1
|
Linkowska K, Malyarchuk BA, Derenko MV, Grzybowski T. An association between copy number variation of enhancer involved in craniofacial development and biogeographic ancestry. ARCHIVES OF FORENSIC MEDICINE AND CRIMINOLOGY 2022. [DOI: 10.4467/16891716amsik.22.008.16806] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Human facial morphology is a combination of many complex traits and is determined by a large number of genes and enhancers. Here, we report a Copy Number Variation (CNV) study of enhancer hs1431 in populations of Central European and South Siberian ancestry. Central European samples included 97 Poles, while South Siberian samples included 78 Buryats and 27 Tuvinians. CNVs were detected by real-time PCR, using ViiA™ 7 Real-Time PCR System (Applied Biosystems). We revealed significant differences in CNV of hs1431 enhancer between Polish and Buryat population (p=0.0378), but not between Central European and South Siberian population (p=0.1225). Our results suggest that an increase in copy number variation of hs1431 enhancer is associated with biogeographic ancestry. However, this result needs extending and replicating in larger cohorts. This is the first study revealing the presence of copy number variation of enhancer hs1431 in humans.
Collapse
Affiliation(s)
- Katarzyna Linkowska
- Department of Forensic Medicine, Division of Molecular & Forensic Genetics, Faculty of Medicine, Collegium Medicum in Bydgoszcz, Nicolaus Copernicus University in Toruń, Poland
| | - Boris A. Malyarchuk
- Institute of Biological Problems of the North, Far-East Branch of the Russian Academy of Sciences, Magadan, Russia
| | | | - Tomasz Grzybowski
- Department of Forensic Medicine, Division of Molecular & Forensic Genetics, Faculty of Medicine, Collegium Medicum in Bydgoszcz, Nicolaus Copernicus University in Toruń, Poland
| |
Collapse
|
2
|
Liu B, Ma P, Wang C, Yan S, Yao H, Li Y, Xie Y, Meng S, Sun J, Cai Y, Sarengaowa S, Li H, Cheng H, Wei L. Paternal origin of Tungusic‐speaking populations: Insights from the updated phylogenetic tree of Y‐chromosome haplogroup
C2a‐M86. Am J Hum Biol 2020; 33:e23462. [DOI: 10.1002/ajhb.23462] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Revised: 05/15/2020] [Accepted: 06/11/2020] [Indexed: 11/10/2022] Open
Affiliation(s)
- Bing‐Li Liu
- Institute of Chinese and Culture Education Studies Huaqiao University Xiamen China
| | - Peng‐Cheng Ma
- School of Life Sciences Jilin University Changchun China
| | - Chi‐Zao Wang
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences Fudan University Shanghai China
| | - Shi Yan
- Human Phenome Institute Fudan University Shanghai China
| | - Hong‐Bing Yao
- Key Laboratory of Evidence Science of Gansu Province Gansu University of Political Science and Law Lanzhou China
| | - Yong‐Lan Li
- Laboratory for Human Biology and Human Genetics Institute of Ethnology and Anthropology, School of Ethnology and Anthropology, Inner Mongolia Normal University Hohhot China
| | - Yong‐Mei Xie
- Laboratory for Human Biology and Human Genetics Institute of Ethnology and Anthropology, School of Ethnology and Anthropology, Inner Mongolia Normal University Hohhot China
| | - Song‐Lin Meng
- School of History and Ethnic Culture Hulunbuir University Hulunbuir China
| | - Jin Sun
- Department of Anthropology and Ethnology, Institute of Anthropology Xiamen University Xiamen China
| | - Yan‐Huan Cai
- Department of Anthropology and Ethnology, Institute of Anthropology Xiamen University Xiamen China
| | - Sarengaowa Sarengaowa
- Department of Anthropology and Ethnology, Institute of Anthropology Xiamen University Xiamen China
| | - Hui Li
- MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences Fudan University Shanghai China
- Human Phenome Institute Fudan University Shanghai China
- B&R International Joint Laboratory for Eurasian Anthropology Fudan University Shanghai China
| | - Hui‐Zhen Cheng
- Department of Anthropology and Ethnology, Institute of Anthropology Xiamen University Xiamen China
| | - Lan‐Hai Wei
- Department of Anthropology and Ethnology, Institute of Anthropology Xiamen University Xiamen China
- B&R International Joint Laboratory for Eurasian Anthropology Fudan University Shanghai China
| |
Collapse
|
3
|
