Mitochondrial genomes from Bronze Age Poland reveal genetic continuity from the Late Neolithic and additional genetic affinities with the steppe populations
Jazyk angličtina Země Spojené státy americké Médium print-electronic
Typ dokumentu historické články, časopisecké články, práce podpořená grantem
PubMed
32297323
DOI
10.1002/ajpa.24057
Knihovny.cz E-zdroje
- Klíčová slova
- Bronze Age, Late Neolithic, ancient DNA, human population, mitochondrial genome,
- MeSH
- antropologie fyzická MeSH
- běloši genetika MeSH
- dějiny starověku MeSH
- dítě MeSH
- dospělí MeSH
- genom mitochondriální genetika MeSH
- haplotypy genetika MeSH
- hřbitovy MeSH
- lidé MeSH
- migrace lidstva MeSH
- populační genetika * MeSH
- starobylá DNA analýza MeSH
- Check Tag
- dějiny starověku MeSH
- dítě MeSH
- dospělí MeSH
- lidé MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- historické články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Polsko MeSH
- Názvy látek
- starobylá DNA MeSH
OBJECTIVE: In this work we aim to investigate the origins and genetic affinities of Bronze Age populations (2,400-1,100 BC) from the region of southern Poland and to trace maternal kinship patterns present in the burials of those populations by the use of complete mitochondrial genomes. MATERIALS AND METHODS: We performed ancient DNA analyses for Bronze Age individuals from present-day Poland associated with the Strzyżow culture, the Mierzanowice culture, and the Trzciniec Cultural circle. To obtain complete mitochondrial genomes, we sequenced genomic libraries using Illumina platform. Additionally, hybridization capture was used to enrich some of the samples for mitochondrial DNA. AMS 14 C-dating was conducted for 51 individuals to verify chronological and cultural attribution of the analyzed samples. RESULTS: Complete ancient mitochondrial genomes were generated for 80 of the Bronze Age individuals from present-day Poland. The results of the population genetic analyses indicate close maternal genetic affinity between Mierzanowice, Trzciniec, and Corded Ware culture-associated populations. This is in contrast to the genetically more distant Strzyżów people that displayed closer maternal genetic relation to steppe populations associated with the preceding Yamnaya culture and Catacomb culture, and with later Scythians. Potential maternal kinship relations were identified in burials of Mierzanowice and Trzciniec populations analyzed in this study. DISCUSSION: Results revealed genetic continuity from the Late Neolithic Corded Ware groups to Bronze Age Mierzanowice and Trzciniec-associated populations, and possible additional genetic contribution from the steppe to the formation of the Strzyżów-associated group at the end of 3rd millennium BC. Mitochondrial patterns indicated several pairs of potentially maternally related individuals mostly in Trzciniec-associated group.
Archaeological Museum in Cracow Kraków Poland
Centre for Anthropological Research University of Johannesburg Johannesburg South Africa
Department of Anthropology and Archaeology University of Bristol Bristol UK
Department of History and Cultural Heritage University of Pope Jan Paweł 2 Kraków Poland
Department of Material and Spiritual Culture Lublin Museum Lublin Poland
Faculty of Archaeology Adam Mickiewicz University in Poznań Poland
Human Evolution Department of Organismal Biology and SciLifeLab Uppsala University UPpSala Sweden
Institute of Archaeology and Ethnology Polish Academy of Science Kraków Poland
Institute of Archaeology and Ethnology Polish Academy of Sciences Poznań Poland
Institute of Archaeology Maria Curie Skłodowska University Lublin Poland
Zobrazit více v PubMed
Allentoft, M. E., Sikora, M., Sjögren, K.-G., Rasmussen, S., Rasmussen, M., Stenderup, J., … Willerslev, E. (2015). Population genomics of Bronze Age Eurasia. Nature, 522(7555), 167-172. https://doi.org/10.1038/nature14507
Anderson, S., Bankier, A. T., Barrell, B. G., de Bruijn, M. H., Coulson, A. R., Drouin, J., … Young, I. G. (1981). Sequence and organization of the human mitochondrial genome. Nature, 290(5806), 457-465.
