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CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 1 Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey Ran Xu, Jia Song, Ying Zhang, Guang Wang, Shaopeng Zhang* School of Biology and Pharmaceutical Engineering, Wuhan Polytechnic University, Wuhan 430023, China INTRODUCTION Panax japonicus C. A. Mey, a perennial herb of the Araliaceae family, has been used as an important natural medicinal herb by Chinese traditional medicine (TCM) for thousand years [1,2]. P. japonicus rhizome has been used traditionally as a treatment for a lung cough, traumatic injury and physical weakness [3]. In recent years, researchers had found that most therapeutic effects of P. japonicus were due to the presence of saponins, which can improve immunity, protect the liver, reduce inflammation and fatigue, calm the central nervous system, enhance learning skills and memory, and act as anti-tumor and anti-aging agents [4-6]. However, it becomes more and more difficult to find wild P. japonicus plants for pharmaceutical use in China [7]. The wild populations of Chinese P. japonicus, becoming critically endangered due to over-exploitation and habitat loss in recent decades, are only distributed in several locations of Hubei, Sichuan, Yunnan, and Guizhou provinces in China [7]. Therefore, assessing the diversity and genetic structure of wild P. japonicus populations is urgent and essential for further breeding and genetic resource conservation [8]. Inter-simple sequence repeats (ISSRs) have been recognized as more effective molecular markers compared to other dominant markers for population genetic analysis in various Chinese medicinal species, especially for organisms whose genetic information is lacking, such as Dendrobium sw. species [9], Luohan guo (Siraitia grosvenorii) [10], and Yam (Dioscorea L.) [11], P. notoginseng [12], and P. ginseng [13]. In this study, genetic variation and relationship among 12 wild populations of P. japonicus from 6 provinces of China had been assessed base on ISSR analysis. MATERIALS AND METHODS Plant materials and Habitat Type To represent the distribution in southern China, 12 wild populations from 6 provinces (Hubei, Hunan, Sichuang, Guizhou, Guangxi, and Yunan) were sampled in this research (Fig. 1). For each sampling plot (2 x 2 meters) in the field, at least 6 wild individuals with the same phenotype were collected and pooled as one sample. For each population, 3 different plots were set and collected that are representative of the population (Table 1). After washing and air-drying the freshly collected material, 0.3-0.5 g portions from the tender part of each rhizome were cut out and stored in centrifuge tubes at -80°C for subsequent DNA extraction. All these provinces, situated at an altitude higher than 1,000 meters above sea level, are located in southern China and ABSTRACT To detect the genetic divergence of Chinese Panax japonicus for its conservation, the population structure of P. japonicus among 12 wild populations of 6 provinces (Hubei, Hunan, Sichuan, Guizhou, Guangxi, and Yunan) were evaluated by using ISSR markers. Estimation of genetic parameters of P. japonicus populations showed that Guizhou and Yunan populations exhibited relatively higher levels of genetic diversity than others. The cluster analysis showed that most Sichuan populations formed a main cluster, whereas populations of other 5 provinces formed 4 discrete clusters. The STRUCTURE and PCA analyses demonstrated that all 12 populations were divided into 4 groups. Populations from Guangxi and Guizhou were gathered into a single group, which indicated their stronger relatedness. The extent of genetic variations and populations divergence of P. japonicus revealed in this study provide a better understanding of evolutionary processes and local adaption of P. japonicus in China, which is significant for further investigations on Panax species for regional conservation and pharmaceutical use. Keywords: Panax japonicus C. A. Mey, genetic diversity, genetic structure, ISSR Chinese Traditional Medical Journal *Correspondence to: Shaopeng Zhang, School of Biology and Pharmaceutical Engineering, Wuhan Polytechnic University, Wuhan 430023, China.

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Page 1: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 1

Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

Ran Xu, Jia Song, Ying Zhang, Guang Wang, Shaopeng Zhang*School of Biology and Pharmaceutical Engineering, Wuhan Polytechnic University, Wuhan 430023, China

INTRODUCTION

Panax japonicus C. A. Mey, a perennial herb of the Araliaceae family, has been used as an important natural medicinal herb by Chinese traditional medicine (TCM) for thousand years [1,2]. P. japonicus rhizome has been used traditionally as a treatment for a lung cough, traumatic injury and physical weakness [3]. In recent years, researchers had found that most therapeutic effects of P. japonicus were due to the presence of saponins, which can improve immunity, protect the liver, reduce inflammation and fatigue, calm the central nervous system, enhance learning skills and memory, and act as anti-tumor and anti-aging agents [4-6].

