Genome-scale analyses of health-promoting bacteria: probiogenomics

An obesity-associated gut microbiome with increased capacity for energy harvest

Turnbaugh, P. J., Ley, R. E., Mahowald, M. A., Magrini, V., Mardis, E. R., & Gordon, J. I. (2006) · Nature · doi:10.1038/nature05414 · Cited by 12,444 · see citing works

Diversity of the Human Intestinal Microbial Flora

Eckburg, P. B., Bik, E. M., Bernstein, C. N., Purdom, E., Dethlefsen, L., Sargent, M., Gill, S. R., Nelson, K. E., & Relman, D. A. (2005) · Science · doi:10.1126/science.1110591 · Cited by 7,913 · see citing works

Dietary Modulation of the Human Colonic Microbiota: Introducing the Concept of Prebiotics

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CRISPR Provides Acquired Resistance Against Viruses in Prokaryotes

Barrangou, R., Fremaux, C., Deveau, H., Richards, M., Boyaval, P., Moineau, S., Romero, D. A., & Horvath, P. (2007) · Science · doi:10.1126/science.1138140 · Cited by 6,304 · see citing works

The gut microbiota as an environmental factor that regulates fat storage

Bäckhed, F., Ding, H., Wang, T., Hooper, L. V., Koh, G. Y., Nagy, A., Semenkovich, C. F., & Gordon, J. I. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407076101 · Cited by 6,245 · see citing works

The human microbiome project

Turnbaugh, P. J., Ley, R. E., Hamady, M., Fraser-Liggett, C. M., Knight, R., & Gordon, J. I. (2007) · Nature · doi:10.1038/nature06244 · Cited by 6,091 · see citing works

Host-Bacterial Mutualism in the Human Intestine

Bäckhed, F., Ley, R. E., Sonnenburg, J. L., Peterson, D. A., & Gordon, J. I. (2005) · Science · doi:10.1126/science.1104816 · Cited by 5,277 · see citing works

Prokaryotes: The unseen majority

Whitman, W. B., Coleman, D. C., & Wiebe, W. J. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.12.6578 · Cited by 4,871 · cited 1× · see citing works

Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases

Frank, D. N., St. Amand, A. L., Feldman, R. A., Boedeker, E. C., Harpaz, N., & Pace, N. R. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0706625104 · Cited by 4,611 · see citing works

Evolution of mammals and their gut microbes

Ley, R. E., Hamady, M., Lozupone, C., Turnbaugh, P. J., Ramey, R. R., Bircher, J. S., Schlegel, M. L., Tucker, T. A., Schrenzel, M. D., Knight, R., et al. (2008) · Science · doi:10.1126/science.1155725 · Cited by 3,747 · see citing works

Gut flora in health and disease

Guarner, F., & Malagelada, J. (2003) · The Lancet · doi:10.1016/s0140-6736(03)12489-0 · Cited by 3,395 · see citing works

Ecological and Evolutionary Forces Shaping Microbial Diversity in the Human Intestine

Ley, R. E., Peterson, D. A., & Gordon, J. I. (2006) · Cell · doi:10.1016/j.cell.2006.02.017 · Cited by 3,358 · see citing works

Commensal Host-Bacterial Relationships in the Gut

Hooper, L. V., & Gordon, J. I. (2001) · Science · doi:10.1126/science.1058709 · Cited by 2,362 · see citing works

Reduced diversity of faecal microbiota in Crohn’s disease revealed by a metagenomic approach

Manichanh, C., Rigottier-Gois, L., Bonnaud, E., Gloux, K., Pelletier, E., Frangeul, L., Nalin, R., Jarrin, C., Chardon, P., Marteau, P., et al. (2006) · Gut · doi:10.1136/gut.2005.073817 · Cited by 2,277 · see citing works

Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis

Flint, H. J., Bayer, E. A., Rincón, M. T., Lamed, R., & White, B. A. (2008) · Nature Reviews Microbiology · doi:10.1038/nrmicro1817 · Cited by 1,710 · see citing works

H OW H OST -M ICROBIAL I NTERACTIONS S HAPE THE N UTRIENT E NVIRONMENT OF THE M AMMALIAN I NTESTINE

Hooper, L. V., Midtvedt, T., & Gordon, J. I. (2002) · Annual Review of Nutrition · doi:10.1146/annurev.nutr.22.011602.092259 · Cited by 1,623 · see citing works

Complete genome sequence of <i>Lactobacillus plantarum</i> WCFS1

Kleerebezem, M., Boekhorst, J., van Kranenburg, R., Molenaar, D., Kuipers, O. P., Leer, R., Tarchini, R., Peters, S. A., Sandbrink, H. M., Fiers, M. W. E. J., et al. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0337704100 · Cited by 1,472 · see citing works

Comparative genomics of the lactic acid bacteria.

