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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