However, it becomes more and more difficult to find wild P. japonicus plants for pharmaceutical use in China [7]. The wild populations of Chinese P. japonicus, becoming critically endangered due to over-exploitation and habitat loss in recent decades, are only distributed in several locations of Hubei, Sichuan, Yunnan, and Guizhou provinces in China [7]. Therefore, assessing the diversity and genetic structure of wild P. japonicus populations is urgent and essential for further breeding and genetic resource conservation [8].

Inter-simple sequence repeats (ISSRs) have been recognized as more effective molecular markers compared to other dominant markers for population genetic analysis in various Chinese medicinal species, especially for organisms whose genetic information is lacking, such as Dendrobium sw. species [9], Luohan guo (Siraitia grosvenorii) [10], and Yam (Dioscorea L.) [11], P. notoginseng [12], and P. ginseng [13]. In this study, genetic variation and relationship among 12 wild populations of P. japonicus from 6 provinces of China had been assessed base on ISSR analysis.

MATERIALS AND METHODS

Plant materials and Habitat Type

To represent the distribution in southern China, 12 wild populations from 6 provinces (Hubei, Hunan, Sichuang, Guizhou, Guangxi, and Yunan) were sampled in this research (Fig. 1). For each sampling plot (2 x 2 meters) in the field, at least 6 wild individuals with the same phenotype were collected and pooled as one sample. For each population, 3 different plots were set and collected that are representative of the population (Table 1). After washing and air-drying the freshly collected material, 0.3-0.5 g portions from the tender part of each rhizome were cut out and stored in centrifuge tubes at -80°C for subsequent DNA extraction.

All these provinces, situated at an altitude higher than 1,000 meters above sea level, are located in southern China and

ABSTRACT

To detect the genetic divergence of Chinese Panax japonicus for its conservation, the population structure of P. japonicus among 12 wild populations of 6 provinces (Hubei, Hunan, Sichuan, Guizhou, Guangxi, and Yunan) were evaluated by using ISSR markers. Estimation of genetic parameters of P. japonicus populations showed that Guizhou and Yunan populations exhibited relatively higher levels of genetic diversity than others. The cluster analysis showed that most Sichuan populations formed a main cluster, whereas populations of other 5 provinces formed 4 discrete clusters. The STRUCTURE and PCA analyses demonstrated that all 12 populations were divided into 4 groups. Populations from Guangxi and Guizhou were gathered into a single group, which indicated their stronger relatedness. The extent of genetic variations and populations divergence of P. japonicus revealed in this study provide a better understanding of evolutionary processes and local adaption of P. japonicus in China, which is significant for further investigations on Panax species for regional conservation and pharmaceutical use.

Keywords: Panax japonicus C. A. Mey, genetic diversity, genetic structure, ISSR

Chinese Traditional Medical Journal

*Correspondence to: Shaopeng Zhang, School of Biology and Pharmaceutical Engineering, Wuhan Polytechnic University, Wuhan 430023, China.

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CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 2

have a similar humid subtropical climate [14]. Especially in Yunnan and Guizhou sites, they were characterized by high vegetation coverage, reduced sunshine, abundant rainfall and low temperatures (annual average temperature of 14.2-22.5°C) [15, 16].

DNA Extraction

Total DNA of each individual was extracted from rhizomes following a modified CTAB (cetyltrimethylammonium bromide) method according to Saghai-Maroof et al [17]. The quality of the isolated total DNA was verified using 1% agarose gel electrophoresis.

Polymerase chain reactions (PCR) amplification and Polyacrylamide gel electrophoresis (PAGE)

30 ISSR primers sets from UBC (University of British Columbia) were used for the analysis [12, 13]. PCRs were performed at annealing temperatures of Tm ± 5°C based on the Tm values of the synthesized primers. The amplifications were carried out in 25µl reaction volumes containing 5 U Taq polymerase (Takara, Dalian, China), 10 mM dNTPs, 2 µl primer, 2.5 µl of 10× buffer, and 30 ng DNA. PCR amplification conditions were as follows: 94°C for 5 min, 94°C for 45 s, Tm°C for 45 s, 72°C for 45 s, 40 cycles, then 72°C for 10 min.

