TABLE 1.

P. fragi pangenes with significantly different occurrence in aerobically and vacuum-packed beef samples^a

Gene annotation	Prevalence (% of samples)
	Aerobic	Under vacuum
Amino acid ABC transporter_g001843	28.57	87.50
Amino acid ABC transporter permease_g000271	42.86	100.00
Arginine N-succinyl transferase, subunit beta_g006675	14.29	87.50
Aromatic amino acid transport protein AroP_g006499	14.29	87.50
Branched-chain amino acid ABC transporter permease_g001018	42.86	100.00
Channel protein TolC_g001045	42.86	100.00
Colicin I receptor_g007007	42.86	100.00
Electron transfer flavoprotein-ubiquinone oxidoreductase_g005516	42.86	0.00
Electron transfer flavoprotein, subunit alpha_g005518	28.57	25.00
Electron transfer flavoprotein, subunit beta_g005517	57.14	0.00
Esterase/lipase/thioesterase_g000542	100.0	12.50
Esterase/lipase/thioesterase_g000542	100.0	12.50
Flagellar biosynthesis protein FlhA_g006471	14.29	100.00
Flagellar biosynthetic protein FliP_g006475	57.14	100.00
Flagellar biosynthetic protein FliR_g006473	14.29	87.50
Hemin transport system permease protein HmuU_g004720	71.43	12.50
Hemin transport system permease protein HmuU_g007012	14.29	100.00
Hydrogen peroxide-inducible genes activator_g004882	42.86	0.00
Hydrogen peroxide-inducible genes activator_g006647	100.0	25.00
Hydroperoxy fatty acid reductase gpx2_g006838	71.43	0.00
Inner membrane amino-acid ABC transporter permease protein YhdY_g006813	42.86	100.00
Iron(3+)-hydroxamate-binding protein FhuD_g006324	14.29	75.00
Iron(3+)-hydroxamate import system permease protein FhuB_g006325	14.29	75.00
Iron transporter_g001368	28.57	87.50
l-Threonine dehydratase biosynthetic IlvA_g004942	42.86	100.00
Leucine, isoleucine, valine, threonine, and alanine-binding protein_g005368	28.57	100.00
Lipopolysaccharide export system protein LptC_g006847	42.86	100.00
Long-chain-fatty-acid–CoA ligase_g006700	85.71	12.50
Long-chain-fatty-acid–CoA ligase_g006701	85.71	25.00
Methionine amino peptidase_g006769	28.57	100.00
Multidrug resistance protein MdtB_g005252	42.86	100.00
Murein dd-endopeptidase MepH_g004974	42.86	100.00
NADH-quinone oxidoreductase, subunit F_g005645	71.43	37.50
NADH-quinone oxidoreductase, subunit F_g005646	85.71	0.00
NADH-quinone oxidoreductase, subunit G_g005643	71.43	37.50
NADH-quinone oxidoreductase, subunit L_g005641	100.00	12.50
NADH-quinone oxidoreductase, subunit M_g005639	57.14	0.00
NADH-quinone oxidoreductase, subunit N_g005638	42.86	0.00
Nicotinate phosphoribosyltransferase 2_g007029	42.86	100.00
Oligopeptide-binding protein AppA_g006420	28.57	87.50
Peptidase_g000364	42.86	100.00
Proline-specific permease ProY_g007110	42.86	100.00
Protease HtpX_g001735	42.86	100.00
Protein-methionine-sulfoxide reductase catalytic subunit MsrP_g006893	100.00	0.00
Protein-methionine-sulfoxide reductase catalytic subunit MsrP_g006893	100.00	0.00
Sensor protein QseC_g006731	42.86	87.50
Stress response protein SCP2_g006950	42.86	100.00
Succinate-semialdehyde dehydrogenase [NADP(+)]_g007028	42.86	100.00
Tail-specific protease_g005617	57.14	100.00
Thiol:disulfide inter-change protein_g001662	28.57	12.50
TolC family protein_g000069	0.00	100.00
Urease accessory protein UreF_g001013	42.86	100.00
Uvr ABC system protein B_g006309	57.14	100.00
Biofilm dispersion protein BdlA_g006694	100.00	12.50

^aSignificant at a P value of <0.05.