Table 1.

Oligonucleotides Used in This Study

Genomic target	Oligonucleotide name	Forward (5′-3′)	Oligonucleotide name	Reverse (5′-3′)	Reference
Hantaviruses S-segment	DOBV-M6	AGYCCWGTNATGRGWGTRATTGG	DOBV-M8	GAKGCCATRATNGTRTTYCKCATRTCCTG	Essbauer et al. 2006
	PUU Fpuni	TAGTAGACTCCTTGAARAGCTRCTACGA	cPUUV1122	GCCATDATDGTTTYCTCAT	Mertens et al. 2011
	PUU M6	AGYCCWGTNATGGGDGTNATTGG	cPUUV 1910	TAGTAGTAKVCTCCTTGAAA	Essbauer et al. 2006
	DOBV Fpuni	TAGTAGTAKRCTCCCTAAARAG	cDOB_S_ FP	CACGGGAGGTCAAGCCA	This paper
	DOBV_S_957F	TCTGGGTCTTTGCAGGAGCA	cDOBV_S_1620R	AGGTAGTGTTGTTGTTTTGAGGTA	This paper
Hantaviruses M-segment	PUU B3	CARTTACARAAYCCIGCMAATGA	PUU C2	CCAACTCCTGAACCCCATGC	Asikainen et al. 2000
	DOBV_M_kroa1	Available upon request	DOBV_M_kroa2	Available upon request	Plyusnina et al. 2011
Rickettsia spp.	PanRick_2_for	ATAGGACAACCGTTTATTT	PanRick_2_rev	CAAACATCATATGCAGAAA	Wölfel et al. 2008, Schex et al. 2011
	Probe: PanRick_3_taq	FAM-CCTGATAATTCGTTAGATTTTACCG-TMR
	ompB -120-2788	AAACAATAATCAAGGTACTGT	ompB-120-3599	TACTTCCGGTTACAGCAAAGT	Roux and Raoult 2000
TBEV	F-TBE1	GGGCGGTTCTTGTTCTCC	R-TBE1	ACACATCACCTCCTTGTCAGACT	Schwaiger and Cassinotti 2003
	Probe: TBE-WT	FAM-TGAGCCACCATCACCCAGACACA-TMR
mt-Cytb	L14648	TGAATYTGAGGRGGATTCTCAGTA	H16	CWGGTTGRCCTCCRATTCAWGT	Essbauer et al. 2006
	CB_F	ATGACARTCATCCGAAARAAACAC	CB_R	TTARTCTAGGTCYAKRATGTYGTTTTC	Dekonenko et al. 2003

TBEV, tick-borne encephalitis virus; mt-Cytb, mitochondrial cytochrome b gene.