Makarova, K., Slesarev, A., Wolf, Y., Sorokin, A., Mirkin, B., Koonin, E., Pavlov, A., Pavlova, N., Karamychev, V., Polouchine, N., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0607117103 · Cited by 1,391 · see citing works

Glycan foraging in vivo by an intestine-adapted bacterial symbiont

Sonnenburg, J. L., Xu, J., Leip, D. D., Chen, C.-H., Westover, B. P., Weatherford, J., Buhler, J. D., & Gordon, J. I. (2005) · Science · doi:10.1126/science.1109051 · Cited by 1,184 · see citing works

Horizontal gene transfer in prokaryotes: Quantification and classification

Koonin, E. V., Makarova, K. S., & Aravind, L. (2001) · Annual Review of Microbiology · doi:10.1146/annurev.micro.55.1.709 · Cited by 1,126 · see citing works

List of Bacterial Names with Standing in Nomenclature: a Folder Available on the Internet

Euzéby, J. P. (1997) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/00207713-47-2-590 · Cited by 1,112 · see citing works

Genomics of Actinobacteria : Tracing the Evolutionary History of an Ancient Phylum

Ventura, M., Canchaya, C. A., Tauch, A., Chandra, G., Fitzgerald, G. F., Chater, K. F., & van Sinderen, D. (2007) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00005-07 · Cited by 1,097 · see citing works

The Fecal Microbiota of Irritable Bowel Syndrome Patients Differs Significantly From That of Healthy Subjects

Kassinen, A., Krogius-Kurikka, L., Mäkivuokko, H., Rinttilä, T., Paulin, L., Corander, J., Malinen, E., Apajalahti, J., & Palva, A. (2007) · Gastroenterology · doi:10.1053/j.gastro.2007.04.005 · Cited by 1,002 · see citing works

Bacteria of Dental Caries in Primary and Permanent Teeth in Children and Young Adults

Aas, J. A., Griffen, A. L., Dardis, S. R., Lee, A. M., Olsen, I., Dewhirst, F. E., Leys, E. J., & Paster, B. J. (2008) · Journal of Clinical Microbiology · doi:10.1128/jcm.01410-07 · Cited by 952 · cited 1× · see citing works

The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract

Schell, M. A., Karmirantzou, M., Snel, ‎., Vilanova, D., Berger, B. W., Pessi, G., Zwahlen, M.-C., Desiere, F., Peer Bork, B., Delley, M., et al. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.212527599 · Cited by 942 · see citing works

The serpin superfamily of proteinase inhibitors: structure, function, and regulation.

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Bacteriocin production as a mechanism for the antiinfective activity of <i>Lactobacillus salivarius</i> UCC118

Corr, S. C., Li, Y., Riedel, C. U., O'Toole, P. W., Hill, C., & Gahan, C. G. M. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0700440104 · Cited by 853 · see citing works

The model organism as a system: integrating 'omics' data sets

Joyce, A. R., & Palsson, B. Ø. (2006) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm1857 · Cited by 790 · see citing works

Alterations of the dominant faecal bacterial groups in patients with Crohn's disease of the colon

Seksik, P., Rigottier‐Gois, L., Gramet, G., BRIEND‐SUTREN, M., Pochart, P., Marteau, P. R., Jian, R., & Dore, J. M. (2003) · Gut · doi:10.1136/gut.52.2.237 · Cited by 746 · see citing works

A humanized gnotobiotic mouse model of host-archaeal-bacterial mutualism

Samuel, B. S., & Gordon, J. I. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0602187103 · Cited by 674 · see citing works

Analysis of the Fecal Microflora of Human Subjects Consuming a Probiotic Product Containing Lactobacillus rhamnosus DR20

