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

Table 2 Common bean genotypes of the BeanCAP panel, from Middle American 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
Black	A-55	R	NA	+	A	A
	Black Magic	R	AA	+	A	A
	Blackhawk	R	AA	+	A	A
	Eclipse	R	AA	+	A	A
	Jaguar	R	AA	+	A	A
	Phantom	R	NA	+	A	A
	Raven	NR	AA	+	A	A
	UI-906	R	AA	+	A	A
	Zorro	R	AA	+	A	A
Black mottle	Orca	R	AA	+	A	A
Great Northern	ABC-Weihing	R	AA	-	A	A
	Beryl R	R	AA	+	A	A
	GN9-4	R	AA	+	A	A
	JM-24	R	AA	+	A	A
	Matterhorn	R	AA	+	A	A
	Orion	R	AA	+	A	A
Navy	Avalanche	R	AA	+	A	A
	Avanti	R	AA	+	A	A
	Huron	R	NA	+	A	A
	Newport	R	AA	+	A	A
	Seahawk	R	AA	+	A	A
Pink	USWA-61	R	AA	+	A	A
Pinto	Baja	R	AA	+	A	A
	Buster	R	AA	-	A	A
	JM-126	R	AA	+	A	A
	Kodiak	R	AA	+	A	A
	Quincy	R	AA	+	A	A
	Santa Fe	R	AA	+	A	A
	USPT-ANT-1	R	NA	-	A	A
	USPT-CBB-1	R	AA	-	A	A
	USPT-WM-1	R	AA	+	A	A
Small red	DOR 364	R	AA	-	A	A
	Rojo Chiquito	R	AA	+	A	A
Great Northern	ABCP-8	S	BB	-	G	B
	BelNeb-RR-1	S	BB	-	G	B
	BelNeb-RR-2	S	BB	-	G	B
	Chase	S	BB	-	G	B
	Emerson	S	NA	-	G	B
	GN Harris	S	BB	-	G	B
	GN#1Sel27	S	BB	-	G	B
	Sapphire	S	BB	-	G	B
	Starlight	S	BB	-	G	B
Pink	6R-42	S	BB	-	G	B
	Harold	S	BB	-	G	B
	ROG 312	S	BB	-	G	B
	Roza	S	BB	-	G	B
	Sutter Pink	S	NA	-	G	B
	UI-537	S	BB	-	G	B
	Viva	S	BB	-	G	B
	Yolano	S	BB	-	G	B
Pinto	AC Pintoba	S	BB	-	G	B
	Apache	S	BB	-	G	B
	Arapaho	S	BB	-	G	B
	Aztec	S	BB	-	G	B
	Bill Z	S	BB	-	G	B
	Burke	S	BB	-	G	B
	Common Pinto	S	BB	-	G	B
	Fiesta	S	BB	-	G	B
	Grand Mesa	S	BB	-	G	B
	Holberg	S	BB	-	G	B
	La Paz	S	BB	-	G	B
	Medicine Hat	S	BB	-	G	B
	Montrose	S	BB	-	G	B
	Nodak	S	BB	-	G	B
	NW-590	S	BB	-	G	B
	Othello	NR	BB	-	G	B
	Ouray	S	BB	-	G	B
	Pindak	S	NA	-	G	B
	Sierra	S	BB	-	G	B
	Topaz	S	BB	-	G	B
	UI-111	S	BB	-	G	B
	UI-114	S	BB	-	G	B
	UI-196	S	BB	-	G	B
Small Red	Garnet	S	BB	-	G	B
	USRM-20	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. Sutter Pink is not part of the BeanCAP panel.
^cMarker present = +; marker absent = -.
^dKASP genotype calls. A = homozygous for SNP allele A; G = homozygous for SNP allele G.
^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