Tissue- and stage-dependent dosage compensation on the Neo-X chromosome in drosophila pseudoobscura

Handle URI:
http://hdl.handle.net/10754/563139
Title:
Tissue- and stage-dependent dosage compensation on the Neo-X chromosome in drosophila pseudoobscura
Authors:
Nozawa, Masafumi; Fukuda, Nana; Ikeo, Kazuho; Gojobori, Takashi ( 0000-0001-7850-1743 )
Abstract:
Sex chromosome dosage compensation (DC) is widely accepted in various organisms. This concept is mostly supported by comparisons of gene expression between chromosomes and between sexes. However, genes on the X chromosome and autosomes are mostly not homologous, and the average gene expression level on these chromosomes may not be the same even under DC, which complicates comparisons between chromosomes. Many genes with sex-biased expression also make comparisons between sexes difficult. To overcome these issues, we investigated DC by comparing the expression of neo-X-linked genes in Drosophila pseudoobscura with those of their autosomal orthologs in other Drosophila species. The ratio of the former to the latter in males would be 1 under DC, whereas it becomes 0.5 without DC. We found that the ratio was ∼0.85 for adult whole bodies, indicating that the DC is incomplete on the neo-X chromosome in adults as a whole. The ratio (∼0.90) was also significantly less than 1 for adult bodies without gonads, whereas it was ∼1.0 for adult heads. These results indicate that DC varies among tissues. Our sliding-window analysis of the ratio also revealed that the upregulation of neo-X-linked genes in males occurred chromosome wide in all tissues analyzed, indicating global upregulation mechanisms. However, we found that gene functions also affected the levels of DC. Furthermore, most of the genes recently moved to the X were already under DC at the larval stage but not at the adult stage. These results suggest that DC in Drosophila species operates in a tissue/stage-dependent manner. © 2013 The Author 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved.
KAUST Department:
Computational Bioscience Research Center (CBRC); Bioscience Program; Biological and Environmental Sciences and Engineering (BESE) Division
Publisher:
Oxford University Press (OUP)
Journal:
Molecular Biology and Evolution
Issue Date:
3-Dec-2013
DOI:
10.1093/molbev/mst239
PubMed ID:
24307686
Type:
Article
ISSN:
07374038
Appears in Collections:
Articles; Bioscience Program; Computational Bioscience Research Center (CBRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorNozawa, Masafumien
dc.contributor.authorFukuda, Nanaen
dc.contributor.authorIkeo, Kazuhoen
dc.contributor.authorGojobori, Takashien
dc.date.accessioned2015-08-03T11:36:42Zen
dc.date.available2015-08-03T11:36:42Zen
dc.date.issued2013-12-03en
dc.identifier.issn07374038en
dc.identifier.pmid24307686en
dc.identifier.doi10.1093/molbev/mst239en
dc.identifier.urihttp://hdl.handle.net/10754/563139en
dc.description.abstractSex chromosome dosage compensation (DC) is widely accepted in various organisms. This concept is mostly supported by comparisons of gene expression between chromosomes and between sexes. However, genes on the X chromosome and autosomes are mostly not homologous, and the average gene expression level on these chromosomes may not be the same even under DC, which complicates comparisons between chromosomes. Many genes with sex-biased expression also make comparisons between sexes difficult. To overcome these issues, we investigated DC by comparing the expression of neo-X-linked genes in Drosophila pseudoobscura with those of their autosomal orthologs in other Drosophila species. The ratio of the former to the latter in males would be 1 under DC, whereas it becomes 0.5 without DC. We found that the ratio was ∼0.85 for adult whole bodies, indicating that the DC is incomplete on the neo-X chromosome in adults as a whole. The ratio (∼0.90) was also significantly less than 1 for adult bodies without gonads, whereas it was ∼1.0 for adult heads. These results indicate that DC varies among tissues. Our sliding-window analysis of the ratio also revealed that the upregulation of neo-X-linked genes in males occurred chromosome wide in all tissues analyzed, indicating global upregulation mechanisms. However, we found that gene functions also affected the levels of DC. Furthermore, most of the genes recently moved to the X were already under DC at the larval stage but not at the adult stage. These results suggest that DC in Drosophila species operates in a tissue/stage-dependent manner. © 2013 The Author 2013. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved.en
dc.publisherOxford University Press (OUP)en
dc.subjectcomparative transcriptomeen
dc.subjectdosage compensationen
dc.subjectDrosophilaen
dc.subjectsex chromosome evolutionen
dc.titleTissue- and stage-dependent dosage compensation on the Neo-X chromosome in drosophila pseudoobscuraen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.contributor.departmentBioscience Programen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.identifier.journalMolecular Biology and Evolutionen
dc.contributor.institutionCenter for Information Biology, National Institute of Genetics, Mishima, Shizuoka, Japanen
dc.contributor.institutionDepartment of Genetics, SOKENDAI, Hayama, Kanagawa, Japanen
dc.contributor.institutionDepartment of Life Science, National Cheng Kong University, Tainan, Taiwanen
kaust.authorGojobori, Takashien

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