Andrews, R. M., Kubacka, I., Chinnery, P. F., Lightowlers, R. N., Turnbull, D. M., & Howell, N. (1999). Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA. Nature Genetics, 23(2), 147. https://doi.org/10.1038/13779
Bramanti, B., Thomas, M. G., Haak, W., Unterlaender, M., Jores, P., Tambets, K., … Kind, C.-J. (2009). Genetic discontinuity between local hunter-gatherers and central Europe's first farmers. Science, 326(5949), 137-140.
Bronk Ramsey, C. B. (2009). Bayesian analysis of radiocarbon dates. Radiocarbon, 51(1), 337-360.
Bugaj, U. (2017). Dagger means power: Western Poland, 2300-2000 BC. In P. Urbańczyk (Ed.), The past societies. Polish lands from the first evidence of human presence to the Early Middle Ages (Vol. 2, pp. 362-376). Warszawa, Poland: Instytut Archeologii i Etnologii PAN.
Carpenter, M. L., Buenrostro, J. D., Valdiosera, C., Schroeder, H., Allentoft, M. E., Sikora, M., … Bustamante, C. D. (2013). Pulling out the 1%: Whole-Genome Capture for the Targeted Enrichment of Ancient DNA Sequencing Libraries. American Journal of Human Genetics, 93(5), 852-864. https://doi.org/10.1016/j.ajhg.2013.10.002
Chyleński, M., Juras, A., Ehler, E., Malmström, H., Piontek, J., Jakobsson, M., … Dabert, M. (2017). Late Danubian mitochondrial genomes shed light into the Neolithisation of Central Europe in the 5th millennium BC. BMC Evolutionary Biology, 17, 80. https://doi.org/10.1186/s12862-017-0924-0
Ehler, E., Novotný, J., Juras, A., Chyleński, M., Moravčík, O., & Pačes, J. (2019). AmtDB: A database of ancient human mitochondrial genomes. Nucleic Acids Research, 47(D1), D29-D32. https://doi.org/10.1093/nar/gky843
Excoffier, L., & Lischer, H. E. L. (2010). Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources, 10(3), 564-567. https://doi.org/10.1111/j.1755-0998.2010.02847.x
Fu, Q., Mittnik, A., Johnson, P. L. F., Bos, K., Lari, M., Bollongino, R., … Krause, J. (2013). A revised timescale for human evolution based on ancient mitochondrial genomes. Current Biology, 23(7), 553-559. https://doi.org/10.1016/j.cub.2013.02.044
Górski, J. (2017). The Trzciniec culture. On the periphery of Bronze Age civilization (1800-1100 BC). In P. Urbańczyk (Ed.), The past societies. Polish lands from the first evidence of human presence to the Early Middle Ages (Vol. 3, pp. 87-126). Warsaw, Poland: Instytut Archeologii i Etnologii PAN.
Górski, J., & Kadrow, S. (1996). Kultura mierzanowicka i kultura trzciniecka w zachodniej Małopolsce. Problem zmiany kulturowej. Sprawozdania Archeologiczne 48, 9-32.
Górski, J., & Makarowicz, P. (2012). Nowe datowania radiowęglowe kurhanów i grobów beznasypowych trzcinieckiego kręgu kulturowego z Małopolski i Wielkopolski. In W. Blajer (Ed.), Peregrinationes archaeologicae in Asia et Europa Joanni Chochorowski dedicatae (pp. 289-298). Kraków, Poland: Instytut Archeologii Uniwersytetu Jagiellońskiego, Wydawnictwo Profil-Archeo.