After primers screening, 18 ISSR primers were selected for the ISSR-PCR analysis, which produced intense, clear, and highly polymorphic bands (Table 2). The PCR products were then verified by 5% SDS-PAGE (sodium dodecyl sulfate-polyacrylamide gel electrophoresis). After pre-electrophoresis for 30 min, electrophoresis was performed for various time periods depending on the sizes of the bands. The gels were then rinsed for 1 min, stained for 15 min with 3% silver nitrate solution, colored for 10 min with a color developing agent, and photographed.

Data Scoring and Data Analysis

The amplified ISSR bands in the gel were scored manually as 0/1 values to represent the absence and presence of a band (Table S1). From these binary data, similarity coefficients and genetic distances were estimated using Simple matching coefficients [18]. The genetic diversity parameters and genetic differentiation coefficient including the observed number of alleles (Na), the effective number of alleles (Ne), Nei’s gene diversity (h), Shannon’s information index (I), Genetic distance among populations were calculated by the POPGENE software [19]. The Polymorphism information content (PIC) values were calculated to assess the diversity levels of the 18 ISSR primers using the following formula: PIC = 1-∑P2ij, where the Pij is the frequency of the jth allele for the ith ISSR locus.

The analysis of molecular variance (AMOVA) was performed to study the genetic variation within populations and among populations using the DCFA software (version 1.1) and AMOVA software (version 1.55).

The cluster analysis and dendrogram generation were carried out based on the similarity matrix data by using the UPGMA algorithm (Unweighted Pair Group Method with Arithmetic Mean) and a 100 times bootstrap test was performed to check the clustering validity. The STRUCTURE software (version 2.3.4) was used to investigate the genetic structure of the 12 populations. The best number of genetic group (K) was determined using the Evanno’s method [20] based on Structure Harvester tool (http://taylor0.biology.ucla.edu/structureHarvester/). The CLUMPP software (version 1.1.2) was applied to carry out independent runs of clustering to check the reliability of the cluster groups. To complement the structure analysis, the adegenet package (version 2.1.0) in the R software was used to perform Principal Component Analysis (PCA) based on the ISSR binary dataset [21].

RESULTS

Genetic Diversity Analysis

Genetic diversity of 12 natural populations of P. japonicus was estimated using 30 universal ISSR primers. 18 ISSR primers with high polymorphism, identifiable bands, and sound repeatability were selected. A total of 2,198 bands were generated, of which 22.6% were polymorphic loci among 36 samples of 12 populations (Table S1). The PIC values of these 18 selected ISSR primers ranged from 0.18 to 0.36, with a mean value of 0.26, which indicated that ISSRs used in this study were moderately polymorphic (Table 2).

The typical genetic parameters were shown in Table 3. At the population level, the highest degrees of genetic diversity was observed in the Leigongshan (h=0.1344, I=0.2050) and Yushe (h=0.1406, I=0.2144) populations of Guizhou province. Meanwhile, the Emei (h=0.0432, I=0.0603), Longchi (h=0.0511, I=0.0713) and HongyaGaomiao (h=0.0589, I=0.0822) populations in Sichuan province

Figure 1: Geographic distribution of 12 P. japonicus populations collected in China

HB, Hubei; HN, Hunan; SC, Sichuan; GZ, Guizhou; GX, Guangxi; YN, Yunan

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showed the lowest degrees of genetic diversity. At the province level, the h parameters ranged from 0.0697 to 0.1263 (group level=0.1401) in Hubei province, from 0.1344 to 0.1406 (group level=0.1610) in Guizhou province and from 0.1211 to 0.122 (group level=0.1623) in Yunan province, indicating that wild P. japonicus in these three provinces had higher levels of genetic diversity compared to other regions. But for Hunan (group level of h =0.1177) and Guangxi (group level of h=0.1150) province, the h values of them were relatively low, which may be understated due to the limited population sizes (Table 3).

Analysis of molecular variance (AMOVA)

An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table 4). This analysis revealed that 12.36% (p<0.001) of the total molecular variation was attributed to genetic differentiation among 6 populations defined by province, whereas the remaining 87.64% of the total variation was found within the populations (Table 4). And, the Fst value was 0.189, indicating great genetic differentiation occurred among the populations.

