Published in Appl Environ Microbiol on September 04, 2009
Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor. Proc Natl Acad Sci U S A (2011) 2.22
Genomic encyclopedia of type strains of the genus Bifidobacterium. Appl Environ Microbiol (2014) 1.68
Genomic insights into bifidobacteria. Microbiol Mol Biol Rev (2010) 1.57
Diversity, ecology and intestinal function of bifidobacteria. Microb Cell Fact (2014) 1.35
The impact of bacteriophages on probiotic bacteria and gut microbiota diversity. Genes Nutr (2010) 0.91
The bacterial chemical repertoire mediates metabolic exchange within gut microbiomes. Curr Opin Microbiol (2011) 0.91
Pangenome analysis of Bifidobacterium longum and site-directed mutagenesis through by-pass of restriction-modification systems. BMC Genomics (2015) 0.91
Global genome transcription profiling of Bifidobacterium bifidum PRL2010 under in vitro conditions and identification of reference genes for quantitative real-time PCR. Appl Environ Microbiol (2011) 0.88
Gain and loss of phototrophic genes revealed by comparison of two Citromicrobium bacterial genomes. PLoS One (2012) 0.84
Evaluation of genetic diversity among strains of the human gut commensal Bifidobacterium adolescentis. Sci Rep (2016) 0.82
Prophage-like elements present in Mycobacterium genomes. BMC Genomics (2014) 0.82
Bifidobacterium animalis subsp. lactis ATCC 27673 is a genomically unique strain within its conserved subspecies. Appl Environ Microbiol (2013) 0.82
Occurrence and Diversity of CRISPR-Cas Systems in the Genus Bifidobacterium. PLoS One (2015) 0.81
Intraspecies Genomic Diversity and Long-Term Persistence of Bifidobacterium longum. PLoS One (2015) 0.78
Development of a new method for detection and identification of Oenococcus oeni bacteriophages based on endolysin gene sequence and randomly amplified polymorphic DNA. Appl Environ Microbiol (2013) 0.77
Global transcriptional response of Clostridium difficile carrying the CD38 prophage. Appl Environ Microbiol (2015) 0.76
Comparative analysis of prophage-like elements in Helicobacter sp. genomes. PeerJ (2016) 0.76
Characterization and Exploitation of CRISPR Loci in Bifidobacterium longum. Front Microbiol (2017) 0.75
Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature (1998) 60.62
CRISPR provides acquired resistance against viruses in prokaryotes. Science (2007) 29.74
Lateral gene transfer and the nature of bacterial innovation. Nature (2000) 20.98
CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science (2008) 11.82
CRISPR--a widespread system that provides acquired resistance against phages in bacteria and archaea. Nat Rev Microbiol (2008) 8.91
A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene (1995) 8.45
Evolutionary relationships among diverse bacteriophages and prophages: all the world's a phage. Proc Natl Acad Sci U S A (1999) 7.05
Prophages and bacterial genomics: what have we learned so far? Mol Microbiol (2003) 6.84
The Phage Proteomic Tree: a genome-based taxonomy for phage. J Bacteriol (2002) 6.09
Mobile genetic elements: the agents of open source evolution. Nat Rev Microbiol (2005) 5.77
Prophage genomics. Microbiol Mol Biol Rev (2003) 4.49
The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. Proc Natl Acad Sci U S A (2008) 4.45
Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum. Microbiol Mol Biol Rev (2007) 4.13
Comparative phage genomics and the evolution of Siphoviridae: insights from dairy phages. Mol Microbiol (2001) 3.11
Comparative analysis of CRISPR loci in lactic acid bacteria genomes. Int J Food Microbiol (2008) 2.98
Phage as agents of lateral gene transfer. Curr Opin Microbiol (2003) 2.68
Tropism switching in Bordetella bacteriophage defines a family of diversity-generating retroelements. Nature (2004) 2.59
Where are the pseudogenes in bacterial genomes? Trends Microbiol (2001) 2.24
Reticulate representation of evolutionary and functional relationships between phage genomes. Mol Biol Evol (2008) 1.92
The nucleotide sequence of Shiga toxin (Stx) 2e-encoding phage phiP27 is not related to other Stx phage genomes, but the modular genetic structure is conserved. Infect Immun (2002) 1.71
The dilemma of phage taxonomy illustrated by comparative genomics of Sfi21-like Siphoviridae in lactic acid bacteria. J Bacteriol (2002) 1.71
