Genetic Diversity Analysis and Fingerprinting of Wild Potato and Landraces Based on SSR Markers

doi:10.13560/j.cnki.biotech.bull.1985.2025-0142

Abstract

Abstract:

Objective Analyze genetic diversity of wild and landrace potato species at the molecular level and establish a fingerprint database for potato germplasm resources. Method SSR (Simple Sequence Repeat) molecular markers was used to analyze the genetic diversity of 73 wild potato and landrace potato species preserved at the CIP-China Center for Asia Pacific. Result The genetic diversity analysis revealed an average number of alleles (Na) of 1.843 7, Nei’s gene diversity index of 0.065 9, Shannon’s information index of 0.128 6, and an average polymorphism information content (PIC) value of 0.848 4, indicating high polymorphism but low genetic differentiation among the 73 germplasm resources. The germplasms were classified into seven subpopulations by Structure analysis, whereas they were divided into four groups via UPGMA clustering. Conclusion Five pairs of core primers are selected from 14 SSR primers, enabling complete differentiation of all 73 accessions. These primers were used to construct unique DNA fingerprints for the 73 wild and landrace potato accessions. This work provides a theoretical foundation and technical framework for future germplasm identification and screening systems in potato breeding.

Key words: potato, wild potato, landraces, genetic diversity, SSR (Simple Sequence Repeat), fingerprinting

LU Yao, YUAN Ping-ping, JIN Xin, MAO Xiang-hong, FAN Xiang-bin, BAI Xiao-dong. Genetic Diversity Analysis and Fingerprinting of Wild Potato and Landraces Based on SSR Markers[J]. Biotechnology Bulletin, 2025, 41(9): 94-104.

Figures/Tables 9

References 39

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编号 No.	引物名称 Name	引物序列 Primer sequence （5′-3′）	染色体 Chromosome	片段大小 Fragment （bp）	荧光 Tag
P1	PM0936	TGCACTTTCTTTGTCACCATTC TGACCTACTGTATGCTTTGGAA	Ⅸ	102-151	FAM
P2	PM0642	TCCATATGCAAGTGGCAAAA CACGTTGGATCCAGGAGGTA	Ⅹ	112-163	FAM
P3	PM0938	AGAAATTGGCAGAGCATTTAGCTG GGATTAGACAAACCTTCTTTTCCACA	Ⅲ	137-177	FAM
P4	PM0355	CCATCATGAGCCTTGCTTACATTT CAACAAGGCACAAAGCTAACAGAA	Ⅷ	172-235	FAM
P5	STM1052	CGTTAAGGAGGAGGAGGAAAA CCAAATAACGTGTTGAGCCC	Ⅳ	199-262	FAM
P6	STI032	TAGGGATGAGCTTCAACTCG CGGTTCTGACTTGGACTAATGA	Ⅶ	100-127	FAM
P7	STI033	CAATTTCGTTTTTTCATGTGACAC ATGGCGTAATTTGATTTAATACGTAA	Ⅸ	109-133	FAM
P8	STG0016	ATCCTTCTATGGCGTTCCAA ATTGCTCAAGAATGGCCAC	Ⅶ	116-156	FAM
P9	STM0019a	TGAGGGTTTTCAGAAAGGGA CATCCTTGCAACAACCTCCT	Ⅶ	133-233	FAM
P10	STM3012	TATGGAAATTCCGGTGATGG GACGGTGACAAAGAGGAAGG	Ⅺ	145-267	FAM
P11	STI0012	AATAGGTGTACTGACTCTCAATG TTGAAGTAAAAGTCCTAGTATGTG	Ⅵ	152-199	FAM
P12	STM2022	TGATTCTCTTGCCTACTGTAATCG CAAAGTGGTGTGAAGCTGTGA	Ⅷ	162-341	FAM
P13	STM1049	TCTCCCCATCTTAATGTTTC CAACACAGCATACAGATCATC	Ⅲ	168-197	FAM
P14	SSR0387	TTGATGAAAGGAATGCAGCTTGTG ACGTTAAAGAAGTGAGAGTACGAC	Ⅴ	141-187	FAM

