Population genetics of 30 insertion–deletion polymorphisms in two Chinese populations using Qiagen Investigator® DIPplex kit

Wang, Zheng; Zhang, Suhua; Zhao, Song; Hu, Zhen; Sun, Kuan; Li, Chengtao

doi:10.1016/j.fsigen.2014.03.017

Cited by 52 publications

(40 citation statements)

References 17 publications

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“…D A distances between the 16 groups with each other based on allelic frequencies of the 30 InDel loci were shown in Table 2. Short genetic distances were found between the Tujia group and Shanghai Han17, Guangdong Han18, South Korean23, Beijing Han9, Xibe10, She17, Tibetan9, and Yi16 groups; and further distances were observed between the Tujia group and Chinese Kazak9, Uigur9 groups; whereas the larger distances were estimated with Uruguayan24, Dane25, Central Spanish26, Basque26, and Hungarian populations27. Pairwise populations had small genetic distances, which indicated that they had close genetic relationships or shared a recent common ancestor.…”

Section: Resultsmentioning

confidence: 96%

“…In recent years, a novel genetic marker: insertion and deletion polymorphisms (InDels) dispersing through the human genome showed some advantages, such as short amplicon size, low mutation rate, and practicability of being genotyped in the present forensic DNA lab platforms678, which were useful for forensic DNA applications (Supplementary method for STR applications), population genetics9101112, and biogeographic ancestry analysis131415. Population genetic and forensic validation studies have been performed using the Qiagen Investigator DIPplex ® reagent including 30 autosomal InDel loci plus amelogenin locus, and population data of Chinese Han, Tibetan, Uigur, Kazak, She, Xibe and Yi populations have been reported in previous studies910161718. In the present study, we firstly reported the population genetic data of 30 InDels in Chinese Tujia ethnic group, evaluated their usefulness in the field of forensic sciences, analyzed the interpopulation differentiations, and retraced the genetic background of the Tujia group by the population structure construction, principal component analysis, phylogenetic tree and some other analyses.…”

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confidence: 99%

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A 30-InDel Assay for Genetic Variation and Population Structure Analysis of Chinese Tujia Group

Shen

Zhu

Yao

et al. 2016

Sci Rep

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In the present study, thirty autosomal insertion and deletion polymorphic loci were simultaneously amplified and genotyped in a multiplex system, and their allelic frequencies as well as several forensic parameters were obtained in a sample of 236 unrelated healthy Tujia individuals. All the loci were in Hardy-Weinberg equilibrium after applying a Bonferroni correction and all pair-wise loci showed no significant linkage disequilibrium. These loci were observed to be relatively informative and discriminating, quite efficient for forensic applications. Allelic frequencies of 30 loci were compared between the Tujia group and other reference populations, and the results of analysis of molecular variance indicated the Tujia group showed the least significant differences with the Shanghai Han at one locus, and the most with Central Spanish population at 22 loci. We analyzed the population genetic structure by the principal component analysis, the clustering of STRUCTURE program and a Neighbor-Joining tree, and then evaluated the genetic relationships among Tujia and other 15 populations.

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Section: Resultsmentioning

confidence: 96%

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confidence: 99%

A 30-InDel Assay for Genetic Variation and Population Structure Analysis of Chinese Tujia Group

Shen

Zhu

Yao

et al. 2016

Sci Rep

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show abstract

“…The result was shown in Table . The smaller distances were observed with six East Asian groups including South Korean , Tibetan , Guangdong Han , Shanghai Han , Beijing Han , and She , while the larger distances were observed with five European groups including Dane , Basque, Central Spanish , Uruguayan , and Hungarian . Moreover, the D A distances were used to construct the phylogenetic tree using neighbor‐joining method (shown in Fig.…”

Section: Resultsmentioning

confidence: 99%

Forensic evaluation and population genetic study of 30 insertion/deletion polymorphisms in a Chinese Yi group

et al. 2015

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Insertion/deletion polymorphisms have become a research hot spot in forensic science due to their tremendous potential in recent years. In the present study, we investigated 30 indel loci in a Chinese Yi ethnic group. The allele frequencies of the short allele of the 30 indel loci were in the range of 0.1025-0.9221. The power of discrimination values were observed ranging from to 0.2630 (HLD111 locus) to 0.6607 (HLD70 locus) and probability of exclusion values ranged from 0.0189 (HLD111 locus) to 0.2343 (HLD56 locus). The combined power of discrimination and power of exclusion for 30 loci in the studied Yi group were 0.99999999995713 and 0.97746, respectively, which showed tremendous potential for forensic personal identification in the Yi group. Moreover, the DA distances, phylogenetic tree, principal component analysis, and cluster analysis showed the Yi group had close genetic relationships with the Tibetan, South Korean, Chinese Han, and She groups.

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“…Guangdong Han [11], Shanghai Han [12], Yi [13], Xibe [14], South Korean [15], She [16], Beijing Han, Tibetan, Kazak, Uyghur [17], Dane [18], Hungarian [19], Basque, Central Spanish [20], Uruguayan [21], Uyghur1, Zhuang, Dong, Miao, Chengdu Han, Tibetan1 [22], Henan Han, Beijing Han1, Uyghur2, Tibetan2 [23], the population structure of Bai ethnic group was performed by the structure program. In the determination of K value (Supplementary Figure 1), the results of L( K ) showed that K =3, 4 depicted a plateau obviously.…”

Section: Resultsmentioning

confidence: 99%

Genetic variation and forensic efficiency of autosomal insertion/deletion polymorphisms in Chinese Bai ethnic group: phylogenetic analysis to other populations

et al. 2017

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Thirty insertion/deletion loci were utilized to study the genetic diversities of 125 bloodstain samples collected from Bai group in Yunnan Dali region, China. The observed heterozygosity and expected heterozygosity of the 30 loci ranged from 0.1520 to 0.5680, and 0.1927 to 0.4997, respectively. No deviations from Hardy-Weinberg equilibrium tests after Bonferroni correction were found at all 30 loci in Bai group. The cumulative probability of exclusion and combined discrimination power were 0.9859 and 0.9999999999887, respectively, which indicated the 30 loci could be used as complementary genetic markers for paternity testing and were qualified for personal identification in forensic cases. We found the studied Bai group had close relationships with Tibetan, Yi and Han groups from China by the population structure, principal component analysis, population differentiations, and phylogenetic reconstruction studies. Even so, for a better understanding of Bai ethnicity's genetic milieu, DNA genotyping at various genetic markers is necessary in future studies.

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Population genetics of 30 insertion–deletion polymorphisms in two Chinese populations using Qiagen Investigator® DIPplex kit

Cited by 52 publications

References 17 publications

A 30-InDel Assay for Genetic Variation and Population Structure Analysis of Chinese Tujia Group

A 30-InDel Assay for Genetic Variation and Population Structure Analysis of Chinese Tujia Group

Forensic evaluation and population genetic study of 30 insertion/deletion polymorphisms in a Chinese Yi group

Genetic variation and forensic efficiency of autosomal insertion/deletion polymorphisms in Chinese Bai ethnic group: phylogenetic analysis to other populations

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