Population data on 11 Y-chromosome STRs from Guiné-Bissau

doi:10.1016/j.forsciint.2005.04.005

Forensic Science International

Volume 157, Issues 2–3, 10 March 2006, Pages 210-217

https://doi.org/10.1016/j.forsciint.2005.04.005 Get rights and content

Abstract

The forensic value of Y-STR markers in Guiné-Bissau was accessed by typing of 215 males. Allele and haplotype frequencies, determined for loci DYS19, DYS389-I, DYS389-II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439 and the duplicated locus DYS385, are within the limits of variation found in other populations south of the Sahara. The level of discrimination achieved is Guineans is higher than for European or other African populations with comparable data. The haplotype diversity of 0.9995 is reduced to 0.9981 when the minimal haplotype is considered thus revealing the importance of increasing the number of typed loci.

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Acknowledgments

The authors are grateful for permissions to collect blood samples by the Ministry of Health of the Republic of Guiné-Bissau. AMI-Assistencia Medica Internacional gave local support. This work has been possible thanks to the technical help of Siiri Rootsi and Juri Parik from the Department of Evolutionary Biology, EBC, Estonia and Ana Teresa Fernandes and Rita Goncalves from the Human Genetics Laboratory, University of Madeira. AR is beneficiary of the fellowship grant SFRH/BD/12173/2003 from

References (31)

M.V. Lareu et al.
Investigation of the STR locus HUMTH01 using PCR and two electrophoresis formats: UK and Galician Caucasian population surveys and usefulness in paternity investigations
Forensic Sci. Int.
(1994)
P.M. Schneider et al.
Tandem repeat structure of the duplicated Y-chromosomal STR locus DYS385 and frequency studies in the German and three Asian populations
Forensic Sci. Int.
(1998)
P. Gill et al.
DNA Commission of the International Society of Forensic Genetics: recommendations on forensic analysis using Y-chromosome STRs
Forensic Sci. Int.
(2001)
L. Roewer et al.
A new method for the evaluation of matches in non-recombining genomes: application to Y-chromosomal short tandem repeat (STR) haplotypes in European males
Forensic Sci. Int.
(2000)
M. Kayser et al.
An extensive analysis of Y-chromosomal microsatellite haplotypes in globally dispersed human populations
Am. J. Hum. Genet.
(2001)
N. Leat et al.
Nine-locus Y-chromosome STR profiling of Caucasian and Xhosa populations from Cape Town, South Africa
Forensic Sci. Int.
(2004)
L. Roewer et al.
Online reference database of European Y-chromosomal short tandem repeat (STR) haplotypes
Forensic Sci. Int.
(2001)
B. Quintans et al.
Population data of Galicia (NW Spain) on the new Y-STRs DYS437, DYS438, DYS439, GATA A10, GATA A7.1, GATA A7.2, GATA C4 and GATA H4
Forensic Sci. Int.
(2003)
E. Bosch et al.
High resolution Y-chromosome typing: 19 STRs amplified in three multiplex reactions
Forensic Sci. Int.
(2002)
L. Quintana-Murci et al.
Y-chromosomal STR haplotypes in Berber and Arabic-speaking populations from Morocco
Forensic Sci. Int.
(2004)

B. Arredi et al.

A Predominantly Neolithic Origin for Y-Chromosomal DNA Variation in North Africa

Am. J. Hum. Genet.

(2004)

E. Arroyo-Pardo et al.

Genetic variability of 16 Y-chromosome STRs in a sample from Equatorial Guinea (Central Africa)

Forensic Sci. Int.

(2005)

C. Alves et al.

Evaluating the informative power of Y-STRs: a comparative study using European and new African haplotype data

Forensic Sci. Int.

(2003)

M. Kayser et al.

Applications of microsatellite-based Y-chromosome haplotyping

Electrophoresis

(1997)

Q. Ayub et al.

Identification and characterisation of novel human Y-chromosomal microsatellites from sequence database information

Nucleic Acids Res.

