陆地棉D11染色体一个纤维长度主效位点的遗传解析

doi:10.3724/SP.J.1006.2025.44049

Abstract

Abstract:

Cotton fiber length is a crucial index of fiber quality, and analyzing its genetic basis is is significant for cultivating high-quality cotton varieties. To identify valuable loci related to cotton fiber quality, we utilized 40K SNP (single-nucleotide polymorphism) chips, were used to analyze fiber length-related QTLs in recombinant inbred lines (RIL) and SNP sites in natural populations of upland cotton. Four QTLs for fiber length were obtained from Q30-12 × 05SJ RIL, and located on chromosomes A05, D11 and D13, respectively. Twenty-four SNPs significantly associated fiber length were identified in natural populations, and located on chromosomes A01, A03, D05, D11, and D12, respectively. Based on the results of linkage analysis and association analysis, an overlapping region closely related to fiber length was found in the 23.99-24.01 Mb region of chromosome D11. Haplotype analysis revealed that the fiber length of germplasm carrying the Hap1 haplotype was significantly longer than that of the Hap2 haplotype. Approximately 95.3% of varieties from the Yellow River basin carried the Hap1 haplotype, whereas 45.5% of varieties from the northwest inland cotton region carried the Hap1 haplotype. More than half of the varieties from the northwest inland region with the Hap1 haplotype were related to the Yellow River basin cotton region. Three candidate genes, CML1, DTX51, and PCMP-E88, were discovered in the 28.4 kb region of Chr.D11 overlap interval by bioinformatics analysis, which may play an important role in cotton fiber elongation. In summary, the Hap1 haplotype identified in this study represents an excellent haplotype with significant application value for improving cotton fiber quality. Our results provide a reliable basis for analyzing fiber length-related loci and candidate genes on chromosome D11.

Key words: Gossypium hirsutum, fiber length, QTL mapping, genome-wide association analysis

GUO Shu-Hui, PAN Zhuan-Xia, ZHAO Zhan-Sheng, YANG Liu-Liu, HUANG-FU Zhang-Long, GUO Bao-Sheng, HU Xiao-Li, LU Ya-Dan, DING Xiao, WU Cui-Cui, LAN Gang, LYU Bei-Bei, TAN Feng-Ping, LI Peng-Bo. Genetic analysis of a major fiber length locus on chromosome D11 of upland cotton[J].Acta Agronomica Sinica, 2025, 51(2): 383-394.

Figures/Tables 10

Table S1

Information of 318 germplasm resources"

