Table 1.
Demographics, genome features, classification, pathogenicity score, number and strain of pathogenic family linkage of the isolates belonging to the endemic clone and sister lineages.
| Clone (ST612-CC8-t1257-SCCmec_IVd(2B) a | Genome Characteristics | Classification | e Pathogenicity Score(Number of Pathogenic Families) | |||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Number | Strain ID | Point | Host | Source | Tandem Repeats | CRISPRs (Cas Cluster) | RM-System b | Agr type c | ACME d | |
| 1 | SA1 | Farm | Animal | Faecal | 135 | 8 (1) | Type I and IV | Type I | II | 0.926 (939) f |
| 2 | SA2 | Farm | Animal | Faecal | 127 | 8 (0) | Type I and IV | Type I | II | 0.930 (895) f |
| 3 | SA3 | Farm | Animal | Faecal | 128 | 8 (1) | Type I and IV | Type I | II | 0.925 (910) f |
| 4 | SA4 | Farm | Animal | Faecal | 133 | 9 (0) | Type I and IV | Type I | II | 0.926 (878) f |
| 5 | SA5 | Farm | Human | Nasal | 136 | 6 (1) | Type I and IV | Type I | II | 0.925 (931) f |
| 6 | SA6 | Farm | Human | Nasal | 129 | 6 (0) | Type I and IV | Type I | II | 0.926 (907) f |
| 7 | SA7 | Farm | Human | Nasal | 145 | 7 (1) | Type I and IV | Type I | II | 0.925 (912) f |
| 8 | SA8 | Abattoir | Animal | Rinsate | 143 | 8 (0) | Type I and IV | Type I | II | 0.928 (870) g |
| 9 | SA12 | Abattoir | Animal | Rinsate | 129 | 7 (1) | Type I and IV | Type I | II | 0.926 (903) f |
| 10 | SS1 | Retail point | Animal | Carcass | 133 | 8 (2) | Type I and IV | Type I | II | 0.931 (841) f |
| 11 | SS2 | Retail point | Animal | Carcass | 258 | 7 (0) | Type I and IV | Type I | II | 0.929 (828) f |
| ST8-CC8-t008-SCCmec_IVa (2B) | ||||||||||
| 12 | USA300 | - h | Human | - | 134 | 8 (0) | Type I and IV | Type I | I | 0.924 (1094) f |
| ST8-CC8-t064-SCCmec_IVd (2B) | ||||||||||
| 13 | USA500 | - | Human | - | 133 | 7 (0) | Type I and IV | Type I | III | 0.921 (1021) f |
| ST612-CC8-t064-SCCmec_IVd (2B) | ||||||||||
| 14 | SHV713 | - | Animal | - | 122 | 7 (0) | Type I and IV | Type I | II | 0.924 (956) f |
a Isolates belonged to the same clone with sequence type (ST612), Clonal complexe (CC8), spa type (t1257) and SCCmec type (SCCmec_IVd(2B)). b RM-System: Restriction-Modification System. c Agr: accessory gene regulator. d ACME-arginine catabolic mobile element: ACME type I (arcA+/opp3AB+), II (arcA+/opp3AB−) and III (arcA−/opp3AB+). e Pathogenicity score: Prediction of a bacteria’s pathogenicity towards the hosts using PathogenFinder. Strain of the closet pathogenic family linkage: f Staphylococcus aureus subsp. aureus USA300 (Accession number: CP000255) and g Staphylococcus aureus subsp. aureus JH9 (Accession number: CP000703). h Not applicable.