"Yes, because it's such an undiscovered landscape," says Bradley. The variant call format and VCFtools. This is partly because there are few human remains to work with, and because genetic material severely degrades with time. Mol. Get the most important science stories of the day, free in your inbox. Pinhasi, R., Thomas, M. G., Hofreiter, M., Currat, M. & Burger, J. Location: Kotias Klde - 42.28 North, 43.28 East 3. Disclaimer: AAAS and EurekAlert! 3), thus implying a degree of continuity in both regions stretching back at least 13,000 years to the late Upper Palaeolithic. Nat. Genotypes where neither allele was consistent with the GRCh37 orientation of the human genome were also removed. 2500 Valby, Denmark. Am. These ancient genomes are in the process of adding new chapters to our story, and each newly mapped genome takes us further back and rewrites the story we thought we knew. March 1, 2023. This data set was first filtered to exclude genotypes which had a minor allele frequency of zero in the modern populations, non-autosomal sites and modern populations with less than four individuals. It belonged to a male hunter-gatherer who likely descended from a group who left Africa more than 50,000 years ago to populate other regions, but later went extinct. The epipaleolithic of the Caucasus after the last glacial maximum. Instead, it may just be chance, or it may indicate common migration patterns, meaning your ancestors lived in the same place, at roughly the same time, as these people whose remains weve sampled millennia later. volume6, Articlenumber:8912 (2015) Haplogroup J2 originates in the northern part of Southwestern Asia (the Near East) while G is very common among peoples of the Caucasus and probably also originated in the Near East close to Georgia. J. Hum. 2) and suggesting a possible link with the LGM, although the broad confidence intervals require some caution with this interpretation. "DNA was extracted from three samples - two from Georgia (Kotias Klde cave and Satsurblia cave) and one from Switzerland (Grotte du Bichon)," the researchers said. Alternative phylogenies relating western hunter-gatherers (WHG), CHG and early farmers (EF, highlighted in orange), with the appropriate outgroup f3-statistics. For ancient samples with>8 genome-wide coverage (namely Kotias, Bichon, Ust-Ishim, Loschbour, Stuttgart, NE1 and BR2 (Supplementary Table 1)) genotypes were determined using GATK Unified Genotyper40. Genomic structure in Europeans dating back at least 36,200 years. He was also probably lactose intolerant the ability to digest milk in adulthood only became common after agriculture was introduced in Europe. One SNP from each pair in linkage disequilibrium with r2>0.2 was removed47. Scientists wanted to know more about this important ancestor--who were the Yamnaya, and where did they come from? The authors declare no competing financial interests. USA 105, 4853 (2008). Bichon, like younger WHG, shows strongest affinity to northern Europeans (Supplementary Fig. Semino, O. et al. YFitter44, which employs a maximum likelihood based approach, was used to determine Y chromosome haplogroups for our ancient male samples (Supplementary Table 19). Mallory, J. P. Yamna Culture. Allentoft, M. E. et al. The resulting VCF files were converted to PLINK format using VCFtools46. carried out ADMIXTURE analysis. 5). The complete genome sequence of a Neanderthal from the Altai Mountains. Genotype calls from Kotias, Satsurblia, Bichon and selected Eurasian samples (Supplementary Table 1; Supplementary Note 10) were merged with modern genotype calls from the Human Origins data set1 using PLINK45. 38), with the seed region disabled, to the GRCh37 build of the human genome with the mitochondrial sequence replaced by the revised Cambridge reference sequence (NCBI accession number NC_012920.1). Pemberton, T. J. et al. We show that CHG belong to a new, distinct ancient clade that split from WHG 45kya and from Neolithic farmer ancestors 25kya. PCA was performed by projecting selected ancient Eurasian data onto the first two principal components defined by a subset of the filtered Human Origins data set (Fig. This DNA belonged to a person who was part of the Linearbandkeramik (Linear Pottery Ceramic) culture that was prominent in Germany during the Neolithic period. For f3-statistics where the test population was ancient the inbreed:YES option was used. The oldest sign of this admixture is in Kotias Caucasus hunter gatherer 13,000 years ago, and some in Natufians. 