编号 Number	种质名称 Germplasm name	来源 Region	编号 Number	种质名称 Germplasm name	来源 Region
JX001	09F9077	黄河流域, 中国 Yellow River basin, China	JX168	新A8 Xin A8	西北内陆, 中国 Northwest inland, China
JX002	14QHB01-5	黄河流域, 中国 Yellow River basin, China	JX169	新A1 Xin A1	西北内陆, 中国 Northwest inland, China
JX003	海7124 (海岛棉) Hai 7124 (G. barbadense L.)	长江流域, 中国 Yangtze River basin, China	JX170	新B1 Xin B1	西北内陆, 中国 Northwest inland, China
JX004	15S2743	黄河流域, 中国 Yellow River basin, China	JX171	新B3 Xin B3	西北内陆, 中国 Northwest inland, China
JX005	15S2746	黄河流域, 中国 Yellow River basin, China	JX172	新B5 Xin B5	西北内陆, 中国 Northwest inland, China
JX006	中G5 Zhong G5	黄河流域, 中国 Yellow River basin, China	JX173	冀656 Ji 656	西北内陆, 中国 Northwest inland, China
JX007	16PN01	黄河流域, 中国 Yellow River basin, China	JX174	航707(R) Hang 707	西北内陆, 中国 Northwest inland, China
JX008	16PN02	黄河流域, 中国 Yellow River basin, China	JX175	丰119 Feng 119	西北内陆, 中国 Northwest inland, China
JX009	16PN41	黄河流域, 中国 Yellow River basin, China	JX176	新2001(R) Xin 2001	西北内陆, 中国 Northwest inland, China
JX010	16PN64	黄河流域, 中国 Yellow River basin, China	JX177	JH6619	西北内陆, 中国 Northwest inland, China
JX011	鲁25A Lu 25A	黄河流域, 中国 Yellow River basin, China	JX178	特116 Te 116	西北内陆, 中国 Northwest inland, China
JX012	莎24-3 Sha 24-3	黄河流域, 中国 Yellow River basin, China	JX179	丰17 Feng 17	西北内陆, 中国 Northwest inland, China
JX013	石抗278(R) Shikang 278	黄河流域, 中国 Yellow River basin, China	JX180	如91 Ru 91	西北内陆, 中国 Northwest inland, China
JX014	荆N2 Jing N2	黄河流域, 中国 Yellow River basin, China	JX181	创棉68 Chuangmian 68	西北内陆, 中国 Northwest inland, China
JX015	大丰S1 Dafeng S1	黄河流域, 中国 Yellow River basin, China	JX182	创棉63 Chuangmian 63	西北内陆, 中国 Northwest inland, China
JX016	06BM01	孟加拉国 Bangladesh	JX183	创棉66 Chuangmian 66	西北内陆, 中国 Northwest inland, China
JX017	American cotton	美国 USA	JX184	庄稼汉151 Zhuangjiahan 151	西北内陆, 中国 Northwest inland, China
JX019	邱县0904 Qiuxian 0904	黄河流域, 中国 Yellow River basin, China	JX185	中棉所115(R) CCRI 115	西北内陆, 中国 Northwest inland, China
JX020	冀228(R) Ji 228	黄河流域, 中国 Yellow River basin, China	JX186	农科053 Nongke 053	西北内陆, 中国 Northwest inland, China
JX021	银兴棉28(R) Yinxingmian 28	黄河流域, 中国 Yellow River basin, China	JX187	六师118 Liushi 118	西北内陆, 中国 Northwest inland, China
JX022	晋棉47号(R) Jinmian 47	黄河流域, 中国 Yellow River basin, China	JX190	六师417 Liushi 417	西北内陆, 中国 Northwest inland, China
JX023	河北紧凑 Hebei compact	黄河流域, 中国 Yellow River basin, China	JX191	金科21(R) Jinke 21	西北内陆, 中国 Northwest inland, China
JX024	运0519 Yun 0519	黄河流域, 中国 Yellow River basin, China	JX192	六师405 Liushi 405	西北内陆, 中国 Northwest inland, China
JX026	GK12(R)	黄河流域, 中国 Yellow River basin, China	JX193	六师351 Liushi 351	西北内陆, 中国 Northwest inland, China
JX027	GK21	黄河流域, 中国 Yellow River basin, China	JX195	六师163 Liushi 163	西北内陆, 中国 Northwest inland, China
JX028	新07-3 Xin 07-3	西北内陆, 中国 Northwest inland, China	JX196	六师423 Liushi 423	西北内陆, 中国 Northwest inland, China
JX029	衡优30号 Hengyou 30	黄河流域, 中国 Yellow River basin, China	JX197	ZY-101	西北内陆, 中国 Northwest inland, China