(2000)

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Genetic characterization of Guinea-Bissau using a 12 X-chromosomal STR system: Inferences from a multiethnic population
2017, Forensic Science International: Genetics
Citation Excerpt :
We therefore aimed to present the results obtained for 12 X-STRs for a male population sample from Guinea-Bissau. The genetic variation of X-STRs complements previous studies done on the same population group using other markers namely HLAs, mtDNA, Y-Chromosome SNPs and STRs, and autosomal STRs [15–19]. Moreover the typing of specific sub-Saharan populations such as the Guinean-Bissau presented here has an obvious forensic interest in other Western countries, such as Portugal, where a significant immigration population exists representing 4% of the total population [20,21] and for which ethnic specific databases can be extremely valuable.
A male West African sample from Guinea-Bissau (West-African coast) was genetically analyzed using 12 X chromosomal short tandem repeats that are grouped into four haplotype groups. Linkage disequilibrium was tested (p ≤ 0.0008) and association was detected for the majority of markers in three out of the four studied haplotype clusters. The sample of 332 unrelated individuals analyzed in this study belonged to several recognized ethnic groups (n = 18) which were used to evaluate the genetic variation of Guinea-Bissau’s population. Pairwise genetic distances (F_ST) did not reveal significant differences among the majority of groups. An additional 110 samples from other countries also belonging to West Africa were as well compared with the sample of Guinea-Bissau. No significant differences were found between these two groups of West African individuals, supporting the genetic homogeneity of this region on the X chromosome level. The generation of over 100 DNA West African sequences provided new insights into the repeat sequence structure of some of the present X-STRs. Parameters for forensic evaluation were also calculated for each X-STR, supporting the potential application of these markers in typical kinship scenarios. Also, the high power of discrimination values for samples of female and male origin observed in this study, confirms the usefulness of the present X-STRs in identification analysis.
Y-chromosome and surname analysis of the native islanders of San Andrés and Providencia (Colombia)
2013, HOMO- Journal of Comparative Human Biology
The Archipelago of San Andrés and Providencia is a Colombian Department in the western waters of the Caribbean Sea. Most of its inhabitants belong to the African-Colombian group known as raizal. This group has unique cultural traits that are derived from centuries of admixture of the primarily African slaves and European colonists. Currently, not much is known about the genetic profile of this population. Therefore, this study aimed to determine the Y-chromosome STR genetic structure and relationship to previously published reference populations. A total of 54 natives from the islands were selected based on the genealogical criterion of having three generations of ancestors born in the Archipelago. Seventeen Y-STRs were analyzed, supplemented by information on the first surname inherited. The genetic substructure hypothesis in the studied islands was tested, and no significant differences were found (p > 0.05). Y-chromosome haplogroups were predicted, and E1b1a and R1b were the most commonly found haplogroups. They account for more than 80% of the sample. The E1b1a and R1ba haplogroups are common in the African and European populations, respectively. For comparative genetic analysis, genetic distances were calculated with respect to populations from the Caribbean, Colombia, Europe and Africa. We found greater similarity between the African and Caribbean populations. The surname analysis demonstrated that most of the time, the “raizales” with the same surname also shared the same Y-STR haplotype. This suggests that some kinship relationship exists between participants with the same surname, which was confirmed by the haplotype diversity levels found in the studied islands.
Y-STR haplotypes in three ethnic linguistic groups of Angola population
2011, Forensic Science International: Genetics
