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Zheng X, Wang L, Zhang Z, Tang H. The emerging roles of SUMOylation in pulmonary diseases. Mol Med 2023; 29:119. [PMID: 37670258 PMCID: PMC10478458 DOI: 10.1186/s10020-023-00719-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Accepted: 08/22/2023] [Indexed: 09/07/2023] Open
Abstract
Small ubiquitin-like modifier mediated modification (SUMOylation) is a critical post-translational modification that has a broad spectrum of biological functions, including genome replication and repair, transcriptional regulation, protein stability, and cell cycle progression. Perturbation or deregulation of a SUMOylation and deSUMOylation status has emerged as a new pathophysiological feature of lung diseases. In this review, we highlighted the link between SUMO pathway and lung diseases, especially the sumoylated substrate such as C/EBPα in bronchopulmonary dysplasia (BDP), PPARγ in pneumonia, TFII-I in asthma, HDAC2 in chronic obstructive pulmonary disease (COPD), KLF15 in hypoxic pulmonary hypertension (HPH), SMAD3 in idiopathic pulmonary fibrosis (IPF), and YTHDF2 in cancer. By exploring the impact of SUMOylation in pulmonary diseases, we intend to shed light on its potential to inspire the development of innovative diagnostic and therapeutic strategies, holding promise for improving patient outcomes and overall respiratory health.
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Affiliation(s)
- Xuyang Zheng
- Department of pediatrics, The Affiliated Hangzhou First People's Hospital, Zhejiang University School of Medicine, Hangzhou, 310000, Zhejiang, P.R. China.
| | - Lingqiao Wang
- Department of pediatrics, The Affiliated Hangzhou First People's Hospital, Zhejiang University School of Medicine, Hangzhou, 310000, Zhejiang, P.R. China
| | - Zhen Zhang
- Department of Orthopedics Surgery, The Affiliated Hangzhou First People's Hospital, Zhejiang University School of Medicine, Hangzhou, 31000, Zhejiang, P.R. China
| | - Huifang Tang
- Department of Pharmacology, Zhejiang Respiratory Drugs Research Laboratory, School of Basic Medicial Sciences, Zhejiang University, Hangzhou, 310058, Zhejiang, P.R. China.
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2
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Harnischfeger J, Beutler M, Salzig D, Rahlfs S, Becker K, Grevelding CG, Czermak P. Biochemical characterization of the recombinant schistosome tegumental protein SmALDH_312 produced in E. coli and baculovirus expression vector system. ELECTRON J BIOTECHN 2021. [DOI: 10.1016/j.ejbt.2021.08.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
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3
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Kong QM, Zhu X, Tong QB, Zheng B, Shi NY, Lou D, Ding JZ, Jia JP, Chen XH, Chen R, Lu SH. Genome-wide miRNAs expression profiles of Schistosoma japonicum schistosomula in response to artesunate. Pharmacogenomics 2016; 17:2025-2037. [DOI: 10.2217/pgs.16.23] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Aim: miRNAs play a significant role in pharmacogenomics and are likely to be important in the molecular mechanism of atesunate (ART) effects on Schistosoma japonicum. Methods: We sequenced the RNAs using an Illumina (Solexa) DNA sequencer and compared the relative expression levels of the miRNAs in 10-day-old schistosomula from ART and the parallel control group. Results: We characterized 95 known miRNAs from S. japonicum schistosomula individuals, including 38 novel miRNA families. Among the detectable 134 miRNAs differentially expressed (>2.0-fold change, p < 0.01) after ART treatment in schistosomula, a total of seven known or novel 3p- or 5p- derived S. japonicum miRNAs were characterized. We propose that sja-miR-125b may regulate the expression of ART metabolizing enzymes, glutathione synthetase or heme-binding protein 2 to help S. japonicum resists or adapts to drug stress and also ART may significantly inhibit sexual maturation of female worms mediated by mir-71b/2 miRNA cluster. Conclusion: This was the first comprehensive miRNAs expression profile analysis of S. japonicum in response to ART, and provides an overview of the complex network of the mechanism of action of ART on S. japonicum.
