38562f9a5bc0dfb356cd4dd256f3c368 Redefining_the_treponemal_history.pdf efadb2edc40a86f71778a12d3f2e4744992feaf5 Redefining_the_treponemal_history.pdf 09f55de8800be0e4fa3b45362ee34e09a65f42d4f8de8c19da6f7881b0099f0d Redefining_the_treponemal_history.pdf Title: Redefining the treponemal history through pre-Columbian genomes from Brazil Subject: Nature, doi:10.1038/s41586-023-06965-x Keywords: Author: Kerttu Majander Creator: Springer CreationDate: Mon Feb 26 10:04:05 2024 CET ModDate: Mon Feb 26 10:05:07 2024 CET Custom Metadata: no Metadata Stream: yes Tagged: no UserProperties: no Suspects: no Form: AcroForm JavaScript: no Pages: 26 Encrypted: no Page size: 595.276 x 790.866 pts Page rot: 0 File size: 8814028 bytes Optimized: yes PDF version: 1.4 name type encoding emb sub uni object ID ------------------------------------ ----------------- ---------------- --- --- --- --------- DRKTWH+ArialUnicodeMS CID TrueType Identity-H yes yes yes 1325 0 GraphikNaturel-Bold Type 1C WinAnsi yes no 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LastModified: 2024-07-19 01:35:07 CEST Size: 8814028 Format: PDF Version: 1.4 Status: Well-Formed, but not valid SignatureMatches: PDF-hul ErrorMessage: edu.harvard.hul.ois.jhove.module.pdf.PdfInvalidException: Invalid name tree ID: PDF-HUL-122 Offset: 8698052 MIMEtype: application/pdf Profile: Linearized PDF PDFMetadata: Objects: 1444 FreeObjects: 1 IncrementalUpdates: 1 DocumentCatalog: ViewerPreferences: HideToolbar: false HideMenubar: false HideWindowUI: false FitWindow: false CenterWindow: false DisplayDocTitle: false NonFullScreenPageMode: UseNone Direction: L2R ViewArea: CropBox ViewClip: CropBox PrintArea: CropBox PageClip: CropBox PageLayout: SinglePage PageMode: UseOutlines Language: en-US Outlines: Item: Title: Redefining the treponemal history through pre-Columbian genomes from Brazil Children: Item: Title: Geographical origins and palaeopathology Item: Title: Preliminary pathogen screening Item: Title: Authenticity estimation of ancient DNA Item: Title: Genome reconstruction Item: Title: Multiple reference-based genome alignment Item: Title: Phylogenetic and recombination analyses Item: Title: Molecular clock dating Item: Title: Discussion Children: Item: Title: Bejel in focus Item: Title: Consequences for T. pallidum evolution Item: Title: Online content Item: Title: Fig. 1 The archaeological site and the T. Item: Title: Fig. 2 Analysis of the high-coverage genome ZH1540. Item: Title: Fig. 3 Molecular clock dating results. Item: Title: Extended Data Fig. 1 Calibrated 14C-dating curves of samples used for ancient genome reconstruction and damage profiles for aDNA authentication. Item: Title: Extended Data Fig. 2 Comparison of the topologies of maximum-likelihood (ML) trees. Item: Title: Extended Data Fig. 3 Maximum-likelihood (ML) tree with recombinant, hypervariable and 16S, 23S genes excluded. Item: Title: Extended Data Fig. 4 Root-to-tip divergence against sampling date of T. Item: Title: Extended Data Fig. 5 Posterior densities of the times of the most recent ancestors (tMRCAs) of the T. Item: Title: Extended Data Fig. 6 Maximum-clade credibility (MCC) tree from the molecular clock dating analysis of the 98 genome context dataset with ZH1540 included (n = 99). Item: Title: Extended Data Fig. 7 Maximum-clade credibility (MCC) tree from the molecular clock dating analysis of the 98 genome context dataset with ZH1540 excluded (n = 98). Item: Title: Table 1 Summary of the sample information and central statistics. Item: Title: Extended Data Table 1 Divergence dates. Info: Title: Redefining the treponemal history through pre-Columbian genomes from Brazil Author: Kerttu Majander Subject: Nature, doi:10.1038/s41586-023-06965-x Keywords: Creator: Springer CreationDate: Mon Feb 26 10:34:05 CET 2024 ModDate: Mon Feb 26 10:35:07 CET 2024 ID: 0x6ad5ee8de8fe254481cac235136d5f3d, 0x316471635f184f4cb682d79546f8c1b0 Filters: FilterPipeline: FlateDecode FilterPipeline: DCTDecode Images: Image: NisoImageMetadata: FormatName: image/png ImageWidth: 90 ImageHeight: 79 BitsPerSample: 8 BitsPerSampleUnit: integer Filter: FlateDecode Intent: RelativeColorimetric Decode: 0, 255 Name: X Image: NisoImageMetadata: FormatName: image/png ImageWidth: 1606 ImageHeight: 262 BitsPerSample: 8 BitsPerSampleUnit: integer Filter: FlateDecode Intent: RelativeColorimetric Decode: 0, 255 Name: X Image: NisoImageMetadata: FormatName: image/jpg CompressionScheme: JPEG ImageWidth: 1071 ImageHeight: 781 BitsPerSample: 8 BitsPerSampleUnit: integer Intent: RelativeColorimetric Name: X 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Nature, doi:10.1038/s41586-023-06965-x Redefining the treponemal history through pre-Columbian genomes from Brazil Kerttu Majander Marta Pla-Díaz Louis Plessis Natasha Arora Jose Filippini Luis Pezo-Lanfranco Sabine Eggers Fernando González-Candelas Verena J. 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