Investigation of the Relationship between Lactococcal Host Cell Wall Polysaccharide Genotype and 936 Phage Receptor Binding Protein Phylogeny

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

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GeneMark.hmm: new solutions for gene finding

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The Complete Genome Sequence of the Lactic Acid Bacterium Lactococcus lactis ssp. lactis IL1403

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The Complete Genome Sequence of the Lactic Acid Bacterium Lactococcus lactis ssp. lactis IL1403Preprint

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Biodiversity and Classification of Lactococcal Phages

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An improved plaque assay for poor plaque-producing temperate lactococcal bacteriophages

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Structure of lactococcal phage p2 baseplate and its mechanism of activation

Sciara, G., Bebeacua, C., Bron, P., Tremblay, D. M., Ortiz-Lombardı́a, M., Lichière, J., van Heel, M., Campanacci, V., Moineau, S., & Cambillau, C. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1000232107 · Cited by 176 · see citing works

Cell Surface of Lactococcus lactis Is Covered by a Protective Polysaccharide Pellicle

Chapot, M.-P., VINOGRADOV, E. V., Sadovskaya, I., André, G., Mistou, M., Trieu‐Cuot, P., Furlan, S., Bidnenko, E., Courtin, P., Péchoux, C., et al. (2010) · Journal of Biological Chemistry · doi:10.1074/jbc.m109.082958 · Cited by 176 · see citing works

Taxonomic Differentiation of Bacteriophages of Lactococcus lactis by Electron Microscopy, DNA-DNA Hybridization, and Protein Profiles

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Analysis of the DNA sequence, gene expression, origin of replication and modular structure of the Lactococcus lactis lytic bacteriophage sk1

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Identification and characterization of phage‐resistance genes in temperate lactococcal bacteriophages

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Lactococcal bacteriophage p2 receptor-binding protein structure suggests a common ancestor gene with bacterial and mammalian viruses

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Differentiation of lactic streptococcal phages into phage species by DNA-DNA homology

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Conjugal transfer and characterization of bacteriocin plasmids in group N (lactic acid) streptococci

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Receptor-Binding Protein of Lactococcus lactis Phages: Identification and Characterization of the Saccharide Receptor-Binding Site

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Identification and Characterization of Lactococcal-Prophage-Carried Superinfection Exclusion Genes

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Sequence analysis of the lactococcal bacteriophage bIL170: insights into structural proteins and HNH endonucleases in dairy phages The GenBank/EMBL/DDBJ accession numbers for the sequences reported in this paper are bIL170, AF009630; bIL120, AY054975; bIL15, AY054976; bIL191, AY054977; bIL77, AY054978.

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Identification of Lactococcus lactis Genes Required for Bacteriophage Adsorption

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Identification of the Receptor-Binding Protein in 936-Species Lactococcal Bacteriophages

Dupont, K., Vogensen, F. K., Neve, H., Bresciani, J., & Josephsen, J. (2004) · Applied and Environmental Microbiology · doi:10.1128/aem.70.10.5818-5824.2004 · Cited by 82 · see citing works

Evolution of Lactococcus lactis Phages within a Cheese Factory

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Lactococcal 936-type phages and dairy fermentation problems: from detection to evolution and prevention

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Evidence for Plasmid Linkage of Restriction and Modification in Streptococcus cremoris KH

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Molecular Characterization of a Phage-Encoded Resistance System in Lactococcus lactis

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Sequence and comparative genomic analysis of lactococcal bacteriophages jj50, 712 and P008: evolutionary insights into the 936 phage species

Mahony, J., Deveau, H., Grath, S. M., Ventura, M., Canchaya, C. A., Moineau, S., Fitzgerald, G. F., & van Sinderen, D. (2006) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.2006.00372.x · Cited by 69 · see citing works

ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes

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Crystal Structure of the Receptor-Binding Protein Head Domain from Lactococcus lactis Phage bIL170

Ricagno, S., Campanacci, V., Blangy, S., Spinelli, S., Tremblay, D. M., Moineau, S., Tegoni, M., & Cambillau, C. (2006) · Journal of Virology · doi:10.1128/jvi.01160-06 · Cited by 63 · see citing works

Isolation of a Virulent Lactobacillus brevis Phage and Its Application in the Control of Beer Spoilage

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A simple method for the parallel deep sequencing of full influenza A genomes