Tannock, G. W., Munro, K., Harmsen, H. J. M., Welling, G. W., Smart, J., & Gopal, P. K. (2000) · Applied and Environmental Microbiology · doi:10.1128/aem.66.6.2578-2588.2000 · Cited by 671 · see citing works

Use of probiotic <i>Lactobacillus</i> preparation to prevent diarrhoea associated with antibiotics: randomised double blind placebo controlled trial

Hickson, M., D'Souza, A. L., Muthu, N., Rogers, T. R., Want, S., Rajkumar, C., & Bulpitt, C. J. (2007) · BMJ · doi:10.1136/bmj.39231.599815.55 · Cited by 599 · see citing works

Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM

Altermann, E., Russell, W. M., Azcárate-Peril, M. A., Barrangou, R., Buck, B. L., McAuliffe, O. E., Souther, N. E., Dobson, A., Duong, T., Callanan, M. J., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0409188102 · Cited by 594 · see citing works

Diversity of the human gastrointestinal tract microbiota revisited

Rajilić‐Stojanović, M., Smidt, H., & De Vos, W. M. (2007) · Environmental Microbiology · doi:10.1111/j.1462-2920.2007.01369.x · Cited by 559 · see citing works

A molecular sensor that allows a gut commensal to control its nutrient foundation in a competitive ecosystem

Hooper, L. V., Xu, J., Falk, P. G., Midtvedt, T., & Gordon, J. I. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.17.9833 · Cited by 500 · see citing works

Probiotic and other functional microbes: from markets to mechanisms

Saxelin, M., Tynkkynen, S., Mattila, T., & de Vos, W. M. (2005) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2005.02.003 · Cited by 489 · see citing works

The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533

Pridmore, R. D., Berger, B. W., Desiere, F., Vilanova, D., Barretto, C., Pittet, A.-C., Zwahlen, M.-C., Rouvet, M., Altermann, E., Barrangou, R., et al. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0307327101 · Cited by 485 · see citing works

Enhanced antiinflammatory capacity of a Lactobacillus plantarum mutant synthesizing modified teichoic acids

Grangette, C., Nutten, S., Palumbo, E., Morath, S., Hermann, C., Dewulf, J., Pot, B., Härtung, T., Pascal Hols, A., & Mercenier, A. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0504084102 · Cited by 443 · see citing works

Production and isolation of reuterin, a growth inhibitor produced by Lactobacillus reuteri

Talarico, T. L., Casas, I. A., Chung, T., & Dobrogosz, W. J. (1988) · Antimicrobial Agents and Chemotherapy · doi:10.1128/aac.32.12.1854 · Cited by 443 · see citing works

Genomic and Metabolic Studies of the Impact of Probiotics on a Model Gut Symbiont and Host

Sonnenburg, J. L., Chen, C. T. L., & Gordon, J. I. (2006) · PLoS Biology · doi:10.1371/journal.pbio.0040413 · Cited by 423 · see citing works

Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model

Martin, F. J., Wang, Y., Sprenger, N., Yap, I. K. S., Lundstedt, T., Lek, P., Rezzi, S., Ramadan, Z., van Bladeren, P., Fay, L. B., et al. (2008) · Molecular Systems Biology · doi:10.1038/msb4100190 · Cited by 421 · see citing works

The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution

van de Guchte, M., Penaud, S., Grimaldi, C., Barbe, V., Bryson, K., Nicolas, P., Robert, C., Oztas, S., Mangenot, S., Couloux, A., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0603024103 · Cited by 417 · see citing works

Acquired antibiotic resistance in lactic acid bacteria from food

Teuber, M., Meile, L., & Schwarz, F. (1999) · Antonie van Leeuwenhoek · doi:10.1023/a:1002035622988 · Cited by 377 · see citing works

Towards understanding molecular modes of probiotic action

Marco, M. L., Pavan, S., & Kleerebezem, M. (2006) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2006.02.005 · Cited by 343 · see citing works

Getting better with bifidobacteria

Leahy, S. C., Higgins, D. G., Fitzgerald, G. F., & van Sinderen, D. (2005) · Journal of Applied Microbiology · doi:10.1111/j.1365-2672.2005.02600.x · Cited by 331 · see citing works

Mucin degradation in human colon ecosystems. Isolation and properties of fecal strains that degrade ABH blood group antigens and oligosaccharides from mucin glycoproteins.