JX031	太24 Tai 24	黄河流域, 中国 Yellow River basin, China	JX198	六师491 Liushi 491	西北内陆, 中国 Northwest inland, China
JX032	TY-21(R)	黄河流域, 中国 Yellow River basin, China	JX199	六师051 Liushi 051	西北内陆, 中国 Northwest inland, China
JX033	晋棉50号(R) Jinmian 50	黄河流域, 中国 Yellow River basin, China	JX200	六师378 Liushi 378	西北内陆, 中国 Northwest inland, China
JX034	衡优15号 Hengyou 15	黄河流域, 中国 Yellow River basin, China	JX201	六师434 Liushi 434	西北内陆, 中国 Northwest inland, China
JX035	1718系 1718 Xi	黄河流域, 中国 Yellow River basin, China	JX202	六师494 Liushi 494	西北内陆, 中国 Northwest inland, China
JX036	创097 Chuang 097	黄河流域, 中国 Yellow River basin, China	JX203	六师420 Liushi 420	西北内陆, 中国 Northwest inland, China
JX037	新棉33B(R) Xinmian 33B	美国 USA	JX204	六师226 Liushi 226	西北内陆, 中国 Northwest inland, China
JX038	冀无538(R) Jiwu 538	黄河流域, 中国 Yellow River basin, China	JX205	ZZS8	西北内陆, 中国 Northwest inland, China
JX039	GK164(R)	黄河流域, 中国 Yellow River basin, China	JX206	子鼎580 Ziding 580	西北内陆, 中国 Northwest inland, China
JX040	中棉所17(R) CCRI 17	黄河流域, 中国 Yellow River basin, China	JX207	子鼎760 Ziding 760	西北内陆, 中国 Northwest inland, China
JX041	Foster6	美国 USA	JX208	子鼎644 Ziding 644	西北内陆, 中国 Northwest inland, China
JX042	儒农研18号(R) Runongyan 18	黄河流域, 中国 Yellow River basin, China	JX209	子鼎640 Ziding 640	西北内陆, 中国 Northwest inland, China
JX043	SX03	黄河流域, 中国 Yellow River basin, China	JX210	子鼎770 Ziding 770	西北内陆, 中国 Northwest inland, China
JX044	中植棉1020-596 Zhongzhimian 1020-596	黄河流域, 中国 Yellow River basin, China	JX211	子鼎355 Ziding 355	西北内陆, 中国 Northwest inland, China
JX045	鄂0902 E 0902	黄河流域, 中国 Yellow River basin, China	JX212	子鼎614 Ziding 614	西北内陆, 中国 Northwest inland, China
JX046	优选3号 Youxuan 3	黄河流域, 中国 Yellow River basin, China	JX213	子鼎600 Ziding 600	西北内陆, 中国 Northwest inland, China
JX047	冀234 Ji 234	黄河流域, 中国 Yellow River basin, China	JX214	子鼎627 Ziding 627	西北内陆, 中国 Northwest inland, China
JX048	冀387 Ji 387	黄河流域, 中国 Yellow River basin, China	JX215	子鼎409 Ziding 409	西北内陆, 中国 Northwest inland, China
JX049	N71	黄河流域, 中国 Yellow River basin, China	JX216	子鼎129 Ziding 129	西北内陆, 中国 Northwest inland, China
JX050	合丰201(R) Hefeng 201	黄河流域, 中国 Yellow River basin, China	JX217	子鼎108 Ziding 108	西北内陆, 中国 Northwest inland, China
JX051	池B28 Chi B28	黄河流域, 中国 Yellow River basin, China	JX218	子鼎799 Ziding 799	西北内陆, 中国 Northwest inland, China
JX052	冀1120 Ji 1120	黄河流域, 中国 Yellow River basin, China	JX219	子鼎282 Ziding 282	西北内陆, 中国 Northwest inland, China
JX053	冀1121 Ji 1121	黄河流域, 中国 Yellow River basin, China	JX220	子鼎705 Ziding 705	西北内陆, 中国 Northwest inland, China
JX054	冀1125 Ji 1125	黄河流域, 中国 Yellow River basin, China	JX221	子鼎445 Ziding 445	西北内陆, 中国 Northwest inland, China
JX055	冀1138 Ji 1138	黄河流域, 中国 Yellow River basin, China	JX222	子鼎415 Ziding 415	西北内陆, 中国 Northwest inland, China
JX056	冀1142 Ji 1142	黄河流域, 中国 Yellow River basin, China	JX223	子鼎477 Ziding 477	西北内陆, 中国 Northwest inland, China
JX057	远1闭花 Far 1 cleistor	黄河流域, 中国 Yellow River basin, China	JX224	ZY-2	西北内陆, 中国 Northwest inland, China
