Skip to main content

Advertisement

Table 3 DEGs between GTB/ST8 and GTS/ST398 strains

From: Genomic and transcriptomic comparison between Staphylococcus aureus strains associated with high and low within herd prevalence of intra-mammary infection

LocusTag SAOUHSC Function Protein Description padj log2 FC GTB/ST8 GTS/ST398
_01451 1 catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic 1.28E-56 −5.35
_01450 1 Amino acid transporters 3.35E-52 −5.25
_01452 1 alanine dehydrogenase 1.34E-50 −5.16
_01448 1 Permeases of the major facilitator superfamily 1.82E-41 −5.16
_02969 1 catalyzes the degradation of arginine to citruline and ammonia 3.51E-22 −4.34
_02968 1 catalyzes the formation of ornithine and carbamylphosphate from citrulline in the arginine catabolic pathway 2.42E-15 −3.62
_00108 1 Zinc peptidase 8.34E-11 −6.03
_02967 1 arginine/ornithine antiporter, putative 2.00E-09 −2.65
_01803 1 Gamma-aminobutyrate permease and related permeases 2.86E-08 2.41
_02767 1 peptide ABC transporter, peptide-binding protein, putative 3.75E-08 −2.17
_02435 1 Permeases of the major facilitator superfamily 2.63E-07 −2.42
_01307 1 Threonine aldolase 1.95E-06 −3.19
_02766 1 peptide ABC transporter, permease protein, putative 3.06E-05 −1.95
_02763 1 peptide ABC transporter, ATP-binding protein, putative 5.33E-05 −1.97
_01825 1 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes 5.72E-05 1.95
_01320 1 catalyzes the formation of L-aspartate 4-semialdehyde from L-homoserine 5.97E-05 −1.71
_00076 1 ornithine cyclodeaminase, putative 6.44E-05 −2.70
_01833 1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; 7.00E-05 −1.77
_02740 1 drug transporter, putative 0.000142 1.65
_02697 1 amino acid ABC transporter, ATP-binding protein, putative 0.000231 1.57
_02825 1 Lactoylglutathione lyase and related lyases 0.000256 −2.77
_00733 1 catalyzes the formation of L-histidinol phosphate in histidine biosynthesis 0.000257 −1.78
_01321 1 catalyzes the formation of L-threonine from O-phospho-L-homoserine 0.000283 −1.60
_00075 1 siderophore biosynthesis protein SbnA 0.00032 −2.62
_02559 1 ureases 0.00039 −2.37
_01991 1 ABC transporter, permease protein, putative 0.00047 1.83
_01991 1 ABC transporter, permease protein, putative 0.00047 1.83
_02765 1 nickel ABC transporter, permease protein, putative 0.000471 −1.75
_02433 1 Predicted amino acid racemase 0.000512 −1.60
_02764 1 peptide ABC transporter, ATP-binding protein, putative 0.000687 −1.70
_02561 1 ureases 0.000724 −1.65
_00421 1 Cysteine synthase 0.000785 −1.60
_01319 1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; lysine and threonine sensitive 0.000879 −2.01
_00740 1 Permeases of the drug/metabolite transporter (DMT) superfamily 0.001181 1.71
_02839 1 L-serine dehydratase, iron-sulfur-dependent, alpha subunit 0.001587 −1.51
_01395 1 aspartate-semialdehyde dehydrogenase 0.001826 −1.64
_00703 1 quinolone resistance norA protein, putative 0.002597 1.67
_02558 1 UreA, with UreB and UreC 0.005062 −2.29
_01990 1 amino acid ABC transporter, ATP-binding protein, putative 0.005951 1.50
_02932 1 catalyzes the oxidation of choline to betaine aldehyde and betain aldehyde to glycine betaine 0.006268 −1.53
_01394 1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP, in Bacillus, lysine sensitive; regulated by response to starvation, 0.006704 −1.68
_00170 1 peptide/nickel transport system substrate-binding protein 0.008873 −1.55
_02972 2 immunodominant antigen B IsaB 6.70E-24 5.79
_01079 2 neurofilament protein 7.69E-23 −4.51
_02127 2 staphopain thiol proteinase 4.50E-18 −3.61
_01933 2 type I restriction-modification system, M subunit 5.20E-18 −5.10
_02708 2 gamma-hemolysin h-gamma-ii subunit, putative 4.61E-17 −3.60
