Arqueoproteómica como complemento de estudios paleopatológicos en restos óseos humanos de la Cueva de Plaza, Chubut, Argentina: alcances y limitaciones
DOI:
https://doi.org/10.24215/18536387e062Palabras clave:
proteómica, bioarqueología, paleopatología, Pampa-PatagoniaResumen
En este trabajo se propone realizar por primera vez en Argentina un análisis proteómico por espectrometría de masas de una falange humana con una alteración macroscópica proveniente de un conjunto arqueológico recuperado en el sitio Cueva de Plaza (Chubut, Argentina). Se presentan dos métodos de extracción de proteínas de restos óseos arqueológicos para ser analizadas con un espectrómetro de masas. Ambos métodos permitieron obtener resultados no excluyentes con información parcialmente redundante y complementaria. Se identificaron proteínas como colágenos, fibronectina, proteínas de cartílago, de hueso, de músculo y de sangre y conjuntos de proteínas asociadas al sistema inmune y a otras vías metabólicas, en menor cantidad. Las proteínas identificadas son consistentes con la existencia de un trauma en proceso de reparación en el elemento óseo analizado.
Descargas
Métricas
Citas
Alves, P., Arnold, R. J., Novotny, M. V., Radivojac, P., Reilly, J. P. y Tang, H. (2007). Advancement in protein inference from shotgun proteomics using peptide detectability. Pacific Symposium of Biocomputing, 409-420. https://doi.org/10.1142/9789812772435_0039
Appleby, J., Thomas, R. y Buikstra, J. (2015). Increasing confidence in paleopathological diagnosis–Application of the Istanbul terminological framework. International Journal of Paleopathology, 8, 19-21. https://doi.org/10.1016/j.ijpp.2014.07.003
Behar, S. M., Martin, C. J., Booty, M. G., Nishimura, T., Zhao, X., Gan, H. X., Divangahi, M. y Remold, H. G. (2011). Apoptosis is an innate defense function of macrophages against Mycobacterium tuberculosis. Mucosal immunology, 4(3), 279-287. https://doi.org/10.1038/mi.2011.3
Bona, A., Papai, Z., Maasz, G., Toth, G. A., Jambor, E., Schmidt, J., Toth, C., Farkas, C. y Mark, L. (2014). Mass Spectrometric Identification of Ancient Proteins as Potential Molecular Biomarkers for a 2000-Year-Old Osteogenic Sarcoma. Plos One 9(1), e87215. https://doi.org/10.1371/journal.pone.0087215
Bue, M., Bergholt, N., Kruse Jensen, L., Jensen, H., Søballe, H., Stilling, M. y Hanberg, P. (2020). Inflammatory proteins in infected bone tissue – An explorative porcine study, Bone Reports, 13, 100292. https://doi.org/10.1016/j.bonr.2020.100292
Buonasera, T., Eerkens, J., de Flamingh, A., Engbring, L., Yip, J., Li, H., Haas, R., DiGiuseppe, D., Grant, D., Salemi, M., Nijmeh, C., Arellano, M., Leventhal, A., Phinney, B., Byrd, B., Malhi, R. y Parker, G. (2020). A comparison of proteomic, genomic, and osteological methods of archaeological sex estimation. Scientific reports, 10(1), 1-15. https://doi.org/10.1038/s41598-020-68550-w
Cappellini, E., Prohaska, A., Racimo, F., Welker, F., Pedersen, W., Allentoft, E., Damgaard, P., Gutenbrunner, P., Dunne, J., Hammann,S., Roffet-Salque, M., Ilardo, M., J. Moreno-Mayar, V., Wang, Y., Sikora, M., Vinner, L., Cox, J., Evershed, R. y Willerslev, E. (2018). Ancient biomolecules and evolutionary inference. Annual Review of Biochemistry, 87, 1029-1060. https://doi.org/10.1146/annurev-biochem-062917-012002
Colgrave, M. L., Allingham, P. G., Tyrrell, K. y Jones, A. (2019). Multiple Reaction Monitoring for the Accurate Quantification of Amino Acids: Using Hydroxyproline to Estimate Collagen Content. Molecular Biology, 2030, 33-45. https://doi.org/10.1007/978-1-61779-445-2_23
Currey, J. D. (1984). The Mechanical Adaptation of Bone. Princeton: University Press.
