Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.

doi:10.6048/j.issn.1001-4330.2024.03.001

Xinjiang Agricultural Sciences ›› 2024, Vol. 61 ›› Issue (3): 521-536.DOI: 10.6048/j.issn.1001-4330.2024.03.001

• Crop Genetics and Breeding·Germplasm Resources·Molecular Genetics·Physiology and Biochemistry • Previous Articles Next Articles

Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.

WANG Kaidi¹(), GAO Chenxu², PEI Wenfeng¹^,², YANG Shuxian², ZHANG Wenqing², SONG Jikun¹^,², MA Jianjiang², WANG Li², YU Jiwen¹^,²(), CHEN Quanjia¹()

1. Cotton Engineering Research Center,Ministry of Education / College of Agronomy,Xinjiang Agricultural University,Urumqi 830052,China
2. Institute of Cotton Research of Chinese Academy of Agricultural Sciences/State Key Laboratory of Cotton Biology/Key Laboratory of Cotton Genetic Improvement,Ministry of Agriculture,Anyang Henan 455000,China

Received:2023-07-11 Online:2024-03-20 Published:2024-04-19
Correspondence author: YU Jiwen(1978-),female,Anyang,from Henan,researcher,doctors,research direction: cotton molecular breeding,(E-mail) yujw666@hotmail.com;CHEN Quanjia(1972-),male,from Urumqi, Xinjiang,professor,doctors,research direction: cotton genetic breeding,(E-mail)chqjia@126.com
Supported by:
Henan Province Agricultural Improved Seed Joint Research Project(2022010301);Natural Science Foundation of Xinjiang Uygur Autonomous Region(2021D01B113);Basic Research Funds for Public Welfare Research Institutes of the Central Government(1610162022013)

陆地棉TRM基因家族的鉴定及纤维品质相关优异单倍型分析

王凯迪¹(), 高晨旭², 裴文锋¹^,², 杨书贤², 张文庆², 宋吉坤¹^,², 马建江², 王莉², 于霁雯¹^,²(), 陈全家¹()

1.新疆农业大学农学院/教育部棉花工程研究中心,乌鲁木齐 830052
2.棉花生物育种及产业技术国家工程中心/中国农业科学院棉花研究所,河南安阳 455000

通讯作者: 于霁雯(1978-),女,河南安阳人,研究员,博士,硕士生/博士生导师,研究方向为棉花分子育种,(E-mail)yujw666@hotmail.com;陈全家(1972-),男,新疆乌鲁木齐人,教授,博士,硕士生/博士生导师,研究方向为棉花遗传育种,(E-mail)chqjia@126.com
作者简介:王凯迪(1998-),男,陕西延安人,硕士研究生,研究方向为棉花分子育种,(E-mail)424416709@qq.com
基金资助:
河南省农业良种联合攻关项目(2022010301);新疆维吾尔自治区自然科学基金项目(2021D01B113);中央级公益性科研院所基本科研业务费专项(1610162022013)

Abstract

Abstract:

【Objective】 Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.【Methods】 Bioinformatics was used to analyze the evolutionary relationship,physicochemical properties and cluster expression of TRM gene families.Candidate genes regulating fiber quality traits(fiber length,strength,and Macron value) were screened by gene haplotype analysis.【Results】 The analysis of physicochemical properties showed that the amino acids encoded by this family gene ranged from 376-1,093,with isoelectric points ranging from 4.64-9.56.Subcellular localization predicted that up to 60 TRM family genes were localized in the nucleus.The results of cis-acting element analysis showed that TRM gene family contained more elements related to light response,hormone response,stress response and growth and development.Transcriptome data showed that 60 TRM family genes were expressed preferentially during fiber development,which might regulate cotton fiber development.Furthermore,1,245 upland cotton materials were used to genotype TRM,and the number of haplotypes of each gene was found to be 1-8,and 14,18 and 15 excellent haplotype TRM genes related to fiber length,strength and Macron value were screened,respectively.Among them,11 genes had excellent haplotypes of length,strength and micronotype.The Hap_4 haplotype of GH_D09G0775 and the Hap_3 haplotype of GH_D03G1434 increased fiber length and strength while decreasing the Macron value.【Conclusion】 In this study,75 TRM family members were identified on 24 chromosomes in upland cotton(Gossypium hirsutum L.),which were systematically divided into cluster evolution Ⅰ-Ⅲ3 subtribe.

Key words: Gossypium hirsutum L.; gene family; gene expression; fiber quality; haploidgenotype

摘要：

【目的】 鉴定陆地棉TRM基因家族序列及理化性质,分析与棉纤维品质相关的优异单倍型基因差异。【方法】 利用生物信息学分析陆地棉TRM基因家族进化关系、理化性质和聚类表达;利用基因单倍型效应分析筛选调控纤维品质性状(纤维长度、比强度、马克隆值)的候选基因。【结果】 陆地棉TRM基因家族编码的氨基酸为376~1 093,等电点为4.64~9.56。亚细胞定位预测发现多达60个陆地棉TRM基因家族定位于细胞核中。TRM基因家族含有较多的光响应、激素响应、胁迫响应和生长发育相关的元件。60个TRM基因家族在纤维发育时期优势表达,调控棉花纤维发育。每个基因的单倍型个数为1~8,并筛选到纤维长度、强度以及马克隆值相关的优异单倍型TRM基因分别有14、18和15个,其中有11个基因同时具有长度、强度、马克隆值3种改良纤维品质的优异单倍型。GH_D09G0775的Hap_4单倍型和GH_D03G1434的Hap_3单倍型在增加纤维长度、强度的同时降低了马克隆值。【结论】 在陆地棉(Gossypium hirsutum L.)中鉴定出75个TRM基因家族成员分布在24条染色体上,系统进化将其分为Cluster Ⅰ~Ⅲ 3个亚族。

关键词: 陆地棉, 基因家族, 基因表达, 纤维品质, 单倍型

CLC Number:

S562

WANG Kaidi, GAO Chenxu, PEI Wenfeng, YANG Shuxian, ZHANG Wenqing, SONG Jikun, MA Jianjiang, WANG Li, YU Jiwen, CHEN Quanjia. Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.[J]. Xinjiang Agricultural Sciences, 2024, 61(3): 521-536.

王凯迪, 高晨旭, 裴文锋, 杨书贤, 张文庆, 宋吉坤, 马建江, 王莉, 于霁雯, 陈全家. 陆地棉TRM基因家族的鉴定及纤维品质相关优异单倍型分析[J]. 新疆农业科学, 2024, 61(3): 521-536.