Table 1:Details of the sampling locationsProvince Populations Longitude (°E) Latitude (°N) Sample accessionsHubei Xuan’en 109°28′58″ 29°59′31″ Hbxe1

Hbxe2Hbxe3

Qizimeishan 109°44′31″ 30°1′12″ HBqzms1HBqzms2HBqzms3

Huazhong 109°44′20″ 30°10′30″ HBhz1HBhz2HBhz3

Hunan Badagongshan 111°4′33″ 29°22′37″ HNbdgs1HNbdgs2HNbdgs3

Sichuan Emei 103°19′48″ 29°30′36″ SCem1SCem2SCem3

Longchi 103°18′36″ 29°24′ SClc1SClc2SClc3

HongyaGaomiao 103°22′12″ 29°54′ SChygm1SChygm2SChygm3

Guizhou Leigongshan 108°13′48″ 26°22′48″ GZlgs1GZlgs2GZlgs3

Yushe 104°46′12″ 26°30′ Gzys1Gzys2Gzys3

Guangxi Rongshui 109°8′24″ 25°24′ GXrs1GXrs2GXrs3

Yunnan Maguan 104°23′49″ 23°52′ YNmg1YNmg2YNmg3

Lijiang 100°13′33″ 26°51′16″ YNlj1YNlj2YNlj3

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Table 3: Main genetic parameters of 12 populationsPopulations Percentage of polymorphic loci (%) Na Ne h IXuan’en 14.29 1.1429 1.1362 0.0697 0.0973Qizimeishan 36.22 1.3622 1.2046 0.1263 0.1920Huazhong 28.17 1.2817 1.1766 0.1045 0.1561Hubei group 59.56 1.5956 1.2053 0.1401 0.2304

Badagongshan 34.21 1.3421 1.1886 0.1177 0.1795Hunan group 34.21 1.3421 1.1886 0.1177 0.1795

Emei 9.85 1.0885 1.0844 0.0432 0.0603Longchi 10.66 1.1046 1.0997 0.0511 0.0713HongyaGaomiao 12.07 1.1207 1.1151 0.0589 0.0822Sichuan group 30.38 1.3038 1.1303 0.0862 0.1372

Leigongshan 39.03 1.3903 1.2156 0.1344 0.2050Yushe 40.85 1.4085 1.2255 0.1406 0.2144Guizhou group 60.97 1.6097 1.2403 0.1610 0.2593

Rongshui 33.20 1.3320 1.1854 0.1150 0.1751Guangxi group 33.20 1.3320 1.1854 0.1150 0.1751

Maguan 34.21 1.3421 1.2013 0.1222 0.1844Lijiang 34.21 1.3421 1.1982 0.1211 0.1832Yunan group 60.36 1.6036 1.2423 0.1623 0.2606Observed number of alleles (Na), Effective number of alleles (Ne), Nei’s gene diversity (h), Shannon’s Information index (I)

Table 2: List of ISSR primers used in the studyPrimer code Sequence Length (bp) Tm (oC) PICISSR1 (AG)8C 17 54.7 0.32ISSR2 (AG)8G 17 56.1 0.34ISSR3 (GA)8C 17 48.1 0.22ISSR4 (GA)8A 17 50.2 0.33ISSR5 (CA)8T 17 48.1 0.19ISSR6 (CA)8G 17 52.8 0.21ISSR7 (AC)8C 17 48.1 0.20ISSR8 (AC)8T 17 50.2 0.21ISSR9 (AG)8YT 18 52.8 0.32ISSR10 (AG)8YA 18 50.2 0.18ISSR11 (GA)8YT 18 48.1 0.30ISSR12 (GA)8YG 18 56.0 0.30ISSR13 (CT)8RA 18 41.7 0.18ISSR14 (CA)8RT 18 40.5 0.29ISSR15 (AC)8YA 18 50.2 0.36ISSR16 (GACA)4 16 50.2 0.25ISSR17 (CT)8AGA 19 48.1 0.22ISSR18 GSGG (TG)7T 19 50.2 0.24

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Genetic Distance Analysis

The genetic distance between every two populations ranged from 0.0352 (between Leigongshan and Yushe population) to 0.1502 (between Emei and Maguan population) (Table 5). And, the distance values inside the same province were all less than 0.1 (Fig.1, Table 5). Collectively, differentiation among these populations was not as large as expected. According to the average genetic distance, the Emei of Sichuan province (range from 0.0565 to 0.1502 with a mean=0.1104), Huangzhong of Hubei province (range from 0.0545 to 0.1368 with a mean=0.1023) and Maguan of Yunnan province (range from 0.0802 to 0.1502 with a

mean=0.1023) exhibited a relatively large distance to all other populations.