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Identification of Four Phage Resistance Plasmids from Lactococcus lactis subsp. cremoris HO2

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An ecological study of lytic bacteriophages of Lactococcus lactis subsp. cremoris isolated in a cheese plant over a five year period

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DNA Sequence Analysis of Three Lactococcus lactis Plasmids Encoding Phage Resistance Mechanisms

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Population Genomics and Phylogeography of an Australian Dairy Factory Derived Lytic Bacteriophage

Castro‐Nallar, E., Chen, H., Gladman, S. L., Moore, S. C., Seemann, T., Powell, I. B., Hillier, A. J., Crandall, K. A., & Chandry, P. S. (2012) · Genome Biology and Evolution · doi:10.1093/gbe/evs017 · Cited by 41 · see citing works

Detection of lactococcal 936-species bacteriophages in whey by magnetic capture hybridization PCR targeting a variable region of receptor-binding protein genes

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Thermal inactivation of the heat-resistant Lactococcus lactis bacteriophage P680 in modern cheese processing

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Spontaneous deletion mutants of the Lactococcus lactis temperate bacteriophage BK5-T and localization of the BK5-T attP site

Boyce, J. D., Davidson, B. E., & Hillier, A. J. (1995) · Applied and Environmental Microbiology · doi:10.1128/aem.61.11.4105-4109.1995 · Cited by 35 · see citing works

Lactococcal 936-Species Phage Attachment to Surface of Lactococcus lactis

Geller, B. L., Ngo, H., Mooney, D. T., Su, P., & Dunn, N. W. (2005) · Journal of Dairy Science · doi:10.3168/jds.s0022-0302(05)72756-9 · Cited by 31 · see citing works

Bacteriophage receptors of Lactococcus lactis subsp. ?diacetylactis? F7/2 and Lactococcus lactis subsp. cremoris Wg2-1

Schäfer, A. H. (1991) · FEMS Microbiology Letters · doi:10.1016/0378-1097(91)90257-b · Cited by 29 · see citing works

TPW22, a Lactococcal Temperate Phage with a Site-Specific Integrase Closely Related to Streptococcus thermophilus Phage Integrases

Petersen, A., Josephsen, J., & Johnsen, M. G. (1999) · Journal of Bacteriology · doi:10.1128/jb.181.22.7034-7042.1999 · Cited by 21 · see citing works

Insights into structural proteins of 936-type virulent lactococcal bacteriophages

Coq, A.-M. C.-L., Cantele, F., Lanzavecchia, S. B., & Marco, S. (2006) · Archives of Virology · doi:10.1007/s00705-005-0709-4 · Cited by 11 · see citing works

Prophage Curing and Partial Characterization of Temperate Bacteriophages from Thermolytic Strains of Lactococcus lactis ssp. cremoris

Wiederholt, K. M., & Steele, J. L. (1993) · Journal of Dairy Science · doi:10.3168/jds.s0022-0302(93)77419-6 · Cited by 9 · see citing works

Activation and Transfer of the Chromosomal Phage Resistance Mechanism AbiV in Lactococcus lactis

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Isolation and characterization of two temperate phages from Lactococcus lactis ssp. cremoris C3

Jarvis, A. W., Parker, V. R., & Bianchin, M. B. (1992) · Canadian Journal of Microbiology · doi:10.1139/m92-067 · Cited by 6 · see citing works

Identification of adsorption inhibition, restriction/modification and abortive infection type phage resistance systems in Lactococcus lactis strains

Tükel, Ç., Şanlıbaba, P., Tuncer, B. Ö., Akçelik, N., & Akçelik, N. (2006) · Acta Biologica Hungarica · doi:10.1556/abiol.57.2006.3.11 · Cited by 6 · see citing works

Cell Wall Structure and Function in Lactic Acid Bacteria

Chapot-Chartier, M.-P., & Kulakauskas, S. (2014) · Microbial Cell Factories · doi:10.1186/1475-2859-13-s1-s9 · Cited by 410 · see citing works

Polysaccharide Production by Lactic Acid Bacteria: From Genes to Industrial Applications

Zeidan, A. A., Poulsen, V. K., Janzen, T., Buldo, P., Derkx, P. M. F., Øregaard, G., & Neves, A. R. (2017) · FEMS Microbiology Reviews · doi:10.1093/femsre/fux017 · Cited by 326 · see citing works