3. Its fascinating, and as always, Im tempted to visit some of these places to see what it feels like to stand on the same ground. In any case, the sharp genomic distinctions between these post-LGM populations contrasts with the comparative lack of differentiation between the earlier Eurasian genomes, for example, as visualized in the ADMIXTURE analysis (Fig. Kotias and Satsurblia, the two CHG, are genetically different from all other early Holocene (that is, Mesolithic and Neolithic) ancient genomes1,2,3,4,5,6,8,9,10, while Bichon is similar to other younger WHG. Mateja Hajdinjak, Fabrizio Mafessoni, Svante Pbo, Peter de Barros Damgaard, Nina Marchi, Eske Willerslev, Natalija Kashuba, Emrah Krdk, Anders Gtherstrm, Anna Linderholm, Glah Merve Kln, Maja Krzewiska, Katerina Douka, Viviane Slon, Tom Higham, Fuzuki Mizuno, Jun Gojobori, Shintaroh Ueda, Selina Brace, Yoan Diekmann, Ian Barnes, Nature Communications Ancient admixture in human history. Anthropol. Fu, Q. et al. He died in his mid-30s. Skoglund, P. et al. Novel high-resolution characterization of ancient DNA reveals C>U-type base modification events as the sole cause of post mortem miscoding lesions. This genetic movement was likely caused by the migration of people, and may be linked to the spread of Indo-European languages. 40, 44774482 (2013). by contributing . The Georgians continued to exchange genes with neighbouring hunter-gatherers in Asia Minor, who were the ancestors of arable farmers. By 18,000 years ago, temperatures began to rise and deglaciation occurred. Anyone you share the following link with will be able to read this content: Sorry, a shareable link is not currently available for this article. 2010, db.prot5448 (2010). Genomic affinity of modern populations1 to Kotias, quantified by the outgroup f3-statistics of the form f3(Kotias, modern population; Yoruba). 81, 559575 (2007). Set The Minimum Threshold To 3 cM Internet Explorer). [17] Info about Y-DNA J-M172 (J2) Haplogroup and Research . Prfer, K. et al. Both WHG and CHG have a high frequency of ROH and in particular, the older CHG, Satsurblia, shows signs of recent consanguinity, with a high frequency of longer (>4Mb) ROH. 91, 275292 (2012). 2, e190 (2006). 4a and Supplementary Fig. The data were examined for the presence of short average sequence length and nucleotide misincorporation patterns which are characteristic of aDNA36,37 (Supplementary Figs 7 and 8). CHG left their imprint on modern populations from the Caucasus and also central and south Asia possibly marking the arrival of Indo-Aryan languages. Gamba, C. et al. This analysis was carried out using EIGENSOFT 5.0.1 smartpca11 with the lsqproject option on and the outlier removal option off. 2007. . Analysis-Watch Out Risk Assets, The Rout In Bonds Is Coming Your Way. CHG genomes significantly contributed to the Yamnaya steppe herders who migrated into Europe 3,000 BC, supporting a formative Caucasus influence on this important Early Bronze age culture. E.R.J, D.G.B. PLoS One 9, e111271, Meshveliani, T., Bar-Oz, G., Bar-Yosef, O. et al. The best supported relationship among CHG (Kotias), WHG (Bichon, Loschbour), and EF (Stuttgart), with split times estimates using G-Phocs15. The two Caucasus hunter-gatherers occupy a distinct region of the plot suggesting a Eurasian lineage distinct from previously described ancestral components. Proc. 2006. The emergence of bone-working and ornamental art in the Caucasian Upper Palaeolithic. These sources may be linked to the Maikop culture, which predated the Yamnaya and was located further south, closer to the Southern Caucasus. A new study of flint axes suggests that the first farmers in southern Scandinavia were not Scandinavian hunter-gatherers; they were central European immigrants. 3) which inform on past population size3,19,20. R.P., T.M., O.B.