Một hệ thống đặt tên thống nhất dựa trên phát sinh chủng loại cho các biến thể histone

Springer Science and Business Media LLC - 2012
Paul B. Talbert1, Kami Ahmad2, Geneviève Almouzni3, Juan Ausió4, Frédéric Berger5, Prem L. Bhalla6, William M. Bonner7, W. Zacheus Cande8, Brian P. Chadwick9, Simon W. L. Chan10, George A.M. Cross11, Liwang Cui12, Stéfan Dimitrov13, Detlef Doenecke14, José M. Eirín‐López15, Martin A. Gorovsky16, Sandra B. Hake17, Barbara A. Hamkalo18, Sarah Holec5, Steven E. Jacobsen19, Kinga Kamieniarz20, Saadi Khochbin21,22, Andreas G. Ladurner23, David Landsman24, John Latham1, Benjamin Loppin25, Harmit S. Malik1, William F. Marzluff26, John R. Pehrson27, Jan Postberg28, Robert Schneider20, Mohan B. Singh6, Megan Smith29, Eric M. Thompson30, Maria-Elena Torres-Padilla31, David J. Tremethick32, Bryan M. Turner33, Jakob H. Waterborg34, Heike Wollmann5, Ramesh Yelagandula5, Bing Zhu35, Steven Henikoff1
1Howard Hughes Medical Institute, Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, 98109, USA
2Department of BCMP, Harvard Medical School, Boston, MA, 02115, USA
3CNRS, UMR 218, Institut Curie, Centre de Recherche, Paris, F-75248, cx 05, France
4Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC, V8W 3P6, Canada
5Temasek Lifesciences Laboratory, 1 Research Link, National University of Singapore, Singapore, 117604, Singapore
6Plant Molecular Biology and Biotechnology Group, Melbourne School of Land and Environment, The University of Melbourne, Parkville, VIC, 3010, Australia
7Laboratory of Molecular Pharmacology, CCR, NCI, NIH, Bethesda, MD 20892, USA
8Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720-3200, USA
9Department of Biological Science, Florida State University, Tallahassee, FL 32306-4295, USA
10Department of Plant Biology, UC Davis / HHMI, Davis, CA, 95616, USA
11Laboratory of Molecular Parasitology, The Rockefeller University, New York, NY 10065, USA
12Department of Entomology, Pennsylvania State University, University Park, PA, 16802, USA
13Laboratoire de Biologie Moléculaire et Cellulaire de la Différenciation, Institut Albert Bonniot, INSERM/UJF U821, Grenoble, France
14Department of Biochemistry, University of Goettingen, Goettingen, D-37073, Germany
15Department of Cellular and Molecular Biology, University of A Coruna, A Coruna, E15071, Spain
16Department of Biology, University of Rochester, Rochester, NY 14627, USA
17Center for Integrated Protein Science Munich at the Adolf-Butenandt Institute, Department for Molecular Biology, Ludwig-Maximilians-University Munich, Munich, 80336, Germany
18Department of Molecular Biology and Biochemistry, University of CA, Irvine, CA, 92697, USA
19Howard Hughes Medical Institute, Department of Molecular Cellular and Developmental Biology, University of California, Los Angeles, CA, 9009, USA
20Max Planck Institute for Immunbiology and Epigenetics, Freiburg, 79108, Germany
21INSERM, U823
22Université Joseph Fourier - Grenoble 1, La Tronche, F-38706, France
23Department of Physiological Chemistry, Butenandt Institute and Biomedical Center, Ludwig Maximilians University of Munich, Munich, 81377, Germany
24National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894, USA
25CGphiMC - CNRS UMR5534, Claude Bernard University Lyon1 - University of Lyon, Villeurbanne, 69622, Cedex, France
26Program in Molecular Biology and Biotechnology, University of North Carolina, Chapel Hill, NC, 27599, USA
27Department of Animal Biology, University of Pennsylvania, Philadelphia, PA, 19104-6046, USA
28HELIOS Medical Centre Wuppertal, Paediatrics Centre, Witten/Herdecke University, Wuppertal, D-42283, Germany
29Department of Microbiology, Immunology, and Cancer Biology, University of Virginia, Charlottesville, VA 22908, USA
30Sars International Center for Marine Molecular Biology and Department of Biology, University of Bergen, Bergen, N-5008, Norway
31Stem Cells and Developmental Biology, Institut de Génétique et de Biologie Moléculaire et Cellulaire, CNRS/INSERM U964, Universite de Strasbourg, Illkirch, CU de, Strasbourg, F-67404, France
32The John Curtin School of Medical Research, Genome Biology Department, The Australian National University, Canberra, ACT, 2601, Australia
33College of Medical and Dental Sciences, University of Birmingham, Birmingham, B15 2TT, UK
34Cell Biology and Biophysics, School of Biological Sciences, University of Missouri-Kansas City, Kansas City, MO, 64110, USA
35Chromatin Lab, National Institute of Biological Sciences, Beijing, Beijing, 102206, China

Tóm tắt

Tóm tắt

Các biến thể histone là các isoform protein không đồng phân có vai trò quan trọng trong việc đa dạng hóa cấu trúc nhiễm sắc. Số lượng biến thể đã biết đã tăng lên đáng kể trong những năm gần đây, nhưng sự thiếu hụt quy tắc đặt tên cho chúng đã dẫn đến nhiều phong cách đặt tên khác nhau, nhiều từ đồng nghĩa và các từ đồng âm gây nhầm lẫn, làm mờ nhạt mối quan hệ giữa các biến thể và làm phức tạp việc tìm kiếm trong cơ sở dữ liệu. Chúng tôi đề xuất một hệ thống đặt tên thống nhất cho các biến thể của cả năm loại histone, sử dụng các quy tắc đặt tên nhất quán nhưng linh hoạt để tạo ra các tên gọi có thông tin và dễ tìm kiếm. Hệ thống đặt tên này dựa trên sự sử dụng lịch sử và kết hợp các mối quan hệ phát sinh chủng loại, điều này là những dự đoán mạnh mẽ về cấu trúc và chức năng. Một đặc điểm chính là việc sử dụng dấu câu một cách nhất quán để đại diện cho sự phân rã phát sinh chủng loại, làm rõ ràng mối quan hệ giữa các kiểu biến thể mà trước đây chưa được rõ ràng. Chúng tôi khuyến nghị rằng theo mặc định, các biến thể histone mới được đặt tên với hậu tố số đại diện cho paralog của loài cụ thể mà không có ý nghĩa phát sinh chủng loại, trong khi các hậu tố chữ được dành riêng cho những nhánh biến thể có cấu trúc khác biệt. Để rõ ràng và dễ tìm kiếm, chúng tôi khuyến khích việc sử dụng các mô tả tách biệt khỏi tên biến thể dựa trên phát sinh chủng loại để chỉ ra các thuộc tính phát triển và những thuộc tính khác của các biến thể có thể độc lập với cấu trúc.

Từ khóa


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