Construction of DNA Fingerprinting and Clustering Analysis with SSR Markers for the Muskmelon of Xizhoumi Series

doi:10.16420/j.issn.0513-353x.2021-0267

Acta Horticulturae Sinica ›› 2022, Vol. 49 ›› Issue (3): 622-632.doi: 10.16420/j.issn.0513-353x.2021-0267

• Research Notes • Previous Articles Next Articles

Construction of DNA Fingerprinting and Clustering Analysis with SSR Markers for the Muskmelon of Xizhoumi Series

LI Chao, YANG Ying, CHEN Wei, ZHENG Heyun, LIAO Xinfu, SUN Yuping^*()

Research Institute of Grape and Melon of Xinjiang Uighur Autonomous Region,Shanshan,Xinjiang 838200,China

Received:2021-04-28 Revised:2022-01-03 Online:2022-03-25 Published:2022-03-25
Contact: SUN Yuping E-mail:1501218842@qq.com

Abstract

Abstract:

In order to identify the cultivars quickly and accurately,DNA fingerprinting of 18 muskmelon cultivars of Xizhoumi series was constructed by using SSR marker technology. Using 18 cultivars（lines）,highly informative and polymorphic simple sequence repeat（SSR）primers were screened. Out of the 73 SSR primer pairs,nine pairs including SSR12083,MU5554-1,TJ10,PM3,MU5499,SSR04219,SSR04632,SSR22874 and C30 were selected,and they could generate stable,clearly and codominant bands. Each primer pair could generate 3-6 polymorphic bands with an average of 4.33. The average polymorphism information content（PIC）was 0.45 with a range from 0.20 to 0.78. Five selected primer pairs（C30,MU5499,MU5554-1,SSR04219 and SSR12083）had established the fingerprinting of the 18 accessions and their unique fingerprint. We found that the female parent of ‘Xizhoumi 25’was the same as the female parent of‘Xizhoumi 17’. Clustering analysis showed that the similarity coefficient of the 18 accessions ranged from 0.70 to 1.00. They can be divided into three groups at 0.74. Above results indicated that the DNA fingerprinting could provide scientific basis for identification of Xizhoumi muskmelon.

Key words: muskmelon, SSR, fingerprinting, clustering analysis

CLC Number:

S652

LI Chao, YANG Ying, CHEN Wei, ZHENG Heyun, LIAO Xinfu, SUN Yuping. Construction of DNA Fingerprinting and Clustering Analysis with SSR Markers for the Muskmelon of Xizhoumi Series[J]. Acta Horticulturae Sinica, 2022, 49(3): 622-632.

Figures/Tables 7

References 34

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编号 Accession No.	材料名称 Material name	主要性状 Primary characteristics
编号 Accession No.	材料名称 Material name	果形 Fruit shape	熟性 Mature feature	中心糖/% Central sugar content
1	02-15（西州密1号母本 Female parent of Xizhoumi 1）	圆形 Round	早熟 Precocity	16.5
2	02-17（西州密1号父本 Male parent of Xizhoumi 1）	椭圆形 Oval	中熟 Mid-maturation	16.0
3	西州密1号 Xizhoumi 1	椭圆形 Oval	中早熟 Middle-early maturation	15.6 ~ 17.0
4	西州密3号母本 Female parent of Xizhoumi 3	短椭圆形 Short ellipse	中熟 Mid-maturation	16.8
5	西州密3号父本 Male parent of Xizhoumi 3	卵形 Ovoid	中熟 Mid-maturation	16.5
6	西州密3号 Xizhoumi 3	卵形 Ovoid	中早熟 Middle-early maturation	16.0 ~ 17.0
7	05-89（西州密25号母本 Female parent of Xizhoumi 25）	短椭圆形 Short ellipse	早中熟 Early-middle maturation	17.0
8	02-17（西州密25号父本 Male parent of Xizhoumi 25）	椭圆形 Oval	中熟 Mid-maturation	16.0
9	西州密25号 Xizhoumi 25	椭圆形 Oval	早中熟 Early-middle maturation	15.6 ~ 18.0
10	05-91（西州密17号母本 Female parent of Xizhoumi 17）	短椭圆形 Short ellipse	早中熟 Early-middle maturation	17.0
11	06-67（西州密17号父本 Male parent of Xizhoumi 17）	椭圆形 Oval	中熟 Mid-maturation	15.0
12	西州密17号 Xizhoumi 17	椭圆形 Oval	中晚熟 Middle-late maturation	15.2 ~ 17.0
13	08-20（西州密21号母本 Female parent of Xizhoumi 21）	椭圆形 Oval	中早熟 Middle-early maturation	18.0 ~ 20.0
14	08-26（西州密21号父本 Male parent of Xizhoumi 21）	椭圆形 Oval	中早熟 Middle-early maturation	17.0 ~ 19.0
15	西州密21号 Xizhoumi 21	椭圆形 Oval	中早熟 Middle-early maturation	18.0 ~ 20.0
16	西州密29号母本Female parent of Xizhoumi 29	椭圆形 Oval	早中熟 Early-middle maturation	17.0
17	西州密29号父本 Male parent of Xizhoumi 29	椭圆形 Oval	中熟 Mid-maturation	15.0 ~ 17.0
18	西州密29号 Xizhoumi 29	椭圆形 Oval	早中熟 Early-middle maturation	16.3 ~ 18.5