Figures/Tables 10

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基因ID Gene ID	转录本长度 Transcript Length(bp)	染色体 Chromo- some	基因组位置 Genomic Location	氨基酸数量 Number of Amino Acid	分子量 Molecular Weight	等电点 pI	亚细胞定位 Subcellular localization
GH_A01G1410.1	1 314	A01	54808764-54811032	437	49.92686	4.88	nucl
GH_A01G2253.1	1 518	A01	115594835-115597597	505	57.79641	4.86	nucl
GH_A01G2363.1	2 700	A01	116832063-116835585	899	100.41775	6.11	cyto
GH_A02G0234.1	2 757	A02	2404926-2408330	918	103.50754	5.22	nucl
GH_A02G2044.1	2 625	A02	108074808-108078882	874	99.90307	6.04	nucl
GH_A03G0533.1	1 563	A03	8153312-8155305	520	60.28175	5.68	nucl
GH_A03G1103.1	2 793	A03	50408499-50412418	930	105.21887	5.07	nucl
GH_A04G0979.1	1 434	A04	69462180-69469536	477	52.62433	4.64	nucl
GH_A05G0964.1	2 346	A05	8607869-8610697	781	88.96019	6.01	nucl
GH_A05G3931.1	3 123	A05	102844278-102849879	1040	116.20696	9.31	nucl
GH_A07G0059.1	1 533	A07	628988-631260	510	58.37572	8.9	nucl
GH_A07G0755.1	3 282	A07	9022671-9027515	1093	120.99027	8.98	nucl
GH_A07G2291.1	2 961	D07	91905861-91909976	986	110.2077	6.3	nucl
GH_A07G2350.1	2 331	A07	92889383-92892178	776	87.42472	9.27	nucl
GH_A08G0692.1	2 229	A08	10127217-10130953	742	83.86942	9.19	nucl
GH_A08G1551.1	1 131	A08	102402502-102404142	376	42.99415	5.11	nucl
GH_A08G2046.1	1 428	A08	115647936-115650980	475	54.38497	5.52	nucl
GH_A08G2091.1	1 770	A08	116652133-116659356	589	67.4778	9.15	chlo
GH_A08G2193.1	3 021	A08	117970079-117975125	1006	112.14071	6.14	nucl
GH_A09G0827.1	2 682	A09	56330011-56333092	893	99.83975	9.11	nucl
GH_A09G1541.1	1 524	A09	71774616-71777153	507	57.473	5.23	nucl
GH_A09G1756.1	2 982	A09	74454345-74458907	993	110.9183	6.16	nucl
GH_A09G1944.1	2 085	A09	76570427-76572832	694	78.50671	9.56	vacu
GH_A09G2222.1	2 697	A09	79100072-79103507	898	101.38568	5.71	chlo
GH_A09G2652.1	3 216	A09	82737688-82741940	1071	119.47197	9.14	nucl
GH_A10G1840.1	2 709	A10	96909927-96913212	902	100.12998	9.1	nucl
GH_A10G2325.1	2 406	A10	109893241-109895998	801	91.39894	5.62	nucl
GH_A11G0638.1	2 541	A11	5673205-5676085	846	93.87066	9.49	nucl
GH_A11G1309.1	2 355	A11	13852756-13856249	784	88.58708	9.3	nucl
GH_A11G1709.1	2 916	A11	21197533-21201779	971	107.75294	8.55	chlo
GH_A11G3051.1	2 604	A11	111002265-111006157	867	96.23437	8.47	nucl
GH_A11G3723.1	2 442	A11	121125176-121128740	813	92.20752	5.62	chlo
GH_A12G2452.1	1 251	A12	102934223-102937012	416	47.26911	7.6	nucl
GH_A12G2487.1	2 748	A12	103276025-103279440	915	103.29828	8.32	mito
GH_A12G2819.1	2 136	A12	106188338-106190738	711	79.65164	9.26	nucl
GH_A13G1327.1	2 727	A13	78846901-78851063	908	101.54571	6.84	nucl
GH_D01G1490.1	1 308	D01	31939006-31941324	435	49.87765	4.87	nucl
GH_D01G2334.1	1 515	D01	62367964-62370708	504	57.81324	4.8	nucl
GH_D01G2442.1	2 700	D01	63514690-63518172	899	100.38982	5.99	cyto
GH_D02G0253.1	2 760	D02	2744183-2747593	919	103.89322	5.33	mito
GH_D02G0972.1	1 272	D02	20372804-20374278	423	48.19872	9.06	nucl
GH_D02G1228.1	2 793	D02	35813214-35817125	930	105.24384	4.93	nucl
GH_D03G0017.1	2 625	D03	138690-142736	874	99.91123	6.13	nucl
GH_D03G1434.1	1 563	D03	46317807-46319773	520	59.66096	5.74	nucl
GH_D04G0442.1	3 126	D04	6606757-6612330	1041	116.1618	9.36	nucl
GH_D04G1311.1	2 853	D04	43160828-43164823	950	105.2462	5.81	nucl
GH_D05G0951.1	2 331	D05	7672457-7675301	776	88.00605	6.03	nucl
GH_D05G3052.1	2 688	D05	31538189-31546485	895	102.41937	6.85	nucl
GH_D07G0068.1	2 217	D07	603139-606111	738	84.33982	9.02	nucl
GH_D07G0751.1	3 279	D07	8003392-8008211	1092	120.65422	9.27	nucl
GH_D07G1883.1	2 877	D07	38696495-38700181	958	109.3117	7.24	nucl
GH_D07G2236.1	2 904	D07	53803702-53807843	967	107.98503	5.97	nucl
GH_D07G2293.1	1 923	D07	54683888-54686682	640	72.50937	9.54	nucl
GH_D08G0689.1	2 229	D08	8659310-8663064	742	83.75555	9.36	nucl
GH_D08G1569.1	1 131	D08	51012741-51014358	376	42.8249	5.1	nucl
GH_D08G2058.1	1 428	D08	60460228-60462948	475	54.34586	5.45	nucl
GH_D08G2107.1	1 725	D08	61169567-61171897	574	65.66284	9.43	chlo
GH_D08G2206.1	3 015	D08	62410993-62416003	1004	112.23577	6.18	nucl
GH_D09G0775.1	2 682	D09	30764289-30767370	893	99.69663	9.03	nucl
GH_D09G1524.1	1 548	D09	42192153-42194698	515	58.35159	5	nucl
GH_D09G1704.1	2 970	D09	44087946-44092487	989	110.36687	6.26	nucl
GH_D09G1898.1	2 070	D09	46163346-46165731	689	77.82586	9.46	vacu
GH_D09G2155.1	2 697	D09	48362268-48365696	898	101.5167	5.51	nucl
GH_D09G2574.1	3 216	D09	51563268-51567521	1071	119.46213	9.34	nucl
GH_D10G1944.1	2 781	D10	51528884-51532168	926	102.49744	8.92	nucl
GH_D10G2421.1	2 397	D10	61533814-61536564	798	91.18499	5.67	chlo
GH_D11G0666.1	2 574	D11	5396702-5399612	857	95.30735	9.44	nucl
GH_D11G1341.1	2 355	D11	12264012-12267490	784	88.40188	9.34	nucl
GH_D11G1747.1	2 919	D11	17898303-17902479	972	107.56187	8.73	chlo
GH_D11G3080.1	2 610	D11	61692025-61696072	869	95.91499	8.37	nucl
GH_D11G3750.1	2 442	D11	71069016-71072588	813	92.19382	5.86	chlo
GH_D12G2464.1	1 251	D12	57154546-57157210	416	46.98566	6.25	nucl
GH_D12G2500.1	2 748	D12	57445826-57454346	915	103.40408	8.21	mito
GH_D12G2844.1	2 217	D12	60412735-60415125	738	82.3026	9.26	nucl
GH_D13G1252.1	2 736	D13	39430684-39434564	911	101.67986	6.55	nucl

