Dataset Information

Cilia proteome isolated from the multi-ciliated cells of Xenopus laevis embryo epidermis

ABSTRACT: We characterized the cilia proteome isolated from the multi-ciliated cells of Xenopus laevis embryo epidermis.

INSTRUMENT(S): LTQ Orbitrap Elite, Q Exactive

ORGANISM(S): Xenopus Laevis (african Clawed Frog)

TISSUE(S): Embryo

SUBMITTER: Taejoon Kwon

LAB HEAD: Taejoon Kwon

PROVIDER: PXD010722 | Pride | 2019-11-15

REPOSITORIES: Pride

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Publications

Simple Method To Characterize the Ciliary Proteome of Multiciliated Cells.

Sim Hyo Jung HJ Yun Seongmin S Kim Ha Eun HE Kwon Keun Yeong KY Kim Gun-Hwa GH Yun Sungho S Kim Byung Gyu BG Myung Kyungjae K Park Tae Joo TJ Kwon Taejoon T

Journal of proteome research 20191118 1

Motile cilia of multiciliated epithelial cells have important roles in animal development and cell homeostasis. Although several studies have identified and reported proteins localized in this complex organelle and the related immotile primary cilia from various cell types, it is still challenging to isolate high quantities of ciliary proteins for proteomic analysis. In this study, African clawed frog (<i>Xenopus laevis</i>) embryos, which have many multiciliated cells in the epidermis, were tre ...[more]

PMID: 31689115

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Project description:In many species, a dosage compensation complex (DCC) is targeted to X chromosomes of one sex to equalize levels of X gene products between males (1X) and females (2X). Here we identify cis-acting regulatory elements that target the C. elegans X chromosome for repression by the DCC. The DCC binds to discrete, dispersed sites on X of two types. rex sites recruit the DCC in an autonomous, DNA sequence-dependent manner using a 12 bp consensus motif that is enriched on X. This motif is critical for DCC binding, is clustered in rex sites, and confers much of X-chromosome specificity. Motif variants enriched on X by 3.8-fold or more are highly predictive (95%) for rex sites. In contrast, dox sites lack the X-enriched variants and cannot bind the DCC when detached from X. dox sites are more prevalent than rex sites and, unlike rex sites, reside preferentially in promoters of some expressed genes. These findings fulfill predictions for a targeting model in which the DCC binds to recruitment sites on X and disperses to discrete sites lacking autonomous recruitment ability. To relate DCC binding to function, we identified dosage-compensated and non-compensated genes on X. Unexpectedly, many genes of both types have bound DCC, but many do not, suggesting the DCC acts over long distances to repress X gene expression. Remarkably, the DCC binds to autosomes, but at far fewer sites and rarely at consensus motifs. DCC disruption causes opposite effects on expression of X and autosomal genes. The DCC thus acts at a distance to impact expression throughout the genome. Experiment Overall Design: For microarray analysis, the nematode strains and number of experiments was as follows: TY2222, her-1(hv1y101); xol-1(y9) sdc-2(y74) unc-9(e101), XO embryos (8 biological replicas and 6 wild-type XX embryos controls ), dpy-27(y57) XX embryos (3 biological replicas and 3 wild-type XX embryos controls), and sdc-2(y93, RNAi) XX embryos (3 biological replicas and 3 wild-type XX embryos controls).

Dataset Information

Cilia proteome isolated from the multi-ciliated cells of Xenopus laevis embryo epidermis

Publications

Simple Method To Characterize the Ciliary Proteome of Multiciliated Cells.

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