Molecular Analysis of Human Metapneumovirus Detected in Patients with Lower Respiratory Tract Infection in Upper Egypt

Table 2

HMPV oligonucleotide primers and probes.

Name	Oligonucleotide sequence (5′-3′)	Position^a	Gene	Polarity	Reference
Real-time PCR
HMPV F S	gCTCCgTAATYTACATggTgCA	794–815	F	+	[36]
HMPV F S1	gAAgCTCYgTgATTTACATggTYCA	791–815	F	+	[36]
HMPV F AS	gACCCTgCARTCTgACAATACCA	924–947	F	−	[36]
HMPV F AS1	AgTKgATCCTgCATTTTTACAATACCA	924–951	F	−	[36]
HMPV F TMGB	F-CCYTgCTggATAgTAAAA-MGB	844–861	F	+	[36]
HMPV F TMGB1	F-CCTTgTTggATAATCAA-MGB	844–860	F	+	[36]
Conventional PCR and sequencing
External PCR
HMPV-3637-F	gTYAgCTTCAgTCAATTCAACAgAAg	571–596	F	+	[31]
HMPV-4192-R1	CAgTgCAACCATACTgATRggATg	1101–1125	F	−	[36]
HMPV-4192-R2	TAgTgCAACCATACTgATRgggTg	1101–1125	F	−	[36]
Seminested PCR
HMPV-3637-F	gTYAgCTTCAgTCAATTCAACAgAAg	571–596	F	+	[31]
HMPV-4164-R	CCTgTgCTRACTTTgCATggg	1077–1097	F	−	[36]

aNucleotide positions are given according to the gene positions in HMPV isolate NL/1/94 (GenBank accession number AY304362). The base “G” is given in lower letters to avoid confusion with “C.” Abbreviations: F: 6′-carboxyfluorescein (FAM); MGB: minor groove binder; nucleic acid codes: Y: C/T, R: A/G, and K: T/G.