Population data on 15 autosomal STRs in a sample from Colombia

Sánchez-Diz, Paula; Acosta, María Amparo; Fonseca, Dora; Fernández, María Cecilia; Gómez, Yenny; Jay, Manuela; Alape, Joseph; Lareu, Marı́a Victoria; Carracedo, Ángel; Restrepo, Carlos Martín

doi:10.1016/j.fsigen.2008.08.002

Cited by 12 publications

(6 citation statements)

References 30 publications

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“…DNA regions with repeat units of 2-6 bps in length are called short tandem repeats (STRs), also identified as microsatellites. STR markers are present throughout the human genome and usually have stable polymorphisms, short sequence lengths, and a dense, uniform chromosomal distribution, which makes their detection and analysis smooth using PCR and sequencing (Hammond et al, 1994;Sánchez-Diz et al, 2009). In forensic investigations such as paternity cases, rape cases, kinship analysis, and missing person analysis; STRs are considered as markers of choice because of their high polymorphism (Adnan et al, 2017;2018c).…”

Section: Introductionmentioning

confidence: 99%

RETRACTED: The Heart of Silk Road “Xinjiang,” Its Genetic Portray, and Forensic Parameters Inferred From Autosomal STRs

et al. 2021

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The Xinjiang Uyghur Autonomous Region of China (XUARC) harbors almost 50 ethnic groups including the Uyghur (UGR: 45.84%), Han (HAN: 40.48%), Kazakh (KZK: 6.50%), Hui (HUI: 4.51%), Kyrgyz (KGZ: 0.86%), Mongol (MGL: 0.81%), Manchu (MCH: 0.11%), and Uzbek (UZK: 0.066%), which make it one of the most colorful regions with abundant cultural and genetic diversities. In our previous study, we established allelic frequency databases for 14 autosomal short tandem repeats (STRs) for four minority populations from XUARC (MCH, KGZ, MGL, and UZK) using the AmpFlSTR® Identifiler PCR Amplification Kit. In this study, we genotyped 2,121 samples using the GoldenEye™ 20A Kit (Beijing PeopleSpot Inc., Beijing, China) amplifying 19 autosomal STR loci for four major ethnic groups (UGR, HAN, KZK, and HUI). These groups make up 97.33% of the total XUARC population. The total number of alleles for all the 19 STRs in these populations ranged from 232 (HAN) to 224 (KZK). We did not observe any departures from the Hardy–Weinberg equilibrium (HWE) in these populations after sequential Bonferroni correction. We did find minimal departure from linkage equilibrium (LE) for a small number of pairwise combinations of loci. The match probabilities for the different populations ranged from 1 in 1.66 × 1023 (HAN) to 6.05 × 1024 (HUI), the combined power of exclusion ranged from 0.999 999 988 (HUI) to 0.999 999 993 (UGR), and the combined power of discrimination ranged from 0.999 999 999 999 999 999 999 983 (HAN) to 0.999 999 999 999 999 999 999 997 (UGR). Genetic distances, principal component analysis (PCA), STRUCTURE analysis, and the phylogenetic tree showed that genetic affinity among studied populations is consistent with linguistic, ethnic, and geographical classifications.

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Section: Introductionmentioning

confidence: 99%

RETRACTED: The Heart of Silk Road “Xinjiang,” Its Genetic Portray, and Forensic Parameters Inferred From Autosomal STRs

et al. 2021

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“…Short tandem repeat (STR) loci, also referred to as microsatellites or simple sequence repeats (SSRs), are DNA sequences that contain a repeat motif of 2–6 bp and are characterized by a high level of relatively stable polymorphisms, a dense, uniform chromosomal distribution as well as short sequence lengths, which facilitates detection and analysis by PCR and sequencing 6 , 7 . All these features render STRs as powerful genetic markers for inter-population studies 8 and for the reconstruction of recent human evolutionary history 9 .…”

Section: Introductionmentioning

confidence: 99%

RETRACTED ARTICLE: Forensic characterization of 15 autosomal STRs in four populations from Xinjiang, China, and genetic relationships with neighboring populations

