Molecular Epidemiological Survey of Prophages in MRSA Isolates in Taiwan

Figures & data

Table 1 Primers Used in This Study

Name		Sequence	Reference
sasX	sasX-pp-F	AAGTCCATTCCTATTTCTCC	[^Citation13]
	sasX-sa-R	CTATCCCCGTTATAACAACC
	sasX-F	AGAATTAGAAGTACGTCTAAATGC
	sasX-R	GCTGATTATGTAAATGACTCAAATG
Sa1int	Sa1-F	AAGCTAAGTTC GGGCACA	[^Citation11]
	Sa1-R	GTAATGTTTGGGAGCCAT
Sa2int	Sa2-F	TCAAGTAACCCGTCAACTC
	Sa2-R	ATGTCTAAATG TGTGCGTG
Sa3int	Sa3-F	GAAAAACAAACGGTGC TAT
	Sa3-R	TTATTGACTCTACAGGCTGA
Sa4int	Sa4-F	ATTGATATTAACGGAACTC
	Sa4-R	TAAACTTATATG CGTGTGT
Sa5int	Sa5-F	AAAGATGCCAAACTA GCTG
	Sa5-R	CTTGTGGTTTTGTTCTGG
Sa6int	Sa6-F	GCCATCAATTCAAGGATAG
	Sa6-R	TCTGCAGCTGAGGAC AAT
Sa7int	Sa7-F	GTCCGGTAGCTAGAGGTC
	Sa7-R	GGCGTATGCTTGACTGTGT

Table 2 Number and Percentage of MRSA Isolates of Various SCCmec Types from 2006 to 2014

Year		2006	2007	2008	2009	2010	2014
SCCmec	II	57 (41.0%)	81 (42.8%)	62 (42.4%)	54 (42.1%)	50 (14.4%)	33 (13.6%)
	III	62 (44.6%)	72 (38.1%)	53 (36.3%)	40 (31.2%)	141 (40.6%)	80 (33%)
	IV	13 (8.6%)	26 (13.7%)	23 (15.0%)	21 (16.4%)	78 (22.5%)	65 (26.7%)
	V or Vt	7 (5.0%)	10 (5.4%)	9 (6.1%)	9 (7.0%)	53 (15.3%)	54 (22.2%)*
	Others^#	–	–	–	–	25 (7.2%)	11 (4.5%)
	Total	139	189	146	128	347	243

Notes: ^#mecA or unknown type. –none selected. *Significant difference between 2010 and 2014 (p < 0.05).

Table 3 The Prevalence of MRSA Isolates of Various SCCmec Types with the sasX Gene from 2006 to 2010

Year		Number of sasX Positive Isolates/Total Number of Isolates
		2006	2007	2008	2009	2010
SCCmec	II	9/24 (37.5%)	0/20	3/23 (13%)	1/22 (4.5%)	0/20
	III	12/12 (100%)	21/22 (95.5%)	8/8 (100%)	17/18 (94.4%)	45/46 (97.8%)
	IV	0/7	0/8	0/16	0/9	0/15
	V	0/6	0/2	0/5	0/7	0/13
	Total	49	52	52	56	94

Table 4 Percentage of Various Types of SCCmec Isolates Harboring Prophages in 2010 and 2014

SCCmec	Year (No.)	Integrase Type [% (No.)]
		Sa1	Sa2	Sa3	Sa4	Sa5	Sa6	Sa7
II	2010 (50)*	30% (15)	82% (41)	70% (35)	0	0	4% (2)	46% (23)
	2014 (33)	24.2% (8)	93.9% (31)	75.8% (25)			9.1% (3)	54.5% (18)
III	2010 (141)	1.4% (2)	9.3% (13)	93.6% (131)	0	0	88.6% (124)	54.3% (76)
	2014 (80)	0	18.8% (15)	88.8% (71)			86.3% (69)	63.8% (51)
IV	2010 (78)	19.2% (15)	15.4% (12)	74.4% (58)	0	27% (21)	15.4% (12)	2.6% (2)
	2014 (65)	23.1% (15)	24.6% (16)	75.4% (49)		18.5% (12)	24.6% (16)	1.5% (1)
V or Vt	2010 (53)	30.2% (16)	51% (27)	34% (18)	0	3.8% (2)	1.9% (1)	5.7% (3)
	2014 (54)	16.7% (9)	59.3% (32)	29.6% (16)		1.9% (1)	5.6% (3)	9.3% (5)

Note: *Number of isolates.

Table 5 Prophage Types in Different SCCmec Isolates in 2010 and 2014

SCCmec	II		III		IV		V or Vt
Year	2010	2014	2010	2014	2010	2014	2010	2014
Prophage Type	Number of Isolates Containing Prophage
No prophage	0	0	0	0	4	1	3	5
Sa1 only	0	0	0	0	6	2	4	2
Sa1-Sa2	3	0	0	0	0	1	5	5
Sa1-Sa2-Sa3	7	5	0	0	0	0	0	0
Sa1-Sa2-Sa3-Sa7	0	1	0	0	0	0	0	0
Sa1-Sa2-Sa7	1	2	0	0	0	0	0	0
Sa1-Sa3	2	0	1	0	7	8	6	2
Sa1-Sa3-Sa5	0	0	0	0	1	1	0	0
Sa1-Sa3-Sa5-Sa6	0	0	0	0	0	1	1	0
Sa1-Sa3-Sa6	0	0	0	0	0	2	0	0
Sa1-Sa3-Sa7	0	0	0	0	1	0	0	0
Sa1-Sa6-Sa7	0	0	1	0	0	0	0	0
Sa1-Sa7	1	0	0	0	0	0	0	0
Sa2 only	5	1	0	0	5	0	21	24
Sa2-Sa3	4	6	0	1	1	11*	0	1
Sa2-Sa3-Sa5	0	0	0	0	3	2	0	0
Sa2-Sa3-Sa5-Sa6	0	0	0	0	0	0	0	0
Sa2-Sa3-Sa6	1	1	1	1	0	0	0	0
Sa2-Sa3-Sa6-Sa7	0	1	7	9	0	0	0	0
Sa2-Sa3-Sa7	15	9	5	3	0	0	0	0
Sa2-Sa5	0	0	0	0	0	0	1	1
Sa2-Sa5-Sa6	0	0	0	0	1	0	0	0
Sa2-Sa6	0	0	0	1	2	2	0	0
Sa2-Sa6-Sa7	0	0	0	0	0	0	0	1
Sa2-Sa7	5	5	0	0	0	0	0	0
Sa3 only	4	1	0	2	25	16	9	8
Sa3-Sa5	0	0	0	0	13	7	0	0
Sa3-Sa5-Sa6	0	0	0	0	2	0	0	0
Sa3-Sa6	0	1	56	22	5	1	0	1
Sa3-Sa6-Sa7	0	0	51	25	0	0	0	1
Sa3-Sa7	1	0	11	8	0	0	2	3
Sa5 only	0	0	0	0	0	0	0	0
Sa6 only	1	0	7	5	1	9	0	0
Sa6-Sa7	0	0	1	3	0	1	0	0
Sa7 only	0	0	0	0	1	0	1	0
Total	50	33	141	80	78	65	53	54

Notes: *Significant difference (p<0.05). Bolded data indicates the T-test value is 0.002, which is compared with Sa2-Sa3 of SCCmec IV between 2010 and 2014.

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