Polymorphisms at 17 Y-STR loci in Botswana populations

Tau, Tiroyamodimo; Davison, Sean; D’Amato, María Eugenia

doi:10.1016/j.fsigen.2015.03.001

Cited by 3 publications

(3 citation statements)

References 22 publications

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“…Y-STR analysis of Southern African populations revealed regional variation between the populations of Botswana, Zimbabwe, Namibia, and South Africa (Tau et al, 2015). Whole genome sequences of Southern African populations also revealed genetic variation among the Bantu of South Africa and among Khoe-San groups.…”

Section: Population Genetic Diversity In Southern Africamentioning

confidence: 99%

Population Structure and Implications on the Genetic Architecture of HIV-1 Phenotypes Within Southern Africa

Thami

Chimusa

2019

Front. Genet.

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The interesting history of Southern Africa has put the region in the spotlight for population medical genetics. Major events including the Bantu expansion and European colonialism have imprinted unique genetic signatures within autochthonous populations of Southern Africa, this resulting in differential allele frequencies across the region. This genetic structure has potential implications on susceptibility and resistance to infectious diseases such as human immunodeficiency virus (HIV) infection. Southern Africa is the region affected worst by HIV. Here, we discuss advances made in genome-wide association studies (GWAS) of HIV-1 in the past 12 years and dissect population diversity within Southern Africa. Our findings accentuate that a plethora of factors such as migration, language and culture, admixture, and natural selection have profiled the genetics of the people of Southern Africa. Genetic structure has been observed among the Khoe-San, among Bantu speakers, and between the Khoe-San, Coloureds, and Bantu speakers. Moreover, Southern African populations have complex admixture scenarios. Few GWAS of HIV-1 have been conducted in Southern Africa, with only one of these identifying two novel variants (HCG22rs2535307 and CCNG1kgp22385164) significantly associated with HIV-1 acquisition and progression. High genetic diversity, multi-wave genetic mixture and low linkage disequilibrium of Southern African populations constitute a challenge in identifying genetic variants with modest risk or protective effect against HIV-1. We therefore posit that it is compelling to assess genome-wide contribution of ancestry to HIV-1 infection. We further suggest robust methods that can pin-point population-specific variants that may contribute to the control of HIV-1 in Southern Africa.

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Section: Population Genetic Diversity In Southern Africamentioning

confidence: 99%

Population Structure and Implications on the Genetic Architecture of HIV-1 Phenotypes Within Southern Africa

Thami

Chimusa

2019

Front. Genet.

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“…The capacity of Egypt DNA database was reported to contain 1046 reference DNA pro iles from individuals, 869 crime scene DNA pro iles, 20 missing person DNA pro iles plus 1815 unidenti ied human remains DNA pro iles FDNAPI 2018, and Botswana's DNA database was reported to contain 3500 reference DNA pro iles from individuals and 300 crime scene DNA pro iles [9]. Additionally, a study conducted in Egypt by El-Alfy and El-Hafez (2012) revealed that ifteen STR loci are used for identi ication and paternity testing [13], similarly, ifteen STR loci are been used for identi ication and paternity in Botswana as well [14,15]. It is rather ill-starred that Nigeria does not currently hold a National Forensic Database, and the state of privation of forensic skills and equipment, negatively impacts the forensic investigation capacity of the police and other security out its in Nigeria [16].…”

Section: Discussionmentioning

confidence: 99%

Awareness level on the role of forensic DNA database in criminal investigation in Nigeria: A case study of Benin city

Udogadi¹,

Chinyere²

2020

J Forensic Sci Res

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Pieces of evidence have continued to emerge, demonstrating the extensive efficiency and effectiveness of the DNA database in assisting criminal investigations around the world. Therefore, the present study aimed to determine the awareness level on the prominent role of Forensic DNA Database on Crime Investigation in Nigeria: a case study of Benin City. In conducting this research, a total of 458 questionnaires were distributed around Benin City between the periods of 12th January 2020 to 21st March 2020, with a particular focus on security agents and students. The questionnaire comprised of three main categories: Socio-demographic characteristics, Information about the National Forensic DNA Database, and Information about DNA evidence, and Nigeria Criminal Justice system. For the analysis of data collected; the statistical tool used was also Statistical Package for Social Sciences, version 22 for windows. Responses were compared using chi-square and presented as counts and percentages. In determining the level of awareness, the following responses were obtained. Of the total population: 53.28% had no idea about forensics, 19.21% were uncertain and 27.54% knew about forensics. The same trend was observed with Forensic DNA profiling, 42.14% did not know, 22.27% were uncertain and 35.59% demonstrated good knowledge of Forensic DNA profiling. On the knowledge about the National Forensic DNA Database, 48.47% had no knowledge, 22.27% were uncertain and 29.26% were knowledgeable about it. The result of the present study revealed that the awareness level of the forensic DNA Database was found to be inadequate.

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“…Forensic markers have been poorly investigated in Botswana 26, 27 . Results from these few studies indicate high levels of polymorphism detected with the forensic kit AmpFLSTR Profiler Plus PCR Amplification Kit (Applied Biosystems)26 (commercial forensic kit preceding AmpFlSTR Identifiler PCR Amplification Kit) and AmpFLSTR Yfiler PCR Amplification Kit Y-STR markers 27 indicating their potential for forensic and bio-anthropological studies.…”

Section: Introductionmentioning

confidence: 99%

Genetic variation and population structure of Botswana populations as identified with AmpFLSTR Identifiler short tandem repeat (STR) loci

Tau

Wally²,

Fanie³

et al. 2017

Sci Rep

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Population structure was investigated in 990 Botswana individuals according to ethno-linguistics, Bantu and Khoisan, and geography (the nine administrative districts) using the Identifiler autosomal microsatellite markers. Genetic diversity and forensic parameters were calculated for the overall population, and according to ethno-linguistics and geography. The overall combined power of exclusion (CPE) was 0.9999965412 and the combined match probability 6,28 × 10−19. CPE was highest for the Khoisan Tuu ethnolinguistic group and the Northeast District at 0.9999582029 and 0.9999922652 respectively. CMP ranged from 6.28 × 10−19 (Khoisan Tuu) to 1,02 × 10−18 (Northwest district). Using pairwise genetic distances (FST), analysis of molecular variance (AMOVA), factorial correspondence analysis (FCA), and the unsupervised Bayesian clustering method found in STRUCTURE and TESS, ethno-linguistics were found to have a greater influence on population structure than geography. FCA showed clustering between Bantu and Khoisan, and within the Bantu. This Bantu sub-structuring was not seen with STRUCTURE and TESS, which detected clustering only between Bantu and Khoisan. The patterns of population structure revealed highlight the need for regional reference databases that include ethno-linguistic and geographic location information. These markers have important potential for bio-anthropological studies as well as for forensic applications.

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Polymorphisms at 17 Y-STR loci in Botswana populations

Cited by 3 publications

References 22 publications

Population Structure and Implications on the Genetic Architecture of HIV-1 Phenotypes Within Southern Africa

Population Structure and Implications on the Genetic Architecture of HIV-1 Phenotypes Within Southern Africa

Awareness level on the role of forensic DNA database in criminal investigation in Nigeria: A case study of Benin city

Genetic variation and population structure of Botswana populations as identified with AmpFLSTR Identifiler short tandem repeat (STR) loci

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