基因ID Gene ID	转录本长度 Transcript Length(bp)	染色体 Chromo- some	基因组位置 Genomic Location	氨基酸数量 Number of Amino Acid	分子量 Molecular Weight	等电点 pI	亚细胞定位 Subcellular localization
GH_A01G1410.1	1 314	A01	54808764-54811032	437	49.92686	4.88	nucl
GH_A01G2253.1	1 518	A01	115594835-115597597	505	57.79641	4.86	nucl
GH_A01G2363.1	2 700	A01	116832063-116835585	899	100.41775	6.11	cyto
GH_A02G0234.1	2 757	A02	2404926-2408330	918	103.50754	5.22	nucl
GH_A02G2044.1	2 625	A02	108074808-108078882	874	99.90307	6.04	nucl
GH_A03G0533.1	1 563	A03	8153312-8155305	520	60.28175	5.68	nucl
GH_A03G1103.1	2 793	A03	50408499-50412418	930	105.21887	5.07	nucl
GH_A04G0979.1	1 434	A04	69462180-69469536	477	52.62433	4.64	nucl
GH_A05G0964.1	2 346	A05	8607869-8610697	781	88.96019	6.01	nucl
GH_A05G3931.1	3 123	A05	102844278-102849879	1040	116.20696	9.31	nucl
GH_A07G0059.1	1 533	A07	628988-631260	510	58.37572	8.9	nucl
GH_A07G0755.1	3 282	A07	9022671-9027515	1093	120.99027	8.98	nucl
GH_A07G2291.1	2 961	D07	91905861-91909976	986	110.2077	6.3	nucl
GH_A07G2350.1	2 331	A07	92889383-92892178	776	87.42472	9.27	nucl
GH_A08G0692.1	2 229	A08	10127217-10130953	742	83.86942	9.19	nucl
GH_A08G1551.1	1 131	A08	102402502-102404142	376	42.99415	5.11	nucl
GH_A08G2046.1	1 428	A08	115647936-115650980	475	54.38497	5.52	nucl
GH_A08G2091.1	1 770	A08	116652133-116659356	589	67.4778	9.15	chlo
GH_A08G2193.1	3 021	A08	117970079-117975125	1006	112.14071	6.14	nucl
GH_A09G0827.1	2 682	A09	56330011-56333092	893	99.83975	9.11	nucl
GH_A09G1541.1	1 524	A09	71774616-71777153	507	57.473	5.23	nucl
GH_A09G1756.1	2 982	A09	74454345-74458907	993	110.9183	6.16	nucl
GH_A09G1944.1	2 085	A09	76570427-76572832	694	78.50671	9.56	vacu
GH_A09G2222.1	2 697	A09	79100072-79103507	898	101.38568	5.71	chlo
GH_A09G2652.1	3 216	A09	82737688-82741940	1071	119.47197	9.14	nucl
GH_A10G1840.1	2 709	A10	96909927-96913212	902	100.12998	9.1	nucl
GH_A10G2325.1	2 406	A10	109893241-109895998	801	91.39894	5.62	nucl
GH_A11G0638.1	2 541	A11	5673205-5676085	846	93.87066	9.49	nucl
GH_A11G1309.1	2 355	A11	13852756-13856249	784	88.58708	9.3	nucl
GH_A11G1709.1	2 916	A11	21197533-21201779	971	107.75294	8.55	chlo
GH_A11G3051.1	2 604	A11	111002265-111006157	867	96.23437	8.47	nucl
GH_A11G3723.1	2 442	A11	121125176-121128740	813	92.20752	5.62	chlo
GH_A12G2452.1	1 251	A12	102934223-102937012	416	47.26911	7.6	nucl
GH_A12G2487.1	2 748	A12	103276025-103279440	915	103.29828	8.32	mito
GH_A12G2819.1	2 136	A12	106188338-106190738	711	79.65164	9.26	nucl
GH_A13G1327.1	2 727	A13	78846901-78851063	908	101.54571	6.84	nucl
GH_D01G1490.1	1 308	D01	31939006-31941324	435	49.87765	4.87	nucl
GH_D01G2334.1	1 515	D01	62367964-62370708	504	57.81324	4.8	nucl
GH_D01G2442.1	2 700	D01	63514690-63518172	899	100.38982	5.99	cyto
GH_D02G0253.1	2 760	D02	2744183-2747593	919	103.89322	5.33	mito
GH_D02G0972.1	1 272	D02	20372804-20374278	423	48.19872	9.06	nucl
GH_D02G1228.1	2 793	D02	35813214-35817125	930	105.24384	4.93	nucl
GH_D03G0017.1	2 625	D03	138690-142736	874	99.91123	6.13	nucl
GH_D03G1434.1	1 563	D03	46317807-46319773	520	59.66096	5.74	nucl
GH_D04G0442.1	3 126	D04	6606757-6612330	1041	116.1618	9.36	nucl
GH_D04G1311.1	2 853	D04	43160828-43164823	950	105.2462	5.81	nucl
GH_D05G0951.1	2 331	D05	7672457-7675301	776	88.00605	6.03	nucl
GH_D05G3052.1	2 688	D05	31538189-31546485	895	102.41937	6.85	nucl
GH_D07G0068.1	2 217	D07	603139-606111	738	84.33982	9.02	nucl
GH_D07G0751.1	3 279	D07	8003392-8008211	1092	120.65422	9.27	nucl
GH_D07G1883.1	2 877	D07	38696495-38700181	958	109.3117	7.24	nucl
GH_D07G2236.1	2 904	D07	53803702-53807843	967	107.98503	5.97	nucl
GH_D07G2293.1	1 923	D07	54683888-54686682	640	72.50937	9.54	nucl
GH_D08G0689.1	2 229	D08	8659310-8663064	742	83.75555	9.36	nucl
GH_D08G1569.1	1 131	D08	51012741-51014358	376	42.8249	5.1	nucl
GH_D08G2058.1	1 428	D08	60460228-60462948	475	54.34586	5.45	nucl
GH_D08G2107.1	1 725	D08	61169567-61171897	574	65.66284	9.43	chlo
GH_D08G2206.1	3 015	D08	62410993-62416003	1004	112.23577	6.18	nucl
GH_D09G0775.1	2 682	D09	30764289-30767370	893	99.69663	9.03	nucl
GH_D09G1524.1	1 548	D09	42192153-42194698	515	58.35159	5	nucl
GH_D09G1704.1	2 970	D09	44087946-44092487	989	110.36687	6.26	nucl
GH_D09G1898.1	2 070	D09	46163346-46165731	689	77.82586	9.46	vacu
GH_D09G2155.1	2 697	D09	48362268-48365696	898	101.5167	5.51	nucl
GH_D09G2574.1	3 216	D09	51563268-51567521	1071	119.46213	9.34	nucl
GH_D10G1944.1	2 781	D10	51528884-51532168	926	102.49744	8.92	nucl
GH_D10G2421.1	2 397	D10	61533814-61536564	798	91.18499	5.67	chlo
GH_D11G0666.1	2 574	D11	5396702-5399612	857	95.30735	9.44	nucl
GH_D11G1341.1	2 355	D11	12264012-12267490	784	88.40188	9.34	nucl
GH_D11G1747.1	2 919	D11	17898303-17902479	972	107.56187	8.73	chlo
GH_D11G3080.1	2 610	D11	61692025-61696072	869	95.91499	8.37	nucl
GH_D11G3750.1	2 442	D11	71069016-71072588	813	92.19382	5.86	chlo
GH_D12G2464.1	1 251	D12	57154546-57157210	416	46.98566	6.25	nucl
GH_D12G2500.1	2 748	D12	57445826-57454346	915	103.40408	8.21	mito
GH_D12G2844.1	2 217	D12	60412735-60415125	738	82.3026	9.26	nucl
GH_D13G1252.1	2 736	D13	39430684-39434564	911	101.67986	6.55	nucl