Metabolic cooperation in oral microbial communities during growth on mucin. Microbiology (1994) 1.66
Evidence of host-virus co-evolution in tetranucleotide usage patterns of bacteriophages and eukaryotic viruses. BMC Genomics (2006) 1.51
The prophage sequences of Lactobacillus plantarum strain WCFS1. Virology (2003) 1.28
Prophage-like elements in bifidobacteria: insights from genomics, transcription, integration, distribution, and phylogenetic analysis. Appl Environ Microbiol (2005) 1.24
Integration and distribution of Lactobacillus johnsonii prophages. J Bacteriol (2003) 1.14
Comparative analyses of prophage-like elements present in two Lactococcus lactis strains. Appl Environ Microbiol (2007) 1.02
The branching order and phylogenetic placement of species from completed bacterial genomes, based on conserved indels found in various proteins. Int Microbiol (2001) 1.02
CRISPR provides acquired resistance against viruses in prokaryotes. Science (2007) 29.74
CRISPR/Cas, the immune system of bacteria and archaea. Science (2010) 18.72
Evolution and classification of the CRISPR-Cas systems. Nat Rev Microbiol (2011) 17.11
Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria. Proc Natl Acad Sci U S A (2012) 16.48
The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature (2010) 14.21
Phage response to CRISPR-encoded resistance in Streptococcus thermophilus. J Bacteriol (2007) 13.67
The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli. Nucleic Acids Res (2011) 10.43
CRISPR-Cas systems in bacteria and archaea: versatile small RNAs for adaptive defense and regulation. Annu Rev Genet (2011) 9.88
Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus. J Bacteriol (2007) 7.00
Gut microbiota composition correlates with diet and health in the elderly. Nature (2012) 6.94
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing. Nat Methods (2012) 5.41
Composition, variability, and temporal stability of the intestinal microbiota of the elderly. Proc Natl Acad Sci U S A (2010) 5.02
Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM. Proc Natl Acad Sci U S A (2005) 4.46
Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum. Microbiol Mol Biol Rev (2007) 4.13
The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533. Proc Natl Acad Sci U S A (2004) 3.88
Cas3 is a single-stranded DNA nuclease and ATP-dependent helicase in the CRISPR/Cas immune system. EMBO J (2011) 3.81
Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp. cremoris MG1363. J Bacteriol (2007) 3.43
Genome-scale analyses of health-promoting bacteria: probiogenomics. Nat Rev Microbiol (2008) 3.25
Comparative analysis of CRISPR loci in lactic acid bacteria genomes. Int J Food Microbiol (2008) 2.98
Diversity of bifidobacteria within the infant gut microbiota. PLoS One (2012) 2.71
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate. Proc Natl Acad Sci U S A (2013) 2.44
Multireplicon genome architecture of Lactobacillus salivarius. Proc Natl Acad Sci U S A (2006) 2.43
CRISPR: new horizons in phage resistance and strain identification. Annu Rev Food Sci Technol (2011) 2.43
Human milk glycobiome and its impact on the infant gastrointestinal microbiota. Proc Natl Acad Sci U S A (2010) 2.34
Exploring the diversity of the bifidobacterial population in the human intestinal tract. Appl Environ Microbiol (2009) 2.34
Glycoprofiling of bifidobacterial consumption of human milk oligosaccharides demonstrates strain specific, preferential consumption of small chain glycans secreted in early human lactation. J Agric Food Chem (2007) 2.33
Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor. Proc Natl Acad Sci U S A (2011) 2.22
In vitro fermentation of breast milk oligosaccharides by Bifidobacterium infantis and Lactobacillus gasseri. Appl Environ Microbiol (2006) 2.21
In vitro reconstitution of Cascade-mediated CRISPR immunity in Streptococcus thermophilus. EMBO J (2013) 2.16
Comparison of the complete genome sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl-04. J Bacteriol (2009) 2.15
Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging. Proc Natl Acad Sci U S A (2010) 2.14
Nursing our microbiota: molecular linkages between bifidobacteria and milk oligosaccharides. Trends Microbiol (2010) 2.10
Bifidobacterial surface-exopolysaccharide facilitates commensal-host interaction through immune modulation and pathogen protection. Proc Natl Acad Sci U S A (2012) 2.09
