A unified phylogeny-based nomenclature for histone variants
Paul Talbert
(1)
,
Kami Ahmad
(2)
,
Geneviève Almouzni
(3)
,
Juan Ausió
(4)
,
Frederic Berger
(5)
,
Prem Bhalla
(6)
,
William Bonner
(7)
,
Zacheus W. Cande
(8)
,
Brian Chadwick
(9)
,
Simon W. Chan
(10)
,
George A. Cross
(11)
,
Liwang Cui
(12)
,
Stefan Dimitrov
(13)
,
Detlef Doenecke
(14)
,
José Eirin-López
(15)
,
Martin Gorovsky
(16)
,
Sandra Hake
(17)
,
Barbara Hamkalo
(18)
,
Sarah Holec
(5)
,
Steven Jacobsen
(19)
,
Kinga Kamieniarz
(20)
,
Saadi Khochbin
(21)
,
Andreas Ladurner
(22)
,
David Landsman
(23)
,
John Latham
(1)
,
Benjamin Loppin
(24)
,
Harmit Malik
(1)
,
William Marzluff
(25)
,
John Pehrson
(26)
,
Jan Postberg
(27)
,
Robert Schneider
(20, 28)
,
Mohan Singh
(6)
,
Mitchell M. Smith
(29)
,
Eric Thompson
(30)
,
Maria-Elena Torres-Padilla
(28)
,
David John Tremethick
(31)
,
Bryan Turner
(32)
,
Jakob Harm Waterborg
(33)
,
Heike Wollmann
(5)
,
Ramesh Yelagandula
(5)
,
Bing Zhu
(34)
,
Steven Henikoff
(1)
1
Basic Sciences Division
2 DBCMP - Department of Biological Chemistry and Molecular Pharmacology
3 DNPG - Dynamique nucléaire et plasticité du génome
4 Department of Biochemistry and Microbiology
5 Temasek Lifesciences Laboratory
6 Plant Molecular Biology and Biotechnology Group
7 Laboratory of Molecular Pharmacology
8 Department of Molecular & Cell Biology [Berkeley]
9 Department of Biological Science
10 Department of Plant Biology
11 Laboratory of Molecular Parasitology
12 Department of Entomology
13 INSERM U823, équipe 4 (Chromatine et Epigénétique)
14 Department of Biochemistry
15 Department of Cellular and Molecular Biology
16 Department of Biology
17 CIPSM - Center for Integrated Protein Science
18 Department of Molecular Biology and Biochemistry
19 Department of Molecular Cellular and Developmental Biology
20 MPI-IE - Max Planck Institute of Immunobiology and Epigenetics
21 INSERM U823, équipe 6 (Epigénétique et Signalisation Cellulaire)
22 Department of Physiological Chemistry
23 NCBI - National Center for Biotechnology Information
24 CGPhiMC - Centre de génétique et de physiologie moléculaire et cellulaire
25 Program in Molecular Biology and Biotechnology
26 Department of Animal Biology
27 HELIOS Medical Centre Wuppertal
28 IGBMC - Institut de Génétique et de Biologie Moléculaire et Cellulaire
29 Department of Microbiology, Immunology, and Cancer Biology
30 BIO / UiB - Department of Biological Sciences [Bergen]
31 Genome Biology Department
32 College of Medical and Dental Sciences
33 Cell Biology and Biophysics
34 Chromatin Lab
2 DBCMP - Department of Biological Chemistry and Molecular Pharmacology
3 DNPG - Dynamique nucléaire et plasticité du génome
4 Department of Biochemistry and Microbiology
5 Temasek Lifesciences Laboratory
6 Plant Molecular Biology and Biotechnology Group
7 Laboratory of Molecular Pharmacology
8 Department of Molecular & Cell Biology [Berkeley]
9 Department of Biological Science
10 Department of Plant Biology
11 Laboratory of Molecular Parasitology
12 Department of Entomology
13 INSERM U823, équipe 4 (Chromatine et Epigénétique)
14 Department of Biochemistry
15 Department of Cellular and Molecular Biology
16 Department of Biology
17 CIPSM - Center for Integrated Protein Science
18 Department of Molecular Biology and Biochemistry
19 Department of Molecular Cellular and Developmental Biology
20 MPI-IE - Max Planck Institute of Immunobiology and Epigenetics
21 INSERM U823, équipe 6 (Epigénétique et Signalisation Cellulaire)
22 Department of Physiological Chemistry
23 NCBI - National Center for Biotechnology Information
24 CGPhiMC - Centre de génétique et de physiologie moléculaire et cellulaire
25 Program in Molecular Biology and Biotechnology
26 Department of Animal Biology
27 HELIOS Medical Centre Wuppertal
28 IGBMC - Institut de Génétique et de Biologie Moléculaire et Cellulaire
29 Department of Microbiology, Immunology, and Cancer Biology
30 BIO / UiB - Department of Biological Sciences [Bergen]
31 Genome Biology Department
32 College of Medical and Dental Sciences
33 Cell Biology and Biophysics
34 Chromatin Lab
Kami Ahmad
- Function : Author
- PersonId : 926709
Geneviève Almouzni
- Function : Author
- PersonId : 739968
- IdHAL : genevieve-almouzni
- ORCID : 0000-0001-5570-0723
- IdRef : 033442088
Zacheus W. Cande
- Function : Author
- PersonId : 926834
Stefan Dimitrov
- Function : Author
- PersonId : 855092
Barbara Hamkalo
- Function : Author
- PersonId : 926718
Steven Jacobsen
- Function : Author
- PersonId : 926720
Kinga Kamieniarz
- Function : Author
- PersonId : 926721
Saadi Khochbin
- Function : Author
- PersonId : 859927
Benjamin Loppin
- Function : Author
- PersonId : 169594
- IdHAL : benjamin-loppin
- ORCID : 0000-0002-7166-9233
- IdRef : 151107351
Robert Schneider
- Function : Author
- PersonId : 926729
Mitchell M. Smith
- Function : Author
- PersonId : 926837
Maria-Elena Torres-Padilla
- Function : Author
- PersonId : 926731
Steven Henikoff
Connectez-vous pour contacter l'auteur
- Function : Correspondent author
- PersonId : 926738
Connectez-vous pour contacter l'auteur
Abstract
Histone variants are non-allelic protein isoforms that play key roles in diversifying chromatin structure. The known number of such variants has greatly increased in recent years, but the lack of naming conventions for them has led to a variety of naming styles, multiple synonyms and misleading homographs that obscure variant relationships and complicate database searches. We propose here a unified nomenclature for variants of all five classes of histones that uses consistent but flexible naming conventions to produce names that are informative and readily searchable. The nomenclature builds on historical usage and incorporates phylogenetic relationships, which are strong predictors of structure and function. A key feature is the consistent use of punctuation to represent phylogenetic divergence, making explicit the relationships among variant subtypes that have previously been implicit or unclear. We recommend that by default new histone variants be named with organism-specific paralog-number suffixes that lack phylogenetic implication, while letter suffixes be reserved for structurally distinct clades of variants. For clarity and searchability, we encourage the use of descriptors that are separate from the phylogeny-based variant name to indicate developmental and other properties of variants that may be independent of structure.
Domains
Genetics
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