Günther, T., Valdiosera, C., Malmström, H., Ureña, I., Rodriguez-Varela, R., Sverrisdóttir, Ó. O., … Jakobsson, M. (2015). Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques. Proceedings of the National Academy of Sciences, 112(38), 11917-11922. https://doi.org/10.1073/pnas.1509851112
Haak, W., Balanovsky, O., Sanchez, J. J., Koshel, S., Zaporozhchenko, V., Adler, C. J., … the Genographic Consortium. (2010). Ancient DNA from European Early Neolithic farmers reveals their near Eastern affinities. PLoS Biology, 8(11), e1000536. https://doi.org/10.1371/journal.pbio.1000536
Haak, W., Lazaridis, I., Patterson, N., Rohland, N., Mallick, S., Llamas, B., … Reich, D. (2015). Massive migration from the steppe was a source for Indo-European languages in Europe. Nature, 522(7555), 207-211.
Hunter, J. D. (2007). Matplotlib: A 2D Graphics Environment. Computing in Science & Engineering, 9(3), 90-95. https://doi.org/10.1109/MCSE.2007.55
Hyrchała, A. (2015). Kultura strzyżowska - początek nowej epoki. In A. Hyrchała, B. Bartecki (Eds.), Wojownik i księżniczka. Archeologia-Medycyna sądowa-Sztuka (pp. 52-79). Hrubieszów, Polska.
Jones, E. R., Zarina, G., Moiseyev, V., Lightfoot, E., Nigst, P. R., Manica, A., … Bradley, D. G. (2017). The Neolithic transition in the Baltic was not driven by admixture with early European farmers. Current Biology: CB, 27(4), 576-582. https://doi.org/10.1016/j.cub.2016.12.060
Jónsson, H., Ginolhac, A., Schubert, M., Johnson, P. L. F., & Orlando, L. (2013). mapDamage2.0: Fast approximate Bayesian estimates of ancient DNA damage parameters. Bioinformatics (Oxford, England), 29(13), 1682-1684. https://doi.org/10.1093/bioinformatics/btt193
Juras, A., Chyleński, M., Ehler, E., Malmström, H., Żurkiewicz, D., Włodarczak, P., … Kośko, A. (2018). Mitochondrial genomes reveal an east to west cline of steppe ancestry in Corded Ware populations. Scientific Reports, 8(1), 11603. https://doi.org/10.1038/s41598-018-29914-5
Juras, A., Krzewińska, M., Nikitin, A. G., Ehler, E., Chyleński, M., Łukasik, S., … Götherström, A. (2017). Diverse origin of mitochondrial lineages in Iron Age Black Sea Scythians. Scientific Reports, 7, 43950. https://doi.org/10.1038/srep43950
Kadrow, S. (2001). U progu nowej epoki. Gospodarka i społeczeństwo wczesnego okresu epoki brązu w Europie Środkowej. Krako´w: Instytut Archeologii i Etnologii Polskiej Akademii Nauk.
Kadrow, S., & Machnik, J. (1997). Kultura mierzanowicka. Chronologia, taksonomia i rozwój przestrzenny. Kraków: Instytut Archeologii i Etnologii Polskiej Akademii Nauk.
Kempisty, A. (1978). Schyłek neolitu i początek epoki brązu na Wyżynie Małopolskiej w świetle badań nad kopcami. Wydaw-a UW. Warszawa: Wydawnictwa Uniwersytetu Warszawskiego.
Korneliussen, T. S., Albrechtsen, A., & Nielsen, R. (2014). ANGSD: Analysis of next generation sequencing data. BMC Bioinformatics, 15, 356. https://doi.org/10.1186/s12859-014-0356-4
Kryvaltsevich, M. (2013). Babyno-type ceramics in the eastern Polessiye.Baltic Pontic Studies 18, 139-161.
Krzewińska, M., Kılınç, G. M., Juras, A., Koptekin, D., Chyleński, M., Nikitin, A. G., … Götherström, A. (2018). Ancient genomes suggest the eastern Pontic-Caspian steppe as the source of western Iron Age nomads. Science Advances, 4(10), eaat4457. https://doi.org/10.1126/sciadv.aat4457
Lampa, S., Dahlö, M., Olason, P. I., Hagberg, J., & Spjuth, O. (2013). Lessons learned from implementing a national infrastructure in Sweden for storage and analysis of next-generation sequencing data. GigaScience, 2, 9. https://doi.org/10.1186/2047-217X-2-9
Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K., … Krause, J. (2014). Ancient human genomes suggest three ancestral populations for present-day Europeans. Nature, 513(7518), 409-413.