编号 No.	引物名称 Name	引物序列 Primer sequence （5′-3′）	染色体 Chromosome	片段大小 Fragment （bp）	荧光 Tag
P1	PM0936	TGCACTTTCTTTGTCACCATTC TGACCTACTGTATGCTTTGGAA	Ⅸ	102-151	FAM
P2	PM0642	TCCATATGCAAGTGGCAAAA CACGTTGGATCCAGGAGGTA	Ⅹ	112-163	FAM
P3	PM0938	AGAAATTGGCAGAGCATTTAGCTG GGATTAGACAAACCTTCTTTTCCACA	Ⅲ	137-177	FAM
P4	PM0355	CCATCATGAGCCTTGCTTACATTT CAACAAGGCACAAAGCTAACAGAA	Ⅷ	172-235	FAM
P5	STM1052	CGTTAAGGAGGAGGAGGAAAA CCAAATAACGTGTTGAGCCC	Ⅳ	199-262	FAM
P6	STI032	TAGGGATGAGCTTCAACTCG CGGTTCTGACTTGGACTAATGA	Ⅶ	100-127	FAM
P7	STI033	CAATTTCGTTTTTTCATGTGACAC ATGGCGTAATTTGATTTAATACGTAA	Ⅸ	109-133	FAM
P8	STG0016	ATCCTTCTATGGCGTTCCAA ATTGCTCAAGAATGGCCAC	Ⅶ	116-156	FAM
P9	STM0019a	TGAGGGTTTTCAGAAAGGGA CATCCTTGCAACAACCTCCT	Ⅶ	133-233	FAM
P10	STM3012	TATGGAAATTCCGGTGATGG GACGGTGACAAAGAGGAAGG	Ⅺ	145-267	FAM
P11	STI0012	AATAGGTGTACTGACTCTCAATG TTGAAGTAAAAGTCCTAGTATGTG	Ⅵ	152-199	FAM
P12	STM2022	TGATTCTCTTGCCTACTGTAATCG CAAAGTGGTGTGAAGCTGTGA	Ⅷ	162-341	FAM
P13	STM1049	TCTCCCCATCTTAATGTTTC CAACACAGCATACAGATCATC	Ⅲ	168-197	FAM
P14	SSR0387	TTGATGAAAGGAATGCAGCTTGTG ACGTTAAAGAAGTGAGAGTACGAC	Ⅴ	141-187	FAM

序号 Code	引物 Primer	Na*	Ne*	H*	I*	多态位点 Polymorphic alleles	多态百分率 Percentage of polymorphic bands （%）	PIC
P1	PM0936	1.952 4	1.085 3	0.074 2	0.152 3	20	95.24	0.917 7
P2	PM0642	1.923 1	1.049 9	0.042 7	0.094 8	36	92.31	0.917 2
P3	PM0938	1.963	1.062 3	0.054 3	0.116 6	26	96.3	0.914 5
P4	PM0355	1.731 7	1.033 8	0.031	0.071 9	30	73.17	0.936 5
P5	STM1052	1.666 7	1.042 8	0.036 6	0.078 4	22	66.67	0.884 9
P6	STI032	1.8	1.159 7	0.114 8	0.200 8	8	80	0.758 5
P7	STI033	1.818 2	1.147 8	0.102	0.183	9	81.82	0.723 9
P8	STG0016	1.866 7	1.117 3	0.093 1	0.176 4	13	86.67	0.856 5
P9	STM0019a	1.808 5	1.033 7	0.030 3	0.071	38	80.85	0.931 9
P10	STM3012	1.889	1.061 8	0.041 4	0.082 7	24	88.89	0.683 2
P11	STI0012	2.0	1.089 9	0.070 2	0.135 3	16	100	0.809 9
P12	STM2022	1.575 8	1.075 9	0.054 8	0.102	19	57.58	0.850 2
P13	STM1049	1.916 7	1.128 9	0.096 5	0.174 9	11	91.67	0.787 1
P14	SSR0387	1.9	1.095 1	0.080 5	0.159 8	18	90	0.906 4
均值 Mean		1.843 7	1.084 6	0.065 9	0.128 6	20.71	84.37	0.848 4

