Volcano plot of Sigma B-dependent differential gene expression of Clostridioides difficile

Zenodo (CERN European Organization for Nuclear Research)

Abstract

A customized whole-genome DNA microarray of Clostridioides difficile 630∆erm was used (8x15K format, Agilent). Quadruplicate samples were analysed for the DNA microarray. Using the ULS fluorescent labelling kit for Agilent arrays (Kreatech), 1 µg of total RNA was used for labelling with either Cy3 (Ptet-sigB) or Cy5 (Ptet-sLucopt). After pooling and fragmentation, 300 ng of labelled RNA per sample was hybridized according to the two-color microarray protocol from Agilent. DNA microarrays were scanned with an Agilent C scanner and analysed. CDS_ID=GenBank identifier, gene_name=annotated gene name (when available), locus_tag= locus tag, protein=annotation of protein function (when available), log2FC= log 2 of the fold change (sigB overproduction/control), adj_Pvalue = adjusted P-value, significance = -10log(adj_Pvalue).

Authors 5

1. Ilse M. Boekhoud Aachen

   Leiden University Medical Center

   Affiliation as printed

   LUMC

2. Annika‐Marisa Michel

   Technische Universität Braunschweig

   Affiliation as printed

   TU Braunschweig

3. Jeroen Corver Aachen

   Leiden University Medical Center

   Affiliation as printed

   LUMC

4. Dieter Jahn

   Technische Universität Braunschweig

   Affiliation as printed

   TU Braunschweig

5. Wiep Klaas Smits Aachen

   Leiden University Medical Center

   Affiliation as printed

   LUMC