Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample
Sandoval-Velasco, Marcela (University of Copenhagen)
Dudchenko, Olga (Rice University)
Rodríguez, Juan Antonio (Centre Nacional d'Anàlisi Genòmica)
Pérez Estrada, Cynthia (Rice University)
Dehasque, Marianne (Stockholm University)
Fontsere, Claudia (University of Copenhagen)
Mak, Sarah S.T. (University of Copenhagen)
Khan, Ruqayya (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Contessoto, Vinícius G. (Rice University)
Oliveira Junior, Antonio B. (Rice University)
Kalluchi, Achyuth (University of Nebraska Medical Center)
Zubillaga Herrera, Bernardo (Northeastern University)
Jeong, Jiyun (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Roy, Renata P. (Texas Southern University)
Christopher, Ishawnia (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Weisz, David (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Omer, Arina D. (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Batra, Sanjit S. (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Shamim, Muhammad S. (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Durand, Neva C. (Broad Institute of MIT and Harvard)
O'Connell, Brendan (Oregon Health & Science University)
Roca, Alfred L. (University of Illinois at Urbana-Champaign)
Plikus, Maksim V. (University of California. Irvine)
Kusliy, Mariya A. (Institute of Molecular and Cellular Biology SB RAS)
Romanenko, Svetlana A. (Institute of Molecular and Cellular Biology SB RAS)
Lemskaya, Natalya A. (Institute of Molecular and Cellular Biology SB RAS)
Serdyukova, Natalya A. (Institute of Molecular and Cellular Biology SB RAS)
Modina, Svetlana A. (Institute of Molecular and Cellular Biology SB RAS)
Perelman, Polina L. (Institute of Molecular and Cellular Biology SB RAS)
Kizilova, Elena A. (Institute of Cytology and Genetics SB RAS)
Baiborodin, Sergei I. (Institute of Cytology and Genetics SB RAS)
Rubtsov, Nikolai B. (Institute of Cytology and Genetics SB RAS)
Machol, Gur (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Rath, Krisha (Baylor College of Medicine (Houston, Estats Units d'Amèrica))
Mahajan, Ragini (Rice University)
Kaur, Parwinder (University of Western Australia)
Gnirke, Andreas (Broad Institute of MIT and Harvard)
Garcia-Treviño, Isabel (San Antonio Zoo)
Coke, Rob (San Antonio Zoo)
Flanagan, Joseph P. (Houston Zoo)
Pletch, Kelcie (Houston Zoo)
Ruiz-Herrera Moreno, Aurora (Universitat Autònoma de Barcelona. Departament de Biologia Cel·lular, de Fisiologia i d'Immunologia)
Plotnikov, Valerii (Academy of Sciences of the Republic of Sakha)
Pavlov, Innokentiy S. (Academy of Sciences of the Republic of Sakha)
Pavlova, Naryya I. (Institute of Biological Problems of Cryolitezone SB RAS)
Protopopov, Albert V. (North-Eastern Federal University)
Di Pierro, Michele (Northeastern University)
Graphodatsky, Alexander S. (Institute of Molecular and Cellular Biology SB RAS)
Lander, Eric S. (Department of Biology. Massachusetts Institute of Technology)
Rowley, M. Jordan (University of Nebraska Medical Center)
Wolynes, Peter G. (Rice University)
Onuchic, José N. (Rice University)
Dalén, Love (Stockholm University)
Marti-Renom, MarcA. (Universitat Pompeu Fabra)
Gilbert, M.Thomas P. (University Museum NTNU)
Aiden, Erez L. (Broad Institute of MIT and Harvard)
Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí"

Data:	2024
Resum:	Analyses of ancient DNA typically involve sequencing the surviving short oligonucleotides and aligning to genome assemblies from related, modern species. Here, we report that skin from a female woolly mammoth (†Mammuthus primigenius) that died 52,000 years ago retained its ancient genome architecture. We use PaleoHi-C to map chromatin contacts and assemble its genome, yielding 28 chromosome-length scaffolds. Chromosome territories, compartments, loops, Barr bodies, and inactive X chromosome (Xi) superdomains persist. The active and inactive genome compartments in mammoth skin more closely resemble Asian elephant skin than other elephant tissues. Our analyses uncover new biology. Differences in compartmentalization reveal genes whose transcription was potentially altered in mammoths vs. elephants. Mammoth Xi has a tetradic architecture, not bipartite like human and mouse. We hypothesize that, shortly after this mammoth's death, the sample spontaneously freeze-dried in the Siberian cold, leading to a glass transition that preserved subfossils of ancient chromosomes at nanometer scale.
Ajuts:	Agencia Estatal de Investigación PID2020-115696RB-I00 European Commission 609989 European Commission 681396 Agencia Estatal de Investigación PID2020-112557GB-I00 Agencia Estatal de Investigación CGL2017-83802-P
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Llengua:	Anglès
Document:	Article ; recerca ; Versió publicada
Publicat a:	Cell, Vol. 187, Issue 14 (July 2024) , p. 3541-3562.e51, ISSN 1097-4172

DOI: 10.1016/j.cell.2024.06.002
PMID: 38996487

74 p, 25.1 MB

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