Population data of 24 STRs in Mexican-Mestizo population from Monterrey, Nuevo Leon (Northeast, Mexico) based on Powerplex® Fusion and GlobalFiler® kits

Ramos-González, Benito; Aguilar-Velázquez, José Alonso; Chávez-Briones, María de Lourdes; Delgado-Chavarría, Juan Ramón; Alfaro-Lopez, Elizabeth; Rangel-Villalobos, Héctor

doi:10.1016/j.fsigen.2015.12.004

Cited by 22 publications

(8 citation statements)

References 7 publications

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“…To comprehensively dissect the genetic background of Shanxi northern-Han Chinese, we first integrated our raw genotyping data (23 STRs) with previously published genotype data from 11 Chinese populations from five Chinese ethnic groups (Han, Hui, Tibetan, Yi, and Uyghur) (He et al, 2018b; Wang et al, 2018a; Chen et al, 2019; Liu et al, 2019). To further explore the genetic relationship of Shanxi Han in the context of the genetic variations from the worldwide or nationwide populations, we subsequently combined our allele frequency of 20 STRs with publicly obtained data from 52 worldwide populations (Westen et al, 2012; Gaviria et al, 2013; Park et al, 2013; Fujii et al, 2014; Almeida et al, 2015; Parolin et al, 2015; Aguilar-Velazquez et al, 2016; Hossain et al, 2016; Ng et al, 2016; Park et al, 2016; Ramos-Gonzalez et al, 2016; Ristow et al, 2016; Vullo et al, 2016; Wang, 2016; Zhang et al, 2016a; Zhang et al, 2016b; Choi et al, 2017; Guerreiro et al, 2017; Jin et al, 2017; Liu et al, 2017; Moyses et al, 2017; Ossowski et al, 2017; Singh and Nandineni, 2017; Taylor et al, 2017; Wu et al, 2017; Yang et al, 2017a; He et al, 2018b; He et al, 2018e; Wang et al, 2018a; Liu et al, 2019) and allele frequency of 19 STRs with previously investigated the allele frequency distribution from 60 Chinese populations (Zhang et al, 2011; Zhang, 2012; Liu et al, 2013; Shen, 2013; Zhang, 2013; Wang, 2014; Wang et al, 2014; Xie, 2014; Hu et al, 2015; Li, 2015; Ruan, 2015; Shen et al, 2015; Wang, 2015; Yin, 2015; Zhang and Chen, 2015; Zhao et al, 2015a; Huang, 2016; Meng, 2016; Wang, 2016; Xiang, 2016; Xiao et al, 2016; Zhao, 2016; Chen et al, 2017; Fu et al, 2017; He et al, 2017a; He et al, 2017c; Jin et al, 2017; Liu, 2017; Lu et al, 2017;…”

Section: Methodsmentioning

confidence: 99%

Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese

Chen

Luo

et al. 2019

Front. Genet.

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Modern East Asians derived from the admixture of aborigines and incoming farmers expanding from Yellow and Yangtze River Basins. Distinct genetic differentiation and subsequent admixture between Northeast Asians and Southeast Asians subsequently evidenced by the mitochondrial DNA, Y-chromosomal variations, and autosomal SNPs. Recently, population geneticists have paid more attention to the genetic polymorphisms and background of southern-Han Chinese and southern native populations. The genetic legacy of northern-Han remains uncharacterized. Thus, we performed this comprehensive population genetic analyses of modern and ancient genetic variations aiming to yield new insight into the formation of modern Han, and the genetic ancestry and phylogenetic relationship of the northern-Han Chinese population. We first genotyped 25 forensic associated markers in 3,089 northern-Han Chinese individuals using the new-generation of the Huaxia Platinum System. And then we performed the first meta-analysis focused on the genetic affinity between Asian Neolithic∼Iron Age ancients and modern northern-Han Chinese by combining mitochondrial variations in 417 ancient individuals from 13 different archeological sites and 812 modern individuals, as well as Y-chromosomal variations in 114 ancient individuals from 12 Neolithic∼Iron Age sites and 2,810 modern subjects. We finally genotyped 643,897 genome-wide nucleotide polymorphisms (SNPs) in 20 Shanxi Han individuals and combined with 1,927 modern humans and 40 Eurasian ancient genomes to explore the genetic structure and admixture of northern-Han Chinese. We addressed genetic legacy, population structure and phylogenetic relationship of northern-Han Chinese via various analyses. Our population genetic results from five different reference datasets indicated that Shanxi Han shares a closer phylogenetic relationship with northern-neighbors and southern ethnically close groups than with Uyghur and Tibetan. Genome-wide variations revealed that modern northern-Han derived their ancestry from Yakut-related population (25.2%) and She-related population (74.8%). Summarily, the genetic mixing that led to the emergence of a Han Chinese ethnicity occurred at a very early period, probably in Neolithic times, and this mixing involved an ancient Tibeto-Burman population and a local pre-Sinitic population, which may have been linguistically Altaic.