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Biodiversity-Based Identification and Functional Characterization of the Mannose-Specific Adhesin of<i>Lactobacillus plantarum</i>

Pretzer, G., Snel, J., Molenaar, D., Wiersma, A., Bron, P. A., Lambert, J., de Vos, W. M., van der Meer, R., Smits, M. A., & Kleerebezem, M. (2005) · Journal of Bacteriology · doi:10.1128/jb.187.17.6128-6136.2005 · Cited by 316 · see citing works

Comparative Genome Analysis of Lactobacillus reuteri and Lactobacillus fermentum Reveal a Genomic Island for Reuterin and Cobalamin Production

Morita, H., Toh, H., Fukuda, S., Horikawa, H., Oshima, K., Suzuki, T., Murakami, M., Hisamatsu, S., Kato, Y., Takizawa, T., et al. (2008) · DNA Research · doi:10.1093/dnares/dsn009 · Cited by 305 · see citing works

Evolutionary Genomics of Lactic Acid Bacteria

Makarova, K. S., & Koonin, E. V. (2007) · Journal of Bacteriology · doi:10.1128/jb.01351-06 · Cited by 294 · see citing works

Genomic features of lactic acid bacteria effecting bioprocessing and health

Klaenhammer, T. R., Barrangou, R., Buck, B. L., Azcárate-Peril, M. A., & Altermann, E. (2005) · FEMS Microbiology Reviews · doi:10.1016/j.femsre.2005.04.007 · Cited by 282 · see citing works

Mucin Degradation in Human Colon Ecosystems

Hoskins, L. C., & Boulding, E. T. (1981) · Journal of Clinical Investigation · doi:10.1172/jci110009 · Cited by 277 · see citing works

Stable Coexistence of Five Bacterial Strains as a Cellulose-Degrading Community

Kato, S., Haruta, S., Cui, Z. J., Ishii, M., & Igarashi, Y. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.11.7099-7106.2005 · Cited by 265 · see citing works

Molecular Cloning and Characterization of Bifidobacterium bifidum 1,2-α- l -Fucosidase (AfcA), a Novel Inverting Glycosidase (Glycoside Hydrolase Family 95)

Katayama, T., Sakuma, A., Kimura, T., Makimura, Y., Hiratake, J., Sakata, K., Yamanoi, T., Kumagai, H., & Yamamoto, K. (2004) · Journal of Bacteriology · doi:10.1128/jb.186.15.4885-4893.2004 · Cited by 263 · see citing works

Defining Genomic Islands and Uropathogen-Specific Genes in Uropathogenic Escherichia coli

Lloyd, A. L., Rasko, D. A., & Mobley, H. L. T. (2007) · Journal of Bacteriology · doi:10.1128/jb.01744-06 · Cited by 245 · see citing works

Human gut microbiota and bifidobacteria: from composition to functionality

Turroni, F., Ribbera, A., Foroni, E., van Sinderen, D., & Ventura, M. (2008) · Antonie van Leeuwenhoek · doi:10.1007/s10482-008-9232-4 · Cited by 241 · see citing works

Identification ofLactobacillus plantarumGenes That Are Induced in the Gastrointestinal Tract of Mice

Bron, P. A., Grangette, C., Mercenier, A., de Vos, W. M., & Kleerebezem, M. (2004) · Journal of Bacteriology · doi:10.1128/jb.186.17.5721-5729.2004 · Cited by 239 · see citing works

Multireplicon genome architecture of Lactobacillus salivarius

Claesson, M. J., Li, Y., Leahy, S. C., Canchaya, C. A., van Pijkeren, J. P., Cerdeño-Tárraga, A. M., Parkhill, J., Flynn, S., O’Sullivan, G. C., Collins, J. K., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0511060103 · Cited by 226 · see citing works

A Five-Strain Probiotic Combination Reduces Pathogen Shedding and Alleviates Disease Signs in Pigs Challenged with Salmonella enterica Serovar Typhimurium

Casey, P. G., Gardiner, G. E., Casey, G. D., Bradshaw, B., Lawlor, P. G., Lynch, P. B., Leonard, F. C., Stanton, C., Ross, R. P., Fitzgerald, G. F., et al. (2007) · Applied and Environmental Microbiology · doi:10.1128/aem.01840-06 · Cited by 226 · see citing works

