Literature DB >> 35027632

Forensic and genetic characterizations of diverse southern Thai populations based on 15 autosomal STRs.

Metawee Srikummool1, Suparat Srithawong2, Kanha Muisuk3, Sukrit Sangkhano4, Chatmongkon Suwannapoom5, Jatupol Kampuansai6,7, Wibhu Kutanan8.   

Abstract

Southern Thailand is home to various populations; the Moklen, Moken and Urak Lawoi' sea nomads and Maniq negrito are the minority, while the southern Thai groups (Buddhist and Muslim) are the majority. Although previous studies have generated forensic STR dataset for major groups, such data of the southern Thai minority have not been included; here we generated a regional forensic database of southern Thailand. We newly genotyped common 15 autosomal STRs in 184 unrelated southern Thais, including all minorities and majorities. When combined with previously published data of major southern Thais, this provides a total of 334 southern Thai samples. The forensic parameter results show appropriate values for personal identification and paternity testing; the probability of excluding paternity is 0.99999622, and the combined discrimination power is 0.999999999999999. Probably driven by genetic drift and/or isolation with small census size, we found genetic distinction of the Maniq and sea nomads from the major groups, which were closer to the Malay and central Thais than the other Thai groups. The allelic frequency results can strength the regional forensic database in southern Thailand and also provide useful information for anthropological perspective.
© 2022. The Author(s).

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Year:  2022        PMID: 35027632      PMCID: PMC8758738          DOI: 10.1038/s41598-021-04646-1

Source DB:  PubMed          Journal:  Sci Rep        ISSN: 2045-2322            Impact factor:   4.379


Introduction

Southern Thailand lies on the Malay Peninsula, bordering the Gulf of Thailand to the East, the Andaman Sea to the West, and Malaysia to the South. A census size of ~ 9.16 million in southern Thailand is about 13.35% of the total census size of the country (68.61 million in 2020)[1]. Most people are southern Thai Buddhists (66%) and southern Thai Muslims (33%), while the minorities, e.g. sea nomad and Maniq groups account for about 0.33%[2]. The populations of the three groups of sea nomads are 4000, 2000 and 3000 for Moklen, Moken and Urak Lawoi’, respectively, while only 250 were recorded for the Maniq[1,2]. The languages spoken in southern Thailand belonging to three linguistic families: Tai-Kadai (TK), Austroasiatic (AA) and Austronesian (AN). The AA-speaking Maniq who are scattered through the jungle are regarded as the indigenous people of Southeast Asia or often referred to “negritos” because of their phenotypic difference and traditional mode of subsistence practice that is hunter-gatherers[3]. The AN-speaking sea nomads were used to subsist through maritime foraging in most of the year, although nowadays they prefer to settle in the coastal area of Thailand and Myanmar[4]. Both Maniq and sea nomads were minority groups and thought to be native in southern Thailand since prehistorical time, together with the other groups, e.g. AA-speaking Mon and Khmer before the occupation of the AN-speaking Malays and TK-speaking Thais, thought the Mon and Khmer people are nowadays disappear in southern Thailand[5]. The autosomal short tandem repeats (STRs) show a number of advantages for both population genetic and forensic studies, i.e. distribution across the human genome which led to escape from natural selection, highly polymorphism and informativeness to distinguish recently diverged populations[6,7]. In Thailand, studies on forensic microsatellites and also other markers have focused on northern, northeastern and central Thailand leaving the southern region understudied[8-12]. The only one study on autosomal STRs in southern Thailand indicated that the Thai-Malay Muslim and Thai Buddhist who lived in the five deep Southern Thai provinces had non-significant genetic difference[13]. In addition, there were some other genetic studies on southern Thai populations using uni-parentally inherited markers[3,4]. The mitochondrial (mt) DNA investigation of the Moken showed ancient basal mtDNA haplogroup M21d and M46 with very low genetic diversity[4]. The basal mtDNA haplogroup M21a, R21 and M17a and Y chromosomal haplogroup K were also observed in the Maniq as well as close genetic affinity between the Maniq and other indigenous people of Southeast Asia in Malaysia, reflecting an ancient ancestry of the Maniq and common genetic ancestry of indigenous people of Southeast Asia in the Malay Peninsula[3]. To expand the genetic studies in southern Thailand, we reported genotypes of 15 autosomal STRs of seven southern Thai populations: one AA-speaking Maniq, four AN-speaking Moklen, Moken, Urak Lawoi’ and southern Thai Muslim and two TK-speaking southern Thai Buddhist and southern Thai Takbai. We explored genetic structure and relationships of southern Thai populations with other Thai and Malaysian populations[8,10-14]. In addition, because the forensic database combined diverse southern Thai populations has not yet been established, we created a regional DNA database of 15 autosomal STRs of southern Thailand.

