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Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans

In Drosophila melanogaster and D. simulans head tissue, 60% of orthologous genes show evidence of sex-biased expression in at least one species. Of these, ∼39% (2,192) are conserved in direction. We hypothesize enrichment of open chromatin in the sex where we see expression bias and closed chromatin...

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Autores principales: Nanni, Adalena V, Martinez, Natalie, Graze, Rita, Morse, Alison, Newman, Jeremy R B, Jain, Vaibhav, Vlaho, Srna, Signor, Sarah, Nuzhdin, Sergey V, Renne, Rolf, McIntyre, Lauren M
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10162771/
https://www.ncbi.nlm.nih.gov/pubmed/37116218
http://dx.doi.org/10.1093/molbev/msad078
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author Nanni, Adalena V
Martinez, Natalie
Graze, Rita
Morse, Alison
Newman, Jeremy R B
Jain, Vaibhav
Vlaho, Srna
Signor, Sarah
Nuzhdin, Sergey V
Renne, Rolf
McIntyre, Lauren M
author_facet Nanni, Adalena V
Martinez, Natalie
Graze, Rita
Morse, Alison
Newman, Jeremy R B
Jain, Vaibhav
Vlaho, Srna
Signor, Sarah
Nuzhdin, Sergey V
Renne, Rolf
McIntyre, Lauren M
author_sort Nanni, Adalena V
collection PubMed
description In Drosophila melanogaster and D. simulans head tissue, 60% of orthologous genes show evidence of sex-biased expression in at least one species. Of these, ∼39% (2,192) are conserved in direction. We hypothesize enrichment of open chromatin in the sex where we see expression bias and closed chromatin in the opposite sex. Male-biased orthologs are significantly enriched for H3K4me3 marks in males of both species (∼89% of male-biased orthologs vs. ∼76% of unbiased orthologs). Similarly, female-biased orthologs are significantly enriched for H3K4me3 marks in females of both species (∼90% of female-biased orthologs vs. ∼73% of unbiased orthologs). The sex-bias ratio in female-biased orthologs was similar in magnitude between the two species, regardless of the closed chromatin (H3K27me2me3) marks in males. However, in male-biased orthologs, the presence of H3K27me2me3 in both species significantly reduced the correlation between D. melanogaster sex-bias ratio and the D. simulans sex-bias ratio. Male-biased orthologs are enriched for evidence of positive selection in the D. melanogaster group. There are more male-biased genes than female-biased genes in both species. For orthologs with gains/losses of sex-bias between the two species, there is an excess of male-bias compared to female-bias, but there is no consistent pattern in the relationship between H3K4me3 or H3K27me2me3 chromatin marks and expression. These data suggest chromatin state is a component of the maintenance of sex-biased expression and divergence of sex-bias between species is reflected in the complexity of the chromatin status.
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spelling pubmed-101627712023-05-06 Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans Nanni, Adalena V Martinez, Natalie Graze, Rita Morse, Alison Newman, Jeremy R B Jain, Vaibhav Vlaho, Srna Signor, Sarah Nuzhdin, Sergey V Renne, Rolf McIntyre, Lauren M Mol Biol Evol Discoveries In Drosophila melanogaster and D. simulans head tissue, 60% of orthologous genes show evidence of sex-biased expression in at least one species. Of these, ∼39% (2,192) are conserved in direction. We hypothesize enrichment of open chromatin in the sex where we see expression bias and closed chromatin in the opposite sex. Male-biased orthologs are significantly enriched for H3K4me3 marks in males of both species (∼89% of male-biased orthologs vs. ∼76% of unbiased orthologs). Similarly, female-biased orthologs are significantly enriched for H3K4me3 marks in females of both species (∼90% of female-biased orthologs vs. ∼73% of unbiased orthologs). The sex-bias ratio in female-biased orthologs was similar in magnitude between the two species, regardless of the closed chromatin (H3K27me2me3) marks in males. However, in male-biased orthologs, the presence of H3K27me2me3 in both species significantly reduced the correlation between D. melanogaster sex-bias ratio and the D. simulans sex-bias ratio. Male-biased orthologs are enriched for evidence of positive selection in the D. melanogaster group. There are more male-biased genes than female-biased genes in both species. For orthologs with gains/losses of sex-bias between the two species, there is an excess of male-bias compared to female-bias, but there is no consistent pattern in the relationship between H3K4me3 or H3K27me2me3 chromatin marks and expression. These data suggest chromatin state is a component of the maintenance of sex-biased expression and divergence of sex-bias between species is reflected in the complexity of the chromatin status. Oxford University Press 2023-04-28 /pmc/articles/PMC10162771/ /pubmed/37116218 http://dx.doi.org/10.1093/molbev/msad078 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Discoveries
Nanni, Adalena V
Martinez, Natalie
Graze, Rita
Morse, Alison
Newman, Jeremy R B
Jain, Vaibhav
Vlaho, Srna
Signor, Sarah
Nuzhdin, Sergey V
Renne, Rolf
McIntyre, Lauren M
Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title_full Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title_fullStr Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title_full_unstemmed Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title_short Sex-Biased Expression Is Associated With Chromatin State in Drosophila melanogaster and Drosophila simulans
title_sort sex-biased expression is associated with chromatin state in drosophila melanogaster and drosophila simulans
topic Discoveries
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10162771/
https://www.ncbi.nlm.nih.gov/pubmed/37116218
http://dx.doi.org/10.1093/molbev/msad078
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