Mucin Degradation by Bifidobacterium Strains Isolated from the Human Intestinal Microbiota

Ruas‐Madiedo, P., Gueimonde, M., Fernández-García, M., Reyes‐Gavilán, C. G. D. L., & Margollés, A. (2008) · Applied and Environmental Microbiology · doi:10.1128/aem.02509-07 · Cited by 222 · see citing works

Human milk provides peptides highly stimulating the growth of bifidobacteria

Liepke, C., Adermann, K., Raida, M., Mägert, H., Forssmann, W., & Zucht, H. (2002) · European Journal of Biochemistry · doi:10.1046/j.0014-2956.2001.02712.x · Cited by 219 · see citing works

Genomic features of lactic acid bacteria effecting bioprocessing and health

Klaenhammer, T. R., Barrangou, R., Buck, B. L., et al. (2005) · FEMS Microbiology Reviews · doi:10.1016/j.fmrre.2005.04.007 · Cited by 219 · see citing works

Genome Sequence of <i>Lactobacillus helveticus</i> , an Organism Distinguished by Selective Gene Loss and Insertion Sequence Element Expansion

Callanan, M., Kaleta, P., O'Callaghan, J., O'Sullivan, O., Jordan, K., McAuliffe, O., Sangrador-Vegas, A., Slattery, L., Fitzgerald, G. F., Beresford, T., et al. (2008) · Journal of Bacteriology · doi:10.1128/jb.01295-07 · Cited by 204 · see citing works

Probiotics and gastrointestinal diseases

Sullivan, Å., & Nord, C. E. (2004) · Journal of Internal Medicine · doi:10.1111/j.1365-2796.2004.01410.x · Cited by 202 · see citing works

The genomics of lactic acid bacteria

Pfeiler, E. A., & Klaenhammer, T. R. (2007) · Trends in Microbiology · doi:10.1016/j.tim.2007.09.010 · Cited by 192 · see citing works

Screening for and Identification of Starch-, Amylopectin-, and Pullulan-Degrading Activities in Bifidobacterial Strains

Ryan, S. M., Fitzgerald, G. F., & van Sinderen, D. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.00257-06 · Cited by 191 · see citing works

Insights into the taxonomy, genetics and physiology of bifidobacteria

Ventura, M., van Sinderen, D., Fitzgerald, G. F., & Zink, R. (2004) · Antonie van Leeuwenhoek · doi:10.1023/b:anto.0000047930.11029.ec · Cited by 190 · see citing works

Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth

Lee, J.-H., Karamychev, V., Kozyavkin, S. A., Mills, D. A., Pavlov, A., Pavlova, N. V., Polouchine, N., Richardson, P., Shakhova, V. V., Slesarev, A. I., et al. (2008) · BMC Genomics · doi:10.1186/1471-2164-9-247 · Cited by 181 · see citing works

Identification of Genes Associated with the Long-Gut-Persistence Phenotype of the Probiotic Lactobacillus johnsonii Strain NCC533 Using a Combination of Genomics and Transcriptome Analysis

Denou, E., Pridmore, R. D., Berger, B. W., Panoff, J.-M., Arigoni, F., & Brüssow, H. (2008) · Journal of Bacteriology · doi:10.1128/jb.01637-07 · Cited by 179 · see citing works

Bifidobacterium carbohydrases‐their role in breakdown and synthesis of (potential) prebiotics

van den Broek, L. A. M., Hinz, S. W. A., BELDMAN, G., Vincken, J., & Voragen, A. G. J. (2007) · Molecular Nutrition & Food Research · doi:10.1002/mnfr.200700121 · Cited by 169 · see citing works

A Serpin from the Gut Bacterium Bifidobacterium longum Inhibits Eukaryotic Elastase-like Serine Proteases

Ivanov, D. N., Emonet, C., Foata, F., Affolter, M., Delley, M., Fisseha, M., Blum-Sperisen, S., Kochhar, S., & Arigoni, F. (2006) · Journal of Biological Chemistry · doi:10.1074/jbc.m601678200 · Cited by 167 · see citing works

<i>Lactobacillus reuteri</i> DSM 20016 Produces Cobalamin-Dependent Diol Dehydratase in Metabolosomes and Metabolizes 1,2-Propanediol by Disproportionation