_01115 2 staphylococcal complement inhibitor SCIN 3.05E-15 5.06
_01135 2 anti protein (phenol soluble modulin) 2.18E-13 −3.07
_01964 2 signal transduction protein TRAP 3.38E-13 3.35
_00668 2 ABC transporter permease, putative 3.60E-13 3.99
_02420 2 multidrug resistance protein SepA 2.58E-11 3.99
_02963 2 clumping factor B, putative 2.92E-11 2.75
_02419 2 methicillin resistance protein FmtB 2.69E-10 5.00
_00256 2 staphyloxanthin biosynthesis protein, secretory antigen precursor SsaA 1.48E-09 −2.69
_02802 2 fibronectin binding protein B, putative 3.09E-09 2.32
_02709 2 leukocidin s subunit precursor, putative 1.30E-08 −2.45
_02710 2 leukocidin f subunit precursor 1.50E-08 −2.43
_01084 2 Heme ABC transporter 7.71E-08 −2.72
_01081 2 heme transporter IsdA 2.63E-07 −2.11
_01136 2 anti protein (phenol soluble modulin) 3.38E-07 −2.57
_01121 2 alpha-hemolysin precursor 4.12E-07 −2.07
_02696 2 fmhA protein, putative 4.40E-07 −2.29
_01082 2 heme transporter IsdC 1.40E-06 −2.81
_00354 2 putative enterotoxin 1.43E-05 3.22
_02740 2 drug transporter, putative 0.000142 1.65
_02129 2 staphostatin A 0.000392 −2.16
_00395 2 homology to known superantigen proteins 0.000545 2.81
_02718 2 ABC Transporters 0.000631 −2.09
_01932 2 type I restriction-modification enzyme, S subunit, EcoA family, putative 0.000692 2.06
_00998 2 fmt protein, putative 0.00072 1.59
_00261 2 type VII secretion protein EssB 0.000785 −1.84
_00426 2 ABC transporter, substrate-binding protein, putative 0.001147 −1.74
_00397 2 type I restriction-modification system, M subunit 0.002795 1.56
_02719 2 methicillin resistance protein FmtB 0.00383 −2.08
_00249 2 ABC-2 type transport system ATP-binding protein 0.005426 −1.83
_01448 3 Permeases of the major facilitator superfamily 1.82E-41 −5.16
_02420 3 Permeases of the major facilitator superfamily 2.58E-11 3.99
_01085 3 multidrug resistance protein SepA 1.17E-08 −3.16
_02687 3 ABC-type Fe3 + -hydroxamate transport system, periplasmic component 8.11E-08 2.50
_02435 3 formate/nitrite transporter, putative 2.63E-07 −2.42
_01087 3 Permeases of the major facilitator superfamily 9.18E-07 −3.16
_01086 3 iron compound ABC transporter, permease protein 9.72E-07 −2.74
_00105 3 iron compound ABC transporter, permease protein, putative 1.76E-06 −2.81
_00074 3 phosphonate ABC transporter, substrate-binding protein, putative 2.13E-06 −1.95
_02864 3 periplasmic binding protein, putative 1.36E-05 −2.13
_02766 3 ferrous iron transport protein B 3.06E-05 −1.95
_02763 3 peptide ABC transporter, permease protein, putative 5.33E-05 −1.97
_00423 3 peptide ABC transporter, ATP-binding protein, putative 0.000135 −2.30
_02740 3 ABC-type metal ion transport system, ATPase component 0.000142 1.65
_01893 3 drug transporter, putative 0.000208 −2.53
_02765 3 arsenical pump membrane protein subfamily 0.000471 −1.75
_00424 3 nickel ABC transporter, permease protein, putative 0.000582 −2.47
_02764 3 ABC transporter, permease protein, putative 0.000687 −1.70
_00325 3 peptide ABC transporter, ATP-binding protein, putative 0.000864 −2.44
_00104 3 Predicted periplasmic lipoprotein involved in iron transport 0.001514 −2.10
_00703 3 amino acid ABC transporter, ATP-binding protein, putative 0.002597 1.67
_02865 3 quinolone resistance norA protein, putative 0.004758 −2.19
_00102 3 ferrous iron transport protein A 0.00479 −1.91
_00103 3 phosphonates ABC transporter, permease protein CC0363, putative 0.008185 −1.78
  1. For each Locus Tag, Function: 1) Amino acid transport and metabolism, 2) Defence mechanisms, and 3) Inorganic ion transport and metabolism; Protein Description, P-value adjusted (padj), log2FoldChange (log2FC) and (↑) up and (↓) down-regulation were reported