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Table 1 Genomic characteristics of the different STs, including SCCmec and spa-type, presence of PVL, genome length, N50 (shortest sequence length at 50% of the genome), and number of contigs, coding DNA sequences (CDS), and genes

From: Whole-genome epidemiology, characterisation, and phylogenetic reconstruction of Staphylococcus aureus strains in a paediatric hospital

ST CC # isolates (MRSA) Predominant SCCmec type (# isolates) Predominant spa-type (# isolates) # PVL+ Avg. genome length (bp) Avg. # contigs Avg. N50 Avg. # CDS Avg. # genes
1 1 12 (12) IV (11) t127 (3) 0 2,814,074.3 29.4 326,193.0 2601.3 2666.8
772 2 (2) V (2) t657 (2) 2 2,768,135.0 46.0 208,282.5 2538.0 2605.0
5 5 14 (13) IV (10) t002 (5) 8 2,785,946.1 39.4 250,660.3 2580.1 2640.5
228 16 (16) I (16) t001 (5) 0 2,837,918.4 81.9 87,688.4 2639.8 2700.7
228 6 1 (1) IV (1) t5238 (1) 0 2,796,820.0 40.0 150,271.0 2584.0 2648.0
7 7 3 (0) n.a. t1743 (1) 0 2,747,478.7 66.0 147,717.0 2521.3 2588.0
8 8 11 (6) IV (6) t008 (6) 5 2,821,267.1 52.7 259,331.5 2625.2 2681.8
293 2 (2) V (1) t037 (1) 0 2,900,431.5 90.5 90,036.5 2697.5 2762.0
241 1 (1) n.d. t030 (1) 0 2,884,707.0 87.0 105,325.0 2707.0 2768.0
247 1 (1) I (1) t197 (1) 0 2,776,359.0 76.0 74,230.0 2567.0 2630.0
10 10 1 (0) n.a. n.a. 0 2,799,287.0 110.0 52,819.0 2634.0 2698.0
1162 2 (0) n.a. n.a. 0 2,867,105.0 58.0 184,821.5 2702.0 2767.0
15 15 5 (2) IV (1); I (1) t084 (1); t853 (1) 1 2,719,481.8 45.6 226,394.0 2496.2 2556.6
22 22 15 (14) IV (13) t852 (1); t1977 (7); t223 (1); t005 (1) 3 2,793,443.3 56.0 124,918.3 2599.5 2662.4
1327 1 (1) IV (1) n.a. 0 2,758,892.0 42.0 167,290.0 2547.0 2612.0
25 25 2 (0) n.a. t258 (1); t2242 (1) 0 2,758,786.5 16.5 697,459.0 2554.5 2617.5
30 30 7 (3) IV (3) t019 (2) 5 2,792,108.9 58.1 139,913.6 2603.3 2666.1
34 2 (0) n.a. t3905 (1) 0 2,821,562.0 57.5 140,057.0 2665.5 2730.5
45 45 8 (2) IV (2) t015 (2) 0 2,762,203.4 34.4 390,455.1 2591.5 2654.6
59 59 3 (3) IV (1) t216 (1); t437 (1) 1 2,799,567.0 53.0 130,817.3 2595.7 2662.0
88 88 1 (1) IV (1) t4701 (1) 0 2,791,324.0 36.0 206,283.0 2575.0 2642.0
96 96 1 (0) n.a. n.a. 1 2,783,146.0 39.0 141,877.0 2591.0 2652.0
97 97 2 (2) IV (2) t359 (1) 0 2,756,222.0 27.0 401,302.0 2570.0 2635.5
121 121 12 (0) n.a. t3274 (1); t314 (1); t2530 (1) 9 2,814,764.5 48.0 146,041.3 2631.3 2694.3
152 152 3 (2) V (2) t355 (1) 2 2,753,826.7 31.0 267,208.7 2551.0 2608.0
395 395 1 (0) n.a. n.a. 0 2,759,659.0 22.0 574,657.0 2574.0 2640.0
398 398 2 (1) V (1) t011 (1) 0 27,540,120.0 57.5 20,645,930 2524.0 2589.5
942 942 1 (0) n.a. n.a. 0 2,813,978.0 82.0 61,174.0 2654.0 2718.0
n.a. 3 (1) IV (1) n.a. 0 2,739,763.7 46.0 157,754.0 2535.0 2599.3
  1. The combination of the four methods (MLST, SCCmec-, and spa-typing, and PVL presence) yielded 80 different lineages. Three isolates were not assigned to any specific ST and are reported in the last row of the table