Sriramulu, D. D., Liang, M., Hernandez-Romero, D., Raux-Deery, E., Lünsdorf, H., Parsons, J. B., Warren, M. J., & Prentice, M. B. (2008) · Journal of Bacteriology · doi:10.1128/jb.01535-07 · Cited by 166 · see citing works

Lessons from the genomes of bifidobacteria

Klijn, A., Mercenier, A., & Arigoni, F. (2005) · FEMS Microbiology Reviews · doi:10.1016/j.femsre.2005.04.010 · Cited by 161 · see citing works

Analysis of bifidobacterial evolution using a multilocus approach

Ventura, M., Canchaya, C. A., Casale, A. D., Dellaglio, F., Neviani, E., Fitzgerald, G. F., & van Sinderen, D. (2006) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.64233-0 · Cited by 158 · see citing works

Lessons from the genomes of bifidobacteria

Klijn, A., Mercenier, A., & Arigoni, F. (2005) · FEMS Microbiology Reviews · doi:10.1016/j.fmrre.2005.04.010 · Cited by 128 · see citing works

Mechanisms of Action of Probiotics in Intestinal Diseases

O’Hara, A. M., & Shanahan, F. (2007) · The Scientific World JOURNAL · doi:10.1100/tsw.2007.26 · Cited by 127 · see citing works

Identification of Lactobacillus reuteri Genes Specifically Induced in the Mouse Gastrointestinal Tract

Walter, J., Heng, N. C. K., Hammes, W. P., Loach, D. M., Tannock, G. W., & Hertel, C. (2003) · Applied and Environmental Microbiology · doi:10.1128/aem.69.4.2044-2051.2003 · Cited by 126 · see citing works

Diversity of the genus Lactobacillus revealed by comparative genomics of five species

Canchaya, C. A., Claesson, M. J., Fitzgerald, G. F., van Sinderen, D., & O’Toole, P. W. (2006) · Microbiology · doi:10.1099/mic.0.29140-0 · Cited by 123 · see citing works

The complete coenzyme B12 biosynthesis gene cluster of Lactobacillus reuteri CRL1098

dos Santos, F. B., Vera, J. L., van der Heijden, R. T. J. M., de Valdez, G. F., de Vos, W. M., Sesma, F. J. M., & Hugenholtz, J. (2008) · Microbiology · doi:10.1099/mic.0.2007/011569-0 · Cited by 113 · see citing works

Genomics as a means to understand bacterial phylogeny and ecological adaptation: the case of bifidobacteria

Ventura, M., Canchaya, C. A., Fitzgerald, G. F., Gupta, R. S., & van Sinderen, D. (2006) · Antonie van Leeuwenhoek · doi:10.1007/s10482-006-9122-6 · Cited by 112 · see citing works

Lactobacillus plantarum gene clusters encoding putative cell-surface protein complexes for carbohydrate utilization are conserved in specific gram-positive bacteria

Siezen, R. J., Boekhorst, J., Muscariello, L., Molenaar, D., Renckens, B., & Kleerebezem, M. (2006) · BMC Genomics · doi:10.1186/1471-2164-7-126 · Cited by 112 · see citing works

Lactobacillus phylogenomics - towards a reclassification of the genus

Claesson, M. J., van Sinderen, D., & O’Toole, P. W. (2008) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijs.0.65848-0 · Cited by 111 · see citing works

Transcriptional Regulation and Characterization of a Novel β-Fructofuranosidase-Encoding Gene fromBifidobacterium breveUCC2003

Ryan, S. M., Fitzgerald, G. F., & van Sinderen, D. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.7.3475-3482.2005 · Cited by 108 · see citing works

Similarity and Differences in the Lactobacillus acidophilus Group Identified by Polyphasic Analysis and Comparative Genomics

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The complete genomes of Lactobacillus plantarum and Lactobacillus johnsonii reveal extensive differences in chromosome organization and gene content

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How functional foods play critical roles in human health

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Comparative genomics of Lactobacillus crispatus suggests novel mechanisms for the competitive exclusion of Gardnerella vaginalis

Ojala, T., Kankainen, M., Castro, J., Cerca, N., Edelman, S., Westerlund‐Wikström, B., Paulin, L. G., Holm, L., & Auvinen, P. (2014) · BMC Genomics · doi:10.1186/1471-2164-15-1070 · Cited by 130 · see citing works