Csapo, R., Gumpenberger, M. y Wessner, B. (2020). Skeletal Muscle Extracellular Matrix - What Do We Know About Its Composition, Regulation, and Physiological Roles? A Narrative Review. Frontiers in physiology, 11, 253, 1-15. https://doi.org/10.3389/fphys.2020.00253
Epsley, S., Tadros, S., Farid, A., Kargilis, D., Mehta, S. y Rajapakse, C. S. (2021). The effect of inflammation on bone. Frontiers in physiology, 1695. https://doi.org/10.3389/fphys.2020.511799
Fabregat, A., Jupe, S., Matthews, L., Sidiropoulos, K., Gillespie, M., Garapati, P., Haw, R., Jassal, B., Korninger, F., May, B., Milacic, M., Duenas Roca, C., Rothfels, K., Sevilla, C., Shamovsky, V., Shorser, S., Varusai, T., Viteri, G., Weiser, J., Wu, G., Stein, L., Hermjakob, H. y D’Eustachio, P. (2018). The reactome pathway knowledgebase. Nucleic Acids Research, 46(D1), D649-D655. https://doi.org/10.1093/nar/gkx1132
Fernández-Tresguerres-Hernández-Gil, I., Alobera Gracia, M. A., del Canto Pingarrón, M. y Blanco Jerez, L. (2006). Physiological bases of bone regeneration I. Histology and physiology of bone tissue. Medicina Oral, Patología Oral y Cirugía Bucal, 11, E47-51. http://hdl.handle.net/10550/63573
Hasegawa, T. y Ishii, M. (2020). Visualizing bone tissue in homeostatic and pathological conditions. Proceedings of the Japan Academy, Series B, 96(2), 43-49. https://doi.org/10.2183/pjab.96.004
Hendy, J., Welker, F., Demarchi, B., Speller, C., Warinner, C. y Collins, M. J. (2018). A guide to ancient protein studies. Nature Ecology & Evolution, 2(5), 791-799. https://doi.org/10.1038/s41559-018-0510-x
Hill, R. C., Wither, M. J., Nemkov, T., Barrett, A., D'Alessandro, A., Dzieciatkowska, M. y Hansen, K. C. (2015). Preserved proteins from extinct Bison latifrons identified by tandem mass spectrometry; hydroxylysine glycosides are a common feature of ancient collagen. Molecular & Cellular Proteomics, 14(7), 1946-1958. https://doi.org/10.1074/mcp.M114.047787
Hodges, J. A. y Raines, R. T. (2003). Stereoelectronic effects on collagen stability: the dichotomy of 4-fluoroproline diastereomers. Journal of the American Chemical Society, 125(31), 9262-9263. https://doi.org/10.1021/ja035881z
Ishihama, Y., Oda, Y., Tabata, T., Sato, T., Nagasu, T., Rappsilber, J. y Mann, M. (2005). Exponentially Modified Protein Abundance Index (emPAI) for Estimation of Absolute Protein Amount in Proteomics by the Number of Sequence11d Peptides per Protein. Molecular & Cellular Proteomics, 4(9), 1265-1272
Johnson, E. (1985). Current Developments in Bone Technology. Advances in Archaeological Method and Theory, 8, 157–235. https://doi.org/10.1074/mcp.M500061-MCP200
Kovtun, A., Messerer, D., Scharffetter-Kochanek, K., Huber-Lang, M. e Ignatius, A. (2018). Neutrophils in Tissue Trauma of the Skin, Bone, and Lung: Two Sides of the Same Coin. Journal of immunology research, 8173983, 1-12. https://doi.org/10.1155/2018/8173983
Kovtun A., Bergdolt, S., Wiegner, R., Radermacher, P., Huber-Lang, M. e Ignatius, A. (2016) The crucial role of neutrophil granulocytes in bone fracture healing. European Cells & Materials, 25(32), 15262. https://www.researchgate.net/profile/AnnaVikman/publication/305634678_The_crucial_role_of_neutrophil_granulocytes_in_bone_fracture_healing/links/57baa5e108ae14f440bd9330/The-crucial-role-of-neutrophil-granulocytes-in-bone-fracture-healing.pdf