Li, H., & Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics, 25(14), 1754-1760. https://doi.org/10.1093/bioinformatics/btp324
Lott, M. T., Leipzig, J. N., Derbeneva, O., Xie, H. M., Chalkia, D., Sarmady, M., … Wallace, D. C. (2013). MtDNA variation and analysis using Mitomap and mitomaster. Current Protocols in Bioinformatics, 44, 1.23.1-1.23.26. https://doi.org/10.1002/0471250953.bi0123s44
Lytvynenko, R. O. (2011). Kulturnyi krug Babyno: Nazwaniye, taksonomiya, struktura. Kratkie Soobshcheniya Institita Arkheologii 225, 108-122.
Machnik, J., Bagińska, J., Koman, W., Libera, J., & Gazda, L. (2009). Neolityczne kurhany na Grzędzie Sokalskiej w świetle badań archeologicznych w latach 1988-2006. Kraków: Polska Akademia Umiejętności.
Makarowicz, P. (2010a). The creation of new social space. In Barrows of the Corded Ware Culture and Trzciniec Circle as markers of a mental map in the upland parts of Poland and western Ukraine (Universitätsforschungen zur Prähistorischen Archäologie). Kommision bei Dr. Rudolf Habelt GmbH, Bonn.
Makarowicz, P. (2010b). Trzciniecki krąg kulturowy-Wspólnota pogranicza Wschodu i Zachodu Europy, Poznań: Wydawnictwo Poznańskie.
Makarowicz, P. (2013). Migracje i kurhany w II tys. BC - przypadek społeczności kręgu trzcinieckiego. In W. Dzieduszycki & J. Wrzesiński (Eds.), Migracje. Funeralia Lednickie - Spotkanie 15 (pp. 45-57). Poznań: Stowarzyszenie Naukowe Archeologów Polskich.
Malmström, H., Günther, T., Svensson, E. M., Juras, A., Fraser, M., Munters, A. R., … Jakobsson, M. (2019). The genomic ancestry of the Scandinavian Battle Axe Culture people and their relation to the broader Corded Ware horizon. Proceedings of the Royal Society B: Biological Sciences, 286(1912), 20191528. https://doi.org/10.1098/rspb.2019.1528
Malmström, H., Svensson, E. M., Gilbert, M. T. P., Willerslev, E., Götherström, A., & Holmlund, G. (2007). More on contamination: The use of asymmetric molecular behavior to identify authentic ancient human DNA. Molecular Biology and Evolution, 24(4), 998-1004. https://doi.org/10.1093/molbev/msm015
Mantel, N. (1967). The Detection of Disease Clustering and a Generalized Regression Approach. Cancer Research, 27(2 Part 1), 209-220.
Meyer, M., & Kircher, M. (2010). Illumina sequencing library preparation for highly multiplexed target capture and sequencing. Cold Spring Harbor Protocols, 2010(6), pdb.prot5448. https://doi.org/10.1101/pdb.prot5448
Mittnik, A., Wang, C.-C., Pfrengle, S., Daubaras, M., Zariņa, G., Hallgren, F., … Krause, J. (2018). The genetic prehistory of the Baltic Sea region. Nature Communications, 9(1), 442. https://doi.org/10.1038/s41467-018-02825-9
Müller, J., Czebreszuk, J., & Kadrow, S. (2010). Bruszczewo 2,2: Bruszczewo II. Ausgrabungen und Forschungen in einer prähistorischen Siedlungskammer Großpolens. Studien zur Archäologiein Ostmitteleuropa: Vol. 6.1.
