Mitogenomic analysis of a representative of the Chernyakhov culture in the Middle Dniester and their genetic relationship with the Slavs in the context of paleoanthropological data
https://doi.org/10.18699/vjgb-25-79
Abstract
Occupying a fairly extensive territory within the East European Plain, representatives of the Chernyakhov culture interacted with many synchronous tribes of other cultures inhabiting neighbouring regions. The question of a possible Proto-Slavic component in the population of the Chernyakhov culture is a subject of many years of discussion, but there is still no evidence for the genetic contribution of representatives of this culture to the gene pool of the Slavs in the subsequent historical period. In this study, we present the results of the craniological and genetic analysis of an individual from the Krynichki burial ground, presumably belonging to the Slavic part of the population of the Chernyakhov culture. A craniometric comparative analysis was conducted for several series of skulls of the East Slavs and representatives of the Chernyakhov culture. The comparison of intragroup variability in the groups of the two cultures showed marked differences between them in the first three principal components. At the same time, the East Slavic and Chernyakhov cultures have similar levels of craniological variability. Differences between female specimens are not so pronounced as those of males’. Based on the analysis of whole-genome sequencing data, the individual from the Krynichki was identified as being a female. The complete sequence of mitochondrial DNA, which belongs to the haplogroup H5a1a1, was reconstructed. For this mitochondrial lineage, a phylogenetic relationship
was revealed with eight specimens from publicly available genomic databases, five of which belong to representatives of the present-day West and East Slavic populations. Furthermore, we revealed a mitochondrial sequence identical to that from our previous research on an individual from a medieval burial site located in the modern Vologda region, which is thought to have Slavic ancestry. The complete match between the medieval individual’s mtDNA sequence and that of a representative of the Chernyakhov culture points to their likely maternal ancestry. Thus, a possible continuity between representatives of the Chernyakhov culture (3rd century AD) and the population of Ancient Rus’ (the second half of the 12th–early 13th centuries AD) has for the first time been shown, as genomic data suggest.
Keywords
About the Authors
E. V. RozhdestvenskikhRussian Federation
Krasnodar region; Sirius Federal Territory
T. V. Andreeva
Russian Federation
Faculty of Biology; Centre of Genetics and Genetic Technologies
Krasnodar region; Sirius Federal Territory; Moscow
A. B. Malyarchuk
Russian Federation
Faculty of Biology; Centre of Genetics and Genetic Technologies; Moscow
I. Yu. Adrianova
Russian Federation
Moscow
D. S. Khodyreva
Russian Federation
Research Institute and Museum of Anthropology
Moscow
A. A. Evteev
Russian Federation
Research Institute and Museum of Anthropology
Moscow
A. P. Buzhilova
Russian Federation
Research Institute and Museum of Anthropology
Moscow
E. I. Rogaev
Russian Federation
Department of Psychiatry
Krasnodar region; Sirius Federal Territory; United States of America; MA; Shrewsbury
References
