Comparative allele distribution at 16 STR loci between the Andean and coastal population from Peru

Talledo, Michael; Gavilan, Martín; Choque, Cecilia; Aiquipa, Lina; Arévalo, Jorge; Montoya, Ysabel

doi:10.1016/j.fsigen.2009.09.003

Cited by 4 publications

(4 citation statements)

References 7 publications

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“…In the present study, the main contributor to individual clustering provided by DAPC was the TH01-7 allele ( Fig 3B ). High frequencies of this allele, similar to those here observed, were already described in the Andean and coastal population from Peru (43% - 51%) and Native Amazon people from Ecuador (40%) [ 3 , 43 ]. In Afro-Caribbean people and in African ancestry Colombians this allele showed a 40% frequency [ 51 – 54 ], while in all other South American populations (Brazil, Argentina and Chile) it ranged between 24% and 26%, consistent with European-Native American admixture [ 55 – 59 ].…”

Section: Discussionsupporting

confidence: 88%

“…The slightly reduced heterozygosity (slightly positive not significant Fis values) showed by urban Peruvians, may be due to a low level of endogamy in these populations. Inbreeding of urban people in Peru was also confirmed [ 43 ] by positive Fis values based on different STR loci of urban populations: Chiclayo, Lima, Piura and Huancayo showed Fis positive values (0.012, 0.010, 0.007 and 0.015, respectively). Similar trends were described for the STR gene pools of Peruvians and other admixed South American populations also in [ 6 ].…”

Section: Discussionmentioning

confidence: 82%

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Signs of continental ancestry in urban populations of Peru through autosomal STR loci and mitochondrial DNA typing

et al. 2018

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The human genetic diversity around the world was studied through several high variable genetic markers. In South America the demic consequences of admixture events between Native people, European colonists and African slaves have been displayed by uniparental markers variability. The mitochondrial DNA (mtDNA) has been the most widely used genetic marker for studying American mixed populations, although nuclear markers, such as microsatellite loci (STRs) commonly used in forensic science, showed to be genetically and geographically structured. In this work, we analyzed DNA from buccal swab samples of 296 individuals across Peru: 156 Native Amazons (Ashaninka, Cashibo and Shipibo from Ucayali, Huambiza from Loreto and Moche from Lambayeque) and 140 urban Peruvians from Lima and other 33 urban areas. The aim was to evaluate, through STRs and mtDNA variability, recent migrations in urban Peruvian populations and to gain more information about their continental ancestry. STR data highlighted that most individuals (67%) of the urban Peruvian sample have a strong similarity to the Amazon Native population, whereas 22% have similarity to African populations and only ~1% to European populations. Also the maternally-transmitted mtDNA confirmed the strong Native contribution (~90% of Native American haplogroups) and the lower frequencies of African (~6%) and European (~3%) haplogroups. This study provides a detailed description of the urban Peruvian genetic structure and proposes forensic STRs as a useful tool for studying recent migrations, especially when coupled with mtDNA.

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Section: Discussionsupporting

confidence: 88%

Section: Discussionmentioning

confidence: 82%

Signs of continental ancestry in urban populations of Peru through autosomal STR loci and mitochondrial DNA typing

et al. 2018

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“…Output FASTQ files from the ForenSeq™ Universal Analysis Software (UAS) pipeline were processed with STRait Razor v2s [28] to obtain the length-and sequence-based genotypes for all samples. Additionally, 16 reference sets from Peru (≤ 16 STRs, altogether 1813 samples) [19,21] were included in downstream analyses. Also, for the calculation of genetic distances (F ST ) with a more complete set of markers (aSTRs and iiSNPs), five additional populations were included [10,11,29].…”

Section: Discussionmentioning

confidence: 99%

“…In addition to these, forensic genetic parameters were also calculated for the combined set from the Northeastern Peruvian Andes. To gain a better insight of the possible genetic subdivision in Peru, we characterize the genetic differentiation between our rural Northeastern Peruvian Andes set and that of the admixed cosmopolitan populations described in [19,21].…”

Section: Introductionmentioning

confidence: 99%

Autosomal STR and SNP characterization of populations from the Northeastern Peruvian Andes with the ForenSeq™ DNA Signature Prep Kit

Guevara

Palo

King

et al. 2021

Forensic Science International: Genetics

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Autosomal DNA data from Peru for human identity testing purposes are scarce in the scientific literature, which hinders obtaining an appropriate portrait of the genetic variation of the resident populations. In this study we genetically characterize five populations from the Northeastern Peruvian Andes (Chachapoyas, Awajún, Wampís, Huancas and Cajamarca). Autosomal short tandem repeat (aSTR) and identity informative single nucleotide polymorphism (iiSNP) data from a total of 233 unrelated individuals are provided, and forensic genetic parameters are calculated for each population and for the combined set Northeastern Peruvian Andes. After correction for multiple testing in the whole dataset of the Northeastern Peruvian Andes, the only departure from Hardy-Weinberg equilibrium was observed in locus rs2111980. Twenty one out of 27 aSTR loci exhibited an increased number of alleles due to sequence variation in the repeat motif and flanking regions. For iiSNPs 33% of the loci displayed flanking region variation. The combined random match probability (RMP), assuming independence of all loci (aSTRs and iiSNPs), in the Chachapoyas, the population with the largest samples size (N = 172), was 8.14 × 10 -62 for length-based data while for sequence-based was 4.15 × 10 -67 . In the merged dataset (Northeastern Peruvian Andes; N = 233), the combined RMP when including all markers were 2.96 × 10 -61 (length-based) and 3.21 × 10 -66 (sequence-based). These new data help to fill up some of the gaps in the genetic canvas of South America and provide essential length-and sequence-based background information for other forensic genetic studies in Peru.

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STR Population Data Analysis

Butler

2015

Advanced Topics in Forensic DNA Typing: Interpretation

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Comparative allele distribution at 16 STR loci between the Andean and coastal population from Peru

Cited by 4 publications

References 7 publications

Signs of continental ancestry in urban populations of Peru through autosomal STR loci and mitochondrial DNA typing

Signs of continental ancestry in urban populations of Peru through autosomal STR loci and mitochondrial DNA typing

Autosomal STR and SNP characterization of populations from the Northeastern Peruvian Andes with the ForenSeq™ DNA Signature Prep Kit

STR Population Data Analysis

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