编号 Accession No.	材料名称 Material name	主要性状 Primary characteristics
编号 Accession No.	材料名称 Material name	果形 Fruit shape	熟性 Mature feature	中心糖/% Central sugar content
1	02-15（西州密1号母本 Female parent of Xizhoumi 1）	圆形 Round	早熟 Precocity	16.5
2	02-17（西州密1号父本 Male parent of Xizhoumi 1）	椭圆形 Oval	中熟 Mid-maturation	16.0
3	西州密1号 Xizhoumi 1	椭圆形 Oval	中早熟 Middle-early maturation	15.6 ~ 17.0
4	西州密3号母本 Female parent of Xizhoumi 3	短椭圆形 Short ellipse	中熟 Mid-maturation	16.8
5	西州密3号父本 Male parent of Xizhoumi 3	卵形 Ovoid	中熟 Mid-maturation	16.5
6	西州密3号 Xizhoumi 3	卵形 Ovoid	中早熟 Middle-early maturation	16.0 ~ 17.0
7	05-89（西州密25号母本 Female parent of Xizhoumi 25）	短椭圆形 Short ellipse	早中熟 Early-middle maturation	17.0
8	02-17（西州密25号父本 Male parent of Xizhoumi 25）	椭圆形 Oval	中熟 Mid-maturation	16.0
9	西州密25号 Xizhoumi 25	椭圆形 Oval	早中熟 Early-middle maturation	15.6 ~ 18.0
10	05-91（西州密17号母本 Female parent of Xizhoumi 17）	短椭圆形 Short ellipse	早中熟 Early-middle maturation	17.0
11	06-67（西州密17号父本 Male parent of Xizhoumi 17）	椭圆形 Oval	中熟 Mid-maturation	15.0
12	西州密17号 Xizhoumi 17	椭圆形 Oval	中晚熟 Middle-late maturation	15.2 ~ 17.0
13	08-20（西州密21号母本 Female parent of Xizhoumi 21）	椭圆形 Oval	中早熟 Middle-early maturation	18.0 ~ 20.0
14	08-26（西州密21号父本 Male parent of Xizhoumi 21）	椭圆形 Oval	中早熟 Middle-early maturation	17.0 ~ 19.0
15	西州密21号 Xizhoumi 21	椭圆形 Oval	中早熟 Middle-early maturation	18.0 ~ 20.0
16	西州密29号母本Female parent of Xizhoumi 29	椭圆形 Oval	早中熟 Early-middle maturation	17.0
17	西州密29号父本 Male parent of Xizhoumi 29	椭圆形 Oval	中熟 Mid-maturation	15.0 ~ 17.0
18	西州密29号 Xizhoumi 29	椭圆形 Oval	早中熟 Early-middle maturation	16.3 ~ 18.5