Fitness Trade-Offs Resulting from Bacteriophage Resistance Potentiate Synergistic Antibacterial Strategies

Mangalea, M. R., & Duerkop, B. A. (2020) · Infection and Immunity · doi:10.1128/iai.00926-19 · Cited by 233 · see citing works

Bacterial Glycobiology: Rhamnose-Containing Cell Wall Polysaccharides in Gram-Positive Bacteria

Mistou, M.-Y., Sutcliffe, I. C., & van Sorge, N. M. (2016) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuw006 · Cited by 215 · see citing works

Lactic Acid Bacteria Exopolysaccharides Producers: A Sustainable Tool for Functional Foods

Prete, R., Alam, M. K., Perpetuini, G., Perla, C., Pittia, P., & Corsetti, A. (2021) · Foods · doi:10.3390/foods10071653 · Cited by 194 · see citing works

Comparative Genome Analysis of Lactococcus lactis Indicates Niche Adaptation and Resolves Genotype/Phenotype Disparity

Wels, M., Siezen, R., van Hijum, S., Kelly, W. J., & Bachmann, H. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.00004 · Cited by 181 · see citing works

Optimizing protocols for extraction of bacteriophages prior to metagenomic analyses of phage communities in the human gut

Castro-Mejía, J. L., Muhammed, M. K., Kot, W., Neve, H., Franz, C. M. A. P., Hansen, L. H., Vogensen, F. K., & Nielsen, D. S. (2015) · Microbiome · doi:10.1186/s40168-015-0131-4 · Cited by 148 · see citing works

Functional and structural dissection of the tape measure protein of lactococcal phage TP901-1

Mahony, J., Alqarni, M. A., Stockdale, S. R., Spinelli, S., Feyereisen, M., Cambillau, C., & van Sinderen, D. (2016) · Scientific Reports · doi:10.1038/srep36667 · Cited by 114 · see citing works

Differences in Lactococcal Cell Wall Polysaccharide Structure Are Major Determining Factors in Bacteriophage Sensitivity

Ainsworth, S., Sadovskaya, I., Vinogradov, E., Courtin, P., Guérardel, Y., Mahony, J., Grard, T., Cambillau, C., Chapot, M.-P., & van Sinderen, D. (2014) · mBio · doi:10.1128/mbio.00880-14 · Cited by 112 · see citing works

Cell wall homeostasis in lactic acid bacteria: threats and defences

Martı́nez, B., Rodrı́guez, A., Kulakauskas, S., & Chapot, M.-P. (2020) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuaa021 · Cited by 104 · see citing works

Structure, Adsorption to Host, and Infection Mechanism of Virulent Lactococcal Phage p2

Bebeacua, C., Tremblay, D. M., Farenc, C., Chapot, M.-P., Sadovskaya, I., van Heel, M., Veesler, D., Moineau, S., & Cambillau, C. (2013) · Journal of Virology · doi:10.1128/jvi.02033-13 · Cited by 105 · see citing works

Phage Adsorption to Gram-Positive Bacteria

Leprince, A., & Mahillon, J. (2023) · Viruses · doi:10.3390/v15010196 · Cited by 101 · see citing works

In Vitro Characteristics of Phages to Guide ‘Real Life’ Phage Therapy Suitability

Casey, E., van Sinderen, D., & Mahony, J. (2018) · Viruses · doi:10.3390/v10040163 · Cited by 100 · see citing works

Bacteriophages on dairy foods

Pujato, S. A., Quiberoni, A. D. L., & Mercanti, D. J. (2018) · Journal of Applied Microbiology · doi:10.1111/jam.14062 · Cited by 88 · see citing works

Another Brick in the Wall: a Rhamnan Polysaccharide Trapped inside Peptidoglycan of Lactococcus lactis

Sadovskaya, I., VINOGRADOV, E. V., Courtin, P., Armalytė, J., Meyrand, M., Giaouris, E. D., Palussière, S., Furlan, S., Péchoux, C., Ainsworth, S., et al. (2017) · mBio · doi:10.1128/mbio.01303-17 · Cited by 82 · see citing works

Comparative genomics and functional analysis of the 936 group of lactococcal Siphoviridae phages

Murphy, J., Bottacini, F., Mahony, J., Kelleher, P., Neve, H., Zomer, A., Nauta, A., & van Sinderen, D. (2016) · Scientific Reports · doi:10.1038/srep21345 · Cited by 78 · see citing works