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Affiliation(s)
- Qing-Ming Kong
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Xiao Zhu
- Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics, Dongguan Scientific Research Center, Guangdong Medical University, 523808, Dongguan, China
| | - Qun-Bo Tong
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Bin Zheng
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Na-Yu Shi
- Department of Gynecology, Hangzhou Obstetrics & Gynecology Hospital, 310013, Hangzhou, China
| | - Di Lou
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Jian-Zu Ding
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Jian-Ping Jia
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Xiao-Heng Chen
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Rui Chen
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
| | - Shao-Hong Lu
- Department of Immunity & Biochemistry, Institute of Parasitic Disease, Zhejiang Academy of Medical Sciences, No.182, Road Tianmushan, 310013, Hangzhou, China
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Cluxton CD, Caffrey BE, Kinsella GK, Moynagh PN, Fares MA, Fallon PG. Functional conservation of an ancestral Pellino protein in helminth species. Sci Rep 2015; 5:11687. [PMID: 26120048 PMCID: PMC4484250 DOI: 10.1038/srep11687] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Accepted: 05/26/2015] [Indexed: 12/27/2022] Open
Abstract
The immune system of H. sapiens has innate signaling pathways that arose in ancestral species. This is exemplified by the discovery of the Toll-like receptor (TLR) pathway using free-living model organisms such as Drosophila melanogaster. The TLR pathway is ubiquitous and controls sensitivity to pathogen-associated molecular patterns (PAMPs) in eukaryotes. There is, however, a marked absence of this pathway from the plathyhelminthes, with the exception of the Pellino protein family, which is present in a number of species from this phylum. Helminth Pellino proteins are conserved having high similarity, both at the sequence and predicted structural protein level, with that of human Pellino proteins. Pellino from a model helminth, Schistosoma mansoni Pellino (SmPellino), was shown to bind and poly-ubiquitinate human IRAK-1, displaying E3 ligase activity consistent with its human counterparts. When transfected into human cells SmPellino is functional, interacting with signaling proteins and modulating mammalian signaling pathways. Strict conservation of a protein family in species lacking its niche signalling pathway is rare and provides a platform to examine the ancestral functions of Pellino proteins that may translate into novel mechanisms of immune regulation in humans.
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Affiliation(s)
- Christopher D Cluxton
- School of Medicine, Trinity Biomedical Sciences Institute, Trinity College Dublin, Dublin 2, Ireland
| | - Brian E Caffrey
- Department of Genetics, Trinity College Dublin, Dublin 2, Ireland
| | - Gemma K Kinsella
- Institute of Immunology, National University of Ireland Maynooth, County Kildare, Ireland
| | - Paul N Moynagh
- Institute of Immunology, National University of Ireland Maynooth, County Kildare, Ireland
| | - Mario A Fares
- 1] Department of Genetics, Trinity College Dublin, Dublin 2, Ireland [2] Integrative Systems Biology Group, Instituto de Biología Molecular y Celular de Plantas (C.S.I.C-UPV)
| | - Padraic G Fallon
- 1] School of Medicine, Trinity Biomedical Sciences Institute, Trinity College Dublin, Dublin 2, Ireland [2] National Children's Research Centre, Our Lady's Children's Hospital, Dublin 8, Ireland
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Costa MP, Oliveira VF, Pereira RV, de Abreu FCP, Jannotti-Passos LK, Borges WC, Guerra-Sá R. In silico analysis and developmental expression of ubiquitin-conjugating enzymes in Schistosoma mansoni. Parasitol Res 2015; 114:1769-77. [PMID: 25663106 DOI: 10.1007/s00436-015-4362-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Accepted: 01/30/2015] [Indexed: 12/01/2022]
Abstract
Ubiquitin-conjugating enzymes (Ub-E2) perform the second step of ubiquitination and, consequently, are essential for regulating proteolysis and for modulating protein function, interactions and trafficking. Previously, our group demonstrated the crucial role of ubiquitination and the Ub-proteasome pathway during the Schistosoma mansoni life cycle. In the present investigation, we used a homology-based genome-wide bioinformatics approach to identify and molecularly characterise the Ub-E2 enzymes in S. mansoni. The putative functions were further investigated through molecular phylogenetic and expression profile analyses using cercariae, adult worms, eggs and mechanically transformed schistosomula (MTS) cultured in vitro for 3.5 h or 1 or 3 days. We identified, via in silico analysis, 17 Ub-E2 enzymes with conserved structural characteristics: the beta-sheet and the helix-2 form a central core bordered by helix-1 at one side and helix-3 and helix-4 at the other. The observed quantitative differences in the steady-state transcript levels between the cercariae and adult worms may contribute to the differential protein ubiquitination observed during the parasite's life cycle. This study is the first to identify and characterise the E2 ubiquitin conjugation family in S. mansoni and provides fundamental information regarding their molecular phylogenetics and developmental expression during intra-mammalian stages.
