Korean Journal of Breeding Science

Table. 1.

QTLs associated with quality-related traits identified in the recombinant inbred line population derived from a cross between ‘Chamdongin’ (P1) and ‘Younghojinmi’ (P2) in total year.

Traitz	QTL name	Chr.y	Position (cM)	Interval-flanking markers		LODx	PVEw (%)	Add^v	Putative gene^u

				left	right
PC	qPC1-1_total	1	12	chr01_3257654	chr01_4209102	3.60	7.16	-0.10	OsPLDα1
	qPC1-2_total	1	346	KJ01_109	chr01_36649551	7.75	17.59	-0.17	OsAAP6, SD1
	qPC3_total	3	100	chr03_14288844	chr03_16733441	5.96	14.66	-0.16	GS3
AC	qAC3_total	3	111	chr03_22407127	chr03_23491435	3.03	14.49	0.14	OsPK8
WT	qWT3_total	3	102	chr03_14288844	chr03_16733441	9.21	32.47	0.89	GS3
	qWT7_total	7	106	chr07_22724630	chr07_24575395	4.67	14.81	-0.57	GW7
HR	qHR3_total	3	102	chr03_14288844	chr03_16733441	20.71	55.83	-1.99	GS3
	qHR7_total	7	22	chr07_3108600	chr07_3190324	4.79	8.24	-0.72
OR	qOR3_total	3	102	chr03_14288844	chr03_16733441	7.53	20.87	0.37	GS3
BR	qBR3_total	3	102	chr03_14288844	chr03_16733441	21.75	61.89	1.65	GS3
CR	qCR3_total	3	102	chr03_14288844	chr03_16733441	9.52	21.60	0.24	GS3
	qCR11_total	11	24	chr11_1080991	chr11_18687760	3.37	23.39	-0.27
CrR	qCrR3_total	3	102	chr03_14288844	chr03_16733441	5.12	14.97	-0.31	GS3
	qCrR8_total	8	2	chr08_1282290	chr08_1670756	3.56	10.21	0.24
PaT	qPaT3_total	3	99	chr03_14288844	chr03_16733441	5.31	26.92	-0.22	GS3
PV	qPV1_total	1	12	chr01_3257654	chr01_4209102	3.90	18.96	-2.49	OsPLDα1
TV	qTV3-1_total	3	0	chr03_204361	chr03_517088	6.44	21.95	-3.99	qLTG3-1
	qTV3-2_total	3	153	chr03_24699522	chr03_28852757	4.47	14.89	3.25	OsPK8, OsTB1
FV	qFV3-1_total	3	0	chr03_204361	chr03_517088	3.56	10.89	-3.36	qLTG3-1
	qFV3-2_total	3	147	chr03_24699522	chr03_28852757	4.71	21.34	4.62	OsPK8, OsTB1
BD	qBD3-1_total	3	0	chr03_204361	chr03_517088	10.35	26.64	4.95	qLTG3-1
	qBD3-2_total	3	105	chr03_17092696	chr03_19143571	6.75	16.32	-3.88	OsSAC3
	qBD8_total	8	34	chr08_3976061	chr08_3988029	3.81	8.30	2.74
SB	qSB3_total-1	3	0	chr03_204361	chr03_517088	6.27	12.22	-3.70	qLTG3-1
	qSB3_total-2	3	105	chr03_17092696	chr03_19143571	8.90	19.09	4.64	OsSAC3
	qSB7_total	7	13	chr07_1611002	chr07_2277644	3.89	7.13	2.77
	qSB8_total	8	34	chr08_3976061	chr08_3988029	6.67	13.22	-3.82
AN	qAN1_total	1	10	chr01_2103204	chr01_2363715	4.94	16.95	1.16
	qAN2_total	2	168	chr02_34635870	chr02_35088373	5.94	21.00	-1.29
	qAN9_total	9	6	chr09_8913296	chr09_9431973	3.54	12.09	-0.97
SN	qSN1_total	1	11	chr01_2416981	chr01_2637005	8.20	22.00	3.19
	qSN2_total	2	168	chr02_34635870	chr02_35088373	5.28	13.25	-2.48
	qSN3_total	3	102	chr03_14288844	chr03_16733441	4.86	12.04	2.49	GS3
	qSN8_total	8	12	chr08_2479524	KJ08_009	3.25	7.68	1.89	Hd18
	qSN9_total	9	8	chr09_9918781	chr09_9945591	4.16	10.04	-2.14

^zPC: protein content, AC: amlylose content, WT: whiteness, HR: head rice, OR: opaque rice, BR: broken rice, CR: colored rice, CrR: cracked rice, Pat: pasting temperature, PV: peak viscosity, TV: trough viscosity, FV: final viscosity, BD: breakdown, SB: setback, AN: adhesiveness, SN: stickiness.

^yChromosome number, ^xLogarithm of the odds score, ^wPhenotypic variation explained by the QTL.

^vAdditive effect, add=(P1-P2)/2, the positive value of the additive effect indicates that the allele from Chamdongjin (P1) contributes to an increase in the trait value.

^uOsPLDα1: Os01g0172400 (chr01:3724667..3728791), OsAAP6 (qPC1): Os01g0878700 (chr01:38133475..38137770), SD1: Os01g0883800 (chr01:38382385..38385469), GS3: Os03g0407400 (chr03:16729501..16735109), OsPK8: Os03g0672300 (chr03:26526743..26530676), GW7: Os07g0603300 (chr07:24664328..24669321), qLTG3-1: Os03g0103300 (chr03:219979..220919), OsTB1: Os03g0706500 (chr03:28428504..28430438), OsSAC3: Os03g0429800 (chr03:17985619..17998387), Hd18: Os08g0143400 (chr08:2385537..2389276).

Korean J. Breed. Sci. 2024;56:395-415 https://doi.org/10.9787/KJBS.2024.56.4.395