序号 Code	引物 Primer	Na*	Ne*	H*	I*	多态位点 Polymorphic alleles	多态百分率 Percentage of polymorphic bands （%）	PIC
P1	PM0936	1.952 4	1.085 3	0.074 2	0.152 3	20	95.24	0.917 7
P2	PM0642	1.923 1	1.049 9	0.042 7	0.094 8	36	92.31	0.917 2
P3	PM0938	1.963	1.062 3	0.054 3	0.116 6	26	96.3	0.914 5
P4	PM0355	1.731 7	1.033 8	0.031	0.071 9	30	73.17	0.936 5
P5	STM1052	1.666 7	1.042 8	0.036 6	0.078 4	22	66.67	0.884 9
P6	STI032	1.8	1.159 7	0.114 8	0.200 8	8	80	0.758 5
P7	STI033	1.818 2	1.147 8	0.102	0.183	9	81.82	0.723 9
P8	STG0016	1.866 7	1.117 3	0.093 1	0.176 4	13	86.67	0.856 5
P9	STM0019a	1.808 5	1.033 7	0.030 3	0.071	38	80.85	0.931 9
P10	STM3012	1.889	1.061 8	0.041 4	0.082 7	24	88.89	0.683 2
P11	STI0012	2.0	1.089 9	0.070 2	0.135 3	16	100	0.809 9
P12	STM2022	1.575 8	1.075 9	0.054 8	0.102	19	57.58	0.850 2
P13	STM1049	1.916 7	1.128 9	0.096 5	0.174 9	11	91.67	0.787 1
P14	SSR0387	1.9	1.095 1	0.080 5	0.159 8	18	90	0.906 4
均值 Mean		1.843 7	1.084 6	0.065 9	0.128 6	20.71	84.37	0.848 4

编号 No.	CCCAP编号 GCD code	SSR指纹 SSR fingerprinting	编号 No.	CCCAP编号 GCD code	SSR指纹 SSR fingerprinting
1	CCCAP26	17C3639478	38	CCCAP2642	7HGI589
2	CCCAP50	178469JN34638E	39	CCCAP2643	84639BH78
3	CCCAP968	869988	40	CCCAP2644	2F369
4	CCCAP969	8JL988	41	CCCAP2645	368A34BD659
5	CCCAP970	8I563988	42	CCCAP2646	37A4D558
6	CCCAP971	8463778	43	CCCAP2647	KNO46DF8A1
7	CCCAP972	86988	44	CCCAP2648	123B671
8	CCCAP975	86396738	45	CCCAP2649	318G81
9	CCCAP976	584I3988	46	CCCAP2650	8E3K98
10	CCCAP977	84I9JN738	47	CCCAP2652	6963B77A
11	CCCAP978	84I9738	48	CCCAP2653	145I9H561
12	CCCAP979	8F69738	49	CCCAP2654	D5919H5E
13	CCCAP980	386397838	50	CCCAP2658	9A3686
14	CCCAP2615	69FGI3693	51	CCCAP2659	EJ7161
15	CCCAP2616	135469717	52	CCCAP2660	BC7E3J61
16	CCCAP2617	5L4Q39582	53	CCCAP2661	3E3J6A
17	CCCAP2618	8F469H88	54	CCCAP2663	8CF6E39JN683689
18	CCCAP2619	46D34569	55	CCCAP2664	8K53561
19	CCCAP2620	46CEJ568D	56	CCCAP2665	494D48
20	CCCAP2621	3CFJ56AC	57	CCCAP2668	H53837
21	CCCAP2623	3CJ34JK536	58	CCCAP2670	84I9H738
22	CCCAP2624	57FI55	59	CCCAP2671	7FG39838
23	CCCAP2626	BHI656	60	CCCAP2673	4679448
24	CCCAP2627	9FR1I61	61	CCCAP2674	46673
25	CCCAP2628	59CJ362	62	CCCAP2675	3853568
26	CCCAP2629	35CE3J568E	63	CCCAP2676	7A8969
27	CCCAP2630	9AB34JK566E	64	CCCAP2678	6A8962
28	CCCAP2631	66E982	65	CCCAP2679	C639468
29	CCCAP2632	697M3B61	66	CCCAP2680	6B6G39H687E
30	CCCAP2633	CK3739	67	CCCAP2681	7C5H3B66A
31	CCCAP2634	715361	68	CCCAP2682	7583B51
32	CCCAP2635	39JO59EH68	69	CCCAP2683	67G3B61
33	CCCAP2637	749H6A1	70	CCCAP2684	6A539BH626
34	CCCAP2638	4D639689	71	CCCAP2685	EF459EH88A
35	CCCAP2639	9B693961	72	CCCAP2686	3E623AB67
36	CCCAP2640	7CF13IJ658	73	CCCAP2687	3E623AB657
37	CCCAP2641	17I359B