TABLE 2.

Oligonucleotide primers used in this study

ORF and primera	Sequenceb	Positionc
spr0562-0565
F-spr0562	dTTGATTGAAAGGGTTAGTATTGAC	11-34
F-PTSpro2	CTAGCTTCCTAGTTTACTCTTTG	266-288
R-PTSpro3	CAAAGAGTAAACTAGGAAGCTAG	288-266
R-spr0562	dCTATATGAAACCGTTGTCAATTAC	429-406
R-PTSpro	dCTAATACCATAAGTTTTCCCTTC	483-461
F-PTS3	dGGAATTTCTAGGAAAGGACTTGC	647-669
R-PTS2	dCGATAACTGGGATACCTGGTTC	1201-1180
F-UpBgaA	GCTACAGCAGCTATCGTTCTTG	1818-1839
R-UpBgaA	eTATTTTGCTTTTGCTGCGTACTC	2815-2793
F-bgaApro	eTGCGCTCCTATAAAATATAAACTC	2818-2840
BgaA2	CTACGATACCAAAGTAAGAGCT	5329-5308
F-DownBgaA	eGTGCAGGATTAGTAGTTACTAAAG	9767-9790
DBgaA3	GTCCTAAATAGAAGATAAAGAG	9854-9875
spr0566-0579
DBgaA4	GAACGAACGCTATCAAAACTTGAAAGC	183-157
R-DownBgaA	CAGTTCCTTCTTACCACAAGACC	762-741
spr1806-1817
F-UpCcpA1	dACATATGCTGGTCCTCTACCAG	5336-5357
R-UpCcpA2	fGAAAAAATCAGGGAATCGAGAAG	6370-6348
F-CcpAORF	gTTTACGTTTTCGTGTTGAG	6374-6392
R-CcpAORF	hATGTGTGAGATAGAAAGG	7411-7394
F-DownCcpA3	fTCTTTTACAAGTAGAGGTACTGATTG	7412-7437
R-DownCcpA4	dCATCCAACGGAAGTGCAAGTTC	8451-8433

^aPrimers are from the R6 genome. Open reading frame (ORF) designations are given for the regions containing the groups of primers. Forward and reverse primers are represented by F and R, respectively.

^bSequences are from the complete R6 genome (15).

^cNucleotide positions for primers are listed in the forward or reverse orientation, as necessary.

^dPrimer also contains an EcoRI restriction site and additional nucleotides at the 5′ end (GGAATTCC; restriction site underlined).

^ePrimer also contains a KpnI restriction site (GGTACC) at the 5′ end.

^fPrimer also contains a BglII restriction site and additional nucleotides at the 5′ end (GAAGATCT; restriction site underlined).

^gPrimer also contains an XhoI restriction site and additional nucleotides at the 5′ end (CCGCTCGAG; restriction site underlined).

^hPrimer also contains an NdeI restriction site and additional nucleotides at the 5′ end (GGAATTCCATATG; restriction site underlined).