Journal: PLoS ONE

Article Title: Exploring Metabolic Pathway Reconstruction and Genome-Wide Expression Profiling in Lactobacillus reuteri to Define Functional Probiotic Features

doi: 10.1371/journal.pone.0018783

Figure Lengend Snippet: Metabolic reactions present in both strains are highlighted in dark grey. Metabolic reactions only present in L. reuteri ATCC 55730 are highlighted in black. Abbreviations are indicated for reactions present at least in one strain. [e]: extracellular; 6pgg: 6-phospho-beta-D-glucosyl-(1,4)-D-glucose; acgal6p: N-acetylgalactosamine 6-phosphate; acgala: N-Acetyl-D-galactosamine; ACGALpts: N-acetylgalactosamine PTS; a-gal-D: alpha-D galactose; CELBpts: cellobiose transport via PEP:Pyr PTS; cellb: cellobiose; CPS_LPL2: capsular polysaccharide linkage unit, LPL specific; CPSS_LPL2: CPS synthase complex, LPL specific; dtdp6dm: dTDP-6-deoxy-L-mannose; dtdpddg: dTDP-4-dehydro-6-deoxy-D-glucose; dtdpddm: dTDP-4-dehydro-6-deoxy-L-mannose; dtdpglc: dTDPglucose; dttp: dTTP; f6p: D-Fructose 6-phosphate; fru: D-Fructose; FRUK: fructokinase; g1p: D-Glucose 1-phosphate; G1PTMT: glucose-1-phosphate thymidylyltransferase; g6p: D-glucose 6-phosphate; g6p-B: beta-D-glucose 6-phosphate; G6P: Glucose-6-phosphate isomerase; gal: D-galactose; gal1p: alpha-D-Galactose 1-phosphate: GALK2: galactokinase; GALM: aldose 1-epimerase; GALS3: a-galactosidase (melibiose); GALSZ: beta-galactosidase; GALT: galactose-1-phosphate uridylyltransferase; GALU: UTP-glucose-1-phosphate uridylyltransferase; glc-D: D-glucose; lcts: lactose; LCTSt6: lactose transport in/out via proton symport; MALP: maltose phosphorylase; malt: maltose; MALT: alpha-glucosidase; man: D-mannose; man1p: D-mannose 1-phosphate; man6p: D-mannose 6-phosphate; MAN6PI: mannose-6-phosphate isomerase; MANpts: D-mannose transport via PEP:Pyr PTS; melib: melibiose; PGGH: 6-phospho-beta-glucosidase; PGI: glucose-6-phosphate isomerase; PGMT: phosphoglucomutase; PGMT_B: b-phosphoglucomutase; PMANM: phosphomannomutase; raffin: raffinose; RAFGH; raffinose galactohydrolase; suc6p: sucrose 6-phosphate: SUCpts: sucrose transport via PEP:Pyr PTS; sucr: sucrose; TDPDRE: dTDP-4-dehydrorhamnose 3,5-epimerase; TDPDRR: dTDP-4-dehydrorhamnose reductase; TDPGDH: dTDPglucose 4,6-dehydratase; tre: trehalose; tre6p: alpha'-trehalose 6-phosphate; TREpts: trehalose transport via PEP:Pyr PTS; udpg; UDPglucose; UDPG4E: UDPglucose 4-epimerase; udpgal: UDPgalactose. The red boxes depict compound that can be incorporated in biomass.

Article Snippet: As part of the Human Microbiome Project (HMP), the genomes of four human-derived Lactobacillus reuteri strains ( L. reuteri ATCC PTA 6475, ATCC PTA 4659, ATCC 55730, and CF48-3A) have been sequenced .

Techniques:

Journal: PLoS ONE

Article Title: Exploring Metabolic Pathway Reconstruction and Genome-Wide Expression Profiling in Lactobacillus reuteri to Define Functional Probiotic Features

doi: 10.1371/journal.pone.0018783

Figure Lengend Snippet: The thiamine synthesis pathway is predicted to be complete in strain 55730 only. Metabolic reactions present in both strains 55730 and 6475 are highlighted in dark grey. Metabolic reactions present only in L. reuteri ATCC 55730 are highlighted in black. 2mahmp: 2-methyl-4-amino-5-hydroxymethylpyrimidine diphosphate; 4ahmmp: 4-amino-5-hydroxymethyl-2-methylpyrimidine; 4ampm: 4-amino-2-methyl-5-phosphomethylpyrimidine; 4mhetz: 4-methyl-5-(2-hydroxyethyl)-thiazole; 4mpetz: 4-methyl-5-(2-phosphoethyl)-thiazole; AHMMPS: 4-amino-5-hydroxymethyl-2-methylpyrimidine synthetase; air: 5-amino-1-(5-phospho-D-ribosyl)imidazole; DXPS: 1-deoxy-D-xylulose 5-phosphate synthase; dxyl5p: 1-deoxy-D-xylulose 5-phosphate; g3p: glyceraldehyde 3-phosphate; gcald: glycolaldehyde; gly: glycine; HETZK: hydroxyethylthiazole kinase; HMPK1: hydroxymethylpyrimidine kinase (ATP); MCOOH: MPT synthase small subunit MoaD; MCOSH: MPT synthase sulfurylated small subunit (MoaD-SH); MOADCST: MoaD:cysteine sulfur transferase; PMPK: phosphomethylpyrimidine kinase; pyr; pyruvate; thm: thiamine; thm[e]: thiamine (extracellular); THMabc: thiamine transport via ABC system; thmmp: thiamine monophosphate; thmpp: thiamine diphosphate; THZPSN2: thiazole phosphate synthesis; TMDPK: thiamine diphosphokinase; TMPKr: thiamine-phosphate kinase; TMPPP: thiamine-phosphate diphosphorylase. The red boxes depict compound that can be incorporated in biomass.