Derenko M, Denisova G, Malyarchuk B, Dambueva I, Bazarov B. Mitogenomic diversity and differentiation of the Buryats. J Hum Genet 2017; 63:71-81. [PMID: 29215085 DOI: 10.1038/s10038-017-0370-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2017] [Revised: 09/19/2017] [Accepted: 09/19/2017] [Indexed: 12/25/2022]
Abstract
In this paper we present a results of first comprehensive study of the complete mitogenomes in the Buryats with regard to their belonging to the main regional (eastern and western Buryats); tribal (Khori, Ekhirid, Bulagad, and Khongodor), and ethno-territorial (Aginsk, Alar, Balagansk, Barguzin, Ida, Khorinsk, Kuda, Selenga, Verkholensk, Olkhon, Tunka, and Shenehen Buryats) groups. The analysis of molecular variation performed using regional, tribal, and ethno-territorial divisions of the Buryats showed lack of genetic differentiation at all levels. Nonetheless, the complete mitogenome analysis revealed a very high level of genetic diversity in the Buryats which is the highest among Siberian populations and comparable to that in populations of eastern and western Asia. The AMOVA and MDS analyses results imply to a strong genetic similarity between the Buryats and eastern Asian populations of Chinese and Japanese, suggesting their origin on the basis of common maternal ancestry components. Several new Buryat-specific branches of haplogroup G (G2a2a, G2a1i, G2a5a) display signals of dispersals dating to 2.6-6.6 kya with a possible origin in eastern Asia, thus testifying Bronze Age and Neolithic arrival of ancestral eastern Asian component to the South Siberia region.
Collapse
Affiliation(s)
- Miroslava Derenko
- Genetics Laboratory, Institute of Biological Problems of the North, Russian Academy of Sciences, Magadan, Russia.
| | - Galina Denisova
- Genetics Laboratory, Institute of Biological Problems of the North, Russian Academy of Sciences, Magadan, Russia
| | - Boris Malyarchuk
- Genetics Laboratory, Institute of Biological Problems of the North, Russian Academy of Sciences, Magadan, Russia
| | - Irina Dambueva
- Institute of Mongolian, Buddhist and Tibetan Studies, Russian Academy of Sciences, Ulan-Ude, Russia
| | - Boris Bazarov
- Institute of Mongolian, Buddhist and Tibetan Studies, Russian Academy of Sciences, Ulan-Ude, Russia
| |
Collapse
|
4
|
Multiplex assay development and mutation rate analysis for 13 RM Y-STRs in Chinese Han population. Int J Legal Med 2016; 131:345-350. [DOI: 10.1007/s00414-016-1489-y] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Accepted: 10/25/2016] [Indexed: 11/25/2022]
|
5
|
Perez-Benedico D, Chennakrishnaiah S, Gayden T, Rowold DJ, Garcia-Bertrand R, Herrera RJ. Y-STR markers from Ladakh in the Himalayas. Leg Med (Tokyo) 2016; 21:29-32. [PMID: 27497330 DOI: 10.1016/j.legalmed.2016.04.007] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2015] [Revised: 04/14/2016] [Accepted: 04/22/2016] [Indexed: 12/09/2022]
Abstract
A total of 223 samples from the general population of Ladakh in Northwestern India were amplified at 17 Y-STR loci using the AmpFlSTR® Yfiler™ system. The DNA profiles generated were employed to generate allelic frequencies, gene diversity, haplotype diversity and discrimination capacity values as well as number of different haplotypes, fraction of unique haplotypes and Rst pair wise genetic distances. Multidimensional Scaling (MDS) and Correspondence Analysis (CA) were performed with the Rst values and allelic frequencies, respectively. The 17-loci discrimination capacity of Ladakh was found to be 0.8093. Eleven out of the 16 loci have diversity values greater than 0.6, and 13 loci possess values greater than 0.5. Ladakh exhibits no significant genetic difference to seven of the 15 reference forensic databases after Bonferroni correction, three of which are located in South Central Asian and four are from the Himalayan region. Rst genetic distance values before and after Bonferroni corrections illustrate the capacity of the Yfiler system to discriminate among Himalayan populations. The intermediate position of the Ladakh population in the MDS and CA plots likely reflects genetic flow and admixture with neighboring populations. In addition, the longitudinal partition of populations in the MDS and CA plots likely reflect human dispersals such as the silk road migrations.