JX058	邯无198(R) Hanwu 198	黄河流域, 中国 Yellow River basin, China	JX225	六师208 Liushi 208	西北内陆, 中国 Northwest inland, China
JX059	冀1533(R) Ji 1533	黄河流域, 中国 Yellow River basin, China	JX226	六师445 Liushi 445	西北内陆, 中国 Northwest inland, China
JX060	冀1535 Ji 1535	黄河流域, 中国 Yellow River basin, China	JX227	新早A3 Xinzao A3	西北内陆, 中国 Northwest inland, China
JX061	冀1542 Ji 1542	黄河流域, 中国 Yellow River basin, China	JX228	ZY-87	西北内陆, 中国 Northwest inland, China
JX062	冀优326 Jiyou 326	黄河流域, 中国 Yellow River basin, China	JX229	六师178 Liushi 178	西北内陆, 中国 Northwest inland, China
JX063	邯682(R) Han 682	黄河流域, 中国 Yellow River basin, China	JX230	六师168 Liushi 168	西北内陆, 中国 Northwest inland, China
JX064	Z10	黄河流域, 中国 Yellow River basin, China	JX231	新早C2 Xinzao C2	西北内陆, 中国 Northwest inland, China
JX065	快育66(R) Kuaiyu 66	黄河流域, 中国 Yellow River basin, China	JX232	六师340 Liushi 340	西北内陆, 中国 Northwest inland, China
JX066	冀1642 Ji 1642	黄河流域, 中国 Yellow River basin, China	JX233	新早135 Xinzao 135	西北内陆, 中国 Northwest inland, China
JX068	冀1755 Ji 1755	黄河流域, 中国 Yellow River basin, China	JX234	子鼎075 Ziding 075	西北内陆, 中国 Northwest inland, China
JX069	冀丰522(R) Jifeng 522	黄河流域, 中国 Yellow River basin, China	JX235	新早A5 Xinzao A5	西北内陆, 中国 Northwest inland, China
JX070	邯6208(R) Han 6208	黄河流域, 中国 Yellow River basin, China	JX236	六师096 Liushi 096	西北内陆, 中国 Northwest inland, China
JX071	冀棉958(R) Jimian 958	黄河流域, 中国 Yellow River basin, China	JX237	六师266 Liushi 266	西北内陆, 中国 Northwest inland, China
JX072	冀丰554(R) Jifeng 554	黄河流域, 中国 Yellow River basin, China	JX238	子鼎221 Ziding 221	西北内陆, 中国 Northwest inland, China
JX073	冀1316(R) Ji 1316	黄河流域, 中国 Yellow River basin, China	JX239	子鼎777 Ziding 777	西北内陆, 中国 Northwest inland, China
JX074	冀丰4号(R) Jifeng 4	黄河流域, 中国 Yellow River basin, China	JX240	子鼎090 Ziding 090	西北内陆, 中国 Northwest inland, China
JX075	冀1516(R) Ji 1516	黄河流域, 中国 Yellow River basin, China	JX241	子鼎447 Ziding 447	西北内陆, 中国 Northwest inland, China
JX076	邯885(R) Han 885	黄河流域, 中国 Yellow River basin, China	JX242	子鼎103 Ziding 103	西北内陆, 中国 Northwest inland, China
JX077	冀丰1271(R) Jifeng 1271	黄河流域, 中国 Yellow River basin, China	JX243	21-295	西北内陆, 中国 Northwest inland, China
JX078	国欣3号(R) Guoxin 3	黄河流域, 中国 Yellow River basin, China	JX244	子鼎441 Ziding 441	西北内陆, 中国 Northwest inland, China
JX079	鲁棉339 Lumian 339	黄河流域, 中国 Yellow River basin, China	JX245	子鼎302 Ziding 302	西北内陆, 中国 Northwest inland, China
JX080	鲁3892 Lu 3892	黄河流域, 中国 Yellow River basin, China	JX246	子鼎612 Ziding 612	西北内陆, 中国 Northwest inland, China
JX081	14PH035-7	黄河流域, 中国 Yellow River basin, China	JX247	子鼎741 Ziding 741	西北内陆, 中国 Northwest inland, China
JX082	新陆中80号(R) Xinluzhong 80	西北内陆, 中国 Northwest inland, China	JX248	子鼎214 Ziding 214	西北内陆, 中国 Northwest inland, China
JX083	W-389	黄河流域, 中国 Yellow River basin, China	JX249	子鼎277 Ziding 277	西北内陆, 中国 Northwest inland, China
JX084	LL43	黄河流域, 中国 Yellow River basin, China	JX250	新陆早45号(R) Xinluzao 45	西北内陆, 中国 Northwest inland, China
JX085	新棉8号 Xinmian 8	西北内陆, 中国 Northwest inland, China	JX251	新陆早48号(R) Xinluzao 48	西北内陆, 中国 Northwest inland, China