Bacteriophages in the Dairy Environment: From Enemies to Allies

Fernández, L., Escobedo, S., Gutiérrez, D., Portilla, S., Martı́nez, B., García, P., & Rodrı́guez, A. (2017) · Antibiotics · doi:10.3390/antibiotics6040027 · Cited by 75 · see citing works

Molecular Insights on the Recognition of a Lactococcus lactis Cell Wall Pellicle by the Phage 1358 Receptor Binding Protein

Farenc, C., Spinelli, S., VINOGRADOV, E. V., Tremblay, D. M., Blangy, S., Sadovskaya, I., Moineau, S., & Cambillau, C. (2014) · Journal of Virology · doi:10.1128/jvi.00739-14 · Cited by 70 · see citing works

Dairy lactococcal and streptococcal phage–host interactions: an industrial perspective in an evolving phage landscape

Romero, D. A., Magill, D., Millen, A. M., Horvath, P., & Fremaux, C. (2020) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuaa048 · Cited by 62 · see citing works

Phage-Host Interactions of Cheese-Making Lactic Acid Bacteria

Mahony, J., McDonnell, B., Casey, E., & van Sinderen, D. (2016) · Annual Review of Food Science and Technology · doi:10.1146/annurev-food-041715-033322 · Cited by 60 · see citing works

Interactions of the cell-wall glycopolymers of lactic acid bacteria with their bacteriophages

Chapot, M.-P. (2014) · Frontiers in Microbiology · doi:10.3389/fmicb.2014.00236 · Cited by 60 · see citing works

Gene Co-occurrence Networks Reflect Bacteriophage Ecology and Evolution

Shapiro, J. W., & Putonti, C. (2018) · mBio · doi:10.1128/mbio.01870-17 · Cited by 57 · see citing works

Progress in lactic acid bacterial phage research

Mahony, J., Bottacini, F., van Sinderen, D., & Fitzgerald, G. F. (2014) · Microbial Cell Factories · doi:10.1186/1475-2859-13-s1-s1 · Cited by 53 · see citing works

Next-generation sequencing as an approach to dairy starter selection

Kelleher, P., Murphy, J., Mahony, J., & van Sinderen, D. (2015) · Dairy Science & Technology · doi:10.1007/s13594-015-0227-4 · Cited by 51 · see citing works

Biodiversity of bacteriophages infecting Lactococcus lactis starter cultures

Oliveira, J., Mahony, J., Hanemaaijer, L., Kouwen, T. R. H. M., & van Sinderen, D. (2017) · Journal of Dairy Science · doi:10.3168/jds.2017-13403 · Cited by 50 · see citing works

Evolved distal tail carbohydrate binding modules of L actobacillus phage J ‐1: a novel type of anti‐receptor widespread among lactic acid bacteria phages

Dieterle, M. E., Spinelli, S., Sadovskaya, I., Piuri, M., & Cambillau, C. (2017) · Molecular Microbiology · doi:10.1111/mmi.13649 · Cited by 49 · see citing works

The Lactococcus lactis Pan-Plasmidome

Kelleher, P., Mahony, J., Bottacini, F., Lugli, G. A., Ventura, M., & van Sinderen, D. (2019) · Frontiers in Microbiology · doi:10.3389/fmicb.2019.00707 · Cited by 47 · see citing works

Host recognition by lactic acid bacterial phages

Mahony, J., Cambillau, C., & van Sinderen, D. (2017) · FEMS Microbiology Reviews · doi:10.1093/femsre/fux019 · Cited by 46 · see citing works

Bacteriophages in the Dairy Industry: A Problem Solved?

Charneco, G. O., de Waal, P. P., van Rijswijck, I. M. H., van Peij, N. N. M. E., van Sinderen, D., & Mahony, J. (2022) · Annual Review of Food Science and Technology · doi:10.1146/annurev-food-060721-015928 · Cited by 45 · see citing works

Interaction between the genomes of Lactococcus lactis and phages of the P335 species

Kelly, W. J., Altermann, E., Lambie, S. C., & Leahy, S. C. (2013) · Frontiers in Microbiology · doi:10.3389/fmicb.2013.00257 · Cited by 45 · see citing works

DPS – A rapid method for genome sequencing of DNA-containing bacteriophages directly from a single plaque