A total of 166 males from three main ethnic linguistic groups (Bakongo, Kimbundo and Ovimbundo) in Angola population were typed for the Y-chromosome STRs DYS19, DYS389-I, DYS389-II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439 and DYS385 with the PowerPlex Y Kit (Promega). In Angola population a total of 138 haplotypes were identified being 120 unique. The genetic diversity ranged from 0.1478 (DYS392) to 0.7010 (DYS389 II) and the haplotypes diversity for 11 loci was computed to be 0.9969. There are no significant differences between the three ethnic linguistic groups.
Nilotes from Karamoja, Uganda: Haplotype data defined by 17 Y-chromosome STRs
2010, Forensic Science International: Genetics
In this work 118 Nilote male samples were genotyped from Karamoja region, in Northeast Uganda, through 17 Y-chromosomal short tandem repeats (STRs)—DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS385, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635 and GATA H4.1. A total of 94 different haplotypes were found, where 19 were shared by at least two individuals, and haplotype diversity amounted to 0.9958 ± 0.0017. When considering only the nine Y-STRs included in the minimal haplotype (YHRD) the haplotype diversity decreased to 0.9807 ± 0.0048, a similar value to those found in other African populations such as Mozambique, Angola and Guinea-Bissau. Population comparisons were performed between our sample and nine other African populations. Significant R_st genetic distances were obtained between the Nilote population from Karamoja and all African populations used for comparison, except Xhosa sample from South Africa. In the multidimensional scaling (MDS) plot, the Karamoja sample is well separated from all other populations, standing between the Ethiopia and the Bantu samples, although closer to this last group.
Allele frequencies and haplotypes for 28 Y-STRs in Ovambo population
2009, Legal Medicine
Y-chromosomal 28 short tandem repeat (STR) loci were investigated in unrelated healthy individuals of the Ovambo population from Namibia (n = 54). Sixteen Y-chromosome short tandem repeat (Y-STR) polymorphic loci (DYS456, DYS389I, DYS390, DYS389II, DYS458, DYS19, DYS385, DYS393, DYS391, DYS439, DYS635, DYS392, GATAH4, DYS437, DYS438, and DYS448) were analyzed using AmpFISTR Yfiler Polymerase Chain Reaction (PCR) Amplification Kit. DYS441–445 and DYS446, DYS447, DYS449, DYS450, DYS459a/b, DYS463 and DYS464a/b/c/d were investigated using a multiplex PCR system. Fifty-one haplotypes were identified in 54 Ovambos. The STR diversity values for Y-STRs loci ranged from 0.036 (DYS392) to 0.900 (DYS 385).
Data for Y-chromosome haplotypes in Fang and Bubi populations from Bioko (Equatorial Guinea)
2007, Forensic Science International
Haplotype frequencies for 16 Y-chromosomal short tandem repeat (DYS456, DYS389I, DYS390, DYS389II, DYS458, DYS19, DYS385a/b, DYS393, DYS391, DYS439, DYS635, DYS392, Y GATA H4, DYS437, DYS438 and DYS448) loci, included in the AmpFLSTR^® YfilerTM PCR Amplification Kit, were analysed in 110 Fang and 133 Bubi individuals from Bioko Island, Equatorial Guinea. The diversity was higher in Fang population, probably since they were originally from the mainland, with which they maintain tribal village and family links, and to which they travel frequently.
Comparisons were made with previously published haplotype data on European and African populations, and significant differences were found between them.

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Announcement of Population DataPopulation data on 11 Y-chromosome STRs from Guiné-Bissau

Abstract

Section snippets

Acknowledgments

Forensic Sci. Int.

Forensic Sci. Int.

Forensic Sci. Int.

Forensic Sci. Int.

Am. J. Hum. Genet.

Forensic Sci. Int.

Forensic Sci. Int.

Forensic Sci. Int.

Forensic Sci. Int.

Forensic Sci. Int.

Am. J. Hum. Genet.

Forensic Sci. Int.

Forensic Sci. Int.

Applications of microsatellite-based Y-chromosome haplotyping

Electrophoresis

Identification and characterisation of novel human Y-chromosomal microsatellites from sequence database information

Nucleic Acids Res.

Announcement of Population Data
Population data on 11 Y-chromosome STRs from Guiné-Bissau