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Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana

Microscopically visible chromatin is partitioned into two major components in Arabidopsis thaliana nuclei. On one hand, chromocenters are conspicuous foci of highly condensed “heterochromatic” domains that contain mostly repeated sequences. On the other hand, less condensed and gene-rich “euchromati...

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Autores principales: Snoek, Basten L., Pavlova, Penka, Tessadori, Federico, Peeters, Anton J. M., Bourbousse, Clara, Barneche, Fredy, de Jong, Hans, Fransz, Paul F., van Zanten, Martijn
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Genetics Society of America 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5555459/
https://www.ncbi.nlm.nih.gov/pubmed/28592555
http://dx.doi.org/10.1534/g3.117.043539
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author Snoek, Basten L.
Pavlova, Penka
Tessadori, Federico
Peeters, Anton J. M.
Bourbousse, Clara
Barneche, Fredy
de Jong, Hans
Fransz, Paul F.
van Zanten, Martijn
author_facet Snoek, Basten L.
Pavlova, Penka
Tessadori, Federico
Peeters, Anton J. M.
Bourbousse, Clara
Barneche, Fredy
de Jong, Hans
Fransz, Paul F.
van Zanten, Martijn
author_sort Snoek, Basten L.
collection PubMed
description Microscopically visible chromatin is partitioned into two major components in Arabidopsis thaliana nuclei. On one hand, chromocenters are conspicuous foci of highly condensed “heterochromatic” domains that contain mostly repeated sequences. On the other hand, less condensed and gene-rich “euchromatin” emanates from these chromocenters. This differentiation, together with the dynamic nature of chromatin compaction in response to developmental and environmental stimuli, makes Arabidopsis a powerful system for studying chromatin organization and dynamics. Heterochromatin dynamics can be monitored by measuring the Heterochromatin Index, i.e., the proportion of nuclei displaying well-defined chromocenters, or the DNA fraction of chromocenters (relative heterochromatin fraction). Both measures are composite traits, thus their values represent the sum of effects of various underlying morphometric properties. We exploited genetic variation between natural occurring accessions to determine the genetic basis of individual nucleus and chromocenter morphometric parameters (area, perimeter, density, roundness, and heterogeneity) that together determine chromatin compaction. Our novel reductionist genetic approach revealed quantitative trait loci (QTL) for all measured traits. Genomic colocalization among QTL was limited, which suggests a complex genetic regulation of chromatin compaction. Yet genomic intervals of QTL for nucleus size (area and perimeter) both overlap with a known QTL for heterochromatin compaction that is explained by natural polymorphism in the red/far-red light and temperature receptor Phytochrome B. Mutant analyses and genetic complementation assays show that Phytochrome B is a negative regulator of nucleus size, revealing that perception of climatic conditions by a Phytochrome-mediated hub is a major determinant for coordinating nucleus size and heterochromatin compaction.
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spelling pubmed-55554592017-08-17 Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana Snoek, Basten L. Pavlova, Penka Tessadori, Federico Peeters, Anton J. M. Bourbousse, Clara Barneche, Fredy de Jong, Hans Fransz, Paul F. van Zanten, Martijn G3 (Bethesda) Investigations Microscopically visible chromatin is partitioned into two major components in Arabidopsis thaliana nuclei. On one hand, chromocenters are conspicuous foci of highly condensed “heterochromatic” domains that contain mostly repeated sequences. On the other hand, less condensed and gene-rich “euchromatin” emanates from these chromocenters. This differentiation, together with the dynamic nature of chromatin compaction in response to developmental and environmental stimuli, makes Arabidopsis a powerful system for studying chromatin organization and dynamics. Heterochromatin dynamics can be monitored by measuring the Heterochromatin Index, i.e., the proportion of nuclei displaying well-defined chromocenters, or the DNA fraction of chromocenters (relative heterochromatin fraction). Both measures are composite traits, thus their values represent the sum of effects of various underlying morphometric properties. We exploited genetic variation between natural occurring accessions to determine the genetic basis of individual nucleus and chromocenter morphometric parameters (area, perimeter, density, roundness, and heterogeneity) that together determine chromatin compaction. Our novel reductionist genetic approach revealed quantitative trait loci (QTL) for all measured traits. Genomic colocalization among QTL was limited, which suggests a complex genetic regulation of chromatin compaction. Yet genomic intervals of QTL for nucleus size (area and perimeter) both overlap with a known QTL for heterochromatin compaction that is explained by natural polymorphism in the red/far-red light and temperature receptor Phytochrome B. Mutant analyses and genetic complementation assays show that Phytochrome B is a negative regulator of nucleus size, revealing that perception of climatic conditions by a Phytochrome-mediated hub is a major determinant for coordinating nucleus size and heterochromatin compaction. Genetics Society of America 2017-06-06 /pmc/articles/PMC5555459/ /pubmed/28592555 http://dx.doi.org/10.1534/g3.117.043539 Text en Copyright © 2017 Snoek et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Investigations
Snoek, Basten L.
Pavlova, Penka
Tessadori, Federico
Peeters, Anton J. M.
Bourbousse, Clara
Barneche, Fredy
de Jong, Hans
Fransz, Paul F.
van Zanten, Martijn
Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title_full Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title_fullStr Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title_full_unstemmed Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title_short Genetic Dissection of Morphometric Traits Reveals That Phytochrome B Affects Nucleus Size and Heterochromatin Organization in Arabidopsis thaliana
title_sort genetic dissection of morphometric traits reveals that phytochrome b affects nucleus size and heterochromatin organization in arabidopsis thaliana
topic Investigations
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5555459/
https://www.ncbi.nlm.nih.gov/pubmed/28592555
http://dx.doi.org/10.1534/g3.117.043539
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