Development of Quantitative Real-Time PCR Assays for Rapid and Sensitive Detection of Two Badnavirus Species in Sugarcane

Table 2

Specificity tests of real-time quantitative PCR (qPCR) assays of Sugarcane bacilliform MO virus (SCBMOV) and Sugarcane bacilliform IM virus (SCBIMV) with the plasmids of other published sugarcane bacilliform virus (SCBV) genotypes/phylogroups.

Isolate	Genotype	GenBank acc. no.	SCBIMV-qPCR	SCBMOV-qPCR
SCBGAV-R570	SCBV-A	FJ824813	- (nd)	- (nd)
SCBGDV-Batavia	SCBV-D	FJ824817	- (nd)	- (nd)
SCBV-Iscam	SCBV-E	JN377534	- (nd)	+ (34.8)
SCBMOV-MOR	SCBV-E	NC_008017	- (nd)	+ (22.1)
SCBIMV-QLD	SCBV-F	NC_003031	+ (23.0)	- (nd)
SCBV-CHN2	SCBV-G	KM214358	- (nd)	- (nd)
SCBV-CHN1	SCBV-H	KM214357	- (nd)	- (36.8)
SCBV-BB	SCBV-H	JN377535	- (nd)	- (nd)
SCBV-BRU	SCBV-I	JN377537	- (nd)	- (nd)
SCBV-BO91	SCBV-J	JN377533	- (nd)	- (nd)
SCBV-BT	SCBV-K	JN377536	- (nd)	+ (33.6)

Positive result (+) if Ct ≤ 35, and negative result (−) if Ct > 35; Ct value or data not determined (nd) shown in brackets.