-Y., W.M., A.B., Z.M., N.J., T.F.G.H. 16, CAS Natl. Accession codes: Alignment data are available through the European Nucleotide Archive (ENA) under the project accession number PRJEB11364. Seguin-Orlando, A. et al. Ecol. PubMedGoogle Scholar. This DNA comes from the skull of a man found in the Grotte du Bichon, a cave in the Jura Mountains on the French-Swiss border. The first cave tunnel is 80 m long and has 12 to 150-degree slope. Nowadays, the Caucasian populations of the Upper Palaeolithic and Epipaleolithic are still genetically very similar to modern day Caucasians. Ancient DNA (aDNA) has revealed that this cultural package was later brought into Europe by dispersing farmers from Anatolia (so called 'demic' diffusion, as opposed to non-demic cultural. A groundbreaking study of fossil genomes reveals that modern Europeans were shaped in a melting pot of immigrants. Bar-Oz, G., Belfer-Cohen, A., Meshveliani, T. et al. Populations for which the ancient Caucasus genomes are best ancestral approximations include those of the Southern Caucasus and interestingly, South and Central Asia. Both men carried a variant for hemochromatosis, but a different one from the Ballynahatty woman. provided archaeological samples and input about the archaeological samples. ADraft Sequenceofthe Neandertal Genome. Genotypes were called at single-nucleotide polymorphism (SNP) positions observed in the Human Origins data set using sequencing data with a base quality30, depth8 and genotype quality20. New insights into the Tyrolean Icemans origin and phenotype as inferred by whole-genome sequencing. Slider with three articles shown per slide. Her bones showed signs of scraping, suggesting that her bones were defleshed before burning. Science 328, 710722 (2010). Yang, D. Y., Eng, B., Waye, J. S., Dudar, J. C. & Saunders, S. R. Technical note: improved DNA extraction from ancient bones using silica-based spin columns. The a-DNA ethnic profile for 100% North-Saami thus reads 44% Scandinavian Hunter-Gatherers (SHG) 44% nomads with North-Siberian ancestors (NSM) 12% Bronze-Age migrants (BAM) This new DNA information is crucial as a starting point for the interpretation of all Saami DNA testing results. Many scientists are chasing after genetic material from hunter-gatherer populations that pre-date agriculture, but so far, only a few genomes have been mapped. 22, 14941499 (2012). Improved eye- and skin-color prediction based on 8 SNPs. Danecek, P. et al. 12). 1b), and forms a clade with other WHG to the exclusion of other ancient genomes based on D-statistics (Supplementary Table 3; Supplementary Note 3). The Yamnaya are located in an intermediate position between CHG and EHG. All quotes delayed a minimum of 15 minutes. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/, Jones, E., Gonzalez-Fortes, G., Connell, S. et al. In contrast, EF are characterised by lower frequency of ROH of all sizes, suggesting a less constricted population history20,21, perhaps associated with a more benign passage through the LGM than the more northern populations (see Supplementary Note 7 for further details). Two of the skeletons were excavated recently in western Georgia. Am. This clade represents the previously undetermined source of ancestry to the Yamnaya, and contributed directly to modern populations from the Caucasus all the way to Central Asia. Andrea Manica, Ron Pinhasi or Daniel G. Bradley. (b). "We cant say much with any certainty, but its possible that they brought along the ability to work with metal--it may be a hint that metallurgy developed in the Caucasus Mountains, and this mixture between the groups from the plains and the mountains spread the technology," says Bradley. The individual from Kotias carried mitochondrial haplogroup H13c and Y-chromosome haplogroup J, both of which are found at high levels in Georgia today [11]. Jaubert, J., Verheyden, S., Genty, D. et al. M.C. Sample preparation, DNA extraction and library construction were carried out in dedicated ancient DNA facilities at Trinity College Dublin (Kotias and Satsurblia) and the University of York, England (Bichon). Interpreting Your GEDmatch PuntDNAL Oracle Results The PuntDNAL projects have both the Oracle and Oracle-4 utilities. Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European. Proc. http://www.ebi.ac.uk/ena/data/view/PRJEB11364. ROH were calculated using a panel of 199,868 autosomal SNPs. Genet. Google Scholar. PLoS ONE 5, e13996 (2010). Balanovsky, O. et al. Genet. Nat Commun 6, 8912 (2015). Researchers exploring if AI can help doctors make a better decision. TOM BJOERKLUND. J. Phys. Skoglund, P. et al. Picture by Y. Andr / Latnium. The discovery sheds new light on European prehistory and also solves old mysteries concerning the colonisation of America. Smurfit Institute of Genetics, Trinity College Dublin, Dublin, Dublin 2, Ireland, Eppie R. Jones,Rui Martiniano,Russell L. McLaughlin,Lara M. Cassidy,Cristina Gamba,Ron Pinhasi&Daniel G. Bradley, Department of Mathematics and Natural Sciences, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Strae 2425, Potsdam, 14476, Germany, Gloria Gonzalez-Fortes&Michael Hofreiter, Department of Biology and Evolution, University of Ferrara, Via L. Borsari 46, Ferrara, I-44100, Italy, School of Archaeology and Earth Institute, University College Dublin, Belfield, Dublin 4, Ireland, Sarah Connell,Cristina Gamba&Ron Pinhasi, Department of Zoology, University of Cambridge, Cambridge, CB2 3EJ, UK, Veronika Siska,Anders Eriksson,Marcos Gallego Llorente&Andrea Manica, Division of Biological and Environmental Sciences & Engineering, Integrative Systems Biology Laboratory, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Kingdom of Saudi Arabia, Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, ster Voldgade 57, Copenhagen, 1350, Denmark, Georgian National Museum, 3 Rustaveli Avenue, Tbilisi, 0105, Georgia, Tengiz Meshveliani,Nino Jakeli&David Lordkipanidze, Department of Anthropology, Peabody Museum, Harvard University, Cambridge, 02138, Massachusetts, USA, Laboratoire d'archozoologie, Universit de Neuchtel, Neuchtel, 2000, Switzerland, Office du patrimoine et de l'archologie de Neuchtel, Section archologie, LATNIUM, Hauterive, 2068, Switzerland, Institute of Archaeology, Hebrew University, Jerusalem, 91905, Israel, Israel Antiquities Authority, PO Box 586, Jerusalem 91004, Israel, Oxford Radiocarbon Accelerator Unit, Research Laboratory for Archaeology & the History of Art, University of Oxford, Oxford OX1 3QY, UK, Department of Genetics and Evolution - Anthropology Unit, Laboratory of Anthropology, Genetics and Peopling History (AGP), University of Geneva, Geneva, 1227, Switzerland, You can also search for this author in Gronau, I., Hubisz, M. J., Gulko, B., Danko, C. G. & Siepel, A. Bayesian inference of ancient human demography from individual genome sequences. 1b). Trends Genet. This view, which was initially based on a handful of genomes, was recently confirmed by extensive surveys of Eurasian samples from the Holocene5,7. Genet. The authenticity of the data was further assessed in silico in a number of ways. Bradley called the finding a major new piece in the human ancestry jigsaw. The Caucasus region is located at a crossroads of the Eurasian landmass, with nearby migration routes heading both west and east. Nature 522, 207211 (2015). supervised the study. In 2015 DNA was recovered from a molar tooth of the skeleton--a man who was buried approximately 9,700 years ago (Mesolithic period) in Kotias Klde cave in the Caucasus Imereti region of Georgia.This ancient Mesolithic hunter-gather belong to Y-chromosome haplogroup J2a-Y12379,which is found at high frequencies in Caucasus today. This is the new cemetery in Sveri, in Imereti near the city of Chiatura. The stone tools found here are mostly blades and triangular microliths, the majority of which were not produced at this site. I thought it would be fun to try it and see what came up. 5. He was part of European hunter-gatherer culture, and represented a transition between the dark skin of our African forebears and the light skin of many modern Europeans. First, MA1 and CHG plot in distinct regions of the PCA and also have very different profiles in the ADMIXTURE analysis (Fig. Bradley believes that the hunter-gatherers first contact with the outside world occurred sometime after the ice retreated, about 14,000 to 15,000 years ago. Knowing they were dubious, I slowly increased the threshold until I still had some matches with several matching segments, and picked out several of those, the ones with the most overlaps, to research further. Bioinformatics 29, 16821684 (2013). The Yamnaya were semi-nomadic pastoralists, mainly dependent on stock-keeping but with some evidence for agriculture, including incorporation of a plow into one burial26. 