Lanigan, T., Mackie, M., Feine, S., Hublin, J. J., Schmitz, R., Wilcke, A., Collins, M., Cappellini, E., Olsen, J., Taurozzi, A. y Welker, F. (2020). Multi-protease analysis of Pleistocene bone proteomes. Journal of Proteomics, 228, 103889. https://doi.org/10.1016/j.jprot.2020.103889
Leo, G., Bonaduce, I., Andreotti, A., Marino, G., Pucci, P., Colombini, M. P. y Birolo, L. (2011). Deamidation at asparagine and glutamine as a major modification upon deterioration/aging of proteinaceous binders in mural paintings. Analytical Chemistry, 83(6), 2056-2064. https://doi.org/10.1021/ac1027275
Liu, H. y Pope, R. M. (2003). The role of apoptosis in rheumatoid arthritis. Current opinion in pharmacology, 3(3), 317-322. https://doi.org/10.1016/S1471-4892(03)00037-7
Lyman, R. (1994). Vertebrate Taphonomy. Cambridge: Cambridge University Press.
Mays, S. (2018). How should we diagnose disease in palaeopathology? Some epistemological considerations. International Journal of Paleopathology, 20, 12-19. https://doi.org/10.1016/j.ijpp.2017.10.006
McGrath, K., Rowsell, K., St-Pierre, C. G., Tedder, A., Foody, G., Roberts, C., Speller, C. y Collins, M. (2019). Identifying archaeological bone via non-destructive ZooMS and the materiality of symbolic expression: examples from Iroquoian bone points. Scientific reports, 9(1), 1-10. https://doi.org/10.1038/s41598-019-47299-x
Mi, H. y Thomas, P. (2009). PANTHER pathway: an ontology-based pathway database coupled with data analysis tools. Protein Networks and Pathway Analysis, 563, 123-140. https://doi.org/ 10.1007/978-1-60761-175-2_7
Mickleburgh, H. L., Schwalbe, E. C., Bonicelli, A., Mizukami, H., Sellitto, F., Starace, S., Wescott, D., Carter, D. y Procopio, N. (2021). Human Bone Proteomes before and after Decomposition: Investigating the Effects of Biological Variation and Taphonomic Alteration on Bone Protein Profiles and the Implications for Forensic Proteomics. Journal of proteome research, 20(5), 2533-2546. https://doi.org/10.1021/acs.jproteome.0c00992
Nesvizhskii, A. I. (2007). Protein identification by tandem mass spectrometry and sequence database searching. Methods in Molecular Biology, 367, 87–119. https://doi.org/10.1385/1-59745-275-0:87
Procopio, N., Chamberlain, A. T. y Buckley, M. (2018). Exploring biological and geological age-related changes through variations in intra-and intertooth proteomes of ancient dentine. Journal of proteome research, 17(3), 1000-1013. https://doi.org/10.1021/acs.jproteome.7b00648
Ricard-Blum, S. (2011). The Collagen Family. Cold Spring Harbor perspectives in biology, 3(1), a004978, 1-19. https://doi.org/10.1101/cshperspect.a004978
Satyam, A., Graef, E. R., Lapchak, P. H., Tsokos, M. G., Dalle Lucca, J. J. y Tsokos, G. C. (2019). Complement and coagulation cascades in trauma. Acute medicine & surgery, 6(4), 329–335. https://doi.org/10.1002/ams2.426
Sawafuji, R., Cappellini, E., Nagaoka, T., Fotakis, A. K., Jersie-Christensen, R. R., Olsen, J. V., Hirata, K. y Ueda, S. (2017). Proteomic profiling of archaeological human bone. Royal Society open science, 4(6), 161004. https://doi.org/10.1098/rsos.161004