JX086	新陆中54号(R) Xinluzhong 54	西北内陆, 中国 Northwest inland, China	JX252	新陆早72号(R) Xinluzao 72	西北内陆, 中国 Northwest inland, China
JX087	K-1506	黄河流域, 中国 Yellow River basin, China	JX253	Z1112(R)	西北内陆, 中国 Northwest inland, China
JX088	新陆中21号(R) Xinluzhong 21	西北内陆, 中国 Northwest inland, China	JX254	X19075(R)	西北内陆, 中国 Northwest inland, China
JX089	新陆中77号(R) Xinluzhong 77	西北内陆, 中国 Northwest inland, China	JX255	T115(R)	西北内陆, 中国 Northwest inland, China
JX090	新陆中75号(R) Xinluzhong 75	西北内陆, 中国 Northwest inland, China	JX256	H33-1-4(R)	西北内陆, 中国 Northwest inland, China
JX091	LL59	黄河流域, 中国 Yellow River basin, China	JX257	H216(R)	西北内陆, 中国 Northwest inland, China
JX092	新陆早61号(R) Xinluzao 61	西北内陆, 中国 Northwest inland, China	JX258	新陆早81号(R) Xinluzao 81	西北内陆, 中国 Northwest inland, China
JX093	辽棉34(R) Liaomian 34	北部特早熟棉区, 中国 Northern extra early cotton region, China	JX259	新陆早64号(R) Xinluzao 64	西北内陆, 中国 Northwest inland, China
JX094	中棉所49(R) CCRI 49	西北内陆, 中国 Northwest inland, China	JX260	H219(R)	西北内陆, 中国 Northwest inland, China
JX095	冀棉653(R) Jimian 653	黄河流域, 中国 Yellow River basin, China	JX261	新陆中87号(R) Xinluzhong 87	西北内陆, 中国 Northwest inland, China
JX096	石抗126(R) Shikang 126	黄河流域, 中国 Yellow River basin, China	JX262	新石K28(R) Xinshi K28	西北内陆, 中国 Northwest inland, China
JX097	鲁棉28(R) Lumian 28	黄河流域, 中国 Yellow River basin, China	JX263	新石K25(R) Xinshi K25	西北内陆, 中国 Northwest inland, China
JX099	08S51	黄河流域, 中国 Yellow River basin, China	JX264	新石K24(R) Xinshi K24	西北内陆, 中国 Northwest inland, China
JX100	中棉所69(R) CCRI 69	黄河流域, 中国 Yellow River basin, China	JX265	新陆早36号(R) Xinluzao 36	西北内陆, 中国 Northwest inland, China
JX101	中H177 Zhong H177	黄河流域, 中国 Yellow River basin, China	JX266	新陆早62号(R) Xinluzao 62	西北内陆, 中国 Northwest inland, China
JX102	中S9612 Zhong S9612	黄河流域, 中国 Yellow River basin, China	JX267	新陆早46号(R) Xinluzao 46	西北内陆, 中国 Northwest inland, China
JX103	中9807 Zhong 9807	黄河流域, 中国 Yellow River basin, China	JX268	新石K21(R) Xinshi K21	西北内陆, 中国 Northwest inland, China
JX104	中J0102 Zhong J0102	黄河流域, 中国 Yellow River basin, China	JX269	新石K35(R) Xinshi K35	西北内陆, 中国 Northwest inland, China
JX105	中J8588 Zhong J8588	黄河流域, 中国 Yellow River basin, China	JX270	新石K18(R) Xinshi K18	西北内陆, 中国 Northwest inland, China
JX106	中J9648 Zhong J9648	黄河流域, 中国 Yellow River basin, China	JX271	新石K26(R) Xinshi K26	西北内陆, 中国 Northwest inland, China
JX107	新陆中40号(R) Xinluzhong 40	西北内陆, 中国 Northwest inland, China	JX272	新石H21 Xinshi H21	西北内陆, 中国 Northwest inland, China
JX108	新陆中46号(R) Xinluzhong 46	西北内陆, 中国 Northwest inland, China	JX273	新石H16(R) Xinshi H16	西北内陆, 中国 Northwest inland, China
JX111	05sj	黄河流域, 中国 Yellow River basin, China	JX274	新石H12(R) Xinshi H12	西北内陆, 中国 Northwest inland, China
JX112	GB518(R)	黄河流域, 中国 Yellow River basin, China	JX275	新陆早80号(R) Xinluzao 80	西北内陆, 中国 Northwest inland, China
JX113	中棉96019(R) Zhongmian 96019	黄河流域, 中国 Yellow River basin, China	JX276	庄稼汉701(R) Zhuangjiahan 701	西北内陆, 中国 Northwest inland, China