序号 Number	名称 Name	正向引物（5′-3′） Forward primer	反向引物（5′-3′） Reverse Primer	等位变异数 Number of allelic variation	多样性指数 Diversity index
1	SSR12083	GAATTGGCCCATCCTTCATT	GCCATTCCAAAAACTTTTCAAC	5	0.38
2	MU5554-1	CCTTCATGATCCTCTACTAAACCC	TCTTCCATGCTTTTCTCGCT	6	0.71
3	TJ10	ACGAGGAAAACGCAAAATCA	TGAACGTGGACGACATTTTT	3	0.29
4	PM3	TCAACTGTCCATTTCTCGCTG	CCGTA AAGACGAAAACCCTTC	3	0.20
5	MU5499	AAGAAGAAAGTTCCCCTCTCG	CGACTGTGTCTTGTGGAGGA	6	0.78
6	SSR04219	GAGACATTGTGGGCATTTGA	CTCATTTTCATCCAAAGGGC	5	0.38
7	SSR04632	ACTCCGTTTGGTGGTTTTTG	TCCCAATTCCATAGCAGAGG	3	0.37
8	SSR22874	CAACCCCCAAGCTCTGATAA	ATTGGAGAGTGCTATTGGGG	3	0.20
9	C30	CTGTCTGCTATTCTCCACTTGG	TGTATGCCACGTAGCGAAAC	5	0.70

序号 Number	名称 Name	正向引物（5′-3′） Forward primer	反向引物（5′-3′） Reverse Primer	等位变异数 Number of allelic variation	多样性指数 Diversity index
1	SSR12083	GAATTGGCCCATCCTTCATT	GCCATTCCAAAAACTTTTCAAC	5	0.38
2	MU5554-1	CCTTCATGATCCTCTACTAAACCC	TCTTCCATGCTTTTCTCGCT	6	0.71
3	TJ10	ACGAGGAAAACGCAAAATCA	TGAACGTGGACGACATTTTT	3	0.29
4	PM3	TCAACTGTCCATTTCTCGCTG	CCGTA AAGACGAAAACCCTTC	3	0.20
5	MU5499	AAGAAGAAAGTTCCCCTCTCG	CGACTGTGTCTTGTGGAGGA	6	0.78
6	SSR04219	GAGACATTGTGGGCATTTGA	CTCATTTTCATCCAAAGGGC	5	0.38
7	SSR04632	ACTCCGTTTGGTGGTTTTTG	TCCCAATTCCATAGCAGAGG	3	0.37
8	SSR22874	CAACCCCCAAGCTCTGATAA	ATTGGAGAGTGCTATTGGGG	3	0.20
9	C30	CTGTCTGCTATTCTCCACTTGG	TGTATGCCACGTAGCGAAAC	5	0.70

引物组合 Primer pairs	区分材料编号 Number of distinguished materials	区分开的材料小计 Subtotal of distinguished materials	区分开的材料累计 Total of distinguished materials
C30	11 + 12	2	2
C30 + Mu5499	14 + 15 + 18	3	5
C30 + Mu5499 + Mu5554-1	1 + 3 + 4 + 6 + 9 + 16 + 17	7	12
C30 + Mu5499 + Mu5554-1 + SSR04219	2 + 8	2	14
C30 + Mu5499 + Mu5554-1 + SSR04219 + SSR12083	5 + 13	2	16
C30 + Mu5499 + Mu5554-1 + SSR04219 + SSR12083 + …	7 + 10 ?	2	18

Construction of DNA Fingerprinting and Clustering Analysis with SSR Markers for the Muskmelon of Xizhoumi Series

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品种编号 Varity number	材料名称 Material name	代码Code （C30-MU5499-MU5554-1-SSR04219-SSR12083）
1	02-15（西州密1号母本 Female parent of Xizhoumi 1）	11111
2	02-17（西州密1号父本 Male parent of Xizhoumi 1）	22121
3	西州密1号 Xizhoumi 1	33131
4	西州密3号母本 Female parent of Xizhoumi 3	21241
5	西州密3号父本 Male parent of Xizhoumi 3	12212
6	西州密3号 Xizhoumi 3	33253
7	05-89（西州密25号母本 Female parent of Xizhoumi 25）	11211
8	02-17（西州密25号父本 Male parent of Xizhoumi 25）	22111
9	西州密25号 Xizhoumi 25	33311
10	05-91（西州密17号母本 Female parent of Xizhoumi 17）	11211
11	06-67（西州密17号父本 Male parent of Xizhoumi 17）	42214
12	西州密17号 Xizhoumi 17	53215
13	08-20（西州密21号母本 Female parent of Xizhoumi 21）	12211
14	08-26（西州密21号父本 Male parent of Xizhoumi 21）	14411
15	西州密21号 Xizhoumi 21	15511
16	西州密29号母本 Female parent of Xizhoumi 29	11411
17	西州密29号父本 Male parent of Xizhoumi 29	21411
18	西州密29号 Xizhoumi 29	36611

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