Journal: Nucleic Acids Research

Article Title: Prediction of functional modules based on comparative genome analysis and Gene Ontology application

doi: 10.1093/nar/gki573

Figure Lengend Snippet: Group assignments of the 134 reference genomes

Article Snippet: Proteobacteria , Bordetella bronchiseptica , Bordetella parapertussis , Bordetella pertussis , Bradyrhizobium japonicum , Buchnera aphidicola ( Baizongia pistaciae ), Buchnera aphidicola str. APS ( Acyrthosiphon pisum ), Buchnera aphidicola str. Sg ( Schizaphis graminum ), Campylobacter jejuni , Candidatus Blochmannia floridanus , Caulobacter crescentus CB15, Chromobacterium violaceum ATCC 12472, Coxiella burnetii RSA 493, Escherichia coli CFT073, Escherichia coli O157:H7, Escherichia coli O157:H7 EDL933, Haemophilus ducreyi 35000HP, Haemophilus influenzae Rd, Helicobacter hepaticus ATCC 51449, Helicobacter pylori 26695, Helicobacter pylori J99, Mesorhizobium loti , Neisseria meningitidis MC58, Neisseria meningitidis Z2491, Nitrosomonas europaea ATCC 19718, Pasteurella multocida , Photorhabdus luminescens subsp. laumondii TTO1, Pseudomonas aeruginosa PA01, Pseudomonas putida KT2440, Pseudomonas syringae pv. tomato str. DC3000, Ralstonia solanacearum , Rickettsia conorii , Rickettsia prowazekii , Salmonella enterica subsp. enterica serovar Typhi , Salmonella enterica subsp. enterica serovar Typhi Ty2, Salmonella typhimurium LT2, Shewanella oneidensis MR-1, Shigella flexneri 2a str. 2457T, Shigella flexneri 2a str. 301, Sinorhizobium meliloti , Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis , Wolinella succinogenes , Xanthomonas axonopodis pv. citri str. 306, Xanthomonas campestris pv. campestris str. ATCC 33913, Xylella fastidiosa 9a5c, Xylella fastidiosa Temecula1, Yersinia pestis , Yersinia pestis KIM.

Techniques:

Journal: Microbial Biotechnology

Article Title: Microbial antibiotics take the lead in the fight against plant pathogens

doi: 10.1111/1751-7915.14185

Figure Lengend Snippet: Active substances based on microorganisms (bacteria, fungi, and viruses) approved or pending approval in the European Union as components of pesticide products.

Article Snippet: Pseudomonas sp. strain DSMZ 13134 , Fungicide , A.

Techniques:

Journal: PLoS ONE

Article Title: Patterning Bacterial Communities on Epithelial Cells

doi: 10.1371/journal.pone.0067165

Figure Lengend Snippet: The three preys; E. coli MG1655, S. boydii KACC 10792, and P . sp DSM 50906 were suspended in the DEX rich phase and spotted as separate drops in the same plate at an initial rOD of 0.5. For the predator plates, B . bacteriovorus HD 100 was added to the PEG phase as described in the Materials and Methods section. The control plates were filled with only the PEG rich phase, i.e., without the predator added. Both sets of plates were incubated for 24 h then observed microscopically. A) The confocal microscopy photos for the three preys communities in both the control plate and the predated ( B . bacteriovorus HD 100 containing) one. All images in panels A were taken using the same microscopy settings so that the data for the three organisms could be compared. Scale bar: 1mm. B ) ImageJ analysis for the images in panel (A) showing the percent area of the image fluorescing red. The error bars show the standard error obtained from the analysis of at least 3 images for each case. Statistical analysis was performed using t-test. * p < 0.05, ** p < 0.01, *** p < 0.001. C) B . bacteriovorus predation protected MCF 10a against the effects of P . sp DSM 50906. P . sp was spotted at a rOD of 5. After incubating the plates for 24 h at 37°C, the epithelial cells were stained and observed using an epifluorescence microscope. The plot compares the green fluorescence of the epithelial areas underneath the P . sp spots for both the control and predated plates. The error bars represent the standard error of six replicates for each case. ** p < 0.01. The images are representative photos showing the appearance of the two areas as observed using epiflourescence microscope. Scale bar: 500µm.

Article Snippet: The strains used in this study were E. coli MG1655, and S. boydii KACC 10792, which were obtained from the Korean RDA-Genebank Information Center (genebank.rda.go.kr), as well as P. sp DSM 50906 and B . bacteriovorus HD 100, both of which were purchased from the German Collection of Microorganisms and Cell Cultures (DSMZ).

Techniques: Incubation, Confocal Microscopy, Microscopy, Staining, Fluorescence