Repertoire of novel sequence signatures for the detection of Candidatus Liberibacter asiaticus by quantitative real-time PCR

Kogenaru, Sunitha; Yan, Qing; Riera, Nadia; Roper, M Caroline; Deng, Xiaoling; Ebert, Timothy A; Rogers, Michael; Irey, Michael E; Pietersen, Gerhard; Rush, Charles M; Wang, Nian

doi:10.1186/1471-2180-14-39

Table 1 Specificity and sensitivity of the novel primers in the detection of Las as shown by qRT-PCR assay

From: Repertoire of novel sequence signatures for the detection of Candidatus Liberibacter asiaticus by quantitative real-time PCR

Primer pairs	Target gene	Las			C_Tvalue of the qRT-PCR^#
		Las			Negative control				Other controls
		C_Tvalue	R ²value^†	Slope^†	Laf	Lam	Healthy plant tissue	Water	C1	C2	C3	C4	C5	C6
P1	CLIBASIA_05555	20.54	0.9944	-0.2883	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P2	CLIBASIA_04315	19.99	0.9867	-0.2849	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P3	CLIBASIA_05575	20.15	0.9991	-0.2847	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P4	CLIBASIA_05465	19.52	0.9618	-0.2897	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P5	CLIBASIA_01460	19.48	0.9995	-0.2969	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P6	CLIBASIA_05145	22.29	0.9971	-0.3057	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P7	CLIBASIA_05545	20.11	0.9972	-0.3407	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P8	CLIBASIA_05560	19.92	0.9982	-0.3132	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P9	CLIBASIA_02025	20.12	0.9875	-0.2743	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P10	CLIBASIA_05605	20.18	0.9945	-0.2781	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P11	CLIBASIA_03090	23.61	0.9997	-0.2867	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P12	CLIBASIA_03875	27.47	0.9992	-0.2563	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P13	CLIBASIA_02305	UD	NT	NT	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P14	CLIBASIA_05495	21.25	0.9974	-0.2594	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P15	CLIBASIA_02660	UD	NT	NT	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P16	CLIBASIA_02715	20.26	0.9411	-0.3480	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P17	CLIBASIA_03110	20.11	0.9994	-0.2786	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P18	CLIBASIA_03675	20.02	0.9967	-0.2780	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P19	CLIBASIA_03725	19.91	NT	NT	35.29	UD	UD	UD	UD	UD	UD	UD	UD	UD
P20	CLIBASIA_03955	21.08	NT	NT	UD	UD	UD	UD	37.41	UD	UD	UD	UD	UD
P21	CLIBASIA_04030	20.30	NT	NT	UD	UD	UD	UD	32.93	UD	UD	UD	UD	UD
P22	CLIBASIA_04150	24.00	NT	NT	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P23	CLIBASIA_04310	20.76	0.991	-0.2976	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P24	CLIBASIA_04330	20.85	0.9986	-0.2635	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P25	CLIBASIA_04405	21.60	0.9987	-0.3051	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P26	CLIBASIA_04425	20.41	0.9994	-0.3032	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P27	CLIBASIA_02645	21.77	NT	NT	38.61	UD	UD	UD	UD	UD	UD	UD	UD	UD
P28	CLIBASIA_04515	22.00	NT	NT	38.63	UD	UD	UD	UD	UD	UD	UD	UD	UD
P29	CLIBASIA_04530	19.00	0.9919	-0.2852	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P30	CLIBASIA_04550	22.48	0.9938	-0.2708	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P31	CLIBASIA_05230	21.68	0.9941	-0.2771	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P32	CLIBASIA_05480	21.48	0.988	-0.2776	UD	UD	UD	UD	UD	UD	UD	UD	UD	UD
P33	CLIBASIA_04475	20.84	0.9913	-0.2644	UD	UD	UD	UD	NT	UD	UD	UD	UD	UD
P34	CLIBASIA_05505	22.70	0.9893	-0.2791	UD	UD	UD	UD	NT	UD	UD	UD	UD	UD
CQULA04F/R	β-operon	22.11	NT	NT	UD	UD	UD	UD	NT	NT	NT	NT	NT	NT
LJ900f/r	Prophage	22.25	NT	NT	UD	UD	UD	UD	NT	NT	NT	NT	NT	NT
HLBas/r	16Sas	24.33	0.9998	-0.3057	NT	NT	UD	UD	NT	NT	NT	NT	NT	NT
HLBam/r	16Sam	NT	NT	NT	NT	24.68	UD	UD	NT	NT	NT	NT	NT	NT
HLBaf/r	16Saf	NT	NT	NT	21.28	NT	UD	UD	NT	NT	NT	NT	NT	NT
COXf/r	Cox	14.80	NT	NT	15.21	18.54	16.15	UD	NT	NT	NT	NT	NT	NT

^†Las-infected psyllids total DNA was serially diluted spanning up to five logs and used as a template in the qRT-PCR assay. R² and slope were further calculated from a plot of C_T values versus log dilution factor. ^#qRT-PCR was conducted by using template DNA samples of Las, Laf, Lam, C1: Colletotrichum acutatum KLA-207, C2: Elsinoe fawcettii, C3: Xanthomonas axonopodis pv. citrumelo 1381, C4: Xanthomonas citri subsp. citri A^w, C5: Xanthomonas citri subsp. citri A^*, C6: Xanthomonas citri subsp. citri 306. The C_T values are average of three replicates for each primer pair. UD: undetected; NT: Not tested.

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ISSN: 1471-2180

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