Cluster Analysis

In the dendrogram generated by UPGMA analysis, 36 samples from 12 populations were clustered into 4 main clusters, A, B, C and D (Fig. 2). Cluster A contained 3 sub-clusters (Emei, Longchi and HongyaGaomiao of Sichuan province), cluster B contained 3 sub-clusters (Lijiang of Yunan province, Xun’en, and other Hubei populations), cluster C contained 3 sub-clusters (Rongshui of Guangxi province, Leigongshan, and other Guizhou populations), and cluster D contained 2 sub-clusters (Badagongshan of Hunan province and Maguan of Yunan province). In general, most samples originated from the same province aggregated together in the same main cluster. Whereas some opposite clustering patterns were found in these areas: Lijiang population of Yunan was closer to the Xun’en population from Hubei, 2 samples from the Leigongshan population of Guizhou were closer to the Rongshui population of Guangxi, and Badagongshan population of Hunan was closer to Maguan population of Yunan.

Genetic structure Analysis

To further assess the reliability and validity of the dendrogram, the genetic structure of P. japonicus populations was then calculated and defined based on the STRUCTURE analysis (Fig. 3). The same number of populations was also identified by the PCA analysis (Fig. 4). The number of

Figure 2: Dendrogram of genetic relatedness of P. japonicus populations

Table 4: Aanlysis of molecular variance (AMOVA) within/among P.japonicus populationsSource df SS MS Est.Var % Fst P‑valueAmong Pops 6 1752.833 350.567 27.191 12.36 0.1898 <0.0010Within Pops 36 5785.722 192.857 192.857 87.64 <0.0010Total 42 7538.555 220.048 100SS: some of square; MS: mean of square; Est. Var: estimated variance

Figure 3: The genetic structure of P. japonicus populations. (A) The most likely number of groups identified by the Evanno’s method. K = 4 showed the highest DeltaK value for all values of K ranging from 3 to 7. (B) Hierarchical organization of the genetic structure. Different colors mean different

groups and the number of groups (K) was set to 4 based on the method of Evanno

BA

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genetic clusters (K) from STRUCTURE showed a peak value at 4 based on the Evanno method, indicating that 4 genetic subdivisions among all 12 populations should be designated (Fig. 3A). The populations from Sichuan province clearly formed a main group, but a certain degree of admixture among Hunan, Yunan and Hubei populations was also found, indicating that genetic structure of P. japonicus in these provinces was complex (Fig. 3B). These results were confirmed in the PCA result, where similar differentiation patterns among regional populations were showed (Fig. 4). In particular, the overlapping zones across Hunan, Yunan, and Hubei populations explained the possible genetic heterozygosity among these P. japonicus groups (Fig. 4). Thus, the STRUCTURE and PCA analyses supported the UPGMA clustering results, which also indicated that environmental factors across different geographic regions might have a significant impact on the genetic structure among P. japonicus populations.

DISCUSSION

Panax species are known for their slow-growing and long-lived perennial life traits, which are probably under the more stringent selection pressure compared to other short-lived dicotyledons during the long historical evolution [22]. A report by Li et al., which showed a high level of genetic diversity (h=0.289) of P. ginseng in northeast China, provided evidence for the high degree of genetic variation under the stringent environmental pressure [23]. However, there are also some Panax species, such as P. stipuleanatus in northwest Vietnam [24], showing a relatively lower level of genetic diversity (h=0.235), which suggests the potential divergence due to different regional conditions or different

Figure 4:PCA analyses for P. japonicus populations Principal Component Analysis (PCA) was performed

by the adegenet package of R to show a summary of the genetic relationship among P. japonicus populations. PC1

and PC2 are shown here

Tabl

e 5:

Gen

etic

dis

tanc

e am

ong

12 p

opul

atio

nsPo

pula

tions

Xua

n’en

Qiz

imei

shan

Hua

zhon

gB

ada

gong

shan

Em

eiL

ongc

hiH

ongy

aG

aom

iao

Leig

ongs

han

Yush

eR

ongs

hui

Mag

uan

Liji

ang

Xua

n’en

Qiz

imei

shan

0.06

76H

uazh

ong

0.09

170.