JX114	冀棉803(R) Jimian 803	黄河流域, 中国 Yellow River basin, China	JX277	金垦1814 Jinkeng 1814	西北内陆, 中国 Northwest inland, China
JX115	德棉16(R) Demian 16	黄河流域, 中国 Yellow River basin, China	JX278	新陆早74号(R) Xinluzao 74	西北内陆, 中国 Northwest inland, China
JX116	中棉所117(R) CCRI 117	黄河流域, 中国 Yellow River basin, China	JX279	石研2号 Shiyan 2	西北内陆, 中国 Northwest inland, China
JX117	中棉所119(R) CCRI 119	黄河流域, 中国 Yellow River basin, China	JX280	新陆早37号(R) Xinluzao 37	西北内陆, 中国 Northwest inland, China
JX118	冀棉262(R) Jimian 262	黄河流域, 中国 Yellow River basin, China	JX281	新陆早75号(R) Xinluzao 75	西北内陆, 中国 Northwest inland, China
JX119	中棉612(R) Zhongmian 612	黄河流域, 中国 Yellow River basin, China	JX282	新陆早12号(R) Xinluzao 12	西北内陆, 中国 Northwest inland, China
JX120	中MB11761A(R) Zhong MB11761A	黄河流域, 中国 Yellow River basin, China	JX283	新陆早82号(R) Xinluzao 82	西北内陆, 中国 Northwest inland, China
JX121	中棉所100(R) CCRI 100	黄河流域, 中国 Yellow River basin, China	JX284	五师16-15(R) Wushi 16-15	西北内陆, 中国 Northwest inland, China
JX122	运棉SP1 Yunmian SP1	黄河流域, 中国 Yellow River basin, China	JX285	五师16-13(R) Wushi 16-13	西北内陆, 中国 Northwest inland, China
JX123	运早F6 Yunzao F6	黄河流域, 中国 Yellow River basin, China	JX286	Y21(R)	西北内陆, 中国 Northwest inland, China
JX124	运早F9 Yunzao F9	黄河流域, 中国 Yellow River basin, China	JX287	新陆早53号(R) Xinluzao 53	西北内陆, 中国 Northwest inland, China
JX125	运棉SP2 Yunmian SP2	黄河流域, 中国 Yellow River basin, China	JX288	Z1122	西北内陆, 中国 Northwest inland, China
JX126	运棉SP4 Yunmian SP4	黄河流域, 中国 Yellow River basin, China	JX289	新陆早47号(R) Xinluzao 47	西北内陆, 中国 Northwest inland, China
JX127	运棉SP5 Yunmian SP5	黄河流域, 中国 Yellow River basin, China	JX290	新陆早60号(R) Xinluzao 60	西北内陆, 中国 Northwest inland, China
JX128	运棉SP6 Yunmian SP6	黄河流域, 中国 Yellow River basin, China	JX291	新陆早78号(R) Xinluzao 78	西北内陆, 中国 Northwest inland, China
JX129	运棉SP9 Yunmian SP9	黄河流域, 中国 Yellow River basin, China	JX292	新陆早65号(R) Xinluzao 65	西北内陆, 中国 Northwest inland, China
JX130	运棉SP12 Yunmian SP12	黄河流域, 中国 Yellow River basin, China	JX293	新陆早1号(R) Xinluzao 1	西北内陆, 中国 Northwest inland, China
JX131	运早S129 Yunzao S129	黄河流域, 中国 Yellow River basin, China	JX294	新陆早2号(R) Xinluzao 2	西北内陆, 中国 Northwest inland, China
JX132	运早S136 Yunzao S136	黄河流域, 中国 Yellow River basin, China	JX295	新陆早4号(R) Xinluzao 4	西北内陆, 中国 Northwest inland, China
JX133	运早S171 Yunzao S171	黄河流域, 中国 Yellow River basin, China	JX296	新陆早9号(R) Xinluzao 9	西北内陆, 中国 Northwest inland, China
JX134	14N105	黄河流域, 中国 Yellow River basin, China	JX297	新陆早10号(R) Xinluzao 10	西北内陆, 中国 Northwest inland, China
JX135	14E7	黄河流域, 中国 Yellow River basin, China	JX298	新陆早15号(R) Xinluzao 15	西北内陆, 中国 Northwest inland, China
JX137	14N107	黄河流域, 中国 Yellow River basin, China	JX299	新陆早17号(R) Xinluzao 17	西北内陆, 中国 Northwest inland, China
JX138	运Z-47 Yun Z-47	黄河流域, 中国 Yellow River basin, China	JX300	新陆早20号(R) Xinluzao 20	西北内陆, 中国 Northwest inland, China
JX139	中棉所50号(R) CCRI 50	黄河流域, 中国 Yellow River basin, China	JX301	新陆早21号(R) Xinluzao 21	西北内陆, 中国 Northwest inland, China