Collapse
Affiliation(s)
| | | | - Tenzin Gayden
- Department of Human Genetics, McGill University, Montreal, Quebec H3Z 2Z3, Canada
| | - Diane J Rowold
- Foundation for Applied Molecular Evolution, Gainesville, FL 32601, USA
| | | | - Rene J Herrera
- Department of Molecular Biology, Colorado College, Colorado Springs, CO 80903, USA
| |
Collapse
|
6
|
Malyarchuk BA, Derenko M, Denisova G, Woźniak M, Rogalla U, Dambueva I, Grzybowski T. Y chromosome haplotype diversity in Mongolic-speaking populations and gene conversion at the duplicated STR DYS385a,b in haplogroup C3-M407. J Hum Genet 2016; 61:491-6. [DOI: 10.1038/jhg.2016.14] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Revised: 01/12/2016] [Accepted: 01/29/2016] [Indexed: 12/27/2022]
|
7
|
Rogalla U, Woźniak M, Swobodziński J, Derenko M, Malyarchuk BA, Dambueva I, Koziński M, Kubica J, Grzybowski T. A novel multiplex assay amplifying 13 Y-STRs characterized by rapid and moderate mutation rate. Forensic Sci Int Genet 2014; 15:49-55. [PMID: 25487077 DOI: 10.1016/j.fsigen.2014.11.004] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2014] [Revised: 11/04/2014] [Accepted: 11/06/2014] [Indexed: 12/09/2022]
Abstract
As microsatellites located on Y chromosome mutate with different rates, they may be exploited in evolutionary studies, genealogical testing of a variety of populations and even, as proven recently, aid individual identification. Currently available commercial Y-STR kits encompass mostly low to moderately mutating loci, making them a perfect choice for the first two applications. Some attempts have been made so far to utilize Y-STRs to provide a discriminatory tool for forensic purposes. Although all 13 rapidly mutating Y-STRs were already multiplexed, no single assay based on single-copy markers allowing at least a portion of close male relatives to be differentiated from one another is available. To fill in the blanks, we constructed and validated an assay comprised of single-copy Y-STR markers only with a mutation rate ranging from 8×10(-3) to 1×10(-2). Performance of the resulting combination of nine RM Y-STRs and four moderately mutating ones was tested on 361 father-son pairs and 1326 males from 9 populations revealing an overall mutation rate of 1.607×10(-1) for the assay as a whole. Application of the proposed 13 Y-STR set to differentiation of haplotypes present among homogenous population of Buryats resulted in a threefold increase of discrimination as compared with 10 Y-STRs from the PowerPlex(®) Y.
Collapse
Affiliation(s)
- Urszula Rogalla
- Institute of Molecular and Forensic Genetics, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Sklodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| | - Marcin Woźniak
- Institute of Molecular and Forensic Genetics, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Sklodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| | - Jacek Swobodziński
- Institute of Molecular and Forensic Genetics, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Sklodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| | - Miroslava Derenko
- Institute of Biological Problems of the North, Far-East Branch of the Russian Academy of Sciences, Portovaya str. 18, Magadan 685000, Russia.
| | - Boris A Malyarchuk
- Institute of Biological Problems of the North, Far-East Branch of the Russian Academy of Sciences, Portovaya str. 18, Magadan 685000, Russia.
| | - Irina Dambueva
- Institute of General and Experimental Biology, Institute of Mongolian, Buddhist and Tibetan Studies Russian Academy of Sciences, Ulan-Ude, Russia.
| | - Marek Koziński
- Department of Cardiology and Internal Disease, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Skłodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| | - Jacek Kubica
- Department of Cardiology and Internal Disease, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Skłodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| | - Tomasz Grzybowski
- Institute of Molecular and Forensic Genetics, Nicolaus Copernicus University, Collegium Medicum in Bydgoszcz, M. Sklodowskiej-Curie 9, 85-094 Bydgoszcz, Poland.
