mycoplasma cynos rosendal  (ATCC)

Journal: PLOS ONE

Article Title: Development and validation of multiplex one-step qPCR/RT-qPCR assays for simultaneous detection of SARS-CoV-2 and pathogens associated with feline respiratory disease complex

doi: 10.1371/journal.pone.0297796

Figure Lengend Snippet: Panel of viruses and bacteria associated with feline respiratory disorders, related pathogens and SARS-CoV-2 variants used to assess the specificity of each qPCR/RT-qPCR assay.

Article Snippet: Mycoplasma cynos Rosendal , 27544 ™ , ATCC ®.

Techniques: Bacteria, Virus

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Comparison of Porter 5-predicted secondary structures and ColabFold-predicted protein structures. ( A ) The prediction of secondary structure was generated with the three-class secondary structure model of the Porter 5 web tool (H, helix; E, strand; C, coil). Class predictions with a confidence value of at least 5 are highlighted; α -helices are red, and β -strands are turquoise. Shown are the eight putative flavodoxins [CD0810_(FloX), CD1458_(WrbA), CD1679, CD1999_(FldX), CD2207, CD2607, CD2825, and CD3121) and short-chain flavodoxin Spfld of Streptococcus pneumoniae TIGR4, short-chain flavodoxin DVU_2680 of Desulfovibrio vulgaris , long-chain flavodoxin FldA of E. coli, and long-chain flavodoxin Avin_45950 of Azotobacter vinelandii . ( B ) Comparison of ColabFold-predicted protein structures of eight putative flavodoxins of C. difficile 630 and two reference short-chain and long-chain flavodoxins each, pictured with ChimeraX. Distinction features, mentioned in the text are highlighted; extra loops are orange, and additional α-helices are blue. Cysteine residues binding the two 4Fe-4S centers are colored in dark green.

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Comparison, Generated, Binding Assay

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Genomic neighborhood analysis of the putative flavodoxins CD0810 ( floX ), CD1458 ( wrbA ), CD1679 , CD1999 ( fldX ), CD2207 , CD2684, and CD2825 of C. difficile 630. The transcriptional start (gray arrow) and terminator sites (circle) were added if they are annotated in the transcription maps of Soutourina et al. and Fuchs et al . ( , ). Transcription termination sites were additionally added if predicted by ARNold web service (University Paris-Sud). Shown nucleotide (nt) sizes are potential transcripts according to our Northern blot analysis.

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Northern Blot

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Northern blot analysis of the expression of the putative flavodoxins CD0810 ( floX ), CD1458 ( wrbA ), CD1999 ( fldX ), CD2207 , CD2684, and CD2825 of C. difficile 630. Lane a, unstressed control conditions; lane b, 10 min 5% oxygen-treated conditions. Molecular sizes were calculated using the DIG-labeled RNA molecular weight marker I (Roche) and compared to the in silico operon analysis. Total RNA levels were monitored by methylene blue (MB) staining. nt, nucleotide.

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Northern Blot, Expressing, Labeling, Molecular Weight, Marker, In Silico, Staining

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Expression profile of all known flavodoxins of C. difficile 630 during growth. Image of different slot blots, hybridized with the probes named on the left. Out of five replicates per blot, one representative blot of each flavodoxin is shown on the left. The detection time is given next to each blot. Bar charts on the right compare fold changes in relative chemiluminescence signal intensity for each flavodoxin in different growth phases compared to the exponential growth phase. The FC values are plotted as average ( n = 5) with standard deviation. If signals are completely absent, they are indicated as “OFF.” Significant changes determined by a two-way ANOVA for multiple comparisons are indicated (* P < 0.05, ** P < 0.01, *** P < 0.001). The bar chart in the lower panel shows the logarithmic colony-forming units (cfu) per milliliter of vegetative cells and spores along the growth curve (log2 cfu/mL). The values are plotted as average ( n = 5) with standard deviation.

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Expressing, Standard Deviation

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Transcription of fldX . Transcription of the fldX gene was quantified for C. difficile 630 by RT-qPCR analysis. Statistical significance was calculated using a multiple t -test. *, P < 0.05; **, P < 0.01; ***, P < 0.001. The line in the graphs shows the mean. ( A ) Fold changes (FC) were calculated within a defined iron concentration (14.4 µM Fe, 0.2 nM Fe, or 0 Fe) between the oxidatively stressed sample and the corresponding control. ( B ) FC were calculated between 0.2 nM and 14.4 µM Fe, as well as between 0 and 14.4 µM Fe within a certain oxidative stress condition (control, H 2 O 2 , O 2 , 5 mM Pq, or 5 mM Pq + O 2 ).

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Quantitative RT-PCR, Concentration Assay

Journal: Microbiology Spectrum

Article Title: Characterizing the flavodoxin landscape in Clostridioides difficile

doi: 10.1128/spectrum.01895-23

Figure Lengend Snippet: Transcription of CD2825 . Transcription of the CD2825 gene was quantified for C. difficile 630 by RT-qPCR analysis. Statistical significance was calculated using a multiple t -test. *, P < 0.05; **, P < 0.01; ***, P < 0.001. The line in the graphs shows the mean. ( A ) Fold changes (FC) were calculated within a defined iron concentration (14.4 µM Fe, 0.2 nM Fe, or 0 Fe) between the oxidatively stressed sample and the corresponding control. ( B ) FC were calculated between 0.2 nM and 14.4 µM Fe, as well as between 0 and 14.4 µM Fe within a certain oxidative stress condition (control, H 2 O 2 , O 2 , 5 mM Pq, or 5 mM Pq + O 2 ).

Article Snippet: All studies were carried out with Clostridioides difficile 630 (DSM No.: 27543) obtained from the German Collection of Microorganisms and Cell Cultures GmbH (DSMZ) (Braunschweig, Germany).

Techniques: Quantitative RT-PCR, Concentration Assay