Dataset Information

Alterations in proteome and proteostasis networks during replicative senescence

ABSTRACT: The accumulation of senescent cells constitutes a pivotal hallmark of tissue ageing, contributing to disruption of tissue homeostasis and thus, to the development of several aging-related diseases. Despite this, our knowledge about the molecular, spatial and temporal changes that drive aging on a cellular basis remains poorly understood. To elucidate these mechanisms, we employed mass spectrometry-based proteomics to determine changes in the proteome and its post translational modifications, as well as protein solubility, during replicative senescence in human IMR90 fibroblasts. This accession contains data regarding alterations on the SUMO2/3-modified proteome during replicative senescence.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Fibroblast Of Lung

SUBMITTER: Petra Beli

LAB HEAD: Petra Beli

PROVIDER: PXD077854 | Pride | 2026-07-16

REPOSITORIES: Pride

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			Action	DRS
	20260123_AST1_PBE_NS_IMR90_SUMO2_pulldown_Proliferative_R1.raw	Raw
	20260123_AST1_PBE_NS_IMR90_SUMO2_pulldown_Proliferative_R2.raw	Raw
	20260123_AST1_PBE_NS_IMR90_SUMO2_pulldown_Proliferative_R3.raw	Raw
	20260123_AST1_PBE_NS_IMR90_SUMO2_pulldown_Proliferative_R4.raw	Raw
	20260123_AST1_PBE_NS_IMR90_SUMO2_pulldown_Senescent_R1.raw	Raw

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Project description:Amongst the various different insect groups, there is remarkable diversity in the number and size of wings. However the development of the basic body plan in insects is similar to a large extent. The genes of the hox complex regulate various pathways to bring about the development or modification of different organs. Ubx, a gene of the bithorax hox complex is expressed in the third thoracic segment of insects and is known to specify the fate of wing appendage in that segment.To understand the role of Ubx and how its regulatory mechanism has evolved through the course of evolution we have compared its genome wide targets in different insect orders. The identification of regulatory pathways and the key players Ubx regulates is crucial to understand how it has controlled wing development across insect orders. Our lab has previously identified direct targets of Ubx in Drosophila using ChIP-chip (Agrawal et al, 2011). To further our knowledge on the role of regulation in development and modification of hind wing appendage we have studied the targets in the hind wings of other insects (silk moth; Lepidoptera and honeybee; Hymenoptera) and performed a comparative analysis. We have employed ChIP followed by illumina sequencing to identify the targets of Ubx in developing hind and fore wing buds of Bombyx larvae. This is a first next generation sequencing study in Lepidoptera in an attempt to understand wing development. Chromatin Immunoprecipitation (ChIP) was used to identify genome wide targets bound by Ubx in Bombyx larval wing buds. The experiment to enrich Ubx bound regions was carried out using a Bombyx N terminal-Ubx specific poylclonal antibody raised in Rabbit and purified against a Protein A column to obtain IgG fraction. An Immunoprecipitation (IP) with Normal Rabbit IgG was used as a negative control to eliminate the regions that pertained to non specific binding to an Immunogloubulin. The normalization of both ChIP and IgG was done against sequenced input chromatin. Two replicates of single end 36 bp reads were sequenced using Ilumina for all the three conditions and for both fore and hind wing tissue samples.The peaks common to both the replicates were considered after applying a FDR cutoff.The fore wing target set was used for comparison with the hind wing targets.

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Alterations in proteome and proteostasis networks during replicative senescence

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