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      Genetic Structure and Forensic Utility of 23 Autosomal STRs of the Ethnic Lao Groups From Laos and Thailand

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          Abstract

          The Lao Isan and Laotian are the major groups in the area of present-day northeastern Thailand and Laos, respectively. Several previous genetic and forensic studies indicated an admixed genetic structure of Lao Isan with the local Austroasiatic speaking groups, e.g. Khmer, whereas there is a paucity of reporting Laotian’s forensic short tandem repeats (STRs). Here, we newly generated 451 genotypes of seven Lao Isan and three Laotian populations (two Lao Lum and one Lao Thoeng) using 23 autosomal STRs embedded in Verifiler TM plus PCR Amplification kit. We reported allelic frequency and forensic parameters in different dataset: combined ethnic Lao groups, combined Lao Isan populations and combined Laotians. Overall, the forensic parameter results indicate that this set of STRs is suitable for forensic investigation. The anthropological results revealed the genetic homogeneity of Tai-Kadai speaking Lao groups from Thailand and Laos, consistent with previous studies, while the Austroasiatic speaking groups from southern Laos showed genetic relatedness to both Lao Isan and Khmer. In sum, STRs allelic frequency results can provide the genetic backgrounds of populations which is useful for anthropological research and also strengthens the regional forensic database in both countries.

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          Inference of Population Structure Using Multilocus Genotype Data

          We describe a model-based clustering method for using multilocus genotype data to infer population structure and assign individuals to populations. We assume a model in which there are K populations (where K may be unknown), each of which is characterized by a set of allele frequencies at each locus. Individuals in the sample are assigned (probabilistically) to populations, or jointly to two or more populations if their genotypes indicate that they are admixed. Our model does not assume a particular mutation process, and it can be applied to most of the commonly used genetic markers, provided that they are not closely linked. Applications of our method include demonstrating the presence of population structure, assigning individuals to populations, studying hybrid zones, and identifying migrants and admixed individuals. We show that the method can produce highly accurate assignments using modest numbers of loci—e.g., seven microsatellite loci in an example using genotype data from an endangered bird species. The software used for this article is available from http://www.stats.ox.ac.uk/~pritch/home.html.
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            Detecting the number of clusters of individuals using the software structure: a simulation study

            The identification of genetically homogeneous groups of individuals is a long standing issue in population genetics. A recent Bayesian algorithm implemented in the software STRUCTURE allows the identification of such groups. However, the ability of this algorithm to detect the true number of clusters (K) in a sample of individuals when patterns of dispersal among populations are not homogeneous has not been tested. The goal of this study is to carry out such tests, using various dispersal scenarios from data generated with an individual-based model. We found that in most cases the estimated 'log probability of data' does not provide a correct estimation of the number of clusters, K. However, using an ad hoc statistic DeltaK based on the rate of change in the log probability of data between successive K values, we found that STRUCTURE accurately detects the uppermost hierarchical level of structure for the scenarios we tested. As might be expected, the results are sensitive to the type of genetic marker used (AFLP vs. microsatellite), the number of loci scored, the number of populations sampled, and the number of individuals typed in each sample.
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              Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows.

              We present here a new version of the Arlequin program available under three different forms: a Windows graphical version (Winarl35), a console version of Arlequin (arlecore), and a specific console version to compute summary statistics (arlsumstat). The command-line versions run under both Linux and Windows. The main innovations of the new version include enhanced outputs in XML format, the possibility to embed graphics displaying computation results directly into output files, and the implementation of a new method to detect loci under selection from genome scans. Command-line versions are designed to handle large series of files, and arlsumstat can be used to generate summary statistics from simulated data sets within an Approximate Bayesian Computation framework. © 2010 Blackwell Publishing Ltd.
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                Author and article information

                Contributors
                Journal
                Front Genet
                Front Genet
                Front. Genet.
                Frontiers in Genetics
                Frontiers Media S.A.
                1664-8021
                07 July 2022
                2022
                : 13
                : 954586
                Affiliations
                [1] 1 Biological Science Program , Faculty of Science , Khon Kaen University , Khon Kaen, Thailand
                [2] 2 Department of Forensic Medicine , Faculty of Medicine , Khon Kaen University , Khon Kaen, Thailand
                [3] 3 Department of Biology , Faculty of Science , Khon Kaen University , Khon Kaen, Thailand
                [4] 4 School of Agriculture and Natural Resources , University of Phayao , Muang Phayao, Thailand
                [5] 5 Department of Biochemistry , Faculty of Medical Science , Naresuan University , Phitsanulok, Thailand
                [6] 6 The Biotechnology and Ecology Institute Ministry of Science and Technology , Vientiane, Laos
                Author notes

                Edited by: Guanglin He, Nanyang Technological University, Singapore

                Reviewed by: Daixin Huang, Huangdaixin, China

                Xiaoye Jin, Xi’an Jiaotong University Health Science Center, China

                Lingxiang Wang, Fudan University, China

                *Correspondence: Wibhu Kutanan, wibhu@ 123456kku.ac.th

                This article was submitted to Evolutionary and Population Genetics, a section of the journal Frontiers in Genetics

                Article
                954586
                10.3389/fgene.2022.954586
                9300924
                a28b6794-185b-42e3-a5a5-7caee04bdc50
                Copyright © 2022 Than, Muisuk, Woravatin, Suwannapoom, Srikummool, Srithawong, Lorphengsy and Kutanan.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 27 May 2022
                : 20 June 2022
                Categories
                Genetics
                Original Research

                Genetics
                laotian,lao isan,strs,verifiler tm plus pcr amplification kit,laos
                Genetics
                laotian, lao isan, strs, verifiler tm plus pcr amplification kit, laos

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