{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T04:56:44Z","timestamp":1787029004172,"version":"build-2736575974"},"reference-count":36,"publisher":"MDPI AG","issue":"2","license":[{"start":{"date-parts":[[2025,2,13]],"date-time":"2025-02-13T00:00:00Z","timestamp":1739404800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Natural Science Foundation of Chongqing","award":["CSTB2022NSCQ-MSX0311"],"award-info":[{"award-number":["CSTB2022NSCQ-MSX0311"]}]},{"name":"Natural Science Foundation of Chongqing","award":["cstc2020jcyj-msxmX0446"],"award-info":[{"award-number":["cstc2020jcyj-msxmX0446"]}]},{"name":"Natural Science Foundation of Chongqing","award":["2024-27"],"award-info":[{"award-number":["2024-27"]}]},{"name":"Natural Science Foundation of Chongqing","award":["SWU-KT22013"],"award-info":[{"award-number":["SWU-KT22013"]}]},{"name":"General Fund of Guizhou Agricultural Science and Technology","award":["CSTB2022NSCQ-MSX0311"],"award-info":[{"award-number":["CSTB2022NSCQ-MSX0311"]}]},{"name":"General Fund of Guizhou Agricultural Science and Technology","award":["cstc2020jcyj-msxmX0446"],"award-info":[{"award-number":["cstc2020jcyj-msxmX0446"]}]},{"name":"General Fund of Guizhou Agricultural Science and Technology","award":["2024-27"],"award-info":[{"award-number":["2024-27"]}]},{"name":"General Fund of Guizhou Agricultural Science and Technology","award":["SWU-KT22013"],"award-info":[{"award-number":["SWU-KT22013"]}]},{"name":"Fundamental Research Funds for the Central Universities","award":["CSTB2022NSCQ-MSX0311"],"award-info":[{"award-number":["CSTB2022NSCQ-MSX0311"]}]},{"name":"Fundamental Research Funds for the Central Universities","award":["cstc2020jcyj-msxmX0446"],"award-info":[{"award-number":["cstc2020jcyj-msxmX0446"]}]},{"name":"Fundamental Research Funds for the Central Universities","award":["2024-27"],"award-info":[{"award-number":["2024-27"]}]},{"name":"Fundamental Research Funds for the Central Universities","award":["SWU-KT22013"],"award-info":[{"award-number":["SWU-KT22013"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Microorganisms"],"abstract":"<jats:p>Background: Swine hepatitis E (HEV) is a zoonotic infectious disease caused by the swine hepatitis E virus (SHEV). Open reading frame 3 (ORF3) is a key virulence factor in swine HEV, playing a crucial role in the release of viral particles, the modulation of the host innate immune response, and regulation of autophagy and apoptosis, etc. However, its main function and pathogenic mechanism remain incompletely understood. Results: In our study, adenoviruses ADV4-ORF3 and ADV4-GFP were successfully constructed and mediated the overexpression of enhanced green fluorescent protein (EGFP)-ORF3 and EGFP in HepG2 cells. A total of 217 differentially expressed messenger RNAs (mRNAs) were screened by high-throughput sequencing, and 27 statistically significant differentially expressed genes were screened for further quantitative real-time reverse transcription (qRT-PCR) verification by functional enrichment (Gene Ontology [GO] and Kyoto Encyclopedia of Genes and Genomes [KEGG]). They are mainly involved in six pathways: the cellular response to unfolded protein, inflammatory response, cytokine activity, TNF signaling pathway, influenza A, and pathways in cancer. In a comparative analysis of transcriptome and mRNA expression profiles of lncRNA sequencing, the results showed that 3 mRNAs of GPX1, MDM4, and CLDN and 39 transcripts overlapped and have been identified. Conclusions: Eight differential genes, HSPA1A, HSPA1B, PLD3, RELA, GPI, SAMHD1, RPS6KA4, and PIK3CB, were successfully verified. Comparing and analyzing the results of the two sequencing methods indicated that the 3 mRNAs of GPX1, MDM4, and CLDN and 39 transcripts overlapped and have been identified in SHEV ORF3-expressing HepG2 cells, which has laid a genetic foundation for the physiological function and mechanism of SHEV ORF3.<\/jats:p>","DOI":"10.3390\/microorganisms13020412","type":"journal-article","created":{"date-parts":[[2025,2,13]],"date-time":"2025-02-13T09:05:42Z","timestamp":1739437542000},"page":"412","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Descriptive Comparative Transcriptomic Analysis of Genotype IV SHEV ORF3-Expressing HepG2 Cells"],"prefix":"10.3390","volume":"13","author":[{"given":"Hanwei","family":"Jiao","sequence":"first","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chi","family":"Meng","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fengyuan","family":"Jiao","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gengxu","family":"Zhou","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lingjie","family":"Wang","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shengping","family":"Wu","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cailiang","family":"Fan","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"},{"name":"Animal Epidemic Prevention and Control Center of Rongchang, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jixiang","family":"Li","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4697-8509","authenticated-orcid":false,"given":"Liting","family":"Cao","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yu","family":"Zhao","sequence":"additional","affiliation":[{"name":"Institute of Animal Husbandry and Veterinary Medicine of Guizhou Academy of Agricultural Science, Ministry of Agriculture and Rural Affairs Key Laboratory of Crop Genitic Resources and Germplasm Innovation in Karst Region