Table 1

Genes involved in metabolic processes differentially regulated by fmt deletion in S. aureus RN4220 under (A) aerobic or (B) anaerobic growth conditions
Gene IDa,b Nameb Gene productb x-fold change
A
Reduced expression in Δfmt compared to wild type:
Amino acid metabolism
01452 ald alanine dehydrogenase 103.1
00008 hutH histidine ammonia-lyase 67.1
01451 ilvA threonine dehydratase 39.8
00899 argG argininosuccinate synthase 22.5
00435 gltB glutamate synthase, large subunit, putative 21.8
02468 alsS acetolactate synthase 14.1
00558 acetyl-CoA acetyltransferase, putative 12.2
01497 ansA L-asparaginase, putative 7.6
01450 amino acid permease* 6.4
00081 HPCH-HPAI aldolase family protein* 4.6
02287 leuC 3-isopropylmalate dehydratase, large subunit 4.4
02574 NAD-NADP octopine-nopaline dehydrogenase family protein* 3.8
01450 amino acid permease* 3.2
02281 ilvD dihydroxy-acid dehydratase 3.2
02839 L-serine dehydratase, iron-sulfur-dependent, alpha subunit 2.9
00510 cysE serine acetyltransferase, putative 2.8
00147 acetylglutamate kinase, putative 2.5
02563 ureF urease accessory protein, putative 2.3
02723 glycerate kinase, putative 2.2
Protein biosynthesis
01183 fmt methionyl tRNA formyltransferase 585.8
01182 def2* polypeptide deformylase (def2*) 6.3
01839 tyrS tyrosyl-tRNA synthetase 2.8
00324 ribosomal-protein-serine acetyltransferase, putative 2.4
01738 hisS histidyl-tRNA synthetase 2.4
Folic acid metabolism
01183 fmt methionyl tRNA formyltransferase 585.8
02374 aminobenzoyl-glutamate utilization protein B, putative 4.5
02610 hutG formiminoglutamase 3.4
Fermentation
00188 pflA formate acetyltransferase activating enzyme 604.5
02830 ddh D-lactate dehydrogenase, putative 263.6
00187 pflB formate acetyltransferase (pyruvate-formate-lyase) 99.0
00608 adh1 alcohol dehydrogenase I, putative 74.0
00113 adhE alcohol dehydrogenase, iron-containing 40.8
02467 budA2 alpha-acetolactate decarboxylase 2.6
02875 L-lactate dehydrogenase, putative 2.3
Purine metabolism
02553 inosine-uridine preferring nucleoside hydrolase* 3.3
00211 inosine-uridine preferring nucleoside hydrolase* 3.3
Lipid biosynthesis
01278 glpD aerobic glycerol-3-phosphate dehydrogenase 14.7
Transport systems
00748 iron compound ABC transporter, ATP-binding protein, putative* 15.0
03019 ABC transporter, ATP-binding protein, putative 7.2
01991 ABC transporter, permease protein, putative 7.1
00155 PTS system, glucose-specific component 5.0
00424 ABC transporter, permease protein, putative 3.9
02154 ABC transporter, ATP-binding protein, putative 2.6
00844 ABC transporter, substrate-binding protein* 2.2
00215 PTS system component, putative 2.1
Urea metabolism
00899 argG argininosuccinate synthase 22.5
02563 ureF urease accessory protein, putative 2.3
energy production and conversion/electrone transfer
00412 ndhF NADH dehydrogenase subunit 5, putative 359.0
00302 NADH-dependent flavin oxidoreductase, Oye family* 5.2
Higher expression in Δfmt compared to wild type:
Amino acid metabolism
02971 aur aureolysin, putative 3.4
B
Gene IDa,b Nameb Gene productb x-fold change
Reduced expression in Δfmt compared to wild type:
Amino acid metabolism
00836 gcvH glycine cleavage system H protein 2.4
00151 branched-chain amino acid transport system II carrier protein 2.4
01452 ald alanine dehydrogenase 2.3
01450 amino acid permease* 2.1
00510 cysE serine acetyltransferase, putative 2.1
01451 ilvA threonine dehydratase 2.1
Protein biosynthesis
01183 fmt methionyl-tRNA formyltransferase 158.3
01182 def2* polypeptide deformylase (def2*) 4
01788 thrS threonyl-tRNA synthetase 3.7
00009 serS seryl-tRNA synthetase 2.4
01839 tyrS tyrosyl-tRNA synthetase 2.3
01159 ilsS isoleucyl-tRNA synthetase 2.1
Folic acid metabolism
01183 fmt methionyl-tRNA formyltransferase 158.3
00836 gcvH glycine cleavage system H protein 2.4
Lipid biosynthesis
01310 cardiolipin synthetase, putative 2.8
Fermentation
02830 ddh D-lactate dehydrogenase, putative 9.8
00206 L-lactate dehydrogenase 2.3
00113 adhE alcohol dehydrogenase, iron-containing 2
Increased expression in Δfmt compared to wild type:
Amino acid metabolism
02840 L-serine dehydratase, iron-sulfur-dependent, beta subunit 4.3
Protein biosynthesis
01725 tRNA methyl transferase, putative 2.1
Purine metabolism
01012 purQ phosphoribosylformylglycinamidine synthase I 4.2
01014 purF amidophosphoribosyltransferase 3.6
00372 xprT xanthine phosphoribosyltransferase 3.2
Purine metabolism (continued)
00375 guaA GMP synthase, putative 2
Lipid biosynthesis
01260 pgsA CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase 2.1
03006 lipase 2.7
Carbohydrate metabolism
01794 gap glyceraldehyde-3-phosphate dehydrogenase, type I 6.3
00239 ribokinase, putative 2.1
Riboflavin metabolism
01886 riboflavin synthase, beta subunit 25
01888 riboflavin synthase, alpha subunit 5.7
01889 ribD riboflavin biosynthesis protein RibD 4.5

* defined for S. aureus COL;

a SAOUHSC gene ID for S. aureus NCTC8325.

b Gene IDs, names and products are based on AureusDB (http://aureusdb.biologie.uni-greifswald.de webcite) and NCBI (http://www.ncbi.nlm.nih.gov/ webcite) annotation.

Mader et al.

Mader et al. BMC Microbiology 2013 13:7   doi:10.1186/1471-2180-13-7

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