| |
Collapse
|
8
|
Y-chromosome diversity in the Kalmyks at the ethnical and tribal levels. J Hum Genet 2013; 58:804-11. [DOI: 10.1038/jhg.2013.108] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2013] [Revised: 09/16/2013] [Accepted: 09/27/2013] [Indexed: 01/15/2023]
|
9
|
Genetic population study of 11 Y chromosome STR loci in Greece. Forensic Sci Int Genet 2013; 7:e56-8. [DOI: 10.1016/j.fsigen.2013.02.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2012] [Revised: 11/27/2012] [Accepted: 02/06/2013] [Indexed: 11/21/2022]
|
10
|
Cockerton S, McManus K, Buckleton J. Interpreting lineage markers in view of subpopulation effects. Forensic Sci Int Genet 2012; 6:393-7. [DOI: 10.1016/j.fsigen.2011.04.020] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2011] [Revised: 04/05/2011] [Accepted: 04/30/2011] [Indexed: 11/16/2022]
|
11
|
Gayden T, Bukhari A, Chennakrishnaiah S, Stojkovic O, Herrera RJ. Y-chromosomal microsatellite diversity in three culturally defined regions of historical Tibet. Forensic Sci Int Genet 2011; 6:437-46. [PMID: 22005116 DOI: 10.1016/j.fsigen.2011.09.002] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2011] [Revised: 08/08/2011] [Accepted: 09/13/2011] [Indexed: 12/19/2022]
Abstract
In the present study, we analyzed 17 Y-STR loci in 350 Tibetan males from three culturally defined regions of historical Tibet: Amdo (88), Kham (109) and U-Tsang (153). A total of 299 haplotypes were observed, 272 (90.9%) of which were unique. Only one Y-STR profile is shared across the three Tibetan groups and, incidentally, is also the most frequent haplotype (4.0%), represented by two, five and seven individuals from U-Tsang, Kham and Amdo, respectively. The overall haplotype diversity for the three Tibetan populations at 17 Y-STR loci was 0.9978 and the corresponding values for the extended (11-loci) and minimal (9-loci) haplotypes were 0.9935 and 0.9909, respectively. Both neighbor-joining and Rst pairwise analyses suggest a close genetic relationship between the Amdo and Kham populations, while U-Tsang is genetically distinct from the aforementioned groups. The results demonstrate that the 17 Y-STR loci analyzed are highly polymorphic in all three Tibetan populations examined and hence useful for forensic cases, paternity testing and population genetic studies.
Collapse
Affiliation(s)
- Tenzin Gayden
- Department of Molecular and Human Genetics, College of Medicine, Florida International University, Miami, FL 33199, USA
| | | | | | | | | |
Collapse
|
12
|
Lacau H, Bukhari A, Gayden T, La Salvia J, Regueiro M, Stojkovic O, Herrera RJ. Y-STR profiling in two Afghanistan populations. Leg Med (Tokyo) 2011; 13:103-8. [DOI: 10.1016/j.legalmed.2010.11.004] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2010] [Revised: 11/24/2010] [Accepted: 11/25/2010] [Indexed: 11/15/2022]
|
13
|
Woźniak M, Malyarchuk B, Derenko M, Vanecek T, Lazur J, Gomolcak P, Grzybowski T. Similarities and distinctions in Y chromosome gene pool of Western Slavs. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2010; 142:540-8. [PMID: 20091807 DOI: 10.1002/ajpa.21253] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Analysis of Y chromosome Y-STRs has proven to be a useful tool in the field of population genetics, especially in the case of closely related populations. We collected DNA samples from 169 males of Czech origin, 80 males of Slovakian origin, and 142 males dwelling Northern Poland. We performed Y-STR analysis of 12 loci in the samples collected (PowerPlex Y system from Promega) and compared the Y chromosome haplotype frequencies between the populations investigated. Also, we used Y-STR data available from the literature for comparison purposes. We observed significant differences between Y chromosome pools of Czechs and Slovaks compared to other Slavic and European populations. At the same time we were able to point to a specific group of Y-STR haplotypes belonging to an R1a haplogroup that seems to be shared by Slavic populations dwelling in Central Europe. The observed Y chromosome diversity may be explained by taking into consideration archeological and historical data regarding early Slav migrations.
