水稻CSSL-Z481代换片段携带的穗部性状QTL分析及次级代换系培育

doi:10.3864/j.issn.0578-1752.2023.07.003

Abstract

Abstract:

【Background】 Food safety is key for ensuring national security. Rice is the staple food crop upon which people life depend. It is an important breeding target to improve its yield. Rice yield is composed of panicle number per plant, grain number per panicle and grain weight, among which grain weight relates closely to grain size and filling degree. However, these traits are controlled by multiple genes, and their genetic basis are complex. Chromosome segment substitution lines (CSSLs) can accurately dissect QTL for complex trait into a single Mendel’s factor, which is closely linked with the breeding work, so they are ideal materials for genetic research and breeding. 【Objective】 In the early stage, we fine-mapped a seed shattering gene SH6 using a rice chromosome segment substitution line Z481 carrying four substitution segments, However, there are still some significant differences in the panicle traits between Z481 and its recipient parent Nipponbare. It is important to understand how to distribute for these QTLs controlling panicle traits on 4 substitution segments of Z481 and then to dissect them into single segment substitution lines (SSSLs) for map-cloning of target QTL in theory meaning and for rice breeding by design in application value.【Method】 Here, the secondary F₂population constructed by crossing Nipponbare with Z481 was used to map QTL for these traits by mixed linear model (MLM) method in SAS9.3 statictic shoftware (P<0.05), and then by MAS method to develop SSSLs and dual-segment substitution lines (DSSLs) in F₃ derived from 42 F₂ indiviuals according to their genotypes and phynotypes. Finally, the additive effect and epistasis effect of QTL were analyzed using these SSSLs and DSSLs by ONE-WAY ANOVA,TWO-WAY ANOVA, LSD and Duncan’s multiple comparasion (P<0.05) in IBM SPSS Statistics 25.0.【Result】 12 QTLs controlling rice panicle traits are mapped from the secondary F₂ population constructed by Nipponbare/Z481, and 11 single segment substitution lines (S1-S11) and 3 dual-segment substitution lines (D1-D3) with each corresponding single substitution segment are developed. Among them, 8 QTLs (qGL1, qGL3, qGL6, qG-W1, qGW3, qRLW1, qRLW3, qRLW6) can be verified by 11 SSSLs, indicating that these QTLs are genetically stable. In addition, 33 QTLs such as qGL1-2, qGL1-3, qGL3-2 etc. are only detected by 11 single segment substitution lines. Among them, 15 QTLs such as qNSB1-1 etc. might be novel QTLs identified in the study. Furthermore, the epistasis effect between non-allelic QTLs was analyzed by three DSSLs and corresponding SSSLs, the results showed that pyramid of different QTL produce various epistasis effect. For example, the pyramid of qGL3 (a=1.26) and qGL6-2(a=0.86) yield epistasis effect of -0.77, according to the genetic model of DSSL, D2 with the genetic effect of 1.35 produce longer grain length than any of two SSSLs with qGL3 or qGL6-2; the pyramid of qGWT3-2 (a=3.18) and qGWT6-2 (a=3.39) produce epistasis effect of -5.46, making the 1000-grain weight of D2 significantly smaller than that of the corresponding SSSLs due to its genetic effect of 1.11.【Conclusion】 In total 45 QTLs for rice panicle traits are deteted on the 4 substitution segments of Z481 and then further dissected into 11 secondary SSSLs. SSSL have higher efficiency for QTL detection than the F₂ population. The additive effect and epistasis effect of these QTLs detected by SSSL and DSSL are necessary for breeders to predict the phenotype of the designed genotype according to these genetic informations and then to screen favorable SSSLs to breed by design.

Key words: rice, panicle traits, QTL, chromosome segment substitution line, additive effect, epistasis effect

LI RuXiang, ZHOU Kai, WANG DaChuan, LI QiaoLong, XIANG AoNi, LI Lu, LI MiaoMiao, XIANG SiQian, LING YingHua, HE GuangHua, ZHAO FangMing. Analysis of QTLs and Breeding of Secondary Substitution Lines for Panicle Traits Based on Rice Chromosome Segment Substitution Line CSSL-Z481[J].Scientia Agricultura Sinica, 2023, 56(7): 1228-1247.

