Supplementary Table 1: Genes upregulated in the chitosan-treated strain compared to the untreated culture

ORF / Gene / Function / Fold change
Cell wall
SA0205 / HP, similar to lysostaphin precursor / 1.4
Transport/binding proteins and lipoproteins
SA0293 / HP, similar to formate transporter NirC / 1.9
SA0640 / HP, similar to ABC transporter required for expression of cytochrome bd / 1.4
SA1270 / HP, similar to amino acid pearmease / 1.7
SA1674 / glutamate ABC transporter ATP-binding protein / 1.6
SA2156 / L-lactate permease lctP homolog / 1.7
SA2167 / scrA / PTS system, sucrose-specific IIBC component / 1.5
SA2176 / narK / nitrite extrusion protein / 1.7
Membrane bioenergetics (electron transport chain and ATP synthase)
SA0411 / ndhF / NADH dehydrogenase subunit 5 / 2.2
SA0937 / cytochrome D ubiquinol oxidase subunit 1 homolog / 1.4
SA0938 / cytochrome D ubiquinol oxidase subunit II homolog / 1.7
SA2185 / narG / respiratory nitrate reductase alpha chain / 2.2
Cell division
SA0249 / scdA / cell division and morphogenesis-related protein / 2.0
SA1023 / ftsL / cell division protein / 2.8
Metabolism of carbohydrates and related molecules
SA0143 / adhE / alcohol-acetaldehyde dehydrogenase / 2.0
SA0218 / pflB / formate acetyltransferase / 2.7
SA0219 / pflA / formate acetyltransferase activating enzyme / 6.4
SA1556 / acuC / acetoin utilization protein / 1.5
SA1599 / HP, similar to transaldolase / 1.6
SA2001 / HP, similar to oxidoreductase, aldo/keto reductase family / 1.7
SA2104 / HP, similar to suppressor protein suhB / 1.4
SA2294 / gntK / gluconokinase / 1.6
Metabolism of amino acids and related molecules
SA0829 / HP, similar to 5-oxo-1,2,5-tricarboxilic-3-penten acid decarboxylase / 1.9
SA1216 / HP, similar to oligoendopeptidase / 1.4
SA1271 / threonine deaminase IlvA homolog / 1.6
SA2189 / HP, similar to NirR / 2.5
Metabolism of lipids
SA0220 / HP, similar to glycerophosphodiester phosphodiesterase / 1.8
SA1584 / lysophospholipase homolog / 1.8
Metabolism of phosphate
SA0881 / HP, similar to nucleotidase / 1.5
RNA synthesis - Regulation
SA0322 / HP, similar to transcription regulator / 1.6
SA1323 / srrA / staphylococcal respiratory response protein SrrA / 1.7
SA1947 / czrA / repressor protein / 2.0
SA2295 / gntR / gluconate operon transcriptional repressor / 1.6
SA2379 / HP, similar to transcriptional regulator tetR-family / 1.8
SA2433 / HP, similar to transcription antiterminator BglG family / 1.8
Protein folding
SA1659 / prsA / Peptidyl-prolyl cis/trans isomerase homolog / 2.4
Adaption to atypical conditions
SA0723 / clpP / ATP-dependent Clp protease proteolytic subunit homolog / 1.6
SA1146 / bsaA / glutathione peroxidase / 2.4
SA2405 / betA / choline dehydrogenase / 2.1
Detoxification
SA0681 / HP, similar to multidrug resistance protein / 1.2
SA1238 / HP, similar to tellurite resistance protein / 1.9
Phage-related functions
SA0252 / lrgA / holin-like protein LrgA / 4.0
SA0253 / lrgB / holin-like protein LrgB / 2.6
SA0754 / HP, similar to lactococcal prophage ps3 protein 05 / 3.9
Pathogenic factors (toxins and colonization factors)
SA0102 / 67 kDa Myosin-crossreactive streptococcal antigen homolog / 1.5
SA0742 / clfA / fibrinogen-binding protein A, clumping factor / 1.8
SA1813 / HP, similar to leukocidin chain lukM precursor / 1.5
Miscellaneous
SA0231 / HP, similar to flavohemoprotein / 1.8
SA0914 / HP, similar to chitinase B / 2.4
SA2480 / drp35 / Drp35 / 1.5
Hypothetical proteins
SA0175 / conserved HP / 2.0
SA0412 / conserved HP / 1.9
SA0725 / conserved HP / 1.8
SA0772 / conserved HP / 3.6
SA0890 / conserved HP / 2.0
SA1022 / conserved HP / 1.5
SA1293 / conserved HP / 1.5
SA1419 / conserved HP / 2.0
SA1618 / conserved HP / 1.4
SA1649 / conserved HP / 1.7
SA1658 / conserved HP / 1.6
SA1692 / conserved HP / 1.9
SA1942 / conserved HP / 2.6
SA2220 / conserved HP / 1.6
SA2262 / conserved HP / 1.9
SA2378 / conserved HP / 1.5
SA2474 / conserved HP / 1.4
SA0536 / HP / 2.7
SA0651 / HP / 1.8
SA0806 / HP / 1.4
SA1001 / HP / 1.8
SA1162 / HP / 2.0
SA1476 / HP / 3.1
SA1546 / HP / 1.4
SA1665 / HP / 2.5
SA1703 / HP / 1.8
SA2049 / HP / 2.7
SA2110 / HP / 1.5
SA2116 / HP / 1.4
SA2158 / HP, similar to TpgX protein / 1.8
SA2491 / conserved HP / 2.1
SA2221 / HP / 2.8
SA2268 / HP / 2.6
SAS011 / HP / 1.6

HP, hypothetical protein