmonized analytical approaches of genomic surveillance and strain tracking. MethodsWe combined 1,305 genes with highly reproducible allele calls into a core genome multilocus sequence typing (cgMLST) scheme. We analyzed cgMLST genes diversity among 602 isolates from sporadic clinical cases, small clusters or large outbreaks. We defined sublineages based on the phylogenetic structure within C. diphtheriae and strains based on the highest number of cgMLST mismatches within documented outbreaks. We performed time-scaled phylogenetic analyses of major sublineages. ResultsThe cgMLST scheme showed high allele call rate in C. diphtheriae and the closely related species C. belfantii and C. rouxii. We demonstrate its utility to delineate epidemiological case clusters and outbreaks using a 25 mismatches threshold, and reveal a number of cryptic transmission chains, most of which are geographically restricted to one or a few adjacent countries. Subcultures of the vaccine strain PW8 differed by up to 20 cgMLST mismatches. Phylogenetic analyses revealed short timescale evolutionary gain or loss of the diphtheria toxin and biovar-associated genes. We devised a genomic taxonomy of strains and deeper sublineages (defined using a 500 cgMLST mismatches threshold), currently comprising 151 sublineages, only a few of which are geographically widespread based on current sampling. The cgMLST genotyping tool and nomenclature was made publicly accessible at https://bigsdb.pasteur.fr/diphtheria. ConclusionsStandardized genome-scale strain genotyping will help tracing transmission and geographic spread of C. diphtheriae. The unified genomic taxonomy of C. diphtheriae strains provides a common language for studies into the ecology, evolution and virulence heterogeneity among C. diphtheriae sublineages.

microbiology↗

Rediscovering the musician's brain: a systematic review and meta-analysis

Through long-term training, music experts acquire complex and specialized sensorimotor skills, which are paralleled by continuous neuro-anatomical and -functional adaptations. The underlying neuroplasticity mechanisms have been extensively explored in decades of research in music, cognitive, and translational neuroscience. However, the absence of a comprehensive review and quantitative meta-analysis prevents the plethora of variegated findings to ultimately converge into a unified picture of the neuroanatomy of musical expertise. Here, we performed a comprehensive neuroimaging meta-analysis of publications investigating neuro-anatomical and -functional differences between musicians (M) and non-musicians (NM). Eighty-four studies were included in the qualitative synthesis. From these, 58 publications were included in coordinate-based meta-analyses using the anatomic/activation likelihood estimation (ALE) method. This comprehensive approach delivers a coherent cortico-subcortical network encompassing sensorimotor and limbic regions bilaterally. Particularly, M exhibited higher volume/activity in auditory, sensorimotor, interoceptive, and limbic brain areas and lower volume/activity in parietal areas as opposed to NM. Notably, we reveal topographical (dis-)similarities between the identified functional and anatomical networks and characterize their link to various cognitive functions by means of meta-analytic connectivity modelling. Overall, we effectively synthesized decades of research in the field and provide a consistent and controversies-free picture of the neuroanatomy of musical expertise.

neuroscience↗

AdipoAtlas: A Reference Lipidome for Human White Adipose Tissue

Obesity, characterized by expansion and metabolic dysregulation of white adipose tissue (WAT), has reached pandemic proportions and acts as a primer for a wide range of metabolic disorders. Remodelling of WAT lipidome in obesity and associated comorbidities can explain disease etiology and provide valuable diagnostic and prognostic markers. To support understanding of WAT lipidome remodelling at the molecular level, we performed in-depth lipidomics profiling of human subcutaneous and visceral WAT of lean and obese individuals. Tissue-tailored preanalytical and analytical workflows allowed accurate identification and semi-absolute quantification of 1636 and 737 lipid molecular species, respectively, and summarized here in a form of human WAT reference lipidome. Deep lipidomic profiling allowed to identify main lipid (sub)classes undergoing depot/phenotype specific remodelling. Furthermore, previously unanticipated diversity of WAT ceramides was uncovered. AdipoAtlas reference lipidome will serve as a data-rich resource for the development of WAT-specific high-throughput methods and as a scaffold for systems medicine data integration.

biochemistry↗

The speciation and hybridization history of the genus Salmonella

Bacteria and archaea make up most of natural diversity but the mechanisms that underlie the origin and maintenance of prokaryotic species are poorly understood. We investigated the speciation history of the genus Salmonella, an ecologically diverse bacterial lineage, within which S. enterica subsp. enterica is responsible for important human food-borne infections. We performed a survey of diversity across a large reference collection using multilocus sequence typing, followed by genome sequencing of distinct lineages. We identified eleven distinct phylogroups, three of which were previously undescribed. Strains assigned to S. enterica subsp. salamae are polyphyletic, with two distinct lineages that we designate Salamae A and Salamae B. Strains of subspecies houtenae are subdivided into two groups, Houtenae A and B and are both related to Selanders group VII. A phylogroup we designate VIII was previously unknown. A simple binary fission model of speciation cannot explain observed patterns of sequence diversity. In the recent past, there have been large scale hybridization events involving an unsampled ancestral lineage and three distantly related lineages of the genus that have given rise to Houtenae A, Houtenae B and VII. We found no evidence for ongoing hybridization in the other eight lineages but detected more subtle signals of ancient recombination events. We are unable to fully resolve the speciation history of the genus, which might have involved additional speciation-by-hybridization or multi-way speciation events. Our results imply that traditional models of speciation by binary fission and divergence may not apply in Salmonella.\n\nData summaryIllumina sequence data were submitted to the European Nucleotide Archive under project number PRJEB2099 and are available from INSDC (NCBI/ENA/DDBJ) under accession numbers ERS011101 to ERS011146. The MLST sequence and profile data generated in this study have been publicly available on the Salmonella MLST web site between 2010 and the migration of the Salmonella MLST website to EnteroBase (https://enterobase.warwick.ac.uk/), and subsequently from there.

microbiology↗

Carriage of a single strain of non-toxigenic Corynebacterium diphtheriae biovar Belfanti (Corynebacterium belfantii) in four patients with cystic fibrosis

Cystic fibrosis (CF) patients are commonly colonized by bacterial pathogens, which can induce persistent lung inflammation and may contribute to clinical deterioration. Colonization of CF patients and cross-transmission by Corynebacterium diphtheriae has not been reported so far. The aim of this article was to investigate the possibility of a cross transmission of C. diphtheriae biovar Belfanti between four patients of a CF center. C. diphtheriae biovar belfanti (now formally called C. belfantii) isolates were collected from four patients in a single CF care center over a 6 years period and analyzed by microbiological methods and whole genome sequencing. Epidemiological links among patients were investigated. Ten isolates were collected from 4 patients. Whole genome sequencing of one isolate from each patient showed that a single strain was shared among them. In addition, one patient had the same strain on two consecutive samplings nine months apart. The strain was non-toxigenic and was susceptible to most antimicrobial agents. Ciprofloxacin resistance was observed in one patient. Transmission of the strain among patients was supported by the occurrence of same-day visits to the CF center. This study demonstrates colonization of CF patients by C. diphtheriae biovar Belfanti (C. belfantii) and shows persistence and transmission of a unique strain during at least six years in a single CF patient care center.\n\nPrevious meeting presentationsThe information in this work was not previously presented in any meeting.\n\nAccession numbersThe genomic sequence data generated in this work were submitted to the European Nucleotide Archive and are available from the International Nucleotide Sequence Database Collaboration (NCBI/ENA/DDBJ) databases under project accession number PRJEB28372 and run data accession numbers ERR2757916 to ERR2757921.

microbiology↗