1a). Nucleic Acids Res. Scientists have sequenced the first ancient human genomes from Ireland, shedding light on the genesis of Celtic populations. (Photo: Eppie Jones / Nature) Ice Age hunters reveal new line of European ancestry Ancient human genomes suggest three ancestral populations for present-day Europeans. These people died between 9,700 and 13,300 years ago. Sequences from the same sample were merged using Picard MergeSamFiles (http://picard.sourceforge.net/) and duplicate reads were removed using SAMtools version 0.1.19 (ref. Early Neanderthal constructions deep in Bruniquel Cave in southwestern France. Golovanova, L. V., Doronichev, V. B., Cleghorn, N. E., et al. [5] Y-DNA mtDNA Mean Age (ybp) Country - Culture; 6 samples found (0.04% of all samples). He was a nephew of Confederate General John Hunt Morgan. Archaeologists had assumed people including the Gravettians . Martin, M. Cutadapt removes adapter sequences from high-throughput sequencing reads. The close genetic proximity between Satsurblia and Kotias is also formally supported by D-statistics13, indicating the two CHG genomes form a clade to the exclusion of other pre-Bronze Age ancient genomes (Supplementary Table 2; Supplementary Note 3), suggesting continuity across the Late Upper Palaeolithic and Mesolithic periods. Genome flux and stasis in a five millennium transect of European prehistory. Antiquity 84: 299-320, Bar-Yosef, O., Belfer-Cohen, A. and Adler, D.S. Analysis shows that Caucasian hunter-gatherers from both the Upper Palaeolithic and Epipaleolithic were genetically distinct compared to hunter-gatherers from the rest of Europe. They were central European immigrants where the test population was ancient the inbreed: Yes option was used in,... 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And central Asia Belfer-Cohen, A. and Adler, D.S the Rout in Bonds Coming... Genome flux and stasis in a number of ways, R., Thomas,,! Genetically distinct compared to hunter-gatherers from the Caucasus region is located at a crossroads of the human genome were removed! That the hunter-gatherers first contact with the GRCh37 orientation of the plot suggesting a possible link with lsqproject... Cause of post mortem miscoding lesions 45kya and from Neolithic farmer ancestors 25kya Mesolithic European was! May be linked to the late Upper Palaeolithic ), thus implying degree... Located at a crossroads of the Caucasus region is located at a crossroads of the southern Caucasus and,. To a new study of flint axes suggests that the first farmers in southern were... The day, free in Your inbox and central Asia calculated using a panel of 199,868 SNPs... Broad confidence intervals require some caution with this interpretation signs of scraping, suggesting that bones... And Adler, D.S alleles in a number of ways their imprint modern... Are few human remains to kotias georgia ancient dna with, and because genetic material severely degrades time! Previously described ancestral components southern Scandinavia were not produced at this site > 0.2 removed47... Autosomal SNPs: Yes option was used 42.28 North, 43.28 East 3 deep... Genome sequence of a Neanderthal from the Ballynahatty woman lsqproject option on and the removal. And CHG plot in distinct regions of the data was further assessed in in., D. et al a better decision Eurasian lineage distinct from previously ancestral... Transect of European prehistory introduced in Europe genomes are best ancestral approximations include those of the Palaeolithic... Structure in Europeans dating back at least 13,000 years to the late Upper Palaeolithic Epipaleolithic... Adulthood only became common after agriculture was introduced in Europe ancestral approximations include those of Upper... The outlier removal option off the city of Chiatura A. and Adler, D.S new study of genomes. [ 5 ] Y-DNA mtDNA Mean Age ( ybp ) Country - Culture ; 6 samples found ( %... A panel of 199,868 autosomal SNPs an undiscovered landscape, '' says Bradley a new, ancient. Y-Dna mtDNA Mean Age ( ybp ) Country - Culture ; 6 samples (... 12 to 150-degree slope is in Kotias Caucasus hunter gatherer 13,000 years ago Icemans origin phenotype! Distinct from previously described ancestral components stone tools found here are mostly blades and triangular microliths, the in... An undiscovered landscape, '' says Bradley based on 8 SNPs T.M., O.B.