Genetic diversity and variation of Huperzia serrata (Thunb. ex Murray) Trevis. population in Vietnam revealed by ISSR and SCoT markers

Figures & data

Figure 1. Location of four investigated populations.

Table 1. Primers used in the study for DNA fingerprinting.

No.	Primer code	Sequence	Ta (°C)	Technique	Number of amplified bands
1	UBC 17899	5′-(CA)6 A/G G-3′	54	ISSR	7
2	HB 8	5′-(GA)6 GG-3′	52	ISSR	4
3	UBC 844	5′-(CT)8 AC-3′	52	ISSR	6
4	HB12	5′-(CAC)3 GC-3′	52	ISSR	12
5	UBC 808	5′-(AG)8 C-3′	52	ISSR	5
6	ISSR 814	5′-(CT)8 TG-3′	51.5	ISSR	5
7	UBC 842	5′-(GA)8 T/C G-3′	51.5	ISSR	6
8	UBC856	5′-(AC)8 T/C A-3′	52	ISSR	7
9	HB 15	5′-(GTG)3GC-3′	52	ISSR	11
10	UBC873	5′-(GACA)4-3′	52	ISSR	9
	Average of ISSR technique				7.2
11	SCoT 12	5′-ACGACATGGCGACCAACG-3′	50	SCoT	7
12	SCoT 13	5′-ACGACATGGCGACCATCG-3′	50	SCoT	8
13	SCoT 18	5′-ACCATGGCTACCACCGCC-3′	50	SCoT	9
14	SCoT 19	5′-ACCATGGCTACCACCGGC-3′	50	SCoT	8
15	SCoT 22	5′-AACCATGGCTACCACCAC-3′	50	SCoT	8
16	SCoT 29	5′-CCATGGCTACCACCGGCC-3′	50	SCoT	8
17	SCoT 30	5′-CCATGGCTACCACCGGCG-3′	50	SCoT	12
	Average of SCoT technique				8.6

Table 2. Genetic diversity of H. serrata species at population and species level.

Population	Parameters
	ISSR			SCoT			Combination
	He	I	PPB (%)	He	I	PPB (%)	He	I	PPB (%)
Hoang Lien	0.15 ± 0.023	0.23 ± 0.033	45.83	0.13 ± 0.024	0.20 ± 0.035	45.00	0.14 ± 0.017	0.22 ± 0.024	45.45
Bach Ma	0.25 ± 0.022	0.38 ± 0.023	81.94	0.17 ± 0.024	0.27 ± 0.034	60.00	0.21 ± 0.016	0.33 ± 0.023	71.97
Ngoc Linh	0.18 ± 0.022	0.28 ± 0.031	69.44	0.22 ± 0.023	0.34 ± 0.032	80.00	0.20 ± 0.016	0.31 ± 0.022	74.24
Bidoup	0.18 ± 0.022	0.28 ± 0.030	72.22	0.21 ± 0.024	0.32 ± 0.033	76.67	0.19 ± 0.016	0.30 ± 0.023	74.24
Species level	0.23 ± 0.021	0.36 ± 0.028	100.00	0.23 ± 0.022	0.36 ± 0.029	100.00	0.23 ± 0.015	0.36 ± 0.020	100.00

Table 3. AMOVA analysis of 80 individuals of four populations of H. serrata using ISSR, SCoT makers and a combination of these markers.

Source of variation	Sum of squares			Mean of squares			Ratio of variance (%)
	ISSR	SCoT	Combination	ISSR	SCoT	Combination	ISSR	SCoT	Combination
Among Populations	174.98	151.52	352.81	58.32	50.51	117.60	26	27	28
Within Populations	553.95	465.10	1027.25	7.29	6.12	13.52	74	73	72

Figure 2. Genetic variation within and among investigated populations based on both ISSR and SCoT techniques.

Figure 3. Dendrograms representing the genetic relationship among four investigated populations based on ISSR markers (a), SCoT markers (b) and combined data from these markers (c).

Table 4. Genetic distance among investigated populations based on ISSR, SCoT markers and combined data.

Pair of populations	Genetic distance (D)
	ISSR	SCoT	Combination
Hoang Lien pop. and Bach Ma pop.	0.09	0.07	0.08
Hoang Lien pop. and Ngoc Linh pop.	0.09	0.08	0.09
Hoang Lien pop. and Bidoup pop.	0.08	0.08	0.08
Bach Ma pop. and Ngoc Linh pop.	0.05	0.07	0.06
Bach Ma pop. and Bidoup pop.	0.08	0.07	0.08
Ngoc Linh pop. and Bidoup pop.	0.04	0.07	0.05