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Affiliation(s)
- Marcela P Costa
- Departamento de Ciências Biológicas/Núcleo de Pesquisas em Ciências Biológicas, Instituto de Ciências Exatas e Biológicas, Universidade Federal de Ouro Preto, Sala 045, Morro do Cruzeiro, Ouro Preto, MG, Brazil
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6
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Pereira RV, Gomes MDS, Cabral FJ, Jannotti-Passos LK, Rodrigues V, de Castro-Borges W, Guerra-Sá R. Up-regulation of SUMO E3 ligases during lung schistosomula and adult worm stages. Parasitol Res 2014; 113:2019-25. [PMID: 24802862 DOI: 10.1007/s00436-014-3841-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2014] [Accepted: 02/24/2014] [Indexed: 11/29/2022]
Abstract
Small ubiquitin-like modifier (SUMO) conjugation of proteins occurs through a concert action of enzymes using a similar ubiquitination mechanism. After a C-terminal peptide is cleaved from the SUMO precursor by a protease to reveal a di-glycine motif, SUMO is activated by an E1 enzyme (Aos1/Uba2) and conjugated to target proteins by the sole E2 enzyme (Ubc9) guided to the appropriate substrates by the SUMO E3 ligase. Previous reports from our group showed that Schistosoma mansoni has two paralogs of SUMO: one E2 conjugation Ubc9 and two SUMO-specific proteases (SENPs). The differential gene expression profile observed for SUMO pathway genes throughout the S. mansoni life cycle attests for the distinct patterns of SUMO conjugates observed during parasite development particularly during the cercariae to schistosomula transition. To continue this investigation, we here analysed the repertoire of SUMO E3 ligases and their expression profiles during cercariae/schistosomula transition. In silico analysis through S. mansoni databases showed two conserved SUMO E3 ligases: protein inhibitor of activated STAT (PIAS) and Ran-binding protein 2 (RanBP2). Furthermore, expression levels of the SUMO E3 ligases were measured by qRT-PCR using total RNA from cercariae, adult worms and mechanically transformed schistosomula. Our data showed an up-regulation of expression in lung schistosomula and adult worm stages. In conclusion, the differential expression of SmPIAS and SmRanBP2 during schistosomula development was similar to the expression levels of all genes related to SUMO conjugation, thereby suggesting that the control of protein activity, localisation or stability during cercariae to schistosomula transition is SUMO-dependent.
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Affiliation(s)
- Roberta V Pereira
- Núcleo de Pesquisas em Ciências Biológicas, Instituto de Ciências Exatas e Biológicas - ICEB2, Universidade Federal de Ouro Preto, Morro do Cruzeiro, Ouro Preto, MG, Brazil
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7
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Vranych CV, Rivero MR, Merino MC, Mayol GF, Zamponi N, Maletto BA, Pistoresi-Palencia MC, Touz MC, Rópolo AS. SUMOylation and deimination of proteins: two epigenetic modifications involved in Giardia encystation. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2014; 1843:1805-17. [PMID: 24751693 DOI: 10.1016/j.bbamcr.2014.04.014] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/10/2013] [Revised: 03/26/2014] [Accepted: 04/11/2014] [Indexed: 10/25/2022]
Abstract
SUMOylation, a posttranslational modification of proteins, has been recently described as vital in eukaryotic cells. In a previous work, we analyzed the role of SUMO protein and the genes encoding the putative enzymes of the SUMOylation pathway in the parasite Giardia lamblia. Although we observed several SUMOylated proteins, only the enzyme Arginine Deiminase (ADI) was confirmed as a SUMOylated substrate. ADI is involved in the survival of the parasite and, besides its role in ATP production, it also catalyzes the modification of arginine residues to citrulline in the cytoplasmic tail of surface proteins. During encystation, however, ADI translocates to the nuclei and downregulates the expression of the Cyst Wall Protein 2 (CWP2). In this work, we made site-specific mutation of the ADI SUMOylation site (Lys101) and observed that transgenic trophozoites did not translocate to the nuclei at the first steps of encystation but shuttled in the nuclei late during this process through classic nuclear localization signals. Inside the nuclei, ADI acts as a peptidyl arginine deiminase, being probably involved in the downregulation of CWPs expression and cyst wall formation. Our results strongly indicate that ADI plays a regulatory role during encystation in which posttranslational modifications of proteins are key players.