Collapse
Affiliation(s)
- Marcin Woźniak
- Institute of Molecular and Forensic Genetics, Collegium Medicum of the Nicolaus Copernicus University, 85-094 Bydgoszcz, Poland.
| | | | | | | | | | | | | |
Collapse
|
14
|
Gayden T, Chennakrishnaiah S, La Salvia J, Jimenez S, Regueiro M, Maloney T, Persad PJ, Bukhari A, Perez A, Stojkovic O, Herrera RJ. Y-STR diversity in the Himalayas. Int J Legal Med 2010; 125:367-75. [PMID: 20652582 DOI: 10.1007/s00414-010-0485-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2010] [Accepted: 06/28/2010] [Indexed: 11/24/2022]
Abstract
Linguistic and ethnic diversity throughout the Himalayas suggests that this mountain range played an important role in shaping the genetic landscapes of the region. Previous Y-chromosome work revealed that the Himalayas acted as a biased bidirectional barrier to gene flow across the cordillera. In the present study, 17 Y-chromosomal short tandem repeat (Y-STR) loci included in the AmpFlSTR® Yfiler kit were analyzed in 344 unrelated males from three Nepalese populations (Tamang, Newar, and Kathmandu) and a general collection from Tibet. The latter displays the highest haplotype diversity (0.9990) followed by Kathmandu (0.9977), Newar (0.9570), and Tamang (0.9545). The overall haplotype diversity for the Himalayan populations at 17 Y-STR loci was 0.9973, and the corresponding values for the extended (11 loci) and minimal (nine loci) haplotypes were 0.9955 and 0.9942, respectively. No Y-STR profiles are shared across the four Himalayan collections at the 17-, 11-, and nine-locus resolutions considered, indicating a lack of recent gene flow among them. Phylogenetic analyses support our previous findings that Kathmandu, and to some extent Newar, received significant genetic influence from India while Tamang and Tibet exhibit limited or no gene flow from the subcontinent. A median-joining network of haplogroup O3a3c-M134 based on 15 Y-STR loci from our four Himalayan populations suggests either a male founder effect in Tamang, possibly from Tibet, or a recent bottleneck following their arrival south of the Himalayas from Tibet leading to their highly reduced Y single-nucleotide polymorphism and Y-STR diversity. The genetic uniqueness of the four Himalayan populations examined in this study merits the creation of separate databases for individual identification, parentage analysis, and population genetic studies.
Collapse
Affiliation(s)
- Tenzin Gayden
- Department of Biological Sciences, Florida International University, Miami, FL 33199, USA
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|
15
|
Yadav B, Raina A, Dogra TD. Genetic polymorphisms for 17 Y-chromosomal STR haplotypes in Jammu and Kashmir Saraswat Brahmin population. Leg Med (Tokyo) 2010; 12:249-55. [PMID: 20621539 DOI: 10.1016/j.legalmed.2010.05.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2009] [Revised: 04/05/2010] [Accepted: 05/06/2010] [Indexed: 10/19/2022]
Abstract
In this study 17 Y-chromosomal STRs (including DYS19, DYS389I, DS389II, DYS390, DYS391, DYS392, DYS393, DYS385a/b, DYS437, DYS438, DYS439, DYS448, DYS456, DYS458, DYS635 and Y GATA H4) were analysed using blood samples of 122 unrelated male individuals belonging to Saraswat Brahmin community from Jammu (ID YP000599) and Kashmir (ID YP000600) region of J&K state of India. The allelic frequency distribution and haplotype diversity of 17 Y-chromosomal STR for both the populations were calculated. In the Kashmiri Saraswat group, a total of 109 haplotypes were identified in 122 individuals, of these haplotypes, 101 were found only once. The gene diversity values of STR loci ranged from 0.4813 (DYS391) to 0.8645 (DYS385a/b) for Jammu & Kashmiri Saraswat Brahmins.
Collapse
Affiliation(s)
- Bhuvnesh Yadav
- DNA Fingerprinting Laboratory, Department of Forensic Medicine and Toxicology, All India Institute of Medical Sciences, New Delhi 110029, India
| | | | | |
Collapse
|
16
|
Thèves C, Balaresque P, Evdokimova LE, Timofeev IV, Alekseev AN, Sevin A, Crubézy E, Gibert M. Population genetics of 17 Y-chromosomal STR loci in Yakutia. Forensic Sci Int Genet 2010; 4:e129-30. [PMID: 20457087 DOI: 10.1016/j.fsigen.2010.01.018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2009] [Revised: 01/25/2010] [Accepted: 01/26/2010] [Indexed: 10/19/2022]
Abstract
Haplotype and allele frequencies of 17 Y-chromosomal short tandem repeat (Y-STR) markers in a population sample of 133 Yakut male volunteers from two regions: Central (n=41) and Western Yakutia (n=92) were determined using the AmpFlSTR Yfiler PCR Amplification Kit (Applied Biosystems). A total of 65 haplotypes were identified in the Yakut population, with 15 haplotypes in Central sample and 54 haplotypes in Western sample. Haplotype diversity values of 0.79 and 0.96, and average gene diversity values of 0.14 and 0.41 were calculated for Central and Western samples, respectively. The Fst distances between both our Yakut populations with other Russian, Siberian and Chinese populations were represented by MDS plot. The graphical view demonstrated close distances between most Yakut populations and differences with other Siberian populations.