0545

Bad

agon

gsha

n0.

0963

0.06

920.

1112

Emei

0.11

460.

1005

0.13

680.

1259

Long

chi

0.07

350.

0543

0.09

140.

0785

0.05

65H

ongy

aGao

mia

o0.

0950

0.07

610.

1132

0.09

470.

0945

0.04

98Le

igon

gsha

n0.

0890

0.06

810.

1041

0.07

230.

0950

0.05

270.

0739

Yush

e0.

0862

0.05

010.

0914

0.05

990.

1049

0.05

810.

0752

0.03

52R

ongs

hui

0.10

190.

0841

0.11

770.

0880

0.10

980.

0658

0.06

800.

0444

0.06

92M

agua

n0.

1103

0.08

460.

1175

0.08

260.

1502

0.09

910.

1101

0.08

630.

0802

0.11

59Li

jiang

0.06

850.

0543

0.09

540.

0800

0.12

510.

0770

0.09

270.

0701

0.05

810.

0944

0.09

51

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Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 7

climate types for the genus Panax. In this study, lower genetic diversity of P. japonicus was found in 6 provinces of southern China (h varied from 0.0862 to 0.1623). This is possibly due to the fact that wild P. japonicus plants are very rare and cannot be easily reproduced by the artificial propagation, which may severely limit the average degree of genetic diversity of P. japonicus and favor the formation of endemic populations in China.

However, Guizhou and Yunan provinces, two famous traditional growing regions of wild P. japonicus in China [16], showed relatively higher diversity parameters (h=0.1610 and h=0.1623) than the mean value (Table 3). This result seems to be attributed to the effect of human disturbance. A previous study also reported that underground rhizomes of wild P. japonicus were widely collected for medicinal use in Guizhou and Yunan due to their genuine medicinal materials[7]. Thus, the influence of human disturbance on P. japonicus populations and its potential consequences in affecting the geographic distribution facilitates to a certain level of genetic diversity, especially in the traditional growing regions.

The genetic structure of the population reveals elaborate interactions among species with regard to their evolutionary history, natural selection, mutation and recombination [25]. Thus, an understanding of the genetic structure of P. japonicus is a prerequisite for effective conservation and sustainable use of this germplasm for breeding. In this study, the STRUCTURE analysis indicated that the entire P. japonicus population was divided into 4 groups (Fig. 3). Group I included all populations from Sichuan. Group II included populations from Guizhou and Guangxi. Group III mixed different genetic components of Hunan, Yunan and Hubei populations. Group IV included main populations from Hubei.

The similar genetic relationships were also identified in the PCA analysis, which showed a clear differentiation between Sichuan clusters and others (Fig. 4). Most Sichuan populations are located in the Sichuan basin with a subtropical marine climate, but other populations are located in the transitional climate zone between continental and marine climate. There is a large difference in light, temperature and rainfall conditions between these two regions [26], which can explain a broad amount of genetic variance between Sichuan populations and others.

In addition, Maguan and Lijiang populations, which are from the same province (Yunnan), are also genetically distinct. In our field investigation, we exploited the fact that different soil types may induce the genetic differentiation between Maguan and Lijiang populations. Soils in Maguan are usually brown, yellow, or dark, and are barren, thin, and acidic. Soils in Lijiang, in contrast, are of better quality and are mainly red, of which soil layer is deep, enabling the retention of water and fertilizer [27]. Thus, we proposed

that P. japonicus populations might respond differently to environmental factors (such as climate and soil conditions) due to local adaption, which mediated genetic difference among populations.

Although environmental factors clearly contribute to the population divergence in P. japonicus, the genetic structure of some populations may be strongly impacted by other reasons such as historical genetic mixing. For example, Badagongshan and Xun’en were respectively established as two important National Nature Reserves (NNRs) since the late 1980s in China [3]. Many precious natural resources including Panax species had been introduced into these regions from other authentic traditional areas such as Yuan province, which potentially caused the strong relatedness among P. japonicus populations. As shown in Figure 3, most populations from Badagongshan and Xuan’en share similar proportions of genetic components with Maguang and Lijiang populations in Yunan, which seems to be attributable to the historical mixing.