1. Alekseev V.P., Debets G.F. Craniometry. Anthropological Research Methods. Moscow: Nauka Publ., 1964 (in Russian)
2. Alexeyeva Т. East Slavic skulls from tribal barrows. Materiały i Prace Antropologiczne = Anthropological Materials and Studies. Kraków, 1966;3-142 (in Polish)
3. Anderson S., Bankier A.T., Barrell B.G., de Bruijn M.H., Coulson A.R., Drouin J., Eperon I.C., Nierlich D.P., Roe B.A., Sanger F., Schreier P.H., Smith A.J., Staden R., Young I.G. Sequence and organization of the human mitochondrial genome. Nature. 1981;290(5806):457-465. doi: 10.1038/290457a0
4. Andreeva T.V., Manakhov A.D., Gusev F.E., Patrikeev A.D., Golovanova L.V., Doronichev V.B., Shirobokov I.G., Rogaev E.I. Genomic analysis of a novel Neanderthal from Mezmaiskaya Cave provides insights into the genetic relationships of Middle Palaeolithic population. Sci Rep. 2022;12(1):13016. doi: 10.1038/s41598-022-16164-9
5. Andreeva T.V., Dobrovolskaya M.V., Sedov V.V., Vdovichenko M.V., Reshetova I.K., Soshkina A.D., Dudko N.A., Bydanov A.S., Adrianova I.Yu., Buzhilova A.P., Rogaev E.I. People from the stone sarcophagus No. 11 at the St. Georges (Yuriev) Monastery: a genetic history based of mitochondrial genomes. Kratkie Soobshcheniya Instituta Archeologii = Brief Communications of the Institute of Archaeology. 2023a;270:418-437. doi: 10.25681/IARAS.0130-2620.270.418-437 (in Russian)
6. Andreeva T.V., Malyarchuk A.B., Rodinkova V.E., Soshkina A.D., Rozhdestvenskikh E.V., Dobrovolskaya M.V., Rogaev E.I. An individual of the Volyntsevo period from Kurilovka: the first archeogenetic data. Russijskaja Archeologija = Russian Archaeology. 2023b;(3):57-71. doi: 10.31857/S0869606323030030 (in Russian)
7. Andreeva T.V., Zhilin M.G., Malyarchuk A.B., Engovatova A.V., Soshkina A.D., Dobrovolskaya M.V., Buzhilova A.P., Rogaev E.I. Archaeogenomics of humans from the layer of the Upper Volga Culture revealed their greatest genetic similarity with Eastern European hunter-gatherers and ancient representatives of Mesolithic/Neolithic Europe. Vestnik Arheologii, Antropologii i Etnografii. 2024;64:113-125. doi: 10.20874/2071-0437-2024-64-1-10 (in Russian)
8. Archaeology of the Northern Russian Village of the 10–13<sup>th</sup> Centuries: Medieval Settlements and Burial Grounds on Lake Kubenskoye, vol. I: Settlements and Burial Grounds. Moscow: Nauka Publ., 2007. Available at: https://archaeolog.ru/media/series/arch-northrus-village/Arch_northrus_village-1.pdf (in Russian) (in Russian)
9. BLAST – Basic Local Alignment Search Tool. Available: https://blast.ncbi.nlm.nih.gov/Blast.cgi
10. Chistov K.V. Ethnography of Eastern Slavs. Moscow: Nauka Publ., 1987 (in Russian)
11. Danecek P., Bonfield J.K., Liddle J., Marshall J., Ohan V., Pollard M.O., Whitwham A., Keane T., McCarthy S.A., Davies R.M., Li H. Twelve years of SAMtools and BCFtools. GigaScience. 2021; 10(2):giab 008. doi: 10.1093/gigascience/giab008
12. Deryabin V.E. Lectures on Multidimensional Biometrics for Anthropologists. Moscow: Moscow State University Publ., 2008 (in Russian)
13. Ehler E., Novotný J., Juras A., Chylenski M., Moravcík O., Paces J. AmtDB: a database of ancient human mitochondrial genomes. Nucleic Acids Res. 2019;47(D1):D29-D32. doi: 10.1093/nar/gky843
14. Eltsov N., Volodko N. MtPhul: Software tool for human myDNA analysis and phylogeny reconstruction. 2016. Available online: http://eltsov.org (Available from: https://sites.google.com/site/mtphyl/home)
