Association mapping for common bacterial blight in carioca beans

Barbosa, Caio Cesar Ferrari; Paulino, Jean Fausto Carvalho; Almeida, Caléo Panhoca; Carbonell, Sérgio Augusto Morais; Chiorato, Alisson Fernando; Benchimol-Reis, Luciana Lasry

doi:10.1590/1984-70332022v22n3a32

Caio Cesar Ferrari Barbosa

Instituto Agronômico, Centro de Pesquisa em Recursos Genéticos Vegetais, Avenida Theodureto de Almeida Camargo, 1500, 13075-630, Jardim Nossa Senhora Auxiliadora, Campinas, SP, Brazil.

Jean Fausto Carvalho Paulino

Instituto Agronômico, Centro de Pesquisa em Recursos Genéticos Vegetais, Avenida Theodureto de Almeida Camargo, 1500, 13075-630, Jardim Nossa Senhora Auxiliadora, Campinas, SP, Brazil.

Caléo Panhoca Almeida

Instituto Agronômico, Centro de Pesquisa em Recursos Genéticos Vegetais, Avenida Theodureto de Almeida Camargo, 1500, 13075-630, Jardim Nossa Senhora Auxiliadora, Campinas, SP, Brazil.

Sérgio Augusto Morais Carbonell

Instituto Agronômico, Centro de Grãos e Fibras, Avenida Barão de Itapura, 1481, 13075-630, Botafogo, Campinas, SP, Brazil

Alisson Fernando Chiorato

Instituto Agronômico, Centro de Grãos e Fibras, Avenida Barão de Itapura, 1481, 13075-630, Botafogo, Campinas, SP, Brazil

Luciana Lasry Benchimol-Reis ^** E-mail: luciana.reis@sp.gov.br

Instituto Agronômico, Centro de Pesquisa em Recursos Genéticos Vegetais, Avenida Theodureto de Almeida Camargo, 1500, 13075-630, Jardim Nossa Senhora Auxiliadora, Campinas, SP, Brazil.

http://orcid.org/0000-0003-1008-5936

^* E-mail: luciana.reis@sp.gov.br

Figures (4)
Tables (3)

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Figure 1
Diagrammatic severity scale (percentage of diseased leaf area, Rava 1984Rava CA1984 Patogenicidade de isolados de Xanthomonas campestres pv. phaseoli. Pesquisa Agropecuária Brasileira 19:445-448) for CBB: Score 1: Green leaves and no symptoms; score 2: Slight yellowing in the cuts of the leaf; score 3: Yellowing extending slightly even between the cuts of the leaf; score 4: Necrosis in the cuts and strong yellowing between the cuts; score 5: Same aspect as 4, but with yellowing above and below the cuts; score 6: Totally damaged leaf.

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Figure 2
Histogram with (A) original CDP severity average scores and (B) normalized distribution of phenotypical CDP severity scores. Due to the non-normality of the data, the transformation was performed using the BoxCox test, with a lambda (λ) = 0.16.

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Figure 3
BoxPlot for the scores obtained for each block (1, 2 and 3) for the phenotypical severity evaluation of CBB resistance on the 149 carioca genotypes from the CDP panel.

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Figure 4
A) Manhattan plot for 1,616 SNPs using the carioca diversity panel (CDP) for Xanthomonas axonopodis pv. phaseoli resistance and B) Q-Q Plot generated by the Blink model. The green lines correspond to the cut-off lines obtained by bootstrapping and by the Bonferroni method (α =0.05 and 0.01).

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Table 1
Pathogenicity test with 18 genotypes and three isolates of common bacterial blight: XAP 19, XAP 96, XAFF 205. Reactions were divided in resistant plants (R) scored as 1; moderately resistant (MR) plants with scores between 1.1 and 3; and susceptible (S) plants, with scores between 3.1 and 6

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Table 2
Two-way ANOVA for the CBB phenotypical severity data referred to the 149 beans from the carioca diversity panel (CDP)

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Table 3
Gene annotation in a 100 kb window for the significative SNP (ss715650404) mapped for Xanthomonas axonopodis pv. phaseoli (Xap19) evaluation on the CDP of 149 genotypes of common beans

Genotypes	XAP 19	Reaction	XAP 96	Reaction	XFF 205	Reaction
1- IAC Polaco	6	S	4	S	1	R
2-Xan 112	3	MR	3	MR	2	MR
3-IPR Tangara	3	MR	3	MR	2	MR
4-IPR Camp Gerais	3	MR	-	-	1	R
5-IAC Sintonia	4	MR	1	R	1	R
6-ANFC9	4	MR	2	MR	1	R
7-Dama	2	MR	-	-	2	MR
8-IAC Netuno	4	MR	4	MR	2	MR
9- IAC Veloz	5	S	1	R	2	MR
10-IAC 1850	3	MR	1	R	2	MR
11-IAC-97.2	4	S	1	R	1	R
12-IPR Tuiuiu	6	S	4	S	4	S
13-BRS Estilo	4	MR	3	MR	2	MR
14-IAC Imperador	6	S	5	S	1	R
15-IAC Nuance	6	S	4	S	4	S
16-IAC Tigre	6	S	5	S	4	S
17-IAC Harmonia	6	S	5	S	5	S
18-IAC Formoso	6	S	5	S	5	S

Source	df	SS	MS	Fc	Pr>Fc
Treatment	148	1.46	0.01	11.05	0.00
Block	2	0.00	0.00	3.42	0.03
Residuals	296	0.26	0.00
Total	446	1.73
Accuracy	0.95
CV (%)	2.4

Chromosome	Position	Gene	Annotation
Pv07	4575766	Phvul.007G055200.1	Major facilitator superfamily protein
Pv07	4591318	Phvul.007G055300.1
Pv07	4592079	Phvul.007G055400.1
Pv07	4604591	Phvul.007G055450.1
Pv07	4622621	Phvul.007G055500.1	Major facilitator superfamily protein
Pv07	4632884	Phvul.007G055600.1	PLAT/LH2 domain-containing lipoxygenase family protein
Pv07	4645045	Phvul.007G055700.1	allene oxide synthase
Pv07	4657073	Phvul.007G055800.1	PLAT/LH2 domain-containing lipoxygenase family protein
Pv07	4666083	Phvul.007G055900.1	photosystem I subunit D-2
Pv07	4670048	Phvul.007G056000.1	Haloacid dehalogenase-like hydrolase (HAD) superfamily protein
Pv07	4712605	Phvul.007G056100.1	S-adenosyl-L-methionine-dependent methyltransferases superfamily protein
Pv07	4726726	Phvul.007G056200.1	Copper amine oxidase family protein
Pv07	4738182	Phvul.007G056300.1
Pv07	4742025	Phvul.007G056400.2	Copper amine oxidase family protein
Pv07	4752337	Phvul.007G056500.1	Copper amine oxidase family protein
Pv07	4757237	Phvul.007G056600.1	amine oxidase 1
Pv07	4765815	Phvul.007G056700.1	Sec14p-like phosphatidylinositol transfer family protein

[1] ^* E-mail: luciana.reis@sp.gov.br

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Association mapping for common bacterial blight in carioca beans

Abstract