Abstract
Recent studies have shown that the concentrations of proteins expressed from orthologous genes are often conserved across organisms and to a greater extent than the abundances of the corresponding mRNAs. However, such studies have not distinguished between evolutionary (e.g., sequence divergence) and environmental (e.g., growth condition) effects on the regulation of steady-state protein and mRNA abundances. Here, we systematically investigated the transcriptome and proteome of two closely related Pseudomonas aeruginosa strains, PAO1 and PA14, under identical experimental conditions, thus controlling for environmental effects. For 703 genes observed by both shotgun proteomics and microarray experiments, we found that the protein-to-mRNA ratios are highly correlated between orthologous genes in the two strains to an extent comparable to protein and mRNA abundances. In spite of this high molecular similarity between PAO1 and PA14, we found that several metabolic, virulence, and antibiotic resistance genes are differentially expressed between the two strains, mostly at the protein but not at the mRNA level. Our data demonstrate that the magnitude and direction of the effect of protein abundance regulation occurring after the setting of mRNA levels is conserved between bacterial strains and is important for explaining the discordance between mRNA and protein abundances.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 2370-2380 |
| Number of pages | 11 |
| Journal | Journal of Proteome Research |
| Volume | 13 |
| Issue number | 5 |
| DOIs | |
| State | Published - May 2 2014 |
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Keywords
- proteomics
- Pseudomonas aeruginosa
- Transcriptomics
ASJC Scopus subject areas
- Biochemistry
- Chemistry(all)
Cite this
Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains. / Kwon, Taejoon; Huse, Holly K.; Vogel, Christine; Whiteley, Marvin; Marcotte, Edward M.
In: Journal of Proteome Research, Vol. 13, No. 5, 02.05.2014, p. 2370-2380.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains
AU - Kwon, Taejoon
AU - Huse, Holly K.
AU - Vogel, Christine
AU - Whiteley, Marvin
AU - Marcotte, Edward M.
PY - 2014/5/2
Y1 - 2014/5/2
N2 - Recent studies have shown that the concentrations of proteins expressed from orthologous genes are often conserved across organisms and to a greater extent than the abundances of the corresponding mRNAs. However, such studies have not distinguished between evolutionary (e.g., sequence divergence) and environmental (e.g., growth condition) effects on the regulation of steady-state protein and mRNA abundances. Here, we systematically investigated the transcriptome and proteome of two closely related Pseudomonas aeruginosa strains, PAO1 and PA14, under identical experimental conditions, thus controlling for environmental effects. For 703 genes observed by both shotgun proteomics and microarray experiments, we found that the protein-to-mRNA ratios are highly correlated between orthologous genes in the two strains to an extent comparable to protein and mRNA abundances. In spite of this high molecular similarity between PAO1 and PA14, we found that several metabolic, virulence, and antibiotic resistance genes are differentially expressed between the two strains, mostly at the protein but not at the mRNA level. Our data demonstrate that the magnitude and direction of the effect of protein abundance regulation occurring after the setting of mRNA levels is conserved between bacterial strains and is important for explaining the discordance between mRNA and protein abundances.
AB - Recent studies have shown that the concentrations of proteins expressed from orthologous genes are often conserved across organisms and to a greater extent than the abundances of the corresponding mRNAs. However, such studies have not distinguished between evolutionary (e.g., sequence divergence) and environmental (e.g., growth condition) effects on the regulation of steady-state protein and mRNA abundances. Here, we systematically investigated the transcriptome and proteome of two closely related Pseudomonas aeruginosa strains, PAO1 and PA14, under identical experimental conditions, thus controlling for environmental effects. For 703 genes observed by both shotgun proteomics and microarray experiments, we found that the protein-to-mRNA ratios are highly correlated between orthologous genes in the two strains to an extent comparable to protein and mRNA abundances. In spite of this high molecular similarity between PAO1 and PA14, we found that several metabolic, virulence, and antibiotic resistance genes are differentially expressed between the two strains, mostly at the protein but not at the mRNA level. Our data demonstrate that the magnitude and direction of the effect of protein abundance regulation occurring after the setting of mRNA levels is conserved between bacterial strains and is important for explaining the discordance between mRNA and protein abundances.
KW - proteomics
KW - Pseudomonas aeruginosa
KW - Transcriptomics
UR - http://www.scopus.com/inward/record.url?scp=84899855470&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84899855470&partnerID=8YFLogxK
U2 - 10.1021/pr4011684
DO - 10.1021/pr4011684
M3 - Article
C2 - 24742327
AN - SCOPUS:84899855470
VL - 13
SP - 2370
EP - 2380
JO - Journal of Proteome Research
JF - Journal of Proteome Research
SN - 1535-3893
IS - 5
ER -