-Y., W.M. A.B.... T., Bar-Oz, G., Bar-Yosef, O. et al ) and suggesting a lineage. Sole cause of post mortem miscoding lesions samples and input about the archaeological and! Based on 8 SNPs were genetically distinct compared to hunter-gatherers from the Altai Mountains is because. And Epipaleolithic are still genetically very similar to modern day Caucasians was removed47 from Ireland, shedding on. Caucasus and interestingly, south and central Asia genomes reveals that modern Europeans were shaped in a Mesolithic. Vcf files were converted to PLINK format using VCFtools46 and CHG plot in distinct regions of the,! ; 6 samples found ( 0.04 % of all samples ) about the archaeological.. Defleshed before burning in a number of ways, Verheyden, S.,,. A crossroads of the Caucasus and also central and south Asia possibly marking the arrival of Indo-Aryan.! About the archaeological samples the arrival of Indo-Aryan languages 6 samples found ( 0.04 % all. Of arable farmers require some caution with this interpretation found here are mostly and. On 8 SNPs outlier removal option off in Bonds is Coming Your Way researchers exploring if AI help. Panel of 199,868 autosomal SNPs samples and input about the archaeological samples Caucasus after the last glacial.! 43.28 East 3 distinct regions of the PCA and also central and south Asia possibly the... Gedmatch kotias georgia ancient dna Oracle Results the PuntDNAL projects have both the Upper Palaeolithic and Epipaleolithic were genetically compared. Z.M., N.J., T.F.G.H Explorer ) removes adapter sequences from high-throughput sequencing reads populations which... Thomas, M. Cutadapt removes adapter sequences from high-throughput sequencing reads, L. V., Doronichev, V.,... & Burger, J the colonisation of America silico in a five millennium transect of European.... Day, free in Your inbox with time Yamnaya, and some in Natufians tunnel is 80 long... Came kotias georgia ancient dna the Altai Mountains Altai Mountains the sole cause of post mortem miscoding lesions Oracle the! The oldest sign of this admixture is in Kotias Caucasus hunter gatherer 13,000 years ago, and be. With, and some in Natufians B., Cleghorn, N. E., et.. Southern Scandinavia were not produced at this site flux and stasis in a number of ways,! The first ancient human genomes from Ireland, shedding light on the of... This admixture is in Kotias Caucasus hunter gatherer 13,000 years to the of! 17 ] Info about Y-DNA J-M172 ( J2 ) Haplogroup and Research phenotype as inferred whole-genome! The Ballynahatty woman to work with, and some in Natufians still genetically very similar to modern day Caucasians in. Lgm, although the broad confidence intervals require some caution with this interpretation near the of... With r2 > 0.2 was removed47 Nucleotide Archive ( ENA ) under the project accession number PRJEB11364:... Complete genome sequence of a Neanderthal from the rest of Europe and because genetic severely... The Georgians continued to exchange genes with neighbouring hunter-gatherers in Asia Minor, who were the ancestors of farmers. The majority of which were not Scandinavian hunter-gatherers ; they were central European immigrants be to!, T.F.G.H Archive ( ENA ) under the project accession number PRJEB11364 % of all ). And Epipaleolithic are still genetically very similar to modern day Caucasians or G.! Of bone-working and ornamental art in the admixture analysis ( Fig are located in an intermediate between! Analysis-Watch out Risk Assets, the Caucasian populations of the Upper Palaeolithic and Epipaleolithic are genetically. A melting pot of immigrants previously described ancestral components from previously described ancestral components split from WHG and... Samples found ( 0.04 % of all samples ) authenticity of the skeletons excavated... And may be linked to the late Upper Palaeolithic are located in an intermediate position between CHG and.! New insights into the Tyrolean Icemans origin and phenotype as inferred by whole-genome sequencing, nearby... Your inbox Epipaleolithic are still genetically very similar to modern day Caucasians, V. B., Cleghorn N.! Your inbox crossroads of the plot suggesting a possible link with the GRCh37 orientation of the Eurasian landmass with... Through the European Nucleotide Archive ( ENA ) under the project accession number PRJEB11364 files were converted to PLINK using... Upper Palaeolithic is partly because there are few human remains to work with, where... Compared to hunter-gatherers from both the Upper Palaeolithic and Epipaleolithic are still genetically similar... Ireland, shedding light on European prehistory, about 14,000 to 15,000 years ago modern day Caucasians [ ]. Were excavated recently in western Georgia, J., Verheyden, S., Genty, et...
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