Results and discussions

Genetic diversities and forensic parameters

Raw genotypic data of 15 STRs of 334 southern Thai samples are provided in Table S1. Total genetic diversity of all southern Thai samples was 0.7871 ± 0.3945, whereas that in individual populations ranged from 0.6742 ± 0.3526 in the Maniq to 0.7943 ± 0.4012 in southern Thai Buddhist (Table 1). The reduced genetic diversity of the Maniq is possibly driven by genetic drift associated with geographic isolation and very small population sizes, as reported previously[3]. When the genetic diversity calculated form the same marker set was compared between two hunter-gatherer groups in Thailand, the Maniq from the South had diversity value greater than the Mlabri from the North (0.547 ± 0.288)[15] although the sample size of Maniq (n = 15) is lower than the Mlabri (n = 19). Also the genetic diversity results of these 15 STRs of ~ 70 Thai populations[8-13,15] revealed that the Mlabri had the lowest genetic diversity, indicating a strong genetic drift of the Mlabri. Regarding the sea nomads and excluding the Moken due to their small sample size, the Moklen and Urak Lawoi’ showed lower genetic diversity than other Thai and Malaysian populations (Table 1), reflecting certain degree of genetic drift.
Table 1

General information and results on genetic diversities of the studied and compared populations.

PopulationCodeSample sizeLocationLanguageReferencesAverage HETotal alleleGene diversity (S.D.)
Southern Thai TakbaiJH40Southern ThailandTai-KadaiPresent study0.78261170.7786 (0.3949)
Southern Thai MuslimMST22Southern ThailandAustronesianPresent study0.79031090.7759 (0.3994)
Southern Thai BuddhistBST52Southern ThailandTai-KadaiPresent study0.79631250.7943 (0.4012)
ManiqMN15Southern ThailandAustroasiaticPresent study0.6742730.6742 (0.3526)
MoklenMLK22Southern ThailandAustronesianPresent study0.7535970.7535 (0.3869)
Urak Lawoi’UL29Southern ThailandAustronesianPresent study0.75321020.7469 (0.3816)
MokenMOK4Southern ThailandAustronesianPresent study0.7238550.7238 (0.4202)
Southern Thai MuslimMUS104Southern ThailandAustronesian[13]0.78761370.7860 (0.3953)
Southern Thai BuddhistBUD46Southern ThailandTai-Kadai[13]0.78581210.7837 (0.3966)
MalayML1110MalaysiaAustronesian[14]0.79421440.7942 (0.3991)
MalayML2246MalaysiaAustrone sian[14]0.79621630.7962 (0.3990)
YuanYU135Northern ThailandTai-Kadai[8]0.78391360.7839 (0.3939)
YongYO55Northern ThailandTai-Kadai[8]0.77581250.7758 (0.3922)
Central ThaiCT246Central ThailandTai-Kadai[12]0.79161510.7854 (0.3939)
MonMO92Central ThailandAustroasiatic[12]0.79131370.7745 (0.3901)
KhmerKH48Northeastern ThailandAustroasiatic[11,37]0.75891140.7589 (0.3846)
Lao IsanIS272Northeastern ThailandTai-Kadai[11]0.78441670.7669 (0.3851)
General information and results on genetic diversities of the studied and compared populations. When genotype data of total 334 southern Thai samples were combined and calculated the allelic frequency for the 15 STR loci (Table 2), there are two loci (D19S433 and D18S51) that depart from the Hardy–Weinberg equilibrium (HWE) even after applying Bonferoni adjustment (p < 0.0033). Although the forensic parameters show that both loci are highly discriminating (power of discrimination (PD) = 0.9246 for D19S433 and 0.9513 for D18S51) and power of exclusion (PE) = 0.5757 or D19S433 and 0.6873 for D18S51)), the lack of HWE must be taken into account in forensic investigation. A total of 157 alleles were detected, ranging from 6 alleles at TPOX to 21 alleles at FGA. The maximum allele frequencies is observed in TPOX (0.5472). The lowest expected heterozygosity (H) was observed in the TPOX (0.6201), while the highest H was in the FGA (0.8690) (Table 2). The polymorphic information content (PIC) ranged from 0.5672 (TPOX) to 0.8529 (D2S1338) and matching probability (MP) values are from 0.0374 (FGA) to 0.2037 (TPOX) (Table 2). The power of discrimination (PD) ranged from 0.7963 (TPOX) to 0.9673 (D2S1338) (Table 2), with a value of 0.9999999999999999 for the combined PD. The power of exclusion (PE) ranged from 0.3121 (D3S1358) to 0.7588 (FGA) (Table 2), with a combined PE value of 0.99999622.
Table 2