Collapse
Affiliation(s)
- Catherine Thèves
- Laboratory AMIS, FRE N°2960, CNRS/UPS, 37 Allées Jules Guesde, 31000 Toulouse, France.
| | | | | | | | | | | | | | | |
Collapse
|
17
|
Crubézy E, Amory S, Keyser C, Bouakaze C, Bodner M, Gibert M, Röck A, Parson W, Alexeev A, Ludes B. Human evolution in Siberia: from frozen bodies to ancient DNA. BMC Evol Biol 2010; 10:25. [PMID: 20100333 PMCID: PMC2829035 DOI: 10.1186/1471-2148-10-25] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2009] [Accepted: 01/25/2010] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The Yakuts contrast strikingly with other populations from Siberia due to their cattle- and horse-breeding economy as well as their Turkic language. On the basis of ethnological and linguistic criteria as well as population genetic studies, it has been assumed that they originated from South Siberian populations. However, many questions regarding the origins of this intriguing population still need to be clarified (e.g. the precise origin of paternal lineages and the admixture rate with indigenous populations). This study attempts to better understand the origins of the Yakuts by performing genetic analyses on 58 mummified frozen bodies dated from the 15th to the 19th century, excavated from Yakutia (Eastern Siberia). RESULTS High quality data were obtained for the autosomal STRs, Y-chromosomal STRs and SNPs and mtDNA due to exceptional sample preservation. A comparison with the same markers on seven museum specimens excavated 3 to 15 years ago showed significant differences in DNA quantity and quality. Direct access to ancient genetic data from these molecular markers combined with the archaeological evidence, demographical studies and comparisons with 166 contemporary individuals from the same location as the frozen bodies helped us to clarify the microevolution of this intriguing population. CONCLUSION We were able to trace the origins of the male lineages to a small group of horse-riders from the Cis-Baïkal area. Furthermore, mtDNA data showed that intermarriages between the first settlers with Evenks women led to the establishment of genetic characteristics during the 15th century that are still observed today.
Collapse
Affiliation(s)
- Eric Crubézy
- Laboratoire AMIS, FRE 2960 CNRS, Université de Toulouse, 37 allées Jules Guesde, 31073 Toulouse, France.
| | | | | | | | | | | | | | | | | | | |
Collapse
|
18
|
Roewer L, Krüger C, Willuweit S, Nagy M, Rodig H, Kokshunova L, Rothämel T, Kravchenko S, Jobling MA, Stoneking M, Nasidze I. Y-chromosomal STR haplotypes in Kalmyk population samples. Forensic Sci Int 2007; 173:204-9. [PMID: 17314020 DOI: 10.1016/j.forsciint.2006.11.013] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2006] [Revised: 11/14/2006] [Accepted: 11/19/2006] [Indexed: 10/23/2022]
Abstract
Seventeen Y-chromosomal short tandem repeats (STRs), DYS19, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS385ab, DYS437, DYS438, DYS439, GATA-H4, DYS448, DYS456, DYS458, DYS635 were typed in DNA samples from the Kalmyk population (n=99). The population is characterized by a high proportion of duplicated DYS19 alleles and deletions of the locus DYS448 on the background of the Central Asian haplogroup C*. AMOVA analysis reveals a close vicinity to Mongolian and Kazakh populations and large genetic distance to geographical neighbours from Russia, Ukraine and the Caucasus.
Collapse
Affiliation(s)
- Lutz Roewer
- Institute of Legal Medicine, Charité, University Medicine Berlin, Hannoversche Str. 6, 10115 Berlin, Germany.
| | | | | | | | | | | | | | | | | | | | | |
Collapse
|