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Section: Methodsmentioning

confidence: 99%

Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese

Chen

Luo

et al. 2019

Front. Genet.

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“…Admixture analysis was performed by means of a supervised analysis with the Structure software [5] using the following ancestral references: African-Americans, European-Americans [6] and a NA pool from Mexico [3]. In addition, the following admixed populations were included: Hispanic-Americans [6], Monterrey City (Northeast, Mexico) [7], West region of Mexico [8], and Mexico City (Center) [9]. For consistence, for comparison purposes Mexican populations will be described by their geographic region.…”

Section: Methodsmentioning

confidence: 99%

Ancestral proportions based on 22 autosomal STRs of an admixed population (Mestizos) from the Península of Yucatán, México

González-Herrera

Sosa–Escalante

López–González

et al. 2019

Forensic Science International: Genetics Supplement Series

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Latin American populations trace their ancestry mainly to Post Columbian admixture among Native Americans (NA), Europeans, and Africans during nearly 500 years. Although historic and anthropological records suggest that the Peninsula of Yucatan (Southeast, Mexico) has as a large NA origin principally of Mayan ethnicity, they have been poorly studied with autosomal STRs. Thus, the ancestral proportion of Mestizos (admixed) from the Peninsula of Yucatan, was assessed by genotyping 687 subjects for 22 autosomal STRs (Powerplex Fusion system). STR databases from other Mexican Mestizos were included for the admixture analysis (North, West, and Center regions), Hispanic Americans, in addition to European, NA, and African genetic pools as ancestral references. The best fit of population clusters obtained with Structure (K = 5), suggests that Mestizos from the Southeast are principally composed by NA (64.9%), followed by European (33.7%) and African (1.3%) ancestries. This was the highest among the compared Mexican Mestizo populations (range: 51.5-64.3%) and Hispanics (32.9%). Conversely, the European ancestry in the southeast is the lowest among Mexican-Mestizos (range: 33.7-48.5%) and Hispanics (60.2%). Differences with previous reports based on lesser number of STRs could be explained by intrapopulation structure due to socioeconomic and educational factors, as has been previously described in Mexican-Mestizos. This particular ancestral landscape justifies the creation of local STR databases for human identification purposes in Mexico.

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“…We performed locus-by-locus pairwise comparisons (F st ) and calculated Nei’s standard genetic distances (R st ) between our three studied populations and 47 previously published worldwide populations (Asian 9,15–29 , North American 30–32 , European 33–36 , Oceanian 37 , South American 38–41 and South African 42 populations) based on allele frequencies of 20 expanded CODIS loci to infer interpopulation similarity and differentiation (Supplementary Tables S10–S13 and Fig. S1).…”

Section: Resultsmentioning

confidence: 99%

Genetic polymorphism and phylogenetic differentiation of the Huaxia Platinum System in three Chinese minority ethnicities

Liu

Wang

et al. 2019

Sci Rep

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Short tandem repeats (STRs) with features of high polymorphism and abundant evolution information play a significant role in genetic applications such as human forensics, anthropology and population genetics. The Huaxia Platinum System was specifically exploited to allow coamplification of all markers in the expanded Combined DNA Index System and the Chinese National Database. Herein, in continuation of our previous studies, 493 unrelated individuals were firstly genotyped to investigate the efficacy of this novel system in three minority ethnicities of China (Hui, Tibetan and Uygur). Additionally, genetic relationships among our three investigated populations and other previously published populations were analyzed using pairwise genetic distances, multidimensional scaling (MDS), principal component analysis (PCA), cladogram and STRUCTURE. The combined match probabilities (CMP) for the Hui, Tibetan and Uygur groups were 1.6894 × 10 −27 , 6.1666 × 10 −27 and 5.0655 × 10 −27 , respectively, and the combined powers of exclusion (CPE) were 0.999999999646627, 0.999999999304935 and 0.999999999433994. Population comparison analysis manifested that the Hui and Tibetan populations had genetic affinities with the Han, Yi and Korean populations, while the Uygur group had a close relationship with the Kazakh population. The aforementioned results suggested that the Huaxia Platinum System is a polymorphic and effective tool that is appropriate for personal identification and population genetics.

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Population data of 24 STRs in Mexican-Mestizo population from Monterrey, Nuevo Leon (Northeast, Mexico) based on Powerplex® Fusion and GlobalFiler® kits

Cited by 22 publications

References 7 publications

Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese

Population Genetic Analysis of Modern and Ancient DNA Variations Yields New Insights Into the Formation, Genetic Structure, and Phylogenetic Relationship of Northern Han Chinese

Ancestral proportions based on 22 autosomal STRs of an admixed population (Mestizos) from the Península of Yucatán, México

Genetic polymorphism and phylogenetic differentiation of the Huaxia Platinum System in three Chinese minority ethnicities

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