Comparative genomics of the Bifidobacterium brevetaxon

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Concomitant memantine and Lactobacillus plantarum treatment attenuates cognitive impairments in APP/PS1 mice

Wang, Q., Shen, Y., Wang, X., Fu, S., Zhang, X., Zhang, Y., & Wang, R. (2020) · Aging · doi:10.18632/aging.102645 · Cited by 129 · see citing works

New insight into bamboo shoot (Chimonobambusa quadrangularis) polysaccharides: Impact of extraction processes on its prebiotic activity

Chen, G., Chen, X., Yang, B., Yu, Q., Wei, X., Ding, Y., & Kan, J. (2019) · Food Hydrocolloids · doi:10.1016/j.foodhyd.2019.04.046 · Cited by 128 · see citing works

Chronic glucocorticoid treatment induced circadian clock disorder leads to lipid metabolism and gut microbiota alterations in rats

Wu, T., Yang, L., Jiang, J., Ni, Y., Zhu, J., Zheng, X., Wang, Q., Lu, X., & Fu, Z. (2018) · Life Sciences · doi:10.1016/j.lfs.2017.11.049 · Cited by 126 · see citing works

Comparative Genomic and Functional Analysis of Lactobacillus casei and Lactobacillus rhamnosus Strains Marketed as Probiotics

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Transcriptional and functional analysis of galactooligosaccharide uptake by lacS in Lactobacillus acidophilus

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Specialized adaptation of a lactic acid bacterium to the milk environment: the comparative genomics of Streptococcus thermophilus LMD-9

Goh, Y. J., Goin, C., O’Flaherty, S., Altermann, E., & Hutkins, R. W. (2011) · Microbial Cell Factories · doi:10.1186/1475-2859-10-s1-s22 · Cited by 123 · see citing works

DnaK from Bifidobacterium animalis subsp. lactis is a surface-exposed human plasminogen receptor upregulated in response to bile salts

Candela, M., Centanni, M., Fiori, J., Biagi, E., Turroni, S., Orrico, C., Bergmann, S., Hammerschmidt, S., & Brigidi, P. (2010) · Microbiology · doi:10.1099/mic.0.038307-0 · Cited by 121 · see citing works

Genetic analysis and morphological identification of pilus-like structures in members of the genus Bifidobacterium

Foroni, E., Serafini, F., Amidani, D., Turroni, F., He, F., Bottacini, F., Motherway, M. O., Viappiani, A., Zhang, Z., Rivetti, C., et al. (2011) · Microbial Cell Factories · doi:10.1186/1475-2859-10-s1-s16 · Cited by 121 · see citing works

Perspectives of the potential implications of wine polyphenols on human oral and gut microbiota

Requena, T., Monagas, M., Pozo‐Bayón, M. Á., Martín‐Álvarez, P. J., Bartolomé, B., del Campo, R., Ávila, M., Martínez‐Cuesta, M. C., Peláez, C., & Moreno-Arribas, M. V. (2010) · Trends in Food Science & Technology · doi:10.1016/j.tifs.2010.04.004 · Cited by 120 · see citing works

Bifidobacterium bifidum as an example of a specialized human gut commensal

Turroni, F., Duranti, S., Bottacini, F., Guglielmetti, S., van Sinderen, D., & Ventura, M. (2014) · Frontiers in Microbiology · doi:10.3389/fmicb.2014.00437 · Cited by 123 · see citing works

Comparative genomics of the genus Bifidobacterium

Bottacini, F., Medini, D., Pavesi, A., Turroni, F., Foroni, E., Riley, D. R. J., Giubellini, V., Tettelin, H., van Sinderen, D., & Ventura, M. (2010) · Microbiology · doi:10.1099/mic.0.039545-0 · Cited by 120 · see citing works

Gene editing and genetic engineering approaches for advanced probiotics: A review

Yadav, R., Kumar, V., Baweja, M., & Shukla, P. (2017) · Critical Reviews in Food Science and Nutrition · doi:10.1080/10408398.2016.1274877 · Cited by 119 · see citing works

Edible fungal polysaccharides, the gut microbiota, and host health

Liang, J., Zhang, M., Wang, X., Ren, Y., Yue, T., Wang, Z., & Gao, Z. (2021) · Carbohydrate Polymers · doi:10.1016/j.carbpol.2021.118558 · Cited by 121 · see citing works

