title: Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth.
abstract: A combined proteomic and transcriptomic analysis of Staphylococcus aureus strain N315 was performed to study a sequenced strain at the system level. Total protein and membrane protein extracts were prepared and analyzed using various proteomic workflows including: 2-DE, SDS-PAGE combined with microcapillary LC-MALDI-MS/MS, and multidimensional liquid chromatography. The presence of a protein was then correlated with its respective transcript level from S. aureus cells grown under the same conditions. Gene-expression data revealed that 97% of the 2'596 ORFs were detected during the post-exponential phase. At the protein level, 23% of these ORFs (591 proteins) were identified. Correlation of the two datasets revealed that 42% of the identified proteins (248 proteins) were amongst the top 25% of genes with highest mRNA signal intensities, and 69% of the identified proteins (406 proteins) were amongst the top 50% with the highest mRNA signal intensities. The fact that the remaining 31% of proteins were not strongly expressed at the RNA level indicates either that some low-abundance proteins were identified or that some transcripts or proteins showed extended half-lives. The most abundant classes identified with the combined proteomic and transcriptomic approach involved energy production, translational activities and nucleotide transport, reflecting an active metabolism. The simultaneous large-scale analysis of transcriptomes and proteomes enables a global and holistic view of the S. aureus biology, allowing the parallel study of multiple active events in an organism.
authors.affiliation: Biomedical Proteomics Research Group, Geneva University Hospitals, Geneva, Switzerland.
authors.forename: Alexander
authors.initials: A
authors.lastname: Scherl
authors.forename: Patrice
authors.initials: P
authors.lastname: François
authors.forename: Manuela
authors.initials: M
authors.lastname: Bento
authors.forename: Jacques M
authors.initials: JM
authors.lastname: Deshusses
authors.forename: Yvan
authors.initials: Y
authors.lastname: Charbonnier
authors.forename: Véronique
authors.initials: V
authors.lastname: Converset
authors.forename: Antoine
authors.initials: A
authors.lastname: Huyghe
authors.forename: Nadia
authors.initials: N
authors.lastname: Walter
authors.forename: Christine
authors.initials: C
authors.lastname: Hoogland
authors.forename: Ron D
authors.initials: RD
authors.lastname: Appel
authors.forename: Jean-Charles
authors.initials: JC
authors.lastname: Sanchez
authors.forename: Catherine G
authors.initials: CG
authors.lastname: Zimmermann-Ivol
authors.forename: Garry L
authors.initials: GL
authors.lastname: Corthals
authors.forename: Denis F
authors.initials: DF
authors.lastname: Hochstrasser
authors.forename: Jacques
authors.initials: J
authors.lastname: Schrenzel
mesh_terms: D001426:Bacterial Proteins / Q000096:biosynthesis* / Q000235:genetics / Q000302:isolation & purification; D002853:Chromatography, Liquid; D019295:Computational Biology; D015180:Electrophoresis, Gel, Two-Dimensional; D004591:Electrophoresis, Polyacrylamide Gel; D018507:Gene Expression Regulation, Developmental; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D040901:Proteomics / Q000379:methods*; D012333:RNA, Messenger / Q000235:genetics / Q000302:isolation & purification; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D013211:Staphylococcus aureus / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D014158:Transcription, Genetic / Q000235:genetics / Q000502:physiology
chemical_list: D001426:Bacterial Proteins; D012333:RNA, Messenger