JX140	农科344 Nongke 344	西北内陆, 中国 Northwest inland, China	JX302	新陆早22号(R) Xinluzao 22	西北内陆, 中国 Northwest inland, China
JX141	六师136 Liushi 136	西北内陆, 中国 Northwest inland, China	JX303	新陆早23号(R) Xinluzao 23	西北内陆, 中国 Northwest inland, China
JX142	农科331 Nongke 331	西北内陆, 中国 Northwest inland, China	JX304	新陆早24号(R) Xinluzao 24	西北内陆, 中国 Northwest inland, China
JX143	NK19-22-1	西北内陆, 中国 Northwest inland, China	JX305	新陆早25号(R) Xinluzao 25	西北内陆, 中国 Northwest inland, China
JX144	农科289 Nongke 289	西北内陆, 中国 Northwest inland, China	JX306	新陆早29号(R) Xinluzao 29	西北内陆, 中国 Northwest inland, China
JX145	NK19-194	西北内陆, 中国 Northwest inland, China	JX307	新陆早30号(R) Xinluzao 30	西北内陆, 中国 Northwest inland, China
JX146	NK19-153-2	西北内陆, 中国 Northwest inland, China	JX308	新陆早31号(R) Xinluzao 31	西北内陆, 中国 Northwest inland, China
JX147	276X346	西北内陆, 中国 Northwest inland, China	JX309	新陆早32号(R) Xinluzao 32	西北内陆, 中国 Northwest inland, China
JX148	NK18-458-1	西北内陆, 中国 Northwest inland, China	JX310	新陆早33号(R) Xinluzao 33	西北内陆, 中国 Northwest inland, China
JX149	农科291 Nongke 291	西北内陆, 中国 Northwest inland, China	JX311	新陆早34号(R) Xinluzao 34	西北内陆, 中国 Northwest inland, China
JX150	NK19-298-2	西北内陆, 中国 Northwest inland, China	JX312	新陆早35号(R) Xinluzao 35	西北内陆, 中国 Northwest inland, China
JX151	NK19-124	西北内陆, 中国 Northwest inland, China	JX313	新陆早38号(R) Xinluzao 38	西北内陆, 中国 Northwest inland, China
JX152	农科192 Nongke 192	西北内陆, 中国 Northwest inland, China	JX314	新陆早39号(R) Xinluzao 39	西北内陆, 中国 Northwest inland, China
JX153	NK18-367-2	西北内陆, 中国 Northwest inland, China	JX315	新陆早42号(R) Xinluzao 42	西北内陆, 中国 Northwest inland, China
JX154	六师081 Liushi 081	西北内陆, 中国 Northwest inland, China	JX316	新陆早49号(R) Xinluzao 49	西北内陆, 中国 Northwest inland, China
JX155	六师371 Liushi 371	西北内陆, 中国 Northwest inland, China	JX317	新陆早50号(R) Xinluzao 50	西北内陆, 中国 Northwest inland, China
JX156	NK19-383-1	西北内陆, 中国 Northwest inland, China	JX318	新陆早51号(R) Xinluzao 51	西北内陆, 中国 Northwest inland, China
JX157	NK19-311	西北内陆, 中国 Northwest inland, China	JX319	611波(R) 611 Bo	前苏联 Former Soviet Union
JX158	NK19-237-3	西北内陆, 中国 Northwest inland, China	JX320	岱字棉15(R) Deltapine 15	美国 USA
JX159	子鼎104 Ziding 104	西北内陆, 中国 Northwest inland, China	JX321	塔什干2号(R) Tashigan 2	前苏联 Former Soviet Union
JX160	NK19-280-2	西北内陆, 中国 Northwest inland, China	JX322	金字棉(R) King	美国 USA
JX161	新A9 Xin A9	西北内陆, 中国 Northwest inland, China	JX323	贝尔斯诺(R) Beiersinuo	美国 USA
JX162	新A6 Xin A6	西北内陆, 中国 Northwest inland, China	JX324	爱字棉1517(R) Acala 1517	美国 USA
JX163	新A7 Xin A7	西北内陆, 中国 Northwest inland, China	JX325	108夫(R) 108 Fu	前苏联 Former Soviet Union
JX164	新A12 Xin A12	西北内陆, 中国 Northwest inland, China	JX326	中棉所12(R) CCRI 12	黄河流域, 中国 Yellow River basin, China
JX165	新A10 Xin A10	西北内陆, 中国 Northwest inland, China	JX327	中棉所19(R) CCRI 19	黄河流域, 中国 Yellow River basin, China
JX166	新A5 Xin A5	西北内陆, 中国 Northwest inland, China	JX328	中棉所35(R) CCRI 35	黄河流域, 中国 Yellow River basin, China
JX167	新A11 Xin A11	西北内陆, 中国 Northwest inland, China	JX330	KK-1543(R)	前苏联 Former Soviet Union

