Depletion of the non-coding regulatory 6S RNA in E. coli causes a surprising reduction in the expression of the translation machinery

Table 1 Selected genes considered as meaningful¹, which show enhanced expression levels (≥ 1.5-fold change) during exponential phase.

Synonym	Gene²	Average mRNA level MM139/WT	Annotation
b2883	guaD	18.41	guanine deaminase
b2883	guaD	11.76	guanine deaminase
b3118	tdcA	4.23	transcriptional activator of tdc operon for biodegradation of threonine
b1597	asr	2.53	acid shock protein precursor
b0812	dps	2.34	DNA protection during starvation conditions
b4116	adiY	2.26	transcriptional activator
b1623	add	2.09	adenosine deaminase
b1480	sra	1.97	30S ribosome associated protein (S22)
b1480	sra	1.94	30S ribosome associated protein (S22)
b4457	csrC	1.93	regulatory RNA
b1739	osmE	1.90	transcriptional activator
b2597	yfiA	1.85	cold shock protein associated with 30S ribosomal subunit
b2847	yqeI	1.78	predicted transcriptional regulator
b3361	fic	1.71	stationary-phase protein, cell division
b2707	srlR	1.69	transcriptional repressor
b3555	yiaG	1.67	predicted transcriptional regulator
b3556	cspA	1.66	major cold shock protein
b3674	yidF	1.60	predicted transcriptional regulator
b0162	cdaR	1.60	transcriptional activator
b3773	ilvY	1.59	transcriptional dual regulator
b0607	uspG	1.58	universal stress protein UP12
b1376	uspF	1.57	stress-induced, ATP-binding protein
b0460	hha	1.56	modulator of gene expression, with H-NS
b4401	arcA	1.55	response regulator in two-component regulatory system with ArcB or CpxA
b4045	yjbJ	1.53	predicted stress response protein
b2869	ygeV	1.53	predicted transcriptional regulator
b3410	yhgG	1.50	transcriptional regulator

¹Meaningful genes were selected by the following criteria: known or predicted function related to the ssrS transcription unit, serving common or related functions, regulatory- and stress-related functions.
² Note that some genes are represented redundantly by different oligonucleotides.

ISSN: 1471-2164