基因编号 Gene ID	单倍型Haplotype	单倍型号 Hap	纤维长度 FL P-value (t-test)	纤维强度 FS P-value (t-test)	马克隆值 FM P-value (t-test)
GH_A09G0827	CT_A_C_T_G_C_T_C_A_A_A_C_C_T_T_T_A_C_G	Hap_0	a	a	a
	CT_A_C_T_G_C_T_C_A_A_A_C_C_T_T_T_A_C_G	Hap_1	b	a	b
	C_A_T_T_A_C_T_C_A_C_A_T_C_T_A_T_A_C_A	Hap_2	NA	NA	NA
	C_G_C_C_G_T_T_C_G_C_G_C_T_T_A_C_G_A_G	Hap_3	a	b	ab
	C_A_T_T_A_C_T_C_A_C_A_T_C_T_A_T_A_C_G	Hap_4	c	c	c
GH_D09G0775	G_C_T_G_GAAGCAC_C_T_C_T_G_A_G_G_C_C_G_C_A_A	Hap_0	a	a	a
	G_C_C_G_GAAGCAC_T_C_G_C_G_C_A_G_T_T_A_C_G_C	Hap_1	b	b	b
	G_T_T_G_GAAGCAC_C_T_C_T_G_A_G_C_C_C_G_C_A_C	Hap_2	a	ab	ab
	G_C_T_G_GAAGCAC_C_T_C_T_G_A_G_G_C_C_G_C_A_C	Hap_3	a	ab	ab
	G_C_C_G_GAAGCAC_C_C_G_T_G_A_G_G_C_T_A_C_G_C	Hap_4	c	c	ab
GH_D09G1704	CGTCGTG_A	Hap_0	a	a	a
	CGTCGTG_T	Hap_1	b	b	b
	C_T	Hap_2	ab	ab	ab
GH_D11G0666	C_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_T_A_C	Hap_0	a	a	a
	T_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_TA_A_C	Hap_1	b	a	a
	C_A_CAA_G_A_T_A_T_C_G_C_G_C_C_C_G_T_A_T	Hap_2	NA	NA	NA
	C_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_TA_A_C	Hap_3	ab	a	a
GH_D08G2206	G_C_T_A_A_T_G_G	Hap_0	a	a	a
	G_A_T_A_A_T_GA_G	Hap_1	ab	b	a
	T_C_TC_C_T_TC_GA_C	Hap_2	b	ab	b
	G_C_TC_C_T_TC_GA_C	Hap_3	NA	NA	NA
	G_C_T_A_A_T_GA_G	Hap_4	ab	ab	ab
	G_C_T_A_A_TC_GA_G	Hap_5	NA	NA	NA
GH_D10G1944	G_A_GCA_AACT_T_T_C_G	Hap_0	a	a	a
GH_D10G1944	G_T_GCA_AACT_T_T_C_G	Hap_1	b	b	a
GH_A07G0755	T_A_G_G_C_A_G_G_A_T_G_G_A_C_A_T_C_C_C_G_G_G_G_G_A_A_C	Hap_2	a	a	a
	T_A_C_G_C_A_G_G_A_T_G_G_A_C_A_T_C_C_C_G_G_G_G_G_A_A_C	Hap_3	b	b	a
	A_A_C_G_C_A_C_C_T_C_G_G_G_CT_A_A_C_T_T_T_G_G_A_G_A_A_C	Hap_4	c	c	b
GH_A11G3051	G_A_G_G_ACAG_C_G_T_C_G_C_G_A_G	Hap_0	a	a	ab
	G_A_G_G_ACAG_C_G_T_C_G_C_G_A_A	Hap_1	b	a	a
	C_A_G_T_ACAG_A_G_T_C_T_A_A_A_G	Hap_2	ab	a	b
GH_D12G2844	C_G_G_A_T_T_A_T_A	Hap_0	a	a	a
	C_G_G_A_T_T_A_G_A	Hap_1	b	b	a
	C_G_T_G_A_T_T_G_G	Hap_2	ab	ab	a
GH_A09G1541	C_G_A_T_A_A	Hap_0	a	a	a
GH_A09G1541	T_G_C_T_A_G	Hap_1	b	b	b
GH_D07G0751	G_A_G_A_T_GT_C_A_T_CT_G_C_A_A_T_CA_G_A_A_AATATTAATT_CAT_C_T_A_C	Hap_0	a	a	a
	G_A_GAGTGGCAT_C_A_GT_C_G_T_CT_GA_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_T_A_C	Hap_1	b	ab	a
	G_A_GAGTGGCAT_C_A_GT_C_G_T_CT_GA_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_C_A_C	Hap_2	ab	b	b
	G_A_G_C_A_G_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_A_T_G_G	Hap_3	abc	ab	ab
	G_G_G_C_A_GT_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_C_T_G_G	Hap_4	NA	NA	NA
	C_G_G_C_A_GT_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_C_T_G_G	Hap_5	c	ab	ab
	G_A_G_C_A_GT_C_G_T_C_G_A_G_A_C_C_A_T_A_AATATTAATT_CAT_C_T_A_C	Hap_6	NA	NA	NA
	G_A_G_C_A_GT_C_G_T_CT_G_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_T_A_C	Hap_7	ab	ab	ab
GH_A12G2487	A_A_T_A_C_G_C_T_A_A_T_T_G_G_C_C_A	Hap_0	a	a	a
	A_C_T_T_C_G_T_C_A_A_C_C_A_A_C_C_A	Hap_1	NA	NA	NA
	A_A_T_A_C_G_C_T_A_A_T_T_G_A_T_C_A	Hap_2	a	a	a
	G_C_C_A_T_A_T_T_G_C_T_T_G_A_C_T_T	Hap_3	a	a	b
GH_D13G1252	C_C_A_C_C	Hap_0	a	a	a
GH_D13G1252	C_G_A_C_G	Hap_1	b	b	a
GH_A07G2291	T_T_C_C_T_G	Hap_0	a	a	a
	T_G_T_C_A_A	Hap_1	b	b	a
	A_G_T_C_A_A	Hap_2	c	c	b
GH_D07G2236	C_C_G_T_T_A_C_C_T	Hap_0	a	a	ab
	A_C_G_A_C_A_C_C_T	Hap_1	b	b	a
	A_C_G_A_T_A_C_C_T	Hap_2	ab	ab	b
GH_D08G2058	G_G_C_T_A_A_A_C_A_G_C_T_C_G	Hap_0	a	a	a
	G_T_T_A_C_T_A_T_T_C_C_T_C_G	Hap_1	b	b	b
	G_T_T_A_C_T_A_T_A_C_A_A_C_G	Hap_2	c	b	a
	G_T_T_A_C_T_A_T_A_C_C_T_C_G	Hap_3	abc	b	ab
GH_A08G2046	T_G_A_C_G_C_A_C_G_G_G_A_T_T_C_C_T_G_T_A_G_TAATAACTAA_G_C_G_C_A_A_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_AAATTAGGAAAAC_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_0	a	a	a
	T_G_A_G_G_T_A_C_G_G_G_A_T_C_C_G_C_G_C_G_G_TAATAACTAA_G_C_G_C_T_G_T_T_T_C_C_C_T_G_A_CG_G_C_C_T_G_A_T_T_T_C_A_G_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_1	a	a	a
	C_G_A_G_G_C_G_A_G_A_A_C_C_C_T_C_C_G_C_A_G_TAATAACTAA_G_C_G_C_A_G_C_T_T_CT_C_C_C_G_A_CG_G_C_T_T_G_T_G_T_T_C_A_G_C_T_T_T_A_T_A_T_C_C_A_T_C	Hap_2	a	a	a
	T_G_A_C_G_C_A_C_G_G_G_A_T_T_C_C_T_G_T_A_G_TAATAACTAA_G_C_G_C_A_A_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_A_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_3	a	a	a
	T_G_A_G_G_C_A_C_A_G_G_A_T_C_C_C_C_T_C_A_G_TAATAACTAA_G_C_T_C_A_G_T_T_T_C_T_C_T_G_A_CG_G_C_C_T_G_T_T_T_G_C_A_G_C_G_T_T_A_T_A_T_T_G_T_T_C	Hap_4	NA	NA	NA
	T_G_A_C_G_C_A_C_G_G_G_A_T_C_C_C_C_G_T_A_G_TAATAACTAA_G_C_G_C_A_G_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_AAATTAGGAAAAC_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_5	a	a	b
GH_D09G2574	C_C_T_C_G_C_T_T_G_C_C_G_C_A_G_C_T_A_C_A_C_T	Hap_0	a	a	a
	T_C_T_C_G_C_T_C_G_C_C_G_C_G_G_C_T_A_T_A_C_T	Hap_1	a	a	b
	C_C_C_T_A_T_C_C_A_T_T_G_C_G_A_T_G_C_C_C_T_T	Hap_2	b	b	ab
	C_T_T_C_G_C_T_C_G_C_C_G_C_A_G_C_T_A_C_A_C_C	Hap_3	a	a	ab
GH_D11G1341	C_C_G_C_C_C_G_T_A_C_CA	Hap_0	a	a	a
GH_D11G1341	A_C_G_C_A_C_G_T_G_C_CA	Hap_1	b	b	a
GH_D12G2464	C_C_C_G_G_A_A_C_A_A_G_T_A	Hap_0	a	a	a
	T_A_C_G_G_A_C_C_A_A_G_T_C	Hap_1	b	b	b
	C_C_T_A_G_A_C_T_A_T_T_A_A	Hap_2	a	a	a
GH_A09G2222	T_A_C_T_T_C_A_AATTTTAAAATTT_T_TA_G_C_G_A_A_TC_G_C_GA_A_C	Hap_0	a	a	a
GH_A09G2222	T_A_C_C_T_C_A_AATTTTAAAATTT_TA_T_A_C_G_G_A_T_G_C_G_A_C	Hap_1	b	b	a
GH_D07G0068	A_G_G_C_C_G_C_C_A_C_T_T_C_T_C	Hap_0	a	a	a
GH_D07G0068	A_A_GA_C_T_A_T_C_A_T_C_C_C_A_T	Hap_1	b	b	a
GH_D08G0689	G_T_C_C_A_A_A_A_C_C_T_C_C_A_G_T_G_C_G_G_T_T_G_G_CA_A_C_C_G_A_C_G_A_C	Hap_0	a	a	a
GH_D08G0689	G_C_C_C_A_A_A_A_C_C_T_C_C_A_G_C_G_C_G_G_A_T_G_G_CA_A_C_C_G_A_C_T_A_T	Hap_1	b	b	b
GH_A05G3931	T_T_A_G_CCGACA_C_C_T	Hap_0	a	a	a
