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Journal Articles Epigenetics & Chromatin Year : 2012

A unified phylogeny-based nomenclature for histone variants

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Paul Talbert
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Juan Ausió
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Frederic Berger
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Prem Bhalla
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William Bonner
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Brian Chadwick
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Simon W. Chan
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George A. Cross
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Liwang Cui
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Detlef Doenecke
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Martin Gorovsky
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Sandra Hake
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Sarah Holec
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Andreas Ladurner
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John Latham
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Harmit Malik
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John Pehrson
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Jan Postberg
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Mohan Singh
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Eric Thompson
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David John Tremethick
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Bryan Turner
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Jakob Harm Waterborg
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Heike Wollmann
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Ramesh Yelagandula
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Bing Zhu
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Steven Henikoff
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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.
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Dates and versions

inserm-00710902 , version 1 (21-06-2012)

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Paul Talbert, Kami Ahmad, Geneviève Almouzni, Juan Ausió, Frederic Berger, et al.. A unified phylogeny-based nomenclature for histone variants. Epigenetics & Chromatin, 2012, 5 (1), pp.7. ⟨10.1186/1756-8935-5-7⟩. ⟨inserm-00710902⟩
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