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Affiliation(s)
- Cecilia V Vranych
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - María R Rivero
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - María C Merino
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - Gonzalo F Mayol
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - Nahuel Zamponi
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - Belkys A Maletto
- Departamento de Bioquímica Clínica, CIBICI-CONICET, Facultad de Ciencias Químicas, Haya de la Torre y Medina Allende, UNC, 5000 Córdoba, Argentina
| | - María C Pistoresi-Palencia
- Departamento de Bioquímica Clínica, CIBICI-CONICET, Facultad de Ciencias Químicas, Haya de la Torre y Medina Allende, UNC, 5000 Córdoba, Argentina
| | - María C Touz
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina
| | - Andrea S Rópolo
- Laboratorio de Microbiología e Inmunología, Instituto de Investigación Médica Mercedes y Martín Ferreyra, INIMEC-CONICET, Universidad Nacional de Córdoba, Friuli 2434, 5000 Córdoba, Argentina.
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NEDD8 conjugation in Schistosoma mansoni: genome analysis and expression profiles. Parasitol Int 2013; 62:199-207. [PMID: 23313772 DOI: 10.1016/j.parint.2012.12.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2012] [Revised: 12/18/2012] [Accepted: 12/22/2012] [Indexed: 11/20/2022]
Abstract
NEDD8 is an ubiquitin-like molecule that covalently binds to target proteins through an enzymatic cascade analogous to ubiquitylation. This modifier is known to bind to p53 and p73, as well as all Cullin family proteins, which are essential components of Skp1/Cul-1/F-box protein (SCF)-like Ub ligase complexes. Here, we focused on a genomic analysis of the genes involved in the NEDD8 conjugation pathway in Schistosoma mansoni. The results revealed seven genes related to NEDD8 conjugation that are conserved in Schistosoma japonicum, Caenorhabditis elegans, Drosophila melanogaster and Homo sapiens. We performed quantitative RT-PCR (qRT-PCR), which showed differential profiles for Smnedd8, Smapp1, Smuba3, Smube2f, Smdcn1, Smrbx and Smsenp8 throughout the life cycle of S. mansoni. Upregulation was observed in 3-day-old schistosomula and adult worms for all analysed genes. We also analysed the transcription levels of Cullin family members Smp63 and Smp73, and observed upregulation in early schistosomula, while cercariae and adult worms showed expression levels similar to one another. Taken together, these results suggest that the NEDDylation/DeNEDDylation pathway controls important cellular regulators during worm development from cercariae to schistosomula and, finally, to adult.
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Transcriptional Profile and Structural Conservation of SUMO-Specific Proteases in Schistosoma mansoni. J Parasitol Res 2012; 2012:480824. [PMID: 23125916 PMCID: PMC3483780 DOI: 10.1155/2012/480824] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2012] [Revised: 08/09/2012] [Accepted: 08/23/2012] [Indexed: 11/18/2022] Open
Abstract
Small ubiquitin-related modifier (SUMO) is involved in numerous cellular processes including protein localization, transcription, and cell cycle control. SUMOylation is a dynamic process, catalyzed by three SUMO-specific enzymes and reversed by Sentrin/SUMO-specific proteases (SENPs). Here we report the characterization of these proteases in Schistosoma mansoni. Using in silico analysis, we identified two SENPs sequences, orthologs of mammalian SENP1 and SENP7, confirming their identities and conservation through phylogenetic analysis. In addition, the transcript levels of Smsenp1/7 in cercariae, adult worms, and in vitro cultivated schistosomula were measured by qRT-PCR. Our data revealed upregulation of the Smsenp1/7 transcripts in cercariae and early schistosomula, followed by a marked differential gene expression in the other analyzed stages. However, no significant difference in expression profile between the paralogs was observed for the analyzed stages. Furthermore, in order to detect deSUMOylating capabilities in crude parasite extracts, SmSENP1 enzymatic activity was evaluated using SUMO-1-AMC substrate. The endopeptidase activity related to SUMO-1 precursor processing did not differ significantly between cercariae and adult worms. Taken together, these results support the developmentally regulated expression of SUMO-specific proteases in S. mansoni.
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