Journal: Nucleic Acids Research

Article Title: The cis -regulatory map of Shewanella genomes

doi: 10.1093/nar/gkn515

Figure Lengend Snippet: Estimation of neutral distances between five Shewanella species. The numbers shown are neutral substitution rates ( K s ) measured by synonymous substitutions in coding sequences.

Article Snippet: We assess our comparative approach by first examining whether the motifs identified using the five Shewanella genomes ( S. oneidensis , S. denitrificans , S. frigidimarina , S. amazonensis and S. baltica OS155 ) are also conserved in the seven newly sequenced and distantly related Shewanella genomes ( S. sp W3-18-1, S. putrefaciens , S. loihica , S. woodyi ATCC51908, S. sediminis HAW EB3, S. halifaxensis HAW EB4 and S. pealeana ATCC 700345) .

Techniques:

Journal: Nucleic Acids Research

Article Title: The cis -regulatory map of Shewanella genomes

doi: 10.1093/nar/gkn515

Figure Lengend Snippet: Numbers of motifs identified at each step of the comparative analysis for Dataset I and II

Article Snippet: We assess our comparative approach by first examining whether the motifs identified using the five Shewanella genomes ( S. oneidensis , S. denitrificans , S. frigidimarina , S. amazonensis and S. baltica OS155 ) are also conserved in the seven newly sequenced and distantly related Shewanella genomes ( S. sp W3-18-1, S. putrefaciens , S. loihica , S. woodyi ATCC51908, S. sediminis HAW EB3, S. halifaxensis HAW EB4 and S. pealeana ATCC 700345) .

Techniques: Footprinting

Journal: Nucleic Acids Research

Article Title: The cis -regulatory map of Shewanella genomes

doi: 10.1093/nar/gkn515

Figure Lengend Snippet: Conservation of the 183 motifs identified from Dataset II in the distantly related Shewanella species. The black bars represent the percentage of motifs identified from the five Shewanella genomes that are also conserved in the seven newly sequenced Shewanella species. The white bars represent the results from the control sequence sets.

Article Snippet: We assess our comparative approach by first examining whether the motifs identified using the five Shewanella genomes ( S. oneidensis , S. denitrificans , S. frigidimarina , S. amazonensis and S. baltica OS155 ) are also conserved in the seven newly sequenced and distantly related Shewanella genomes ( S. sp W3-18-1, S. putrefaciens , S. loihica , S. woodyi ATCC51908, S. sediminis HAW EB3, S. halifaxensis HAW EB4 and S. pealeana ATCC 700345) .

Techniques: Control, Sequencing

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: Main features of the species used.

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques:

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: Growth curves of S. oneidensis , S. frigidimarina , and P. frigidicola at 4 (blue), 12 (green), and 30°C (red/orange).

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques:

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: Duration of the lag phase in each bacterium at each temperature studied.

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques:

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: Growth rates (h –1 ) of S. oneidensis , S. frigidimarina , and P. frigidicola at 4, 12, and 30°C.

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques:

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: Immunodetection of chaperones in the cell extracts of the three bacteria at 4 and 30°C; (A) GroEL, DnaK, and GroES in Shewanella oneidensis ; (B) GroEL, DnaK, and DnaJ in Shewanella frigidimarina ; and (C) GroEL and DnaK Psychrobacter frigidicola .

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques: Immunodetection, Bacteria

Journal: Frontiers in Microbiology

Article Title: Comparative Proteomic Analysis of Psychrophilic vs. Mesophilic Bacterial Species Reveals Different Strategies to Achieve Temperature Adaptation

doi: 10.3389/fmicb.2022.841359

Figure Lengend Snippet: A heat map of ratios from 2D-DIGE experiments of the proteins over-synthesized at 30 (red) and 4°C (green) found in common in at least two of the three studied bacteria. The color and intensity of each protein are calculated as a function of the logarithm based on 10 of the value of its 4/30 ratio obtained in the 2D-DIGE experiment so that values closer to –2 indicate higher ratios in proteins whose synthesis has been increased to 30°C and closer to 2 higher ratios in proteins whose synthesis has been increased to 4°C. The gray/white color indicates the absence of identification of that specific protein in the corresponding species. “ S. on ” indicates Shewanella oneidensis , “ S. fr ” indicates Shewanella frigidimarina and “ P. fr ” indicates Psychrobacter frigidicola .

Article Snippet: Bacteria included in this study were purchased from culture collections: Shewanella oneidensis (MR-1, 700550TM) and Shewanella frigidimarina (ACAM 591, 700753TM) from the Germany Microorganisms and Culture Cell collection (DMSZ) and Psychrobacter frigidicola (ACAM 304, 700361TM) from the American collection (ATCC ® ).

Techniques: Synthesized, Bacteria