Bifidobacterial enolase, a cell surface receptor for human plasminogen involved in the interaction with the host

Candela, M., Biagi, E., Centanni, M., Turroni, S., Vici, M., Musiani, F., Vitali, B., Bergmann, S., Hammerschmidt, S., & Brigidi, P. (2009) · Microbiology · doi:10.1099/mic.0.028795-0 · Cited by 118 · see citing works

Comparative Genomics of Bifidobacterium, Lactobacillus and Related Probiotic Genera

Lukjančenko, O., Ussery, D. W., & Wassenaar, T. M. (2011) · Microbial Ecology · doi:10.1007/s00248-011-9948-y · Cited by 117 · see citing works

Unlocking the Potential of Probiotics: A Comprehensive Review on Research, Production, and Regulation of Probiotics

da Silva, T. F., Glória, R. D. A., Americo, M. F., Freitas, A. D. S., de Jesus, L. C. L., Barroso, F. A. L., Laguna, J. G., Coelho-Rocha, N. D., Tavares, L. M., le Loir, Y., et al. (2024) · Probiotics and Antimicrobial Proteins · doi:10.1007/s12602-024-10247-x · Cited by 117 · see citing works

Strain-specific probiotic (Lactobacillus helveticus) inhibition ofCampylobacter jejuni invasion of human intestinal epithelial cells

Wine, E., Gareau, M. G., Johnson‐Henry, K. C., & Sherman, P. M. (2009) · FEMS Microbiology Letters · doi:10.1111/j.1574-6968.2009.01781.x · Cited by 113 · see citing works

Structural basis for adaptation of lactobacilli to gastrointestinal mucus

Etzold, S., Coleman, O. I., MacKenzie, D. A., Tailford, L. E., Gunning, A. P., Walshaw, J., Hemmings, A. M., & Juge, N. (2013) · Environmental Microbiology · doi:10.1111/1462-2920.12377 · Cited by 111 · see citing works

Dysbiosis and Alzheimer’s Disease: A Role for Chronic Stress?

Sharma, V., Singh, T. G., Garg, N., Dhiman, S., Gupta, S., Rahman, M. H., Najda, A., Walasek-Janusz, M., Kamel, M. S., Albadrani, G. M., et al. (2021) · Biomolecules · doi:10.3390/biom11050678 · Cited by 111 · see citing works

Probiotics: progress toward novel therapies for intestinal diseases

Yan, F., & Polk, D. B. (2010) · Current Opinion in Gastroenterology · doi:10.1097/mog.0b013e328335239a · Cited by 111 · see citing works

Inflammatory bowel disease: tri-directional relationship between microbiota, immune system and intestinal epithelium

Ahlawat, S., Kumar, P., Mohan, H., Goyal, S., & Sharma, K. K. (2021) · Critical Reviews in Microbiology · doi:10.1080/1040841x.2021.1876631 · Cited by 111 · see citing works

Translating Omics to Food Microbiology

Walsh, A. M., Crispie, F., Claesson, M. J., & Cotter, P. D. (2017) · Annual Review of Food Science and Technology · doi:10.1146/annurev-food-030216-025729 · Cited by 110 · see citing works

Probiogenomics as a tool to obtain genetic insights into adaptation of probiotic bacteria to the human gut

Ventura, M., Turroni, F., & van Sinderen, D. (2012) · Bioengineered · doi:10.4161/bbug.18540 · Cited by 79 · see citing works

Molecular dialogue between the human gut microbiota and the host: a Lactobacillus and Bifidobacterium perspective

Turroni, F., Ventura, M., Buttó, L. F., Duranti, S., O’Toole, P. W., Motherway, M. O., & van Sinderen, D. (2014) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-013-1318-0 · Cited by 336 · see citing works

Introduction to the special issue “Probiotic bacteria and human gut microbiota”

Ventura, M., & Perozzi, G. (2011) · Genes & Nutrition · doi:10.1007/s12263-011-0241-y · Cited by 17 · see citing works

Towards understanding molecular modes of probiotic action

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Пробиогеномика как средство дизайна бактериотерапевтических препаратов

Старовойтова, С. А. (2020) · Institutional Repository of National University of Food Technologies