Kot, W., Vogensen, F. K., Sørensen, S. J., & Hansen, L. H. (2013) · Journal of Virological Methods · doi:10.1016/j.jviromet.2013.10.040 · Cited by 44 · see citing works

Functional carbohydrate binding modules identified in evolved dits from siphophages infecting various Gram‐positive bacteria

Hayes, S., Vincentelli, R., Mahony, J., Nauta, A., Ramond, L., Lugli, G. A., Ventura, M., van Sinderen, D., & Cambillau, C. (2018) · Molecular Microbiology · doi:10.1111/mmi.14124 · Cited by 44 · see citing works

Cell Wall Glycans Mediate Recognition of the Dairy Bacterium Streptococcus thermophilus by Bacteriophages

Szymczak, P., Filipe, S. R., Covas, G., Vogensen, F. K., Neves, A. R., & Janzen, T. (2018) · Applied and Environmental Microbiology · doi:10.1128/aem.01847-18 · Cited by 43 · see citing works

Genetic and functional characterisation of the lactococcal P335 phage-host interactions

Mahony, J., Oliveira, J., Collins, B., Hanemaaijer, L., Lugli, G. A., Neve, H., Ventura, M., Kouwen, T. R. H. M., Cambillau, C., & van Sinderen, D. (2017) · BMC Genomics · doi:10.1186/s12864-017-3537-5 · Cited by 41 · see citing works

The CWPS Rubik’s cube: Linking diversity of cell wall polysaccharide structures with the encoded biosynthetic machinery of selected Lactococcus lactis strains

Mahony, J., Frantzen, C. A., VINOGRADOV, E. V., Sadovskaya, I., Theodorou, I., Kelleher, P., Chapot, M.-P., Cambillau, C., Holo, H., & van Sinderen, D. (2020) · Molecular Microbiology · doi:10.1111/mmi.14561 · Cited by 41 · see citing works

Detecting Lactococcus lactis Prophages by Mitomycin C-Mediated Induction Coupled to Flow Cytometry Analysis

Oliveira, J., Mahony, J., Hanemaaijer, L., Kouwen, T. R. H. M., Neve, H., MacSharry, J. A., & van Sinderen, D. (2017) · Frontiers in Microbiology · doi:10.3389/fmicb.2017.01343 · Cited by 40 · see citing works

Lactococcal 949 Group Phages Recognize a Carbohydrate Receptor on the Host Cell Surface

Mahony, J., Randazzo, W., Neve, H., Settanni, L., & van Sinderen, D. (2015) · Applied and Environmental Microbiology · doi:10.1128/aem.00143-15 · Cited by 39 · see citing works

Novel strategies to prevent or exploit phages in fermentations, insights from phage–host interactions

Mahony, J., & van Sinderen, D. (2014) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2014.09.006 · Cited by 39 · see citing works

Metagenomic Analysis of Dairy Bacteriophages: Extraction Method and Pilot Study on Whey Samples Derived from Using Undefined and Defined Mesophilic Starter Cultures

Muhammed, M. K., Kot, W., Neve, H., Mahony, J., Castro-Mejía, J. L., Krych, Ł., Hansen, L. H., Nielsen, D. S., Sørensen, S. J., Heller, K. J., et al. (2017) · Applied and Environmental Microbiology · doi:10.1128/aem.00888-17 · Cited by 39 · see citing works

A dual-chain assembly pathway generates the high structural diversity of cell-wall polysaccharides in Lactococcus lactis

Theodorou, I., Courtin, P., Palussière, S., Kulakauskas, S., Bidnenko, E., Péchoux, C., Fenaille, F., Penno, C., Mahony, J., van Sinderen, D., et al. (2019) · Journal of Biological Chemistry · doi:10.1074/jbc.ra119.009957 · Cited by 38 · see citing works

Biodiversity of Streptococcus thermophilus Phages in Global Dairy Fermentations

Lavelle, K., Martínez, I., Neve, H., Lugli, G. A., Franz, C. M. A. P., Ventura, M., Bello, F. D., van Sinderen, D., & Mahony, J. (2018) · Viruses · doi:10.3390/v10100577 · Cited by 37 · see citing works

Phage Biodiversity in Artisanal Cheese Wheys Reflects the Complexity of the Fermentation Process

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A comparative genomics approach for identifying host-range determinants in Streptococcus thermophilus bacteriophages

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