	T_C_G_G_C_A_C_T	Hap_1	b	b	a
	G_C_G_A_CCGACA_A_T_A	Hap_2	abc	bc	a
	T_C_A_G_CCGACA_A_C_T	Hap_3	c	c	a
GH_A13G1327	G_A_T_G_G_T_A_C_A_C_G_C_T_C_T	Hap_0	a	a	a
	G_G_G_C_G_T_C_C_G_C_A_C_A_C_T	Hap_1	b	b	b
	G_A_T_G_G_C_A_C_A_C_G_C_T_C_T	Hap_2	b	b	c
	G_A_T_C_G_T_A_T_A_C_G_C_A_A_A	Hap_3	c	c	d
GH_A01G1410	A_T_C_A_A_G_A_G_C_A_C_C_A_A_T_T	Hap_0	a	a	a
	T_C_C_A_G_G_A_G_C_A_T_C_A_G_T_C	Hap_1	a	a	b
	T_C_C_A_G_G_A_G_C_A_T_C_G_G_T_C	Hap_2	b	a	b
GH_A01G2363	T_A_C_C_G_G_A_C_T_G_C_A_A_A_C	Hap_0	a	a	a
	T_G_T_T_G_A_A_C_T_G_T_G_G_A_A	Hap_1	ab	ab	ab
	T_G_T_T_G_G_A_C_T_G_C_G_A_A_C	Hap_2	a	ab	b
	T_G_T_T_A_G_A_T_T_A_C_G_A_G_C	Hap_3	b	b	ab
GH_D03G1434	C_T_G_C_A_A_C_A_G_A_T_C_G_G	Hap_0	a	a	a
	T_C_GTT_CT_T_A_T_A_G_A_T_C_G_T	Hap_1	a	b	b
	T_T_G_C_A_A_T_A_C_A_A_C_G_G	Hap_2	b	c	b
	T_C_GTT_CT_T_A_T_A_G_A_T_C_G_G	Hap_3	c	d	c
GH_A11G3723	A_C_C_A_G_C_C_T_G_A_G_A_C_AC_A	Hap_0	a	a	a
	A_C_C_G_G_C_C_T_A_A_C_A_C_AC_C	Hap_1	a	a	a
	T_C_C_G_A_C_C_T_G_T_C_A_C_A_C	Hap_2	b	b	b
	A_G_A_G_G_C_C_T_G_A_C_G_T_AC_C	Hap_3	NA	NA	NA
	A_C_C_G_G_C_C_T_G_A_C_A_C_AC_C	Hap_4	NA	NA	NA
	A_C_C_G_G_A_T_G_G_A_C_A_C_AC_C	Hap_5	NA	NA	NA
GH_D02G0972	A_C_A_C_T_T_C_C_G_G_G	Hap_0	a	a	a
	A_C_A_C_T_T_C_C_G_A_G	Hap_1	b	b	b
	T_T_G_A_T_T_A_C_A_G_T	Hap_2	NA	NA	NA
GH_A10G2325	A_T_G_A_G_C_T	Hap_0	a	a	a
	A_T_G_A_G_C_C	Hap_1	b	b	b
	T_C_A_T_T_T_C	Hap_2	ab	c	b
GH_D10G2421	C_T_T_A_G_T_A_G_C_A_T_C_A_T_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAG AAAACAAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_G	Hap_0	a	a	a
	C_G_T_A_T_G_C_T_T_G_C_A_G_C_G_A_T_G_A_A_C_A_G_G_G_G_T_G_C_G_A_C_A_A_A_G_G_T_C_G_A_G_G_T_T_G_T_T_T_T_T_C_GTAC_T_A_A_C_G_G_C_A_A_G_A_C_T_C_G_A_G_G_G_G	Hap_1	b	b	b
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAA CAAAAAA_T_A_T_G_C_T_G_T_T_A_T_G_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_2	ab	ab	ab
	T_G_T_A_G_T_A_G_C_A_T_A_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAAC AAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_G	Hap_3	NA	NA	NA
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAAC AAAAAA_C_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_4	NA	NA	NA
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAA CAAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_5	NA	NA	NA
GH_A12G2819	G_A_G_G_C_C_A_G_T_G_CAGTGGGGACGAAGTT	Hap_0	a	a	a
	G_A_G_G_C_C_A_T_T_G_CAGTGGGGACGAAGTT	Hap_1	b	b	b
	A_C_G_C_T_G_C_T_C_T_C	Hap_2	NA	NA	NA
	G_C_T_G_C_G_A_T_C_G_CAGTGGGGACGAAGTT	Hap_3	NA	NA	NA
GH_A01G2253	A_C_G_G_A_C_A_A_A_G_T_A_G_T_A_C	Hap_0	a	a	a
	A_T_G_A_C_C_T_A_G_C_TAA_A_A_C_A_C	Hap_1	a	a	b
	C_C_G_A_A_G_T_A_G_C_T_T_A_C_A_A	Hap_2	a	a	ab
	C_C_C_A_A_G_T_A_G_C_T_T_A_C_G_C	Hap_3	a	a	ab
	A_C_G_A_A_C_A_T_G_C_T_A_A_C_A_C	Hap_4	a	a	NA
	A_C_G_A_A_C_A_A_G_C_T_A_A_T_A_C	Hap_5	a	a	NA
GH_D08G2107	C_G_T_G_A_C_A_G_A_A_T_G_T_T_A_A	Hap_0	a	a	a
	G_T_C_C_T_C_G_T_G_C_T_G_C_G_A_A	Hap_1	b	b	b
	G_T_C_C_A_G_A_G_A_C_C_C_C_G_G_G	Hap_2	NA	NA	NA
	G_T_C_C_A_G_A_G_A_C_T_C_C_G_G_G	Hap_3	c	ab	ab
GH_A08G2091	A_A_T_C_C_G_C_T_C_G_C_T_AG_G_T_G_G_T_G_G_A	Hap_0	a	a	a
	A_A_T_C_C_G_T_T_C_G_C_T_AG_G_T_G_G_T_G_G_A	Hap_1	b	b	a
	A_T_T_T_C_A_C_A_C_G_C_A_A_A_A_C_T_A_A_G_A	Hap_2	ab	a	a
	A_A_T_C_T_A_C_T_C_G_C_T_A_A_A_C_T_A_A_G_A	Hap_3	NA	NA	a
	A_A_T_T_C_A_C_T_C_G_C_A_A_A_A_C_T_A_A_G_A	Hap_4	NA	NA	a
	A_A_T_C_C_G_C_T_C_G_C_T_AG_G_T_G_G_T_G_A_A	Hap_5	ab	a	a
	C_A_A_C_C_A_C_T_T_T_A_T_AG_A_A_G_G_T_A_G_G	Hap_6	ab	ab	a
GH_D09G2155	C_G_T_G	Hap_0	a	a	a
	A_T_T_G	Hap_1	a	b	b
	C_G_T_T	Hap_2	b	c	ab
	C_G_C_G	Hap_3	NA	NA	NA
	A_G_T_G	Hap_4	NA	NA	NA
GH_D04G0442	A_G_G_G_C_A_T_T_T	Hap_0	a	a	a
	A_G_A_G_C_G_T_C_T	Hap_1	b	b	b
	T_A_G_G_G_G_T_T_G	Hap_2	NA	NA	NA
	A_G_G_A_C_G_G_T_T	Hap_3	NA	NA	NA
	A_G_G_G_C_G_T_T_T	Hap_4	ab	ab	ab
GH_A05G0964	T_A_G_G_A_C_T_C_C_A_A_A_A_A_A_G	Hap_0	a	a	a
	T_A_G_G_T_C_C_C_C_A_A_A_A_A_A_G	Hap_1	b	b	b
	A_A_G_T_A_T_T_A_T_T_T_A_T_C_AT_T	Hap_2	NA	NA	NA
	T_G_T_G_A_C_T_C_C_A_A_T_A_A_A_G	Hap_3	NA	NA	NA
GH_D05G0951	G_T_A_G	Hap_0	a	a	a
	A_C_G_T	Hap_1	a	a	b
	G_T_A_T	Hap_2	NA	NA	NA
GH_A11G0638	A_T_G_C_T_G_C_T_G_C_A_C_C_A_C	Hap_0	a	a	a
	G_T_A_G_C_A_C_A_G_T_A_A_C_G_C	Hap_1	a	a	b
	A_A_G_G_T_G_C_T_A_C_C_C_G_A_T	Hap_2	a	ab	ab
	G_T_A_G_C_G_C_A_G_T_A_A_C_G_C	Hap_3	b	b	a
	A_A_G_G_T_G_T_T_A_C_C_C_G_A_T	Hap_4	NA	NA	NA
	A_T_G_G_T_G_C_T_G_C_A_C_C_A_C	Hap_5	a	ab	ab
	G_T_G_G_C_G_C_A_G_C_A_A_C_G_C	Hap_6	b	ab	ab
	A_T_G_G_T_G_C_T_A_C_C_C_C_A_T	Hap_7	NA	NA	NA
GH_A08G1551	T_A_C_G_G_T_C_T_A_T_C_T_G_T	Hap_0	a	a	a
	G_AT_C_A_A_G_A_C_G_G_T_C_C_G	Hap_1	NA	NA	a
	T_A_A_G_G_T_C_T_A_T_C_T_G_T	Hap_2	b	b	a
GH_D08G1569	T_A_T_G_C	Hap_0	a	a	a
	T_G_C_G_T	Hap_1	b	a	a
	T_A_C_G_T	Hap_2	NA	NA	NA
	A_A_T_T_C	Hap_3	NA	NA	NA
GH_D07G1883	G_TAGA_G_C_T_G_T_C_T	Hap_0	a	a	a
	A_TAGA_G_T_A_A_C_A_T	Hap_1	NA	NA	NA
	A_T_A_T_A_A_C_A_T	Hap_2	a	b	b
	G_TAGA_G_C_T_G_T_C_C	Hap_3	NA	NA	NA
	G_TAGA_G_C_T_A_T_C_T	Hap_4	NA	NA	NA
GH_A12G2452	T_A_C_T_G_C_C_T_T_T_CT_T_C_G_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_0	a	a	a
	C_G_C_C_G_C_C_C_T_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_1	a	b	b
	T_A_A_T_G_T_T_T_T_A_C_A_T_A_T_TTCAAAACGTTTGATGTAACCACTAA	Hap_2	NA	NA	NA
	T_A_C_T_A_C_C_T_T_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_3	b	c	ab
	T_A_C_T_A_C_C_T_C_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_4	NA	NA	NA
GH_A02G2044	C_G_A_A_A_G_G_C_G_G_C_A_G_C_G_G_G	Hap_0	a	a	a
	C_G_A_G_A_G_G_C_G_G_C_A_G_T_G_G_G	Hap_1	b	b	b
	T_G_G_G_G_C_G_T_T_C_T_G_A_C_G_G_A	Hap_2	ab	ab	ab
	C_G_G_G_A_G_C_C_G_C_C_G_G_C_C_A_A	Hap_3	ab	b	ab
	C_A_A_G_A_G_G_C_G_G_C_A_G_C_G_G_G	Hap_4	NA	NA	NA

