title: Suberoylanilide hydroxamic acid treatment reveals crosstalks among proteome, ubiquitylome and acetylome in non-small cell lung cancer A549 cell line.
abstract: Suberoylanilide hydroxamic acid (SAHA) is a well-known histone deacetylase (HDAC) inhibitor and has been used as practical therapy for breast cancer and non-small cell lung cancer (NSCLC). It is previously demonstrated that SAHA treatment could extensively change the profile of acetylome and proteome in cancer cells. However, little is known about the impact of SAHA on other protein modifications and the crosstalks among different modifications and proteome, hindering the deep understanding of SAHA-mediated cancer therapy. In this work, by using SILAC technique, antibody-based affinity enrichment and high-resolution LC-MS/MS analysis, we investigated quantitative proteome, acetylome and ubiquitylome as well as crosstalks among the three datasets in A549 cells toward SAHA treatment. In total, 2968 proteins, 1099 acetylation sites and 1012 ubiquitination sites were quantified in response to SAHA treatment, respectively. With the aid of intensive bioinformatics, we revealed that the proteome and ubiquitylome were negatively related upon SAHA treatment. Moreover, the impact of SAHA on acetylome resulted in 258 up-regulated and 99 down-regulated acetylation sites at the threshold of 1.5 folds. Finally, we identified 55 common sites with both acetylation and ubiquitination, among which ubiquitination level in 43 sites (78.2%) was positive related to acetylation level.
authors.affiliation: Central Laboratory of Medical Research Centre, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Quan
authors.initials: Q
authors.lastname: Wu
authors.affiliation: Institute for Advanced Study of Translational Medicine, Tongji University, Shanghai, 200092, China.
authors.forename: Zhongyi
authors.initials: Z
authors.lastname: Cheng
authors.affiliation: Jingjie PTM Biolab (Hangzhou) Co. Ltd, Hangzhou 310018, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Zhu
authors.affiliation: Central Laboratory of Medical Research Centre, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Weiqing
authors.initials: W
authors.lastname: Xu
authors.affiliation: Jingjie PTM Biolab (Hangzhou) Co. Ltd, Hangzhou 310018, China.
authors.forename: Xiaojun
authors.initials: X
authors.lastname: Peng
authors.affiliation: Jingjie PTM Biolab (Hangzhou) Co. Ltd, Hangzhou 310018, China.
authors.forename: Chuangbin
authors.initials: C
authors.lastname: Chen
authors.affiliation: Central Laboratory of Medical Research Centre, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Wenting
authors.initials: W
authors.lastname: Li
authors.affiliation: School of Life science, Anhui Medical University, Hefei, 230032, China.
authors.forename: Fengsong
authors.initials: F
authors.lastname: Wang
authors.affiliation: Department of Respiration, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Lejie
authors.initials: L
authors.lastname: Cao
authors.affiliation: Jingjie PTM Biolab (Hangzhou) Co. Ltd, Hangzhou 310018, China.
authors.forename: Xingling
authors.initials: X
authors.lastname: Yi
authors.affiliation: Central Laboratory of Medical Research Centre, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Zhiwei
authors.initials: Z
authors.lastname: Wu
authors.affiliation: Central Laboratory of Medical Research Centre, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Jing
authors.initials: J
authors.lastname: Li
authors.affiliation: Department of Oncology, Affiliated Provincial Hospital, Anhui Medical University, Hefei, 230001, China.
authors.forename: Pingsheng
authors.initials: P
authors.lastname: Fan
mesh_terms: D000107:Acetylation / Q000187:drug effects; D000970:Antineoplastic Agents / Q000494:pharmacology*; D002289:Carcinoma, Non-Small-Cell Lung / Q000378:metabolism*; D045744:Cell Line, Tumor; D016000:Cluster Analysis; D056572:Histone Deacetylase Inhibitors / Q000494:pharmacology*; D006657:Histones; D006801:Humans; D006877:Hydroxamic Acids / Q000494:pharmacology*; D008175:Lung Neoplasms / Q000378:metabolism*; D011485:Protein Binding; D025941:Protein Interaction Mapping; D060066:Protein Interaction Maps; D020543:Proteome; D040901:Proteomics; D053719:Tandem Mass Spectrometry; D054875:Ubiquitination / Q000187:drug effects; D000077337:Vorinostat
chemical_list: D000970:Antineoplastic Agents; D056572:Histone Deacetylase Inhibitors; D006657:Histones; D006877:Hydroxamic Acids; D020543:Proteome; D000077337:Vorinostat
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