Consumption of human milk oligosaccharides by gut-related microbes. J Agric Food Chem (2010) 2.07
ACLAME: a CLAssification of Mobile genetic Elements, update 2010. Nucleic Acids Res (2009) 2.07
NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways. Nucleic Acids Res (2008) 1.99
Characterization of the genetic locus responsible for the production of ABP-118, a novel bacteriocin produced by the probiotic bacterium Lactobacillus salivarius subsp. salivarius UCC118. Microbiology (2002) 1.92
Discovering lactic acid bacteria by genomics. Antonie Van Leeuwenhoek (2002) 1.90
A quantitative and comprehensive method to analyze human milk oligosaccharide structures in the urine and feces of infants. Anal Bioanal Chem (2013) 1.83
A novel pheromone quorum-sensing system controls the development of natural competence in Streptococcus thermophilus and Streptococcus salivarius. J Bacteriol (2009) 1.81
Next-generation sequencing reveals significant bacterial diversity of botrytized wine. PLoS One (2012) 1.79
Bacteroides in the infant gut consume milk oligosaccharides via mucus-utilization pathways. Cell Host Microbe (2011) 1.77
The dilemma of phage taxonomy illustrated by comparative genomics of Sfi21-like Siphoviridae in lactic acid bacteria. J Bacteriol (2002) 1.71
Genomic features of lactic acid bacteria effecting bioprocessing and health. FEMS Microbiol Rev (2005) 1.67
The Bifidobacterium dentium Bd1 genome sequence reflects its genetic adaptation to the human oral cavity. PLoS Genet (2009) 1.64
Human gut microbiota and bifidobacteria: from composition to functionality. Antonie Van Leeuwenhoek (2008) 1.62
Molecular dialogue between the human gut microbiota and the host: a Lactobacillus and Bifidobacterium perspective. Cell Mol Life Sci (2013) 1.57
Assessing the fecal microbiota: an optimized ion torrent 16S rRNA gene-based analysis protocol. PLoS One (2013) 1.56
Strong bias in the bacterial CRISPR elements that confer immunity to phage. Nat Commun (2013) 1.55
Genomics and ecological overview of the genus Bifidobacterium. Int J Food Microbiol (2010) 1.53
Diversity of the genus Lactobacillus revealed by comparative genomics of five species. Microbiology (2006) 1.52
Novel virulence gene and clustered regularly interspaced short palindromic repeat (CRISPR) multilocus sequence typing scheme for subtyping of the major serovars of Salmonella enterica subsp. enterica. Appl Environ Microbiol (2011) 1.51
Bacteria as vitamin suppliers to their host: a gut microbiota perspective. Curr Opin Biotechnol (2012) 1.51
Carbohydrate metabolism in Bifidobacteria. Genes Nutr (2011) 1.50
Bacteriophage Tuc2009 encodes a tail-associated cell wall-degrading activity. J Bacteriol (2004) 1.49
Comparative and functional analysis of sortase-dependent proteins in the predicted secretome of Lactobacillus salivarius UCC118. Appl Environ Microbiol (2006) 1.48
Screening for and identification of starch-, amylopectin-, and pullulan-degrading activities in bifidobacterial strains. Appl Environ Microbiol (2006) 1.47
In vitro fermentability of human milk oligosaccharides by several strains of bifidobacteria. Mol Nutr Food Res (2007) 1.46
Improved selection of internal transcribed spacer-specific primers enables quantitative, ultra-high-throughput profiling of fungal communities. Appl Environ Microbiol (2013) 1.46
Anatomy of a lactococcal phage tail. J Bacteriol (2006) 1.46
Brewhouse-resident microbiota are responsible for multi-stage fermentation of American coolship ale. PLoS One (2012) 1.46
The genus Lactobacillus--a genomic basis for understanding its diversity. FEMS Microbiol Lett (2007) 1.45
Insights into the taxonomy, genetics and physiology of bifidobacteria. Antonie Van Leeuwenhoek (2004) 1.43
Microbiomic analysis of the bifidobacterial population in the human distal gut. ISME J (2009) 1.43
Host-microbe interactions that facilitate gut colonization by commensal bifidobacteria. Trends Microbiol (2012) 1.42
The human gut microbiota and undernutrition. Sci Transl Med (2012) 1.42
Structural characterization and assembly of the distal tail structure of the temperate lactococcal bacteriophage TP901-1. J Bacteriol (2005) 1.42
Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation. BMC Genomics (2012) 1.42