Table S1

Table 1

Table 2

Fig. 1

Table 3

Fig. 2

Fig. 3

Table 4

Fig. 4

Table 5

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性状 Trait	环境 Environment	亲本Parents		重组自交系群体RIL population
性状 Trait	环境 Environment	Q30-12	05SJ	最大值 Max.	最小值 Min.	平均值 Average	标准差 Standard deviation	偏度 Skewness	峰度 Kurtosis	变异系数 CV (%)
纤维长度 FL (mm)	E1	27.5^**	31.5^**	33.0	24.6	29.28	1.44	-0.104	0.374	4.92%
纤维长度 FL (mm)	E2	28.7^**	31.8^**	32.5	25.0	29.45	1.42	-0.561	0.534	4.82%

染色体 Chromosome	位点名称 QTL name	标记区间 Marker interval	环境 Environment	LOD值 LOD value	表型贡献率 Phenotypic variation explained (%)	加性效应 Additive effect
A05	qFL-A05-1	A05_3746985-A05_5040514	E1	3.17	6.77	-0.40
A05	qFL-A05-1	A05_3746985-A05_5040514	E2	3.01	5.30	-0.35
D11	qFL-D11-1	D11_42346892-D11_49760967	E1	2.53	4.08	-0.31
D11	qFL-D11-2	D11_23991504-D11_24047565	E1	3.44	5.78	-0.38
D11	qFL-D11-2	D11_23991504-D11_24047565	E2	4.18	6.20	-0.40
D13	qFL-D13-1	D13_4004318-D13_4087951	E1	3.91	7.61	-0.43

性状 Trait	环境 Environment	最大值 Max.	最小值 Min.	平均值 Average	标准差 Standard deviation	偏度 Skewness	峰度 Kurtosis	变异系数 CV (%)
纤维长度 FL (mm)	E3	35.6	25.5	31.0^***	1.83	-0.114	-0.025	5.90
	E4	34.3	24.4	28.8^***	1.65	-0.037	-0.018	5.73
	BLUP	33.1	26.8	29.9^***	1.17	-0.127	0.049	3.91

染色体 Chromosome	位置 Position (bp)	P值 P-value	表型变异解释率 R² (%)	SNP基因型 SNP genotypes
A01	18936405	0.0000093	7.8	T/C
A03	17570758	0.0000399	6.8	T/G
A03	99847837	0.0000470	6.7	T/C
A03	104815345	0.0000126	7.6	T/C
A03	108732262	0.0000411	6.8	A/G
D05	29514256	0.0000187	7.3	C/G
D11	23847995	0.0000334	6.9	A/T
D11	23848335	0.0000334	6.9	T/C
D11	23889334	0.0000325	6.9	T/C
D11	23892045	0.0000311	6.9	A/G
D11	23923162	0.0000275	7.0	A/G
D11	23924389	0.0000275	7.0	A/T
D11	23924409	0.0000275	7.0	T/C
D11	23944152	0.0000275	7.0	T/C
D11	23944771	0.0000325	6.9	T/C
D11	23957256	0.0000325	6.9	A/T
D11	23974124	0.0000325	6.9	A/G
D11	23991504	0.0000325	6.9	A/G
D11	24001762	0.0000270	7.0	G/T
D11	24002127	0.0000275	7.0	A/G
D11	24004627	0.0000325	6.9	G/A
D11	24004889	0.0000275	7.0	C/T
D11	24019910	0.0000325	6.9	T/C
D12	34731895	0.0000229	7.2	A/G

基因ID Genes ID	基因名称Genes name	基因编码区SNP变异 SNP variants in CDS of genes			功能注释 Annotation
基因ID Genes ID	基因名称Genes name	位置 Position	碱基 Bases	氨基酸Amino acids	功能注释 Annotation
GH_D11G2045	CML1	24001762	G→T	D→E	类钙调蛋白1 Calmodulin-like protein 1
GH_D11G2046	DTX51	24003610	T→C	—	解毒蛋白51 Protein DETOXIFICATION 51
		24003645	C→T	A→T
		24003668	T→C	N→S
		24004421	G→C	P→R
		24004627	G→A	L→F
		24004651	T→C	I→M
GH_D11G2047	PCMP-E88	24009170	G→A	—	五肽重复序列蛋白At3g09040 Pentatricopeptide repeat-containing protein At3g09040
		24009414	G→A	A→V
		24009646	C→T	V→I
		24009796	A→C	F→V
		24010057	G→A	P→S
		24010285	G→A	H→Y
		24010356	C→T	G→D
		24010672	A→C	W→G
		24011417	G→A	—
		24011426	T→C	—

Genetic analysis of a major fiber length locus on chromosome D11 of upland cotton

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