15. Evteev A.A., Staroverov N.E., Potrakhov N.N. Analytical techniques and software for the study of intragroup metric variation using principal component analysis. Bulletins et Mémoires de la Société d’An thropologie de Paris. 2021;33(1):7539. doi: 10.4000/bmsap.7539
16. FamilyTreeDNA. Available: https://www.familytreedna.com/
17. Gamchenko S.S. Archeological Research on the Tripoli Culture in Podillya in 1909. St. Petersburg, 1911
18. Gansauge M.T., Gerber T., Glocke I., Korlevic P., Lippik L., Nagel S., Reihl L.M., Schmidt A., Meyer M. Single-stranded DNA library preparation from highly degraded DNA using T4 DNA ligase. Nucleic Acids Res. 2017;45(10):e79. doi: 10.1093/nar/gkx033
19. Grzesik R. Ethnogenesis of the Slavs in the Polish historical reflection of the 20<sup>th</sup>–21<sup>st</sup> century. Studia Slavica et Balcanica Petropolitana. 2017;(2):107-121. doi: 10.21638/11701/spbu19.2017.209 (in Russian)
20. Jónsson H., Ginolhac A., Schubert M., Johnson P.L., Orlando L. map-Damage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters. Bioinformatics. 2013;29(13):1682-1684. doi: 10.1093/bioinformatics/btt193
21. Juras A., Dabert M., Kushniarevich A., Malmström H., Raghavan M., Kosicki J.Z., Metspalu E., Willerslev E., Piontek J. Ancient DNA reveals matrilineal continuity in present-day Poland over the last two millennia. PLoS One. 2014;9(10):110839. doi: 10.1371/journal.pone.0110839
22. Li H., Durbin R. Fast and accurate short read alignment with Burrows–Wheeler transform. Bioinformatics. 2009;25(14):1754-1760. doi: 10.1093/bioinformatics/btp324
23. Lyapushkin I.I. Slavs of Eastern Europe on the eve of the formation of the Old Russian state (8<sup>th</sup>–the first half of the 9<sup>th</sup> century). Leningrad: Nauka Publ., 1968 (in Russian)
24. Magomedov B.V. Chernyakhov Culture: The Issue of Ethnicity. Lublin, 2001. Available at: http://www.archaeology.ru/Download/Magomedov/Magomedov_2001_Czerniachov_ethnos.pdf (in Russian)
25. Mallick S., Micco A., Mah M., Ringbauer H., Lazaridis I., Olalde I., Patterson N., Reich D. The Allen Ancient DNA Resource (AADR) a curated compendium of ancient human genomes. Sci Data. 2024; 11(1):182. doi: 10.1038/s41597-024-03031-7
26. Malyarchuk B., Litvinov A., Derenko M., Skonieczna K., Grzybowski T., Grosheva A., Shneider Y., Rychkov S., Zhukova O. Mitogenomic diversity in Russians and Poles. Forensic Sci Int Genet. 2017;30:51-56. doi: 10.1016/j.fsigen.2017.06.003
27. Mielnik-Sikorska M., Daca P., Malyarchuk B., Derenko M., Skonieczna K., Perkova M., Dobosz T., Grzybowski T. The history of Slavs inferred from complete mitochondrial genome sequences. PLoS One. 2013;8(1):e54360. doi: 10.1371/journal.pone.0054360
28. Modi A., Nesheva D., Sarno S., Vai S., Karachanak-Yankova S., Luiselli D., Pilli E., … Antonova O., Hadjidekova S., Galabov A., Toncheva D., Caramelli D. Ancient human mitochondrial genomes from Bronze Age Bulgaria: new insights into the genetic history of Thracians. Sci Rep. 2019;9(1):5412. doi: 10.1038/s41598-019-41945-0
29. Nikitina G.F. Systematics of Burial Rituals among Chernyakhov Culture Tribes. Moscow: Nauka Publ., 1985 (in Russian)
30. Nikitina G.F. Chernyakhov Culture in Transnistria according to the Analysis of Archaeological Data. Moscow: Taus Publ., 2008. Available at: https://archaeolog.ru/media/books_2008/Nikitina_2008.pdf (in Russian)