Article Snippet: As part of the Human Microbiome Project (HMP), the genomes of four human-derived Lactobacillus reuteri strains ( L. reuteri ATCC PTA 6475, ATCC PTA 4659, ATCC 55730, and CF48-3A) have been sequenced .

Techniques:

Journal: PLoS ONE

Article Title: Exploring Metabolic Pathway Reconstruction and Genome-Wide Expression Profiling in Lactobacillus reuteri to Define Functional Probiotic Features

doi: 10.1371/journal.pone.0018783

Figure Lengend Snippet: Genes significantly up-regulated in the stationary phase (24 h) compared to early log phase (8 h) for L. reuteri ATCC PTA 6475.

Article Snippet: As part of the Human Microbiome Project (HMP), the genomes of four human-derived Lactobacillus reuteri strains ( L. reuteri ATCC PTA 6475, ATCC PTA 4659, ATCC 55730, and CF48-3A) have been sequenced .

Techniques:

Journal: PLoS ONE

Article Title: Exploring Metabolic Pathway Reconstruction and Genome-Wide Expression Profiling in Lactobacillus reuteri to Define Functional Probiotic Features

doi: 10.1371/journal.pone.0018783

Figure Lengend Snippet: List of bacterial strains that have been used in this study.

Article Snippet: As part of the Human Microbiome Project (HMP), the genomes of four human-derived Lactobacillus reuteri strains ( L. reuteri ATCC PTA 6475, ATCC PTA 4659, ATCC 55730, and CF48-3A) have been sequenced .

Techniques:

Journal: BMC Pediatrics

Article Title: Probiotics for infantile colic: a systematic review

doi: 10.1186/1471-2431-13-186

Figure Lengend Snippet: Characteristics of trials included in the analysis

Article Snippet: Savino/2007 [ ] , April 2004 - May 2005. , Birth weight 2500-4000 g and aged 21–90 days , L. reuteri (American Type Culture Collection Strain 55730) , 10 8 colony-forming units in 5 drops for 28 days , Simethicone , A reduction of average crying time to less than 3 hours a day on day 28..

Techniques: Control, Biomarker Discovery

Journal: BMC Pediatrics

Article Title: Probiotics for infantile colic: a systematic review

doi: 10.1186/1471-2431-13-186

Figure Lengend Snippet: The ongoing trials of probiotics and infant colic

Article Snippet: Savino/2007 [ ] , April 2004 - May 2005. , Birth weight 2500-4000 g and aged 21–90 days , L. reuteri (American Type Culture Collection Strain 55730) , 10 8 colony-forming units in 5 drops for 28 days , Simethicone , A reduction of average crying time to less than 3 hours a day on day 28..

Techniques: Probiotics, Control, Biomarker Discovery, Reflux, Clinical Proteomics, Modification

Journal: BMC Pediatrics

Article Title: Probiotics for infantile colic: a systematic review

doi: 10.1186/1471-2431-13-186

Figure Lengend Snippet: Forest plot of L. reuteri ATCC 55730 and L. reuteri DSM 17938 versus control effect in decreasing mean crying times (min) over 28 days.

Article Snippet: Savino/2007 [ ] , April 2004 - May 2005. , Birth weight 2500-4000 g and aged 21–90 days , L. reuteri (American Type Culture Collection Strain 55730) , 10 8 colony-forming units in 5 drops for 28 days , Simethicone , A reduction of average crying time to less than 3 hours a day on day 28..

Techniques: Control

Journal: BMC Pediatrics

Article Title: Probiotics for infantile colic: a systematic review

doi: 10.1186/1471-2431-13-186

Figure Lengend Snippet: Forest plot of L. reuteri ATCC 55730 and L. reuteri DSM 17938 versus control effect in improving infantile colic treatment success rate over 28 days.

Article Snippet: Savino/2007 [ ] , April 2004 - May 2005. , Birth weight 2500-4000 g and aged 21–90 days , L. reuteri (American Type Culture Collection Strain 55730) , 10 8 colony-forming units in 5 drops for 28 days , Simethicone , A reduction of average crying time to less than 3 hours a day on day 28..

Techniques: Control

Journal: BMC Pediatrics

Article Title: Probiotics to improve outcomes of colic in the community: Protocol for the Baby Biotics randomised controlled trial

doi: 10.1186/1471-2431-12-135

Figure Lengend Snippet: Additional information collected

Article Snippet: In 2007, Savino et al. reported a significant benefit in the use of Lactobacillus reuteri ( L reuteri ) strain ATCC 55730 in the treatment of infant colic when compared with simethicone (n = 83) [ ].

Techniques: Probiotics, Medications, Reflux, Real-time Polymerase Chain Reaction, Marker