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性状 Trait	QTL	染色体 Chr.	临近连锁标记 Near liked- marker	加性效应 Additive effect	贡献率 Var. (%)	P值 P-value
二次枝梗数NSB	qNSB6	6	RM3183	2.32	10.53	0.0106
每穗实粒数GPP	qGPP6	6	RM3183	9.10	5.76	0.0482
粒长GL (mm)	qGL1	1	RM5501	0.12	10.15	0.0317
	qGL3	3	RM6266	0.20	26.67	<.0001
	qGL6	6	RM276	0.10	7.00	0.0199
粒宽GW (mm)	qGW1	1	RM5501	-0.05	9.30	0.0464
粒宽GW (mm)	qGW3	3	RM6266	-0.04	5.90	0.0375
长宽比RLW	qRLW1	1	RM5501	0.16	89.81	<.0001
	qRLW3	3	RM6266	0.11	46.66	<.0001
	qRLW6	6	RM276	0.06	11.25	0.0436
千粒重GWT (g)	qGWT3	3	RM6266	0.43	4.66	0.0403
千粒重GWT (g)	qGWT6	6	RM276	0.41	4.15	0.0430

性状 Trait	粒长GL	粒宽GW	长宽比RLW	二次枝梗数NSB	千粒重GWT	每穗实粒数GPP
粒长GL	1
粒宽GW	-0.062	1
长宽比RLW	0.751**	-0.699**	1
二次枝梗数NSB	0.114	-0.394**	0.345**	1
千粒重GWT	0.220*	0.213*	0.025	-0.128	1
实粒数GPP	0.133	-0.423**	0.380**	0.876**	-0.054	1

性状 Trait	模型Model			代换系 Substitution line
性状 Trait	座位1 Q1	座位2 Q2	座位1×座位2 Q1×Q2	代换系 Substitution line
粒长GL	-(P=0.237)	qGL6-2(P=0.000)	-×qGL6-2(P=0.000)	D1
	qGL3(P=0.000)	qGL6-2(P=0.000)	qGL3×qGL6-2(P=0.000)	D2
	qGL3-2(P=0.000)	qGL6 (P=0.000)	qGL3-2×qGL6 (P=0.000)	D3
粒宽GW	qGW1-3(P=0.000)	-(P=0.134)	qGW1-3×-(P=0.002)	D1
	qGW3(P=0.000)	-(P=0.134)	qGW3×-(P=0.082)	D2
	qGW3-2(P=0.000)	-(P=0.156)	qGW3-2×-(P=0.000)	D3
长宽比RLW	qRLW1-3(P=0.003)	qRLW6-2(P=0.000)	qRLW1-3×qRLW6-2(P=0.000)	D1
	qRLW3(P=0.000)	qRLW6-2(P=0.000)	qRLW3×qRLW6-2(P=0.000)	D2
	qRLW3-2(P=0.000)	qRLW6(P=0.001)	qRLW3-2×qRLW6 (P=0.000)	D3
千粒重GWT	-(P=0.209)	qGWT6-2(P=0.000)	-×qGWT6-2(P=0.000)	D1
	qGWT3-2(P=0.000)	qGWT6-2(P=0.000)	qGWT3-2×qGWT6-2(P=0.000)	D2
	qGWT3-2(P=0.000)	-(P=0.291)	qGWT3-2×-(P=0.002)	D3
穗长PL	-(P=0.574)	-(P=0.235)	-×- (P=0.000)	D1
	qPL3(P=0.000)	-(P=0.235)	qPL3×-(P=0.020)	D2
	qPL3-2(P=0.023)	qPL6-2(P=0.007)	qPL3-2×qPL6-2(P=0.418)	D3
一次枝梗数NPB	qNPB1(P=0.019)	-(P=0.098)	qNPB1×-(P=0.432)	D1
	qNPB3(P=0.000)	-(P=0.098)	qNPB3×-(P=0.001)	D2
	-(P=0.946)	qNPB6-2(P=0.000)	-×qNPB6-2(P=0.706)	D3
二次枝梗数NSB	-(P=0.109)	-(P=0.042)	-×-(P=0.000)	D1
	qNSB3(P=0.000)	-(P=0.042)	qNSB3×-(P=0.000)	D2
	qNSB3-2(P=0.001)	qNSB6-2(P=0.000)	qNSB3-2×qNSB6-2(P=0.000)	D3
每穗实粒数GPP	-(P=0.446)	-(P=0.455)	-×-(P=0.424)	D1
	qGPP3(P=0.026)	-(P=0.455)	qGPP3×-(P=0.239)	D2
	-(P=0.094)	-(P=0.398)	-×-(P=0.863)	D3

Analysis of QTLs and Breeding of Secondary Substitution Lines for Panicle Traits Based on Rice Chromosome Segment Substitution Line CSSL-Z481

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