Mapping QTLs for drought tolerance in a SEA 5 x AND 277 common bean cross with SSRs and SNP markers

Briñez, Boris; Perseguini, Juliana Morini Küpper Cardoso; Rosa, Juliana Santa; Bassi, Denis; Gonçalves, João Guilherme Ribeiro; Almeida, Caléo; Paulino, Jean Fausto de Carvalho; Blair, Matthew Ward; Chioratto, Alisson Fernando; Carbonell, Sérgio Augusto Morais; Valdisser, Paula Arielle Mendes Ribeiro; Vianello, Rosana Pereira; Benchimol-Reis, Luciana Lasry

doi:10.1590/1678-4685-GMB-2016-0222

person Boris Briñez

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Juliana Morini Küpper Cardoso Perseguini

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, BrazilschoolCiências Biológicas, Universidade Tecnológica Federal do Paraná (UTFPR), Dois Vizinhos, PR, Brazil

person Juliana Santa Rosa

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Denis Bassi

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, Brazil

person João Guilherme Ribeiro Gonçalves

schoolCentro de Grãos e Fibras, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Caléo Almeida

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Jean Fausto de Carvalho Paulino

schoolDepartamento de Agronomia, Universidade Estadual de Maringá (UEM), Maringá, PR, Brazil

person Matthew Ward Blair

schoolDepartment of Agriculture and Natural Sciences, Tennessee State University, Nashville, TN, USA

person Alisson Fernando Chioratto

schoolCentro de Grãos e Fibras, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Sérgio Augusto Morais Carbonell

schoolCentro de Grãos e Fibras, Instituto Agronômico (IAC), Campinas, SP, Brazil

person Paula Arielle Mendes Ribeiro Valdisser

schoolDepartment of Agriculture and Natural Sciences, Tennessee State University, Nashville, TN, USA

person Rosana Pereira Vianello

schoolBean Program, Centro Nacional de Pesquisas Arroz e Feijão, Goiânia, GO, Brazil

person Luciana Lasry Benchimol-Reis

schoolCentro de Recursos Genéticos Vegetais, Instituto Agronômico (IAC), Campinas, SP, Brazil

Send correspondence to Juliana Morini Küpper Cardoso Perseguini. Ciências Biológicas, Universidade Tecnológica Federal do Paraná (UTFPR), 85660-000, PR, Dois Vizinhos, Brazil. E-mail:
julianam@utfpr.edu.br

Linkage group (Pv)	SSR	SNP	No. of linkage loci	Linkage length (cM)	Average distance (cM)
1	10	26	36	221.2	6.1
2	11	21	32	161.4	5
3	10	30	40	159.4	3.9
4	5	18	23	128.4	5.5
5	5	22	27	147.2	5.4
6	8	19	27	148.3	5.4
7	8	22	30	179.6	5.9
8	7	22	29	86.7	2.9
9	7	17	24	112.4	4.6
10	5	23	28	63.1	2.2
11	4	31	35	107.5	3
Total	80	251	331	1515.2	4.5

Trait	Irrigated					Non-irrigated
	Parents		Diff	Mean RILs	h²_g	Parents		Diff	Mean RILs	h²_g
	SEA 5	AND 277	Diff	Mean RILs	h²_g	SEA 5	AND 277	Diff	Mean RILs	h²_g
Chlorophyll	42.46	43	ns	41.69^*	0.54	23.85	26.96	ns	26.81^*	0.71
Leaf area	2098.7	2315.3	ns	1402.59^*	0.75	390.25	149	^*	303.96^*	0.87
Fresh leaf biomass	32.83	37.5	ns	26.59^*	0.93	4.75	1.83	^*	3.17 ns	0.21
Stem biomass fresh	23.83	24.66	ns	17.07^*	0.89	5.87	4.16	ns	4.92^*	0.56
Dry leaf biomass	4	6.83	^*	3.47^*	0.64	1.87	1	^*	1.01 ns	0.12
Dry stem biomass	3.33	4.33	ns	2.04^*	0.36	1.25	1.5	ns	1.18^*	0.39
Leaf temperature	23	30.33	^*	28.25^*	0.61	33.33	35.5	^*	34.63^*	0.44
Days to flowering	31	37.75	^*	36.77^*	0.92	38	36	^*	36.37^*	0.94
Number of pods	13	5.25	^*	10.56^*	0.49	13	5	^*	14.53^*	0.53
Number of seeds/pod	4.23	2.32	^*	2.8^*	0.64	4.5	2.7	^*	2.75^*	0.73
Yield (g/plant)	9.46	4.6	^*	6.67^*	0.9	11.99	3.52	^*	7.74^*	0.95
Number of seeds	53.33	12.25	^*	27.79^*	0.35	48	10.5	^*	37.65^*	0.46
Seed weight (g/100 seeds)	21.88	38.68	^*	22.02^*	0.84	23.18	12.47	^*	23.89^*	0.73
Pod weight	4.14	1.14	^*	2.28^*	0.28	4.33	2.12	^*	3.87^*	0.68