Zhan

Adnan

Yu-zhang

et al. 2018

Sci Rep

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The Xinjiang Uyghur Autonomous Region of China (XUARC) harbors 47 ethnic groups including the Manchu (MCH: 0.11%), Mongols (MGL: 0.81%), Kyrgyz (KGZ: 0.86%) and Uzbek (UZK: 0.066%). To establish DNA databases for these populations, allele frequency distributions for 15 autosomal short tandem repeat (STR) loci were determined using the AmpFlSTR Identifiler PCR amplification kit. There was no evidence of departures from Hardy–Weinberg equilibrium (HWE) in any of the four populations and minimal departure from linkage equilibrium (LE) for a very small number of pairwise combinations of loci. The probabilities of identity for the different populations ranged from 1 in 1.51 × 1017 (MCH) to 1 in 9.94 × 1018 (MGL), the combined powers of discrimination ranged from 0.99999999999999999824 (UZK) to 0.9999999999999999848 (MCH) and the combined probabilities of paternal exclusion ranged from 0.9999979323 (UZK) to 0.9999994839 (MCH). Genetic distances, a phylogenetic tree and principal component analysis (PCA) revealed that the MCH, KGZ and UZK are genetically closer to the Han population of Liaoning and the Mongol population of Mongolia while the MGL are closer to Han, Japanese, Korean, Malaysian, Hong Kong Han and Russians living in China.

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“…The genetic diversity of the Tukanoan populations (0.62 to 0.63) stands within the range reported for other Amerindian South American populations 16 (0.554-0.753), which is lower than the african descendant or mestizo Colombian populations 15,20 . These low diversity values compared to those of European and African human groups have been extensively reported 21 for other autosomal markers, Y chromosome, and mitochondrial DNA.…”

Section: Discussionsupporting

confidence: 78%

“…The FGA exhibited a deviation from the Hardy-Weinberg equilibrium in the Vaupés Tukanoans and Guaviare Guyaberos while systems D13S317, vWA, F13B, showed a significant deviation from HW equilibrium in Guaviare Tukanoans. Private alleles (relative to the three groups) were obser ved in the Vaupés Tukanoans at loci THO1 (allele 8), D13S317 (15), FGA (20), TPOX (9) and in the Guaviare Guayaberos at loci TPOX (7), F13B (6), FES/ FPS (8). All these alleles have been previously reported for Genetic diversity.…”

Section: Resultsmentioning

confidence: 97%

Diversity and genetic structure analysis of three Amazonian Amerindian populations from Colombia

2012

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Introduction: In the departments of the Vaupés and Guaviare, in southeastern Colombia, in a transitional area between Amazonia and the eastern plains, inhabit indigenous groups belonging to the Tukanoan (East) and Guahiban linguistic families. Although some studies have dealt with the culture and the cosmology description of these groups, little research has been done on the biological diversity and genetic relationships of such groups. Objective: To estimate the diversity, the structure, and the genetic relationships of one Guahiban and two Tukanoan groups of the Colombian Amazonian region. Methods: Samples were collected (n = 106) from unrelated individuals belonging to the Vaupés native indigenous communities. The DNA was extracted and nine autosomal microsatellites were typed. Several measures of diversity, FST, pairwise FST, and population differentiation between groups were calculated. Finally, it was estimated the genetic distances of the groups studied in relation with other Amazonian, Andean and Central American indigenous people. Results: 1. The genetic diversity found stands within the range of other Amazonian populations, whereas compared to the mestizo and afro-descendant Colombian populations, such diversity showed to be lower. 2. The structure and population differentiation tests showed two clusters; one consisting of the Vaupés Tukanoan and Guaviare Tukanoan groups, and a second one formed by the Guayabero. 3. Tukanoan groups are found to be closer related to the Brazilian Amazonian populations than to the Guayabero. Conclusion: The results of this study suggest that the Guayabero group from Guaviare, are genetically differentiated from those Tukanoan groups of the Vaupés and Guaviare

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Population data on 15 autosomal STRs in a sample from Colombia

Cited by 12 publications

References 30 publications

RETRACTED: The Heart of Silk Road “Xinjiang,” Its Genetic Portray, and Forensic Parameters Inferred From Autosomal STRs

RETRACTED: The Heart of Silk Road “Xinjiang,” Its Genetic Portray, and Forensic Parameters Inferred From Autosomal STRs

RETRACTED ARTICLE: Forensic characterization of 15 autosomal STRs in four populations from Xinjiang, China, and genetic relationships with neighboring populations

Diversity and genetic structure analysis of three Amazonian Amerindian populations from Colombia

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