基因编号 Gene ID	单倍型Haplotype	单倍型号 Hap	纤维长度 FL P-value (t-test)	纤维强度 FS P-value (t-test)	马克隆值 FM P-value (t-test)
GH_A09G0827	CT_A_C_T_G_C_T_C_A_A_A_C_C_T_T_T_A_C_G	Hap_0	a	a	a
	CT_A_C_T_G_C_T_C_A_A_A_C_C_T_T_T_A_C_G	Hap_1	b	a	b
	C_A_T_T_A_C_T_C_A_C_A_T_C_T_A_T_A_C_A	Hap_2	NA	NA	NA
	C_G_C_C_G_T_T_C_G_C_G_C_T_T_A_C_G_A_G	Hap_3	a	b	ab
	C_A_T_T_A_C_T_C_A_C_A_T_C_T_A_T_A_C_G	Hap_4	c	c	c
GH_D09G0775	G_C_T_G_GAAGCAC_C_T_C_T_G_A_G_G_C_C_G_C_A_A	Hap_0	a	a	a
	G_C_C_G_GAAGCAC_T_C_G_C_G_C_A_G_T_T_A_C_G_C	Hap_1	b	b	b
	G_T_T_G_GAAGCAC_C_T_C_T_G_A_G_C_C_C_G_C_A_C	Hap_2	a	ab	ab
	G_C_T_G_GAAGCAC_C_T_C_T_G_A_G_G_C_C_G_C_A_C	Hap_3	a	ab	ab
	G_C_C_G_GAAGCAC_C_C_G_T_G_A_G_G_C_T_A_C_G_C	Hap_4	c	c	ab
GH_D09G1704	CGTCGTG_A	Hap_0	a	a	a
	CGTCGTG_T	Hap_1	b	b	b
	C_T	Hap_2	ab	ab	ab
GH_D11G0666	C_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_T_A_C	Hap_0	a	a	a
	T_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_TA_A_C	Hap_1	b	a	a
	C_A_CAA_G_A_T_A_T_C_G_C_G_C_C_C_G_T_A_T	Hap_2	NA	NA	NA
	C_G_C_GT_G_A_G_A_T_T_C_A_T_A_T_G_TA_A_C	Hap_3	ab	a	a
GH_D08G2206	G_C_T_A_A_T_G_G	Hap_0	a	a	a
	G_A_T_A_A_T_GA_G	Hap_1	ab	b	a
	T_C_TC_C_T_TC_GA_C	Hap_2	b	ab	b
	G_C_TC_C_T_TC_GA_C	Hap_3	NA	NA	NA
	G_C_T_A_A_T_GA_G	Hap_4	ab	ab	ab
	G_C_T_A_A_TC_GA_G	Hap_5	NA	NA	NA
GH_D10G1944	G_A_GCA_AACT_T_T_C_G	Hap_0	a	a	a
GH_D10G1944	G_T_GCA_AACT_T_T_C_G	Hap_1	b	b	a
GH_A07G0755	T_A_G_G_C_A_G_G_A_T_G_G_A_C_A_T_C_C_C_G_G_G_G_G_A_A_C	Hap_2	a	a	a
	T_A_C_G_C_A_G_G_A_T_G_G_A_C_A_T_C_C_C_G_G_G_G_G_A_A_C	Hap_3	b	b	a
	A_A_C_G_C_A_C_C_T_C_G_G_G_CT_A_A_C_T_T_T_G_G_A_G_A_A_C	Hap_4	c	c	b
GH_A11G3051	G_A_G_G_ACAG_C_G_T_C_G_C_G_A_G	Hap_0	a	a	ab
	G_A_G_G_ACAG_C_G_T_C_G_C_G_A_A	Hap_1	b	a	a
	C_A_G_T_ACAG_A_G_T_C_T_A_A_A_G	Hap_2	ab	a	b
GH_D12G2844	C_G_G_A_T_T_A_T_A	Hap_0	a	a	a
	C_G_G_A_T_T_A_G_A	Hap_1	b	b	a
	C_G_T_G_A_T_T_G_G	Hap_2	ab	ab	a
GH_A09G1541	C_G_A_T_A_A	Hap_0	a	a	a
GH_A09G1541	T_G_C_T_A_G	Hap_1	b	b	b
GH_D07G0751	G_A_G_A_T_GT_C_A_T_CT_G_C_A_A_T_CA_G_A_A_AATATTAATT_CAT_C_T_A_C	Hap_0	a	a	a
	G_A_GAGTGGCAT_C_A_GT_C_G_T_CT_GA_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_T_A_C	Hap_1	b	ab	a
	G_A_GAGTGGCAT_C_A_GT_C_G_T_CT_GA_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_C_A_C	Hap_2	ab	b	b
	G_A_G_C_A_G_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_A_T_G_G	Hap_3	abc	ab	ab
	G_G_G_C_A_GT_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_C_T_G_G	Hap_4	NA	NA	NA
	C_G_G_C_A_GT_T_G_C_CT_G_A_A_G_T_CA_A_A_G_A_C_C_T_G_G	Hap_5	c	ab	ab
	G_A_G_C_A_GT_C_G_T_C_G_A_G_A_C_C_A_T_A_AATATTAATT_CAT_C_T_A_C	Hap_6	NA	NA	NA
	G_A_G_C_A_GT_C_G_T_CT_G_A_A_A_T_CA_A_A_A_AATATTAATT_CAT_C_T_A_C	Hap_7	ab	ab	ab
GH_A12G2487	A_A_T_A_C_G_C_T_A_A_T_T_G_G_C_C_A	Hap_0	a	a	a
	A_C_T_T_C_G_T_C_A_A_C_C_A_A_C_C_A	Hap_1	NA	NA	NA
	A_A_T_A_C_G_C_T_A_A_T_T_G_A_T_C_A	Hap_2	a	a	a
	G_C_C_A_T_A_T_T_G_C_T_T_G_A_C_T_T	Hap_3	a	a	b
GH_D13G1252	C_C_A_C_C	Hap_0	a	a	a
GH_D13G1252	C_G_A_C_G	Hap_1	b	b	a
GH_A07G2291	T_T_C_C_T_G	Hap_0	a	a	a
	T_G_T_C_A_A	Hap_1	b	b	a
	A_G_T_C_A_A	Hap_2	c	c	b
GH_D07G2236	C_C_G_T_T_A_C_C_T	Hap_0	a	a	ab
	A_C_G_A_C_A_C_C_T	Hap_1	b	b	a
	A_C_G_A_T_A_C_C_T	Hap_2	ab	ab	b
GH_D08G2058	G_G_C_T_A_A_A_C_A_G_C_T_C_G	Hap_0	a	a	a
	G_T_T_A_C_T_A_T_T_C_C_T_C_G	Hap_1	b	b	b
	G_T_T_A_C_T_A_T_A_C_A_A_C_G	Hap_2	c	b	a
	G_T_T_A_C_T_A_T_A_C_C_T_C_G	Hap_3	abc	b	ab
GH_A08G2046	T_G_A_C_G_C_A_C_G_G_G_A_T_T_C_C_T_G_T_A_G_TAATAACTAA_G_C_G_C_A_A_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_AAATTAGGAAAAC_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_0	a	a	a
	T_G_A_G_G_T_A_C_G_G_G_A_T_C_C_G_C_G_C_G_G_TAATAACTAA_G_C_G_C_T_G_T_T_T_C_C_C_T_G_A_CG_G_C_C_T_G_A_T_T_T_C_A_G_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_1	a	a	a