Scheinsohn, V., Leonardt, S., Rizzo, F., Evans, D., Fernández, M., Hammond, H., Miranda P., Zilio, L., Tchilinguirián, P., Maksemchuck S., Kuperszmit N. y Plaza, H. (2022). Prácticas funerarias en el valle del Genoa (Chubut, Argentina) en el Holoceno Tardío final. Un abordaje del sitio Cueva de Plaza a partir de múltiples líneas de evidencias. Intersecciones en Antropología 23(1), 21-35. https://doi.org/10.37176/iea.23.1.2022.655
Schmidt-Schultz, T. H. y Schultz, M. (2004). Bone protects proteins over thousands of years: extraction, analysis, and interpretation of extracellular matrix proteins in archeological skeletal remains. American Journal of Physical Anthropology, 123 (1), 30-39. https://doi.org/10.1002/ajpa.10308
Sidiropoulos, K., Viteri, G., Sevilla, C., Jupe, S., Webber, M., Orlic-Milacic, M., Jassal, B., May, B., Shamovsky, V., Duenas, C., Rothfels, K., Matthews, L., Song, H., Stein, L., Haw, R., D’Eustachio, P., Ping, P., Hermjakob, H. y Fabregat, A. (2017). Reactome enhanced pathway visualization. Bioinformatics, 33(21), 3461-3467. https://doi.org/10.1093/bioinformatics/btx441
Thomas, Paul D., Ebert, D., Muruganujan, A. M., Mushayahama, T., Albou, L.-P. y Mi, H. (2022). PANTHER: Making genome-scale phylogenetics accessible to all. Protein Society 31(1), 8-22. https://doi.org/10.1002/pro.4218
Warinner, C., Rodrigues, J. F. M., Vyas, R., Trachsel, C., Shved, N., Grossmann, J., Radini, A., Hancock, Y., Tito, R., Fiddyment, S., Speller, C., Hendy, J., Charlton, S., Luder, H., Salazar-García, D., Eppler, E., Seiler, R., Hansen, H. y Cappellini, E. (2014). Pathogens and host immunity in the ancient human oral cavity. Nature genetics, 46(4), 336-344. https://doi.org/10.1038/ng.2906
Welker, F., Collins, M. J., Thomas, J. A., Wadsley, M., Brace, S., Cappellini, E., Turvey, S., Reguero, M., Gelfo, J., Kramarz, A., Burger, J., Thomas-Oates, J., Ashford, D., Ashton, P., Rowsell, P., Porter, D., Kessler, B., Fischer, R., Baessmann, C. y MacPhee, R. D. (2015). Ancient proteins resolve the evolutionary history of Darwin’s South American ungulates. Nature, 522(7554), 81-84. https://doi.org/10.1038/nature14249
Welker, F., Ramos-Madrigal, J., Gutenbrunner, P., Mackie, M., Tiwary, S., Rakownikow Jersie-Christensen, R., Chiva, C., Dickinson, M., Kuhlwilm, M., de Manuel, M., Gelabert, P., Martinón-Torres, M., Margvelashvili, A., Arsuaga, J., Carbonell, E., Marques-Bonet, T., Penkman, K., Sabidó, E., Cox, J. y Cappellini, E. (2020). The dental proteome of Homo antecessor. Nature, 580(7802), 235-238. https://doi.org/10.1038/s41586-020-2153-8
Wheater, P. R., Burkitt, H. G. y Daniels, V. G. (1987). Functional Histology. New York: Churchill Livingstone.
Young, M. F. (2003). Bone matrix proteins: more than markers. Calcified Tissue International, 72(1), 2. https://doi.org/10.1007/s00223-002-1017-6
Descargas
Archivos adicionales
Publicado
Cómo citar
Número
Sección
Licencia
Derechos de autor 2022 Ricardo Martín Neme Tauil, Denise Evans, Paula Miranda De Zela, Silvia Moreno, Fabián Crespo, Vivian ScheinsohnLa RAAB es una revista de acceso abierto tipo diamante. No se aplican cargos para la lectura, el envío de los trabajos ni tampoco para su procesamiento. Asímismo, los autores mantienen el copyright sobre sus trabajos así como también los derechos de publicación sin restricciones.