31. Renaud G., Slon V., Duggan A.T., Kelso J. Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA. Genome Biol. 2015;16:224. doi: 10.1186/s13059-015-0776-0
32. Rickman E.A. The Ethnic History of Transnistria and the Adjacent Danube Region in the First Centuries of Common Era. Moscow: Nauka Publ., 1975 (in Russian)
33. Robinson H.J., Thorvaldsdóttir H., Winckler W., Guttman M., Lander E.C., Getz G., Mesirov J.P. Integrative genomics viewer. Nat Biotechnol. 2011;29(1):24-26. doi: 10.1038/nbt.1754
34. Rozhdestvenskikh E.V., Manakhov A.D., Andreeva T.V., Kunizheva S.S., Malyarchuk A.B., Bydanov A.S., Savinetsky A.B., Krylovich O.A., Dobrovolskaya M.V., Buzhilova A.P., Makarov N.A., Rogaev E.I. A youth with a polecat from the medieval Minino cemetery at the Kubenskoe Lake: archaeogenetic identification. Kratkiye Soobshcheniya Instituta Arkheologii = Brief Communications of the Institute of Archaeology. 2024;274:348-368. doi: 10.25681/IARAS.0130-2620.274.348-368 (in Russian)
35. Sankina S.L. The Ethnic History of the Medieval Population of the Novgorod Land According to Anthropological Data. Saarbrucken: LAP LAMBERT Academic Publishing, 2012 (in Russian)
36. Schönherr S., Weissensteiner H., Kronenberg F., Forer L. Haplogrep 3 – an interactive haplogroup classification and analysis platform. Nucleic Acids Res. 2023;51(W1):W263-W268. doi: 10.1093/nar/gkad284
37. Schubert M., Lindgreen S., Orlando L. AdapterRemoval v2: rapid adapter trimming, identification, and read merging. BMC Res Notes. 2016;12(9):88. doi: 10.1186/s13104-016-1900-2
38. Sedov V.V. The Origin and Early History of the Slavs. Moscow: Nauka Publ., 1979 (in Russian)
39. Shchukin M.B. Stratum: Structures and Catastrophes: The Birth of Slavs. St. Petersburg: Nestor Publ., 1997;110-147 (in Russian)
40. Shchukin M.B. The Gothic Way: Goths, Rome, and the Chernyakhov Culture). Saint-Petersburg: St. Petersburg State University Publ., 2005 (in Russian)
41. Stolarek I., Zenczak M., Handschuh L., Juras A., Marcinkowska-Swojak M., Spinek A., Dębski A., Matla M., Kóčka-Krenz H., Piontek J.; Polish Archaeogenomics Consortium Team; Figlerowicz M. Genetic history of East-Central Europe in the first millennium CE. Genome Biol. 2023;24(1):173. doi: 10.1186/s13059-023-03013-9
42. Symonovich E.A. Artifacts of the Chernyakhov culture in the village of Krinichki. Chernyakhov culture. Materialy i Issledovaniya po Arkheologii SSSR = Materials and Studies on USSR Archeology. 1960;82:239-252 (in Russian)
43. Terpilovsky R.V. The Kiev and Chernyakhovskaya cultures: contacts. Stratum plus. Archaeology and Cultural Anthropo logy. 2000;(4): 303-311 (in Russian)
44. Van Oven M. PhyloTree Build 17: growing the human mitochondrial DNA tree. Forensic Sci Int Genet Suppl Ser. 2015;5:e392-e394. doi: 10.1016/j.fsigss.2015.09.155
45. Vinokur I.S. Slavic-Thracian contacts in the Middle and Upper Transnistria. In: Ancient Communities of Farmers and Herders in the Northern Black Sea Region (5<sup>th</sup> millennium BC–5<sup>th</sup> century AD). Tiraspol, 2002;400-404 (in Russian)
46. YFull MTree 1.02 (under construction). Available: https://www.yfull.com/mtree/
47. Zinkovskaya I.V., Kolesnikova A.Y. Problems of the Chernya khov culture in modern Ukrainian archaeology (2000–2019). Vestnik VGU. Seriya: Istoriya. Politologiya. Sotsiologiya = Proceedings of Voronezh State University. Series: History. Political Science. Sociology. 2020;(1):35-40 (in Russian)