	C_G_A_G_G_C_G_A_G_A_A_C_C_C_T_C_C_G_C_A_G_TAATAACTAA_G_C_G_C_A_G_C_T_T_CT_C_C_C_G_A_CG_G_C_T_T_G_T_G_T_T_C_A_G_C_T_T_T_A_T_A_T_C_C_A_T_C	Hap_2	a	a	a
	T_G_A_C_G_C_A_C_G_G_G_A_T_T_C_C_T_G_T_A_G_TAATAACTAA_G_C_G_C_A_A_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_A_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_3	a	a	a
	T_G_A_G_G_C_A_C_A_G_G_A_T_C_C_C_C_T_C_A_G_TAATAACTAA_G_C_T_C_A_G_T_T_T_C_T_C_T_G_A_CG_G_C_C_T_G_T_T_T_G_C_A_G_C_G_T_T_A_T_A_T_T_G_T_T_C	Hap_4	NA	NA	NA
	T_G_A_C_G_C_A_C_G_G_G_A_T_C_C_C_C_G_T_A_G_TAATAACTAA_G_C_G_C_A_G_T_T_T_C_C_C_T_G_G_CG_T_C_C_T_A_T_T_T_T_C_AAATTAGGAAAAC_A_C_G_T_T_A_T_A_T_C_G_T_T_C	Hap_5	a	a	b
GH_D09G2574	C_C_T_C_G_C_T_T_G_C_C_G_C_A_G_C_T_A_C_A_C_T	Hap_0	a	a	a
	T_C_T_C_G_C_T_C_G_C_C_G_C_G_G_C_T_A_T_A_C_T	Hap_1	a	a	b
	C_C_C_T_A_T_C_C_A_T_T_G_C_G_A_T_G_C_C_C_T_T	Hap_2	b	b	ab
	C_T_T_C_G_C_T_C_G_C_C_G_C_A_G_C_T_A_C_A_C_C	Hap_3	a	a	ab
GH_D11G1341	C_C_G_C_C_C_G_T_A_C_CA	Hap_0	a	a	a
GH_D11G1341	A_C_G_C_A_C_G_T_G_C_CA	Hap_1	b	b	a
GH_D12G2464	C_C_C_G_G_A_A_C_A_A_G_T_A	Hap_0	a	a	a
	T_A_C_G_G_A_C_C_A_A_G_T_C	Hap_1	b	b	b
	C_C_T_A_G_A_C_T_A_T_T_A_A	Hap_2	a	a	a
GH_A09G2222	T_A_C_T_T_C_A_AATTTTAAAATTT_T_TA_G_C_G_A_A_TC_G_C_GA_A_C	Hap_0	a	a	a
GH_A09G2222	T_A_C_C_T_C_A_AATTTTAAAATTT_TA_T_A_C_G_G_A_T_G_C_G_A_C	Hap_1	b	b	a
GH_D07G0068	A_G_G_C_C_G_C_C_A_C_T_T_C_T_C	Hap_0	a	a	a
GH_D07G0068	A_A_GA_C_T_A_T_C_A_T_C_C_C_A_T	Hap_1	b	b	a
GH_D08G0689	G_T_C_C_A_A_A_A_C_C_T_C_C_A_G_T_G_C_G_G_T_T_G_G_CA_A_C_C_G_A_C_G_A_C	Hap_0	a	a	a
GH_D08G0689	G_C_C_C_A_A_A_A_C_C_T_C_C_A_G_C_G_C_G_G_A_T_G_G_CA_A_C_C_G_A_C_T_A_T	Hap_1	b	b	b
GH_A05G3931	T_T_A_G_CCGACA_C_C_T	Hap_0	a	a	a
	T_C_G_G_C_A_C_T	Hap_1	b	b	a
	G_C_G_A_CCGACA_A_T_A	Hap_2	abc	bc	a
	T_C_A_G_CCGACA_A_C_T	Hap_3	c	c	a
GH_A13G1327	G_A_T_G_G_T_A_C_A_C_G_C_T_C_T	Hap_0	a	a	a
	G_G_G_C_G_T_C_C_G_C_A_C_A_C_T	Hap_1	b	b	b
	G_A_T_G_G_C_A_C_A_C_G_C_T_C_T	Hap_2	b	b	c
	G_A_T_C_G_T_A_T_A_C_G_C_A_A_A	Hap_3	c	c	d
GH_A01G1410	A_T_C_A_A_G_A_G_C_A_C_C_A_A_T_T	Hap_0	a	a	a
	T_C_C_A_G_G_A_G_C_A_T_C_A_G_T_C	Hap_1	a	a	b
	T_C_C_A_G_G_A_G_C_A_T_C_G_G_T_C	Hap_2	b	a	b
GH_A01G2363	T_A_C_C_G_G_A_C_T_G_C_A_A_A_C	Hap_0	a	a	a
	T_G_T_T_G_A_A_C_T_G_T_G_G_A_A	Hap_1	ab	ab	ab
	T_G_T_T_G_G_A_C_T_G_C_G_A_A_C	Hap_2	a	ab	b
	T_G_T_T_A_G_A_T_T_A_C_G_A_G_C	Hap_3	b	b	ab
GH_D03G1434	C_T_G_C_A_A_C_A_G_A_T_C_G_G	Hap_0	a	a	a
	T_C_GTT_CT_T_A_T_A_G_A_T_C_G_T	Hap_1	a	b	b
	T_T_G_C_A_A_T_A_C_A_A_C_G_G	Hap_2	b	c	b
	T_C_GTT_CT_T_A_T_A_G_A_T_C_G_G	Hap_3	c	d	c
GH_A11G3723	A_C_C_A_G_C_C_T_G_A_G_A_C_AC_A	Hap_0	a	a	a
	A_C_C_G_G_C_C_T_A_A_C_A_C_AC_C	Hap_1	a	a	a
	T_C_C_G_A_C_C_T_G_T_C_A_C_A_C	Hap_2	b	b	b
	A_G_A_G_G_C_C_T_G_A_C_G_T_AC_C	Hap_3	NA	NA	NA
	A_C_C_G_G_C_C_T_G_A_C_A_C_AC_C	Hap_4	NA	NA	NA
	A_C_C_G_G_A_T_G_G_A_C_A_C_AC_C	Hap_5	NA	NA	NA
GH_D02G0972	A_C_A_C_T_T_C_C_G_G_G	Hap_0	a	a	a
	A_C_A_C_T_T_C_C_G_A_G	Hap_1	b	b	b
	T_T_G_A_T_T_A_C_A_G_T	Hap_2	NA	NA	NA
GH_A10G2325	A_T_G_A_G_C_T	Hap_0	a	a	a
	A_T_G_A_G_C_C	Hap_1	b	b	b
	T_C_A_T_T_T_C	Hap_2	ab	c	b
GH_D10G2421	C_T_T_A_G_T_A_G_C_A_T_C_A_T_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAG AAAACAAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_G	Hap_0	a	a	a
	C_G_T_A_T_G_C_T_T_G_C_A_G_C_G_A_T_G_A_A_C_A_G_G_G_G_T_G_C_G_A_C_A_A_A_G_G_T_C_G_A_G_G_T_T_G_T_T_T_T_T_C_GTAC_T_A_A_C_G_G_C_A_A_G_A_C_T_C_G_A_G_G_G_G	Hap_1	b	b	b
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAA CAAAAAA_T_A_T_G_C_T_G_T_T_A_T_G_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_2	ab	ab	ab
	T_G_T_A_G_T_A_G_C_A_T_A_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAAC AAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_G	Hap_3	NA	NA	NA
