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Zhan CL, Zhou D, Sun MH, Jiang WJ, Lee SH, Li XH, Lu QY, Kim JD, Lee GH, Sim JM, Chung HJ, Cho ES, Sa SJ, Cui XS. In Vivo-Matured Oocyte Resists Post-Ovulatory Aging through the Hub Genes DDX18 and DNAJC7 in Pigs. Antioxidants (Basel) 2024; 13:867. [PMID: 39061935 PMCID: PMC11274268 DOI: 10.3390/antiox13070867] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2024] [Revised: 07/15/2024] [Accepted: 07/17/2024] [Indexed: 07/28/2024] Open
Abstract
Assisted reproduction technology (ART) procedures are often impacted by post-ovulatory aging (POA), which can lead to reduced fertilization rates and impaired embryo development. This study used RNA sequencing analysis and experimental validation to study the similarities and differences between in vivo- and vitro-matured porcine oocytes before and after POA. Differentially expressed genes (DEGs) between fresh in vivo-matured oocyte (F_vivo) and aged in vivo-matured oocyte (A_vivo) and DEGs between fresh in vitro-matured oocyte (F_vitro) and aged in vitro-matured oocyte (A_vitro) were intersected to explore the co-effects of POA. It was found that "organelles", especially "mitochondria", were significantly enriched Gene Ontology (GO) terms. The expression of genes related to the "electron transport chain" and "cell redox homeostasis" pathways related to mitochondrial function significantly showed low expression patterns in both A_vivo and A_vitro groups. Weighted correlation network analysis was carried out to explore gene expression modules specific to A_vivo. Trait-module association analysis showed that the red modules were most associated with in vivo aging. There are 959 genes in the red module, mainly enriched in "RNA binding", "mRNA metabolic process", etc., as well as in GO terms, and "spliceosome" and "nucleotide excision repair" pathways. DNAJC7, IK, and DDX18 were at the hub of the gene regulatory network. Subsequently, the functions of DDX18 and DNAJC7 were verified by knocking down their expression at the germinal vesicle (GV) and Metaphase II (MII) stages, respectively. Knockdown at the GV stage caused cell cycle disorders and increase the rate of abnormal spindle. Knockdown at the MII stage resulted in the inefficiency of the antioxidant melatonin, increasing the level of intracellular oxidative stress, and in mitochondrial dysfunction. In summary, POA affects the organelle function of oocytes. A_vivo oocytes have some unique gene expression patterns. These genes may be potential anti-aging targets. This study provides a better understanding of the detailed mechanism of POA and potential strategies for improving the success rates of assisted reproductive technologies in pigs and other mammalian species.
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Affiliation(s)
- Cheng-Lin Zhan
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Dongjie Zhou
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Ming-Hong Sun
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Wen-Jie Jiang
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Song-Hee Lee
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Xiao-Han Li
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Qin-Yue Lu
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Ji-Dam Kim
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Gyu-Hyun Lee
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Jae-Min Sim
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
| | - Hak-Jae Chung
- The Center for Reproductive Control, TNT Research Co., Ltd., Jiphyeonjungang 3-gil 13, Sejong-si 30141, Republic of Korea;
| | - Eun-Seok Cho
- Swine Science Division, National Institute of Animal Science, RDA, Cheonan-si 31000, Republic of Korea;
| | - Soo-Jin Sa
- Planning and Coordination Division, National Institute of Animal Science, Iseo-myeon, Wanju-gun 55365, Republic of Korea;
| | - Xiang-Shun Cui
- Department of Animal Science, Chungbuk National University, Cheongju 28644, Republic of Korea; (C.-L.Z.); (D.Z.); (M.-H.S.); (W.-J.J.); (S.-H.L.); (X.-H.L.); (Q.-Y.L.); (J.-D.K.); (G.-H.L.); (J.-M.S.)
