Anne Bruttin

Nestlé (Switzerland)

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Harald Brüssow

KU Leuven

Sophie Foley

Edinburgh Napier University

J Sidoti

Nestlé (Switzerland)

Catherine Ngom‐Bru

Nestlé (Switzerland)

Carlos Canchaya

Universidade de Vigo

Bernard Berger

Nestlé (Switzerland)

Olga Sakwińska

Nestlé (Switzerland)

Shafiqul Alam Sarker

The Childhood Acute Illness and Nutrition Network

Sandra Chibani-Chennoufi

Nestlé (Switzerland)

Frank Desiere

Roche (Switzerland)

Cooperative Institutions

Nestlé (Switzerland)

Nestlé (Brazil)

Inserm

Imperial College London

Université Paris Cité

Bioanalytica (Switzerland)

Sorbonne Paris Cité

International Centre for Diarrhoeal Disease Research

Neste Oil (Finland)

École Polytechnique Fédérale de Lausanne

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The Site-Specific Integration System of the TemperateStreptococcus thermophilusBacteriophage φSfi21

Virology (1997)

Anne Bruttin Sophie Foley Harald Brüssow

Phagemid

Integrases

In vitro recombination

Temperateness

10.1006/viro.1997.8769

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Citations (49)

DNA-Binding Activity of the Streptococcus thermophilus Phage Sfi21 Repressor

Virology (2002)

Anne Bruttin Sophie Foley Harald Brüssow

Operator (biology)

10.1006/viro.2002.1574

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Citations (17)

Molecular ecology and evolution of Streptococcus thermophilus bacteriophages--a review.

Virus Genes (1998)

Harald Brüssow Anne Bruttin Frank Desiere Sacha Lucchini Sophie Foley

Temperateness

Lysogenic cycle

Horizontal Gene Transfer

Lytic cycle

Phagemid

10.1023/a:1007957911848

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Citations (70)

Isolation of Escherichia coli Bacteriophages from the Stool of Pediatric Diarrhea Patients in Bangladesh

Journal of Bacteriology (2004)

Sandra Chibani-Chennoufi J Sidoti Anne Bruttin Marie-Lise Dillmann Elizabeth Kutter

A 3-week coliphage survey was conducted in stool samples from 140 Bangladeshi children hospitalized with severe diarrhea. On the Escherichia coli indicator strain K803, all but one phage isolate had 170-kb genomes and the morphology of T4 phage. In spot tests, the individual T4-like phages infected up to 27 out of 40 diarrhea-associated E. coli, representing 22 O serotypes and various virulence factors; only five of them were not infected by any of these new phages. A combination of diagnostic PCR based on g32 (DNA binding) and g23 (major capsid protein) and Southern hybridization revealed that half were T-even phages sensu strictu, while the other half were pseudo-T-even or even more distantly related T4-like phages that failed to cross-hybridize with T4 or between each other. Nineteen percent of the acute stool samples yielded T4-like phages, and the prevalence was lower in convalescent stool samples. T4-like phages were also isolated from environmental and sewage water, but with low frequency and low titers. On the enteropathogenic E. coli strain O127:K63, 14% of the patients yielded phage, all of which were members of the phage family Siphoviridae with 50-kb genomes, showing the morphology of Jersey- and beta-4 like phages and narrow lytic patterns on E. coli O serotypes. Three siphovirus types could be differentiated by lack of cross-hybridization. Only a few stool samples were positive on both indicator strains. Phages with closely related restriction patterns and, in the case of T4-like phages, identical g23 gene sequences were isolated from different patients, suggesting epidemiological links between the patients.

Siphoviridae

Lytic cycle

Coliphage

10.1128/jb.186.24.8287-8294.2004

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Citations (83)

Detection and classification of Streptococcus thermophilus bacteriophages isolated from industrial milk fermentation

Applied and Environmental Microbiology (1994)

Harald Brüssow Marc Frémont Anne Bruttin J Sidoti Anne Constable

In the last 30 years, 81 Streptococcus thermophilus bacteriophage isolates were collected from industrial yogurt (n = 40) and cheese (n = 41) fermentation. Forty-six distinct restriction patterns of phage DNA (11 in yogurt and 35 in cheese) were observed. The phages were investigated for host range, serological properties, and DNA homology to study whether these three independent techniques can be used to classify the phages into taxonomic groups. Yogurt factory-derived phages were classified into the same two subgroups by serology, host range analysis, and hybridization with subgroup-specific DNA sequences. Cheese factory-derived phages, however, could not be classified: the 35 cheese phage isolates with distinct restriction patterns showed 34 different host ranges. All but one cheese phage isolate showed serological cross-reactivity with yogurt phages. A phage DNA fragment that hybridized with all phage DNA samples was cloned, establishing the genetic relatedness of all S. thermophilus phages from our collection. With the sequence information from an unusually conserved S. thermophilus phage DNA element (H. Brüssow, A. Probst, M. Frémont, and J. Sidoti, Virology 200:854-857, 1994), a PCR-based phage detection method was developed for cheese whey from a factory that produced mozzarella cheese with complex undefined starter mixes. PCR allowed the detection of phages in cheese whey (detection limit, 10(3) PFU/ml) which could not be detected by dot blot hybridization techniques (detection limit, 10(7) PFU/ml).