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAAC AAAAAA_C_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_4	NA	NA	NA
	C_T_T_A_G_T_A_G_C_A_T_C_A_C_A_G_A_T_C_G_C_A_A_C_A_A_TC_A_T_C_C_T_G_G_T_A_T_A_G_A_A_G_G_TG_C_A_T_C_TCACTCAATGTGCTAATATGTCACATAACAATCCATTAAAAGAAAA CAAAAAA_T_T_T_G_C_T_G_T_T_A_T_A_T_T_G_T_A_G_GA_C_C_G_G_A	Hap_5	NA	NA	NA
GH_A12G2819	G_A_G_G_C_C_A_G_T_G_CAGTGGGGACGAAGTT	Hap_0	a	a	a
	G_A_G_G_C_C_A_T_T_G_CAGTGGGGACGAAGTT	Hap_1	b	b	b
	A_C_G_C_T_G_C_T_C_T_C	Hap_2	NA	NA	NA
	G_C_T_G_C_G_A_T_C_G_CAGTGGGGACGAAGTT	Hap_3	NA	NA	NA
GH_A01G2253	A_C_G_G_A_C_A_A_A_G_T_A_G_T_A_C	Hap_0	a	a	a
	A_T_G_A_C_C_T_A_G_C_TAA_A_A_C_A_C	Hap_1	a	a	b
	C_C_G_A_A_G_T_A_G_C_T_T_A_C_A_A	Hap_2	a	a	ab
	C_C_C_A_A_G_T_A_G_C_T_T_A_C_G_C	Hap_3	a	a	ab
	A_C_G_A_A_C_A_T_G_C_T_A_A_C_A_C	Hap_4	a	a	NA
	A_C_G_A_A_C_A_A_G_C_T_A_A_T_A_C	Hap_5	a	a	NA
GH_D08G2107	C_G_T_G_A_C_A_G_A_A_T_G_T_T_A_A	Hap_0	a	a	a
	G_T_C_C_T_C_G_T_G_C_T_G_C_G_A_A	Hap_1	b	b	b
	G_T_C_C_A_G_A_G_A_C_C_C_C_G_G_G	Hap_2	NA	NA	NA
	G_T_C_C_A_G_A_G_A_C_T_C_C_G_G_G	Hap_3	c	ab	ab
GH_A08G2091	A_A_T_C_C_G_C_T_C_G_C_T_AG_G_T_G_G_T_G_G_A	Hap_0	a	a	a
	A_A_T_C_C_G_T_T_C_G_C_T_AG_G_T_G_G_T_G_G_A	Hap_1	b	b	a
	A_T_T_T_C_A_C_A_C_G_C_A_A_A_A_C_T_A_A_G_A	Hap_2	ab	a	a
	A_A_T_C_T_A_C_T_C_G_C_T_A_A_A_C_T_A_A_G_A	Hap_3	NA	NA	a
	A_A_T_T_C_A_C_T_C_G_C_A_A_A_A_C_T_A_A_G_A	Hap_4	NA	NA	a
	A_A_T_C_C_G_C_T_C_G_C_T_AG_G_T_G_G_T_G_A_A	Hap_5	ab	a	a
	C_A_A_C_C_A_C_T_T_T_A_T_AG_A_A_G_G_T_A_G_G	Hap_6	ab	ab	a
GH_D09G2155	C_G_T_G	Hap_0	a	a	a
	A_T_T_G	Hap_1	a	b	b
	C_G_T_T	Hap_2	b	c	ab
	C_G_C_G	Hap_3	NA	NA	NA
	A_G_T_G	Hap_4	NA	NA	NA
GH_D04G0442	A_G_G_G_C_A_T_T_T	Hap_0	a	a	a
	A_G_A_G_C_G_T_C_T	Hap_1	b	b	b
	T_A_G_G_G_G_T_T_G	Hap_2	NA	NA	NA
	A_G_G_A_C_G_G_T_T	Hap_3	NA	NA	NA
	A_G_G_G_C_G_T_T_T	Hap_4	ab	ab	ab
GH_A05G0964	T_A_G_G_A_C_T_C_C_A_A_A_A_A_A_G	Hap_0	a	a	a
	T_A_G_G_T_C_C_C_C_A_A_A_A_A_A_G	Hap_1	b	b	b
	A_A_G_T_A_T_T_A_T_T_T_A_T_C_AT_T	Hap_2	NA	NA	NA
	T_G_T_G_A_C_T_C_C_A_A_T_A_A_A_G	Hap_3	NA	NA	NA
GH_D05G0951	G_T_A_G	Hap_0	a	a	a
	A_C_G_T	Hap_1	a	a	b
	G_T_A_T	Hap_2	NA	NA	NA
GH_A11G0638	A_T_G_C_T_G_C_T_G_C_A_C_C_A_C	Hap_0	a	a	a
	G_T_A_G_C_A_C_A_G_T_A_A_C_G_C	Hap_1	a	a	b
	A_A_G_G_T_G_C_T_A_C_C_C_G_A_T	Hap_2	a	ab	ab
	G_T_A_G_C_G_C_A_G_T_A_A_C_G_C	Hap_3	b	b	a
	A_A_G_G_T_G_T_T_A_C_C_C_G_A_T	Hap_4	NA	NA	NA
	A_T_G_G_T_G_C_T_G_C_A_C_C_A_C	Hap_5	a	ab	ab
	G_T_G_G_C_G_C_A_G_C_A_A_C_G_C	Hap_6	b	ab	ab
	A_T_G_G_T_G_C_T_A_C_C_C_C_A_T	Hap_7	NA	NA	NA
GH_A08G1551	T_A_C_G_G_T_C_T_A_T_C_T_G_T	Hap_0	a	a	a
	G_AT_C_A_A_G_A_C_G_G_T_C_C_G	Hap_1	NA	NA	a
	T_A_A_G_G_T_C_T_A_T_C_T_G_T	Hap_2	b	b	a
GH_D08G1569	T_A_T_G_C	Hap_0	a	a	a
	T_G_C_G_T	Hap_1	b	a	a
	T_A_C_G_T	Hap_2	NA	NA	NA
	A_A_T_T_C	Hap_3	NA	NA	NA
GH_D07G1883	G_TAGA_G_C_T_G_T_C_T	Hap_0	a	a	a
	A_TAGA_G_T_A_A_C_A_T	Hap_1	NA	NA	NA
	A_T_A_T_A_A_C_A_T	Hap_2	a	b	b
	G_TAGA_G_C_T_G_T_C_C	Hap_3	NA	NA	NA
	G_TAGA_G_C_T_A_T_C_T	Hap_4	NA	NA	NA
GH_A12G2452	T_A_C_T_G_C_C_T_T_T_CT_T_C_G_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_0	a	a	a
	C_G_C_C_G_C_C_C_T_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_1	a	b	b
	T_A_A_T_G_T_T_T_T_A_C_A_T_A_T_TTCAAAACGTTTGATGTAACCACTAA	Hap_2	NA	NA	NA
	T_A_C_T_A_C_C_T_T_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_3	b	c	ab
	T_A_C_T_A_C_C_T_C_T_C_T_C_A_TAAATTTTCTTAATTTCCGTTATTCAACCACAATATTTTTTAA_T	Hap_4	NA	NA	NA
GH_A02G2044	C_G_A_A_A_G_G_C_G_G_C_A_G_C_G_G_G	Hap_0	a	a	a
	C_G_A_G_A_G_G_C_G_G_C_A_G_T_G_G_G	Hap_1	b	b	b
	T_G_G_G_G_C_G_T_T_C_T_G_A_C_G_G_A	Hap_2	ab	ab	ab
	C_G_G_G_A_G_C_C_G_C_C_G_G_C_C_A_A	Hap_3	ab	b	ab
	C_A_A_G_A_G_G_C_G_G_C_A_G_C_G_G_G	Hap_4	NA	NA	NA

Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.

陆地棉TRM基因家族的鉴定及纤维品质相关优异单倍型分析

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