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Matthaei A, Joecks S, Frauenstein A, Bruening J, Bankwitz D, Friesland M, Gerold G, Vieyres G, Kaderali L, Meissner F, Pietschmann T. Landscape of protein-protein interactions during hepatitis C virus assembly and release. Microbiol Spectr 2024; 12:e0256222. [PMID: 38230952 PMCID: PMC10846047 DOI: 10.1128/spectrum.02562-22] [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: 07/05/2022] [Accepted: 10/11/2023] [Indexed: 01/18/2024] Open
Abstract
Assembly of infectious hepatitis C virus (HCV) particles requires multiple cellular proteins including for instance apolipoprotein E (ApoE). To describe these protein-protein interactions, we performed an affinity purification mass spectrometry screen of HCV-infected cells. We used functional viral constructs with epitope-tagged envelope protein 2 (E2), protein (p) 7, or nonstructural protein 4B (NS4B) as well as cells expressing a tagged variant of ApoE. We also evaluated assembly stage-dependent remodeling of protein complexes by using viral mutants carrying point mutations abrogating particle production at distinct steps of the HCV particle production cascade. Five ApoE binding proteins, 12 p7 binders, 7 primary E2 interactors, and 24 proteins interacting with NS4B were detected. Cell-derived PREB, STT3B, and SPCS2 as well as viral NS2 interacted with both p7 and E2. Only GTF3C3 interacted with E2 and NS4B, highlighting that HCV assembly and replication complexes exhibit largely distinct interactomes. An HCV core protein mutation, preventing core protein decoration of lipid droplets, profoundly altered the E2 interactome. In cells replicating this mutant, E2 interactions with HSPA5, STT3A/B, RAD23A/B, and ZNF860 were significantly enhanced, suggesting that E2 protein interactions partly depend on core protein functions. Bioinformatic and functional studies including STRING network analyses, RNA interference, and ectopic expression support a role of Rad23A and Rad23B in facilitating HCV infectious virus production. Both Rad23A and Rad23B are involved in the endoplasmic reticulum (ER)-associated protein degradation (ERAD). Collectively, our results provide a map of host proteins interacting with HCV assembly proteins, and they give evidence for the involvement of ER protein folding machineries and the ERAD pathway in the late stages of the HCV replication cycle.IMPORTANCEHepatitis C virus (HCV) establishes chronic infections in the majority of exposed individuals. This capacity likely depends on viral immune evasion strategies. One feature likely contributing to persistence is the formation of so-called lipo-viro particles. These peculiar virions consist of viral structural proteins and cellular lipids and lipoproteins, the latter of which aid in viral attachment and cell entry and likely antibody escape. To learn about how lipo-viro particles are coined, here, we provide a comprehensive overview of protein-protein interactions in virus-producing cells. We identify numerous novel and specific HCV E2, p7, and cellular apolipoprotein E-interacting proteins. Pathway analyses of these interactors show that proteins participating in processes such as endoplasmic reticulum (ER) protein folding, ER-associated protein degradation, and glycosylation are heavily engaged in virus production. Moreover, we find that the proteome of HCV replication sites is distinct from the assembly proteome, suggesting that transport process likely shuttles viral RNA to assembly sites.
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Affiliation(s)
- Alina Matthaei
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
| | - Sebastian Joecks
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
| | - Annika Frauenstein
- RG Experimental Systems Immunology, Max-Planck Institute for Biochemistry, Planegg, Bavaria, Germany
| | - Janina Bruening
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
| | - Dorothea Bankwitz
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
| | - Martina Friesland
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
| | - Gisa Gerold
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
- Department of Biochemistry & Research Center for Emerging Infections and Zoonoses (RIZ), University of Veterinary Medicine Hannover, Hannover, Lower Saxony, Germany
- Department of Clinical Microbiology, Virology, Umeå University, Umeå, Sweden
- Wallenberg Centre for Molecular Medicine (WCMM), Umeå University, Umeå, Sweden
| | - Gabrielle Vieyres
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
- Junior Research Group “Cell Biology of RNA Viruses,” Leibniz Institute of Experimental Virology, Hamburg, Germany
| | - Lars Kaderali
- Institute of Bioinformatics, University Medicine Greifswald, Greifswald, Germany
| | - Felix Meissner
- RG Experimental Systems Immunology, Max-Planck Institute for Biochemistry, Planegg, Bavaria, Germany
- Systems Immunology and Proteomics, Institute of Innate Immunity, Medical Faculty, University of Bonn, Bonn, Germany
| | - Thomas Pietschmann
- Institute of Experimental Virology, TWINCORE, Centre for Experimental and Clinical Infection Research, Hannover, Lower Saxony, Germany
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