CONCLUSIONS

In summary, the extent of genetic variations and populations divergence of P. japonicus was shown in this study, which is useful for further investigations on those species for regional conservation and pharmaceutical use as valuable natural medicinal resources. In particular, the utilization of wild materials was the benefit to determine the role of local environmental factors in defining the genetic relationship and population structure. However, the limited individuals and population numbers collected in some regions might cause a negative effect. In our future study, more wild populations and more types of molecular markers should be collected and utilized in order to explore the complex interactions between genetic diversity and environmental variables for P. japonicus.

ETHICS APPROVAL AND CONSENT TO PARTICIPATE

Not applicable.

CONSENT FOR PUBLICATION

Not applicable.

AVAILABILITY OF DATA AND MATERIALS

Not applicable.

COMPETING INTERESTS

We would like to state that there is no conflict of interest relative to the paper.

Page 8: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 8

FUNDING

Hubei Provincial Department of Education Plan for Science & Technology Project.

AUTHORS’ CONTRIBUTIONS

Ran Xu drafted the manuscript. Jia Song performed the laboratory work. Ying Zhang and Guang Wang collected the samples. Ran Xu and Shaopeng Zhang involved in planning the experiment and data interpretation. All authors read and approved the final manuscript.

ACKNOWLEDGMENTS

The authors acknowledge the financial support of Hubei Provincial Department of Education Plan for Science & Technology Project (Q20171705).

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Page 9: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 9

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

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Tabl

e S1

: Pre

sent

/abs

ent i

nfor

mat

ion

of th

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lym

orph

ic lo

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mon

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l sam

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from

the

ISSR

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plifi

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(Con

td...

)

Page 10: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 10

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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Tabl

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: (C

ontin

ued)

(Con

td...

)

Page 11: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 11

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

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YNlj2

YNlj1

HBxe3

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HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

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Tabl

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: (C

ontin

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(Con

td...

)

Page 12: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 12

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

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01

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00

Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 13: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 13

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

11

11

10

11

01

11

01

00

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10

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10

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10

Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 14: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 14

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

00

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11

10

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01

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10

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01

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11

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00

Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 15: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 15

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

00

00

10

10

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10

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 16: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 16

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

00

00

00

01

01

10

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 17: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 17

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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01

11

Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 18: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 18

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

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Page 19: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 19

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

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Page 20: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 20

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 21: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 21

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 22: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 22

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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Tabl

e S1

: (C

ontin

ued)

(Con

td...

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Page 23: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 23

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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11

01

10

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11

Tabl

e S1

: (C

ontin

ued)

(Con

td...

)

Page 24: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 24

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

GZys3

GZys2

GZys1

HNbdgs3

HNbdgs2

HNbdgs1

YNmg3

YNmg2

YNmg1

YNlj3

YNlj2

YNlj1

HBxe3

HBxe2

HBxe1

HBqzms3

HBqzms2

HBqzms1

HBhz3

HBhz2

HBhz1

00

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11

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01

11

00

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10

00

00

01

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11

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01

11

11

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00

00

00

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10

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10

11

00

00

00

00

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11

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00

00

00

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11

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10

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01

11

Tabl

e S1

: (C

ontin

ued)

(Con

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Page 25: Chinese Traditional Medical Journal Genetic Diversity and ... · An analysis of molecular variance was carried out to estimate the population differentiation of P. japonicus (Table

Song,et al.: Genetic Diversity and Population structure of Chinese Panax japonicus C. A. Mey

CTMJ | traditionalmedicinejournals.com Chinese Traditional Medicine Journal | 2018 | Vol 1 | Issue 1 25

SCem3

SCem2

SCem1

SClc3

SClc2

SClc1

SChygm3

SChygm2

SChygm1

GXrs3

GXrs2

GXrs1

GZlgs3

GZlgs2

GZlgs1

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GZys2

GZys1

HNbdgs3

HNbdgs2

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YNmg3

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YNmg1

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HBxe3

HBxe2

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HBhz3

HBhz2

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01

11

Tabl

e S1

: (C

ontin

ued)