Trait	QTL	Treatment	Pv	Marker interval	Marker	LOD score	LOD threshold	Additive effect	R² (%)
Chlorophyll	C1.1^AS	Irrigated	1	114.7-140.7	BAR3651	9.8	3.8	0.36	32.88
Chlorophyll	C1.2^AS	Irrigated	1	96.83-111.08	BAR3454	3.5	3.8	-0.21	11.23
Chlorophyll	C6.1^AS	Drought	6	95.54-140.45	BAR5885	10.8	3.1	-3.87	32.12
Chlorophyll	C11.1^AS	Drought	11	56.23-78.68	BAR3594	4.3	3.1	2.14	11.42
Fresh leaf biomass	LBF7.1^AS	Irrigated	7	65.3-101.92	BAR3122	4.1	3.1	0.13	13.66
Fresh stem biomass	SBF1.1^AS	Irrigated	1	81.43-102.44	IAC11	3.3	3	0.07	10.26
Fresh stem biomass	SBF7.1^AS	Irrigated	7	65.3-105.92	BAR4417	3.8	3	0.08	13.2
Fresh stem biomass	SBF3.1^AS	Drought	3	72.55-98.25	BM159	4.1	2.9	-0.11	18.26
Dry leaf biomass	LBD7.1^AS	Irrigated	7	71.3-103.92	BAR4417	3	3	0.04	11.29
Leaf temperature	LT4.1^AS	Irrigated	4	11.41-42.23	BAR4881	3.4	3	0.61	12.38
Leaf temperature	LT7.1^AS	Drought	7	140.9-171.98	BAR2897	3	3	0.57	14
Number of pods	NP7.1^AS	Irrigated	7	73.3-102.92	BAR3682	3.2	3.2	-0.06	12.63
Number of seeds	NS6.1^AS	Irrigated	6	77.71-102.54	PVM21	3.3	3.1	-0.38	12.87
Number of seeds	NS7.1^AS	Drought	7	29-54.34	BAR3045	4.1	2.9	-0.52	15.51
Number of seeds	NS8.1^AS	Drought	8	39.86-63.42	BAR4250	4.1	2.9	-0.04	0.09
Seed weight (g/100 seeds)	SW5.1^AS	Irrigated	5	42.67-116.38	BAR4677	3.9	3	-0.29	14.41
Seed weight (g/100 seeds)	SW1.1^AS	Drought	1	54.88-76.87	BAR3474	4.4	3	-0.12	17.32
Days to flowering	DF1.1^AS	Irrigated	1	117.7-140.76	BAR4823	3.2	3.1	-0.01	10.8
Days to flowering	DF3.1^AS	Irrigated	3	74.55-159.28	BAR3097	5.1	3.1	-0.02	14.37
Dry weight pod	PWD11.1^AS	Drought	11	56.23-77.52	BAR3100	3.5	3.1	-0.15	14.19
Yield (g/plant)	YLD1.1^AS	Irrigated	1	81.43-98.87	BAR3084	3.2	3.1	0.19	10.08
Yield (g/plant)	YLD11.1^AS	Irrigated	11	50.03-75.83	BAR4938	3.5	3.1	-0.19	11.86

Trait	Linkage group (Pv)	Interval (cM)	Marker (distance to the peak)	R² (%)	Additive effect
Chlorophyll	6	95.54–140.45	BAR5885 (0 cM)	32.1	-3.87
Chlorophyll	11	56.23–78.68	BAR3594 (0 cM)	11.4	2.14
Fresh stem biomass	3	72.55–98.25	BM 159 (2 cM)	18.3	-0.11
Leaf temperature	7	140.9–171.98	BAR2897 (6 cM)	14	0.57
Number of seeds	7	29–54.34	BAR3045 (3 cM)	15.5	-0.52
Number of seeds	8	39.86–63.42	BAR4250 (8 cM)	0.09	-0.04
Seed weight (g/100 seeds)	1	54.88–76.87	BAR3474 (0 cM)	17.3	-0.12
Dry weight pod	11	56.23–77.52	BAR3100 (0 cM)	14.2	-0.15

[TFN1] cM – CentiMorgan, SNP – single nucleotide polymorphism, SSR – simple sequence repeat.