Application of in silico bulked segregant analysis for rapid development of markers linked to Bean common mosaic virusresistance in common bean

Table 3 Common bean genotypes of the BeanCAP panel, from Andean origin, screened for BCMV resistance in the greenhouse and for markers linked to the I gene for resistance to BCMV

Type	Genotype	Disease reaction^a	Genotype allele call for SNP BeadChip^b	SW13^c	KASP^d	CAPS^e
Cranberry	Capri	R	AA	+	A	A
	Cardinal	R	AA	+	A	A
	Dolly	R	AA	+	A	A
	Etna	R	AA	+	A	A
	Krimson	R	AA	+	A	A
	UI-51	R	AA	+	A	A
Dark Red Kidney	Fiero	R	AA	+	?	A
	Isles	R	AA	+	A	A
	Majesty	R	AA	+	A/G	A
	Montcalm	R	AA	+	A	A
	Red Hawk	R	AA	+	A	A
	Royal Red	R	AA	+	A	A
	USDK-CBB-15	R	AA	+	A	A
Light Red Kidney	Badillo	R	AA	+	A	A
	Blush	R	AA	+	A	A
	CELRK	R	AA	+	A	A
	Chinook 2000	R	AA	+	A	A
	Drake	R	AA	+	A	A
	K-42	R	AA	+	A	A
	Cardinal	R	AA	+	A	A
	Pink Panther	R	AA	+	A	A
	Red Kanner	R	AA	+	A	A
	Red Kloud	R	AA	+	A	A
White kidney	Beluga	R	AA	+	A	A
	Silver Cloud	R	AA	+	A	A
	USWK-CBB-17	R	AA	+	A	A
Cranberry	Cran-09	S	BB	-	G	B
	G122	S	BB	-	G	B
	G19833	S	NA	-	G	B
	Red Rider	S	BB	-	G	B
	Taylor Hort	S	BB	-	G	B
Dark Red Kidney	CDRK	S	BB	-	G	B
	Charlevoix	S	BB	-	G	B
Light Red Kidney	Sacramento	S	BB	+	G	B
	UC Red Kidney	S	BB	-	G	B
Pink cranberry	Ind. Jamaica Red	S	BB	-	G	B
Purple speckled	Jesca	S	NA	-	G	B
	KIJIVU	S	NA	-	G	B
Red	CANADA	S	NA	-	G	B
Red mottle	CAL-143	S	BB	-	G	B
	ICA Quimbaya	S	BB	-	G	B
	Pompadour B	S	BB	-	G	B
	ROZI KOKO	S	NA	-	G	B
White Kidney	Lassen	S	BB	-	G	B
Yellow	BUKOBA	S	NA	-	G	B
	Jalo EEP558	S	BB	-	G	B
	Myasi	S	BB	-	G	B

^aR = Resistance (symptoms include systemic necrosis, mainly; and vein necrosis and local lesions, if I gene was protected by bc recessive genes); S = Susceptibility (systemic mosaic, or mild mosaic in the presence of bc-1² gene). NR = no disease reaction to the NL-3 strain of BCMNV due to the interaction of I allele and bc-3 gene (R) or bc-2² gene alone (S).
^bAutomated genotype calls obtained from data of BARCBEAN6K_3 SNP BeadChip. NA = genotype not available. G19833 (used as reference for whole-genome sequence of common bean) is not part of the BeanCAP panel. In addition, African lines: Jesca, KIJIVU, CANADA, ROZI KOKO, and BUKOBA, belong to the Andean Diversity Panel of common bean.
^cMarker present = +; marker absent = -.
^dKASP genotype calls. A = homozygous for SNP allele A; G = homozygous for SNP allele G; ? = failed genotyping reaction. A/G = heterozygous.
^eThe CAPS marker yields two alleles. The resistant allele has two bands (201 and 110 bp), whereas the susceptible allele has a single band (311 bp). A = homozygous for resistant allele II; B = homozygous for susceptible allele ii.

ISSN: 1471-2164