Dot blot

10.1128/aem.60.12.4537-4543.1994

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Citations (94)

Bifidobacterium longum subsp. iuvenis subsp. nov., a novel subspecies isolated from the faeces of weaning infants

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2023)

Monica Modesto Catherine Ngom‐Bru Donatella Scarafile Anne Bruttin Solenn Pruvost

The species Bifidobacterium longum currently comprises four subspecies: B. longum subsp. longum , B. longum subsp. infantis , B. longum subsp. suis and B. longum subsp. suillum . Recently, several studies on B. longum suggested the presence of a separate clade containing four strains isolated from infants and one from rhesus macaque. These strains shared a phylogenetic similarity to B. longum subsp. suis DSM 20210 T and B. longum subsp. suillum JCM1995 T [average nucleotide identity (ANI) of 98.1 %) while showed an ANI of 96.5 % with both B. longum subsp. infantis and B. longum subsp. longum . The current work describes five novel additional B. longum strains isolated from Bangladeshi weaning infants and demonstrates their common phylogenetic origin with those of the previously proposed separated clade. Based on polyphasic taxonomic approach comprising loci multilocus sequence analysis and whole genome multilocus sequence typing, all ten examined strains have been confirmed as a distinct lineage within the species B. longum with B. longum subsp. suis and B. longum subsp. suillum as closest subspecies. Interestingly, these strains are present in weaning infants and primates as opposed to their closest relatives which have been typically isolated from pig and calves. These strains, similarly to B. longum subsp. infantis , show a common capacity to metabolize the human milk oligosaccharide 3-fucosyllactose. Moreover, they harbour a riboflavin synthesis operon, which differentiate them from their closest subspecies, B. longum subsp. suis and B. longum subsp. suillum . Based on the consistent results from genotypical, ecological and phenotypical analyses, a novel subspecies with the name Bifidobacterium longum subsp. iuvenis , with type strain NCC 5000 T (=LMG 32752 T =CCOS 2034 T ), is proposed.

Bifidobacterium longum

Subspecies

Multilocus sequence typing

10.1099/ijsem.0.006013

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Citations (10)

Transcription Mapping as a Tool in Phage Genomics: The Case of the Temperate Streptococcus thermophilus Phage Sfi21

Virology (2002)

Marco Ventura Sophie Foley Anne Bruttin Sandra Chibani Chennoufi Carlos Canchaya

Lysogenic cycle

Temperateness

Transcription

Lytic cycle

Lysogen

10.1006/viro.2001.1331

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Citations (40)

Prophage Genomics

Microbiology and Molecular Biology Reviews (2003)

Carlos Canchaya Caroline Proux Ghislain Fournous Anne Bruttin Harald Brüssow

SUMMARY The majority of the bacterial genome sequences deposited in the National Center for Biotechnology Information database contain prophage sequences. Analysis of the prophages suggested that after being integrated into bacterial genomes, they undergo a complex decay process consisting of inactivating point mutations, genome rearrangements, modular exchanges, invasion by further mobile DNA elements, and massive DNA deletion. We review the technical difficulties in defining such altered prophage sequences in bacterial genomes and discuss theoretical frameworks for the phage-bacterium interaction at the genomic level. The published genome sequences from three groups of eubacteria (low- and high-G+C gram-positive bacteria and γ-proteobacteria) were screened for prophage sequences. The prophages from Streptococcus pyogenes served as test case for theoretical predictions of the role of prophages in the evolution of pathogenic bacteria. The genomes from further human, animal, and plant pathogens, as well as commensal and free-living bacteria, were included in the analysis to see whether the same principles of prophage genomics apply for bacteria living in different ecological niches and coming from distinct phylogenetical affinities. The effect of selection pressure on the host bacterium is apparently an important force shaping the prophage genomes in low-G+C gram-positive bacteria and γ-proteobacteria.

Prophage

Bacterial genome size

Comparative Genomics

Lysogenic cycle

10.1128/mmbr.67.2.238-276.2003

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Citations (596)

A Highly Conserved DNA Replication Module fromStreptococcus thermophilusPhages Is Similar in Sequence and Topology to a Module fromLactococcus lactisPhages

Virology (1997)

Frank Desiere Sacha Lucchini Anne Bruttin Marie-Camille Zwahlen Harald Brüssow

Conserved sequence

Horizontal Gene Transfer