Neparáczki, E., Maróti, Z., Kalmár, T., Kocsy, K., Maár, K., Bihari, P., … Török, T. (2018). Mitogenomic data indicate admixture components of Central-Inner Asian and Srubnaya origin in the conquering Hungarians. PLoS One, 13(10), e0205920. https://doi.org/10.1371/journal.pone.0205920
Nikitin, A. G., Ivanova, S., Kiosak, D., Badgerow, J., & Pashnick, J. (2017). Subdivisions of haplogroups U and C encompass mitochondrial DNA lineages of Eneolithic-Early Bronze Age Kurgan populations of western North Pontic steppe. Journal of Human Genetics, 62(6), 605-613. https://doi.org/10.1038/jhg.2017.12
Olalde, I., Brace, S., Allentoft, M. E., Armit, I., Kristiansen, K., Booth, T., … Reich, D. (2018). The Beaker phenomenon and the genomic transformation of northwest Europe. Nature, 555(7695), 190-196. PubMed. https://doi.org/10.1038/nature25738
Pedregosa, F., Varoquaux, G., Gramfort, A., Michel, V., Thirion, B., Grisel, O., … Duchesnay, É. (2011). Scikit-learn: Machine Learning in Python. Journal of Machine Learning Research, 12(Oct), 2825-2830.
QGIS Development Team. (2015). QGIS geographic information system. Open Source Geospatial Foundation Project https://qgis.org/pl/site/
Reimer, P. J., Bard, E., Bayliss, A., Beck, J. W., Blackwell, P. G., Ramsey, C. B., … van der Plicht, J. (2013). IntCal13 and Marine13 radiocarbon age calibration curves 0-50,000 years cal BP. Radiocarbon, 55(4), 1869-1887. https://doi.org/10.2458/azu_js_rc.55.16947
Saag, L., Varul, L., Scheib, C. L., Stenderup, J., Allentoft, M. E., Saag, L., … Metspalu, M. (2017). Extensive farming in Estonia started through a sex-biased migration from the Steppe. Current Biology, 27(14), 2185-2193.e6. https://doi.org/10.1016/j.cub.2017.06.022
Skoglund, P., Malmström, H., Raghavan, M., Storå, J., Hall, P., Willerslev, E., … Jakobsson, M. (2012). Origins and genetic legacy of Neolithic farmers and hunter-gatherers in Europe. Science, 336(6080), 466-469. https://doi.org/10.1126/science.1216304
Slatkin, M. (1995). A measure of population subdivision based on microsatellite allele frequencies. Genetics, 139(1), 457-462.
Ślusarska, K. (2006). Funeral rites of the Catacomb community: 2800-1900 BC. Ritual, thanatology and geographical origins. Baltic Pontic Studies, 13.
Taras, H. (2007). Oddziaływania wschodnioeuropejskie w starszych fazach epoki brązu na społeczności w dorzeczu górnej i środkowej Wisły (ze szczególnym uwzglednieniem Lubelszczyzny). In L. Bakalarska (Ed.) Wspólnota dziedzictwa archeologicznego ziem Ukrainy i Polski (pp. 1789-1795). Warszawa, Polska: Narodowy Instytut Dziedzictwa.
van Oven, M., & Kayser, M. (2009). Updated comprehensive phylogenetic tree of global human mitochondrial DNA variation. Human Mutation, 30(2), E386-E394. https://doi.org/10.1002/humu.20921
Włodarczak, P. (2017). Battle-axes and beakers. The Final Eneolithic societies. In P. Urbańczyk (Ed.), The past societies. Polish lands from the first evidence of human presence to the Early Middle Ages (Vol. 3, pp. 275-336). Warsaw, Poland: Instytut Archeologii i Etnologii PAN.
Yang, D. Y., Eng, B., Waye, J. S., Dudar, J. C., & Saunders, S. R. (1998). Improved DNA extraction from ancient bones using silica-based spin columns. American Journal of Physical Anthropology, 105(4), 539-543.