Allele frequencies of total southern Thais based on the 15 autosomal STR loci (n = 334).

AlleleD8S1179D21S11D7S820CSF1POD3S1358THO1D13S317D16S539D2S1338D19S433VWATPOXD18S51D5S818FGA
60.1199
70.01950.28490.00150.0180
80.00600.26280.00150.12290.35840.01350.54720.0390
90.07660.01500.36130.10090.15120.00750.1439
9.30.0570
100.13620.17570.20960.04950.14310.13470.04050.00450.2444
110.07340.28080.28590.00450.20630.32200.00600.00300.24290.00450.2684
120.13320.15470.39820.00300.15660.22460.05100.02400.10780.2729
12.20.0075
130.18260.02550.07040.00150.03010.12870.21440.00450.12280.1409
13.20.0390
140.19910.00150.01050.05260.00300.02100.25940.20540.15420.0165
14.20.1005
150.16770.00300.00900.30830.00150.00450.09600.04200.25000.0015
15.20.1694
160.07930.33530.00750.02700.13190.16320.0015
16.20.0195
170.02100.22110.11240.00150.32530.0644
17.20.0015
180.00150.07670.09300.18290.04340.0060
190.00150.20690.08550.02690.0663
200.11390.01800.02840.0738
20.20.0045
210.02250.00150.01050.1852
21.20.0120
220.05700.01500.1807
22.20.0045
230.18140.00300.1446
23.20.0075
240.12140.1581
24.20.0105
250.06600.00150.0904
25.20.0015
260.01800.0316
26.20.0015
270.00600.0136
280.04650.0030
28.20.0015
290.2549
300.2369
30.20.0300
30.30.0015
310.07050.0015
31.20.0840
320.0165
32.20.1574
32.30.0015
330.0015
33.20.0765
34.20.0150
No. alleles1015988788111410615721
HO0.82040.81980.75980.68560.70780.71470.76130.79340.84990.81680.78980.65470.82640.75980.8852
HE0.85170.83420.79160.71150.73630.75430.77370.78890.86830.83480.79320.62010.85370.77300.8690
HWE0.15510.54970.47820.04520.79720.31550.11990.29030.77750.00040.04140.00600.00270.94490.1458
MP0.05920.05430.07380.13920.17870.09530.08740.08210.03270.07540.08790.20370.04870.08880.0374
PD0.94080.94570.92620.86080.82130.90470.91260.91790.96730.92460.91210.79630.95130.91120.9626
PIC0.80200.80690.75780.65330.58840.71640.73930.75380.85290.77600.74150.56720.83170.73480.8492
PE0.64620.62240.52410.39780.31210.45140.52810.58340.69460.57570.54550.36160.68730.53060.7588
TPI2.85712.66672.06881.56191.30651.75262.08862.39863.33002.35092.17861.44783.25002.10134.2368

No. alleles, number of allele; HO, observed heterozygosity; HE, expected heterozygosity; HWE, Hardy–Weinberg p value; MP, matching probability; PD, power of discrimination; PIC, po ly mo r p h ic i nformation content; power of discrimination; TPI, total paternity index; GD, gene diversity; CMP, combined matching probability; CPD, combine power d isc rim in ation; CPE, combined pow er discrimination.

Allele frequencies of total southern Thais based on the 15 autosomal STR loci (n = 334). No. alleles, number of allele; HO, observed heterozygosity; HE, expected heterozygosity; HWE, Hardy–Weinberg p value; MP, matching probability; PD, power of discrimination; PIC, po ly mo r p h ic i nformation content; power of discrimination; TPI, total paternity index; GD, gene diversity; CMP, combined matching probability; CPD, combine power d isc rim in ation; CPE, combined pow er discrimination.

Genetic relatedness and genetic structure of southern Thai populations

One measure of genetic relationship among populations was a genetic distance value. The result of genetic distance (Rst) among 17 Thai and Malaysian populations showed that the Maniq (MN) and Urak Lawoi’ (UL) were genetically different from each other and from other populations (Fig. 1) whereas the Moklen (MLK) showed significantly difference from almost all comparisons (p > 0.05), except with the pairs of newly generated southern Thai Muslim (MST) and Moken. However, due to the effect of very small sample size, the Moken did not differ from almost populations. In general, the Maniq and sea nomads from southern Thailand exhibited genetic differentiation from the other groups. Then, the matrix of Rst were constructed to multi-dimensional scaling (MDS) plots. The three-dimensional MDS result based on dimension 1 and 2 showed genetic distinction of Maniq (MN) and three sea nomads, i.e. Moklen (MLK), Moken (MOK) and Urak Lawoi’ (UL) from the other groups from Thailand and Malaysia. The MDS analysis based on dimensions 3 showed genetic differences of Urak Lawoi’ from other populations (Fig. 2A–C). The heat plot of the MDS indicated genetic distinction of Moklen and Maniq in dimension 1 and 2, respectively and genetic difference of Urak Lawoi’ from other sea nomads in dimension 3 (Fig. 2D).
Figure 1

Heat plot of R values between total 17 populations. The “ = ” symbol indicates non-significance of Rst values (p > 0.05).

Figure 2

The three-dimensional MDS plots for 17 populations (A–C) (stress = 0.0030) and the heat plot of standardized values of MDS with five dimensions (D). See population abbreviation in Table 1. Red, purple, green, blue and black indicate populations from southern Thailand, northern Thailand, northeastern Thailand, central Thailand and Malaysia, respectively. Circle, square and triangle indicate Austronesian, Tai-Kadai, Austroasiatic families, respectively.

Heat plot of R values between total 17 populations. The “ = ” symbol indicates non-significance of Rst values (p > 0.05). The three-dimensional MDS plots for 17 populations (A–C) (stress = 0.0030) and the heat plot of standardized values of MDS with five dimensions (D). See population abbreviation in Table 1. Red, purple, green, blue and black indicate populations from southern Thailand, northern Thailand, northeastern Thailand, central Thailand and Malaysia, respectively. Circle, square and triangle indicate Austronesian, Tai-Kadai, Austroasiatic families, respectively. To further explore cryptic population structure and genetic relationship among 16 populations without the Moken by STRUCTURE, we present the result of K from 2 to 8 (Fig. 3A) and at K = 5 which is the suitable cluster (Fig. 3B)[16]. The first cluster was in the Maniq (MN), as represented by orange, while the second clusters (purple) stood out in the sea nomads: Moklen (MLK) and Urak Lawoi’ (UL), supporting their genetic uniqueness (Fig. 3A). The other three clusters (dark blue, light blue and green) were distributed in all populations at different proportions: (1) the dark blue component greatly emerged in southern Thais (MST, MUS, BST and BUD), Malays (ML1 and ML2), populations from central Thailand (MO and CT), (2) light blue strongly emerged in the other Thais from northern (YO and YU) and northeastern regions (IS and KH) and the green component was roughly distributed in all populations, except for a reduction in the Maniq and Urak Lawoi’. Interestingly, although the Moklen and Urak Lawoi’ occupy their own cluster (purple), the Moklen exhibited mixed ancestries compared to the Urak Lawoi’ (Fig. 3A), indicating stronger interactions between Moklen and the other populations.
Figure 3

STRUCTURE result at K = 2–8 (A). Each individual is represented by a single column that is divided into segments whose size and color correspond to the relative proportion of a particular cluster. Populations are separated by black lines and population codes are listed in Table 1. Number of populations with the highest posterior probability expressed as the Delta K (B).

STRUCTURE result at K = 2–8 (A). Each individual is represented by a single column that is divided into segments whose size and color correspond to the relative proportion of a particular cluster. Populations are separated by black lines and population codes are listed in Table 1. Number of populations with the highest posterior probability expressed as the Delta K (B). Overall, there were three main observations according to genetic relationship results. First, the Maniq and sea nomads exhibited extremely genetic differences from other Thai and Malaysian populations. The distinct genetic structure coupled with low genetic diversity (Table 1) is probably driven by genetic drift and/or inbreeding due to their geographical isolation and small census size. Reduced genetic diversity of the Maniq was also observed in previous study of mtDNA and Y chromosomal variations[3]. Second, among the sea nomad groups (excluding the Moken), the Urak Lawoi’ and Moklen showed genetic dissimilarity with the latter displaying genetic admixture with other populations. According to ethnolinguistic background, the Moklen are more closely related to the Moken and both of them are more distant from Urak Lawoi’[4]. Although languages of sea nomads were grouped within Austronesian family and Malayo-Polynesian sub-family, different in dialects were spoken; the Urak Lawoi’ or Orang Laut speak Malayic that distantly related to both Moken and Moklen who shared many cultural connections. In addition, the Urak Lawoi’ was culturally isolated but the Moklen had frequently interacted with and influenced by other southern Thais[1,17,18]. Therefore, the unique genetic signature of Urak Lawoi’ and mixed ancestries of Moklen could be described by ethnolinguistic and cultural evidence. Third, we found more genetic similarity between major southern Thais and populations from central Thailand than other regions. The present result was in agreement with a recent genome-wide study[19] that could be explained by historical evidence; there were movements from the central region to the south during the Ayutthaya Period (during 1350–1767 A.D.)[20] and genetic admixture between the southern Thai and Malays after the settlement period might be possible[13].

Genetic relationships between southern Thai populations and other Asian populations

A neighbor-joining (NJ) tree based on allele frequencies of 15 STR loci among 29 Asian populations reveals four clusters of populations. Cluster 1 consists of populations from Island Southeast Asia and Malaysia while the South Asian populations occupy cluster 2. Cluster 3 comprises of Mainland Southeast Asian populations and cluster 4 belongs to the Thai sea nomads, Maniq from Thailand and Indonesians from Bali, with the extreme divergence of Maniq (Fig. 4). Interestingly, both southern Thai Muslim populations (MST and MUD) and southern Thai Takbai are positioned close to cluster 2 of South Asian. One southern Thai Buddhist population (BUD) is grouped with other Mainland Southeast Asian populations of cluster 3, while another southern Thai Buddhist population (BST) is clustered with southern Thai sea nomads in cluster 4 (Fig. 4). Several archaeological evidence indicated prehistorical contacts between India and present-day Thailand (and Cambodia) during the Iron Age that brought exotic goods and Buddhist and Hindu religions; early states in this area, e.g. Dvaravati in central Thailand and Langkasuka in Malay Peninsular were influenced by Indian cultures during initial establishment[5]. South Asian connections of southern Thai populations could be possibly driven by previous admixture, in agreement with previous study on genome-wide data[19].
Figure 4

Neighbor-joining (NJ) tree. The NJ tree based on F computation from allele frequency of 15 STR loci from 29 populations, including southern Thai populations (indicated by dots) and other comparative Thai and Asian populations.

Neighbor-joining (NJ) tree. The NJ tree based on F computation from allele frequency of 15 STR loci from 29 populations, including southern Thai populations (indicated by dots) and other comparative Thai and Asian populations.

Conclusion

We generated and analysed forensic STR loci in diverse ethnolinguistic groups from southern Thailand. In general, the Maniq and sea nomads are highly diverged from the other Thai groups, while the southern Thai populations are closer to the Malays and populations from central Thailand, reflecting different genetic structures of major Thais in each region that emphasize the importance of generating a database of allelic frequencies in southern regions of Thailand. Therefore, the allelic frequency generated here from combined STRs data from several populations is useful for further forensic investigation in the region. In anthropological genetic perspective, although the resolution of STRs to elucidate population history is lower than those of genome-wide data, several results here are concordant to previous genome-wide data, e.g. close relationship between southern and central Thais, reflecting certain usefulness of this set of markers. In addition, the Moklen and Urak Lawoi’ sea nomads have not been genetically investigated yet; this study initially provides basic genetic background of these enigmatic groups from southern Thailand. We found genetic distinction among Urak Lawoi’ and Moklen; the former had unique genetic perspective while the latter exhibited mixed ancestries, reflecting more population interaction with other populations. The limitations in this study is the limited sample size of the Moken which cannot be able to compare the results with other populations. Additional studies of sea nomads from other locations of southern Thailand coupled with further details from other genetic markers will be provided more insights into the genetic ancestry of AN speaking people in the Malay Peninsula.

Materials and methods

Sample

We newly collected 184 samples belonging to seven populations: AA-speaking Maniq, AN-speaking Moklen, Moken, Urak Lawoi’ and southern Thai Muslim and TK-speaking southern Thai Buddhist and southern Thai Takbai, using buccal swabs with written informed consent. Prior to the collection of samples, all volunteers were interviewed to screen for subjects unrelated for at least two generations. The rights of participants and their identity have been protected during the whole process of this research. All experiments were performed in accordance with relevant guidelines and regulations based on the experimental protocol on human subjects which was approved by the Khon Kaen University Ethic Committee (Protocol No. HE622223) and Naresuan University Institution Review Board (COA No. 0464/2017). When combined with previously published southern Thai Buddhist and southern Thai Muslim data[13], this provides a total raw genotype data of 334 southern Thai samples (Table S1).

Data collection

Genomic DNA was extracted from buccal swabs using the Gentra Puregene Buccal Cell Kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. Each DNA sample was amplified for 15 STR loci in a multiplex PCR using a commercial AmpFlSTR Identifiler kit (Applied Biosystem, Foster City, CA, USA) according to the manufacturer’s protocols. The amplicons were genotyped by multi-capillary electrophoresis on an ABI 3130 DNA sequencer (Applied Biosystem), and allele calling was performed by the software GeneMapper v.3.2.1 (Applied Biosystem).

Statistical analysis

Arlequin v.3.5.2.2[21] was used to calculate allele frequency, Hardy–Weinberg equilibrium (HWE) P values, observed heterozygosity (H), expected heterozygosity (H), total alleles, and gene diversity (GD). Significant levels for the HWE were adjusted according to the sequential Bonferroni correction (α = 0.05/15)[22]. We used the Excel PowerStats spreadsheet[23] to compute several forensic parameters, including power of discrimination (PD), matching probability (MP), polymorphic information content (PIC), power of exclusion (PE), and typical paternity index (TPI) as well as the combined PD (CPD), combined MP (CMP), and combined PE (CPE). To reveal population relationships and population structures, we also combined genotyping data of additional eight populations from northern Thailand (Yuan and Yong), northeastern Thailand (Khmer and Lao Isan) and central Thailand (Mon and central Thai)[8,10-12,37], and Malaysia (two Malay populations)[14] (Table 1; Fig. 5). A genetic distance matrix based on sum of square difference (R) was generated by Arlequin, and the matrix was then plotted in two dimensions by means of multidimensional scaling (MDS) using Statistica v.10 demo (StatSoft, Inc., USA). The heatmap visualization of R and MDS values were obtained using R package (R Development Core Team).
Figure 5

Map of the sampling locations of the 17 populations in analyses of genetic diversity and genetic structure, color-coded according to geographic region/country: red, purple, blue, green, and black indicating populations from southern Thailand, northern Thailand, northeastern Thailand, central Thailand and Malaysia, respectively while symbol-coded according to language family: Circle, square and triangle representing Austronesian, Tai-Kadai, Austroasiatic families, respectively. (Adob e Illustrat or CS4 14.0.0. http://www.adobe.com/sea/).

Map of the sampling locations of the 17 populations in analyses of genetic diversity and genetic structure, color-coded according to geographic region/country: red, purple, blue, green, and black indicating populations from southern Thailand, northern Thailand, northeastern Thailand, central Thailand and Malaysia, respectively while symbol-coded according to language family: Circle, square and triangle representing Austronesian, Tai-Kadai, Austroasiatic families, respectively. (Adob e Illustrat or CS4 14.0.0. http://www.adobe.com/sea/). To delineate cryptic population structure using the Bayesian clustering method, we performed STRUCTURE version 2.3.4 under the following prior parameters: admixture, correlated allele frequencies, and assistance of sampling locations (LOCPRIOR model)[24-26]. We ran ten replications for each number of clusters (K) from 1 to 11 and used a burn-in length of 100,000 iterations, followed by 200,000 iteration running length. We used STRUCTURE Harvester[27] to compute a second-order rate of change logarithmic probability between subsequent K values (△K) in order to identify the optimal K value in the data[16]. We used CLUMPAK[28] and DISTRUCT[29] to generate the final results of STRUCTURE. To evaluate genetic relatedness with other Asian populations, we used POPTREE v.2[30] to generate a neighbor-joining (NJ) tree based on F computation by allele frequency of 15 STR loci of 29 populations from South and Southeast Asia[8,9,11,12,14,31-39].

Ethics statement

The rights of participants and their identity have been protected during the whole process of this research. All experiments were performed in accordance with relevant guidelines and regulations based on the experimental protocol on human subjects which was approved by the Khon Kaen University Ethic Committee (Protocol No. HE622223) and Naresuan University Institution Review Board (COA No. 0464/2017). Supplementary Table S1.
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1.  STR data for the AmpFLSTR Identifiler loci in Bangladeshi and Indonesian populations.

Authors:  Yuji Dobashi; Akira Kido; Noboru Fujitani; Masaaki Hara; Rie Susukida; Masakazu Oya
Journal:  Leg Med (Tokyo)       Date:  2005-07       Impact factor: 1.376

2.  Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study.

Authors:  G Evanno; S Regnaut; J Goudet
Journal:  Mol Ecol       Date:  2005-07       Impact factor: 6.185

3.  Allele frequencies of 19 STR loci in a Philippine population generated using AmpFlSTR multiplex and ALF singleplex systems.

Authors:  Maria Corazon A De Ungria; Rhonda K Roby; Kristina A Tabbada; Sulekha Rao-Coticone; Michelle Music M Tan; Karen N Hernandez
Journal:  Forensic Sci Int       Date:  2004-11-28       Impact factor: 2.395

4.  Genetic variation of 17 autosomal STR loci in the Zhuang ethnic minority from Guangxi Zhuang Autonomous Region in the south of China.

Authors:  Fei Guo; Jun Li; Teju Wei; Qiansu Ye; Zucong Chen
Journal:  Forensic Sci Int Genet       Date:  2017-03-16       Impact factor: 4.882

5.  Geography has more influence than language on maternal genetic structure of various northeastern Thai ethnicities.

Authors:  Wibhu Kutanan; Silvia Ghirotto; Giorgio Bertorelle; Suparat Srithawong; Kanokpohn Srithongdaeng; Nattapon Pontham; Daoroong Kangwanpong
Journal:  J Hum Genet       Date:  2014-07-31       Impact factor: 3.172

6.  POPTREEW: web version of POPTREE for constructing population trees from allele frequency data and computing some other quantities.

Authors:  Naoko Takezaki; Masatoshi Nei; Koichiro Tamura
Journal:  Mol Biol Evol       Date:  2014-03-06       Impact factor: 16.240

7.  Genetic structure of the ethnic Lao groups from mainland Southeast Asia revealed by forensic microsatellites.

Authors:  Suparat Srithawong; Kanha Muisuk; Metawee Srikummool; Narongdet Mahasirikul; Saksuriya Triyarach; Kamnikone Sriprasert; Wibhu Kutanan
Journal:  Ann Hum Genet       Date:  2020-03-02       Impact factor: 1.670

8.  Inferring weak population structure with the assistance of sample group information.

Authors:  Melissa J Hubisz; Daniel Falush; Matthew Stephens; Jonathan K Pritchard
Journal:  Mol Ecol Resour       Date:  2009-04-01       Impact factor: 7.090

9.  Reconstructing the Human Genetic History of Mainland Southeast Asia: Insights from Genome-Wide Data from Thailand and Laos.

Authors:  Wibhu Kutanan; Dang Liu; Jatupol Kampuansai; Metawee Srikummool; Suparat Srithawong; Rasmi Shoocongdej; Sukrit Sangkhano; Sukhum Ruangchai; Pittayawat Pittayaporn; Leonardo Arias; Mark Stoneking
Journal:  Mol Biol Evol       Date:  2021-07-29       Impact factor: 16.240

10.  Genetic polymorphism study at 15 autosomal locus in central Indian population.

Authors:  Pankaj Shrivastava; Toshi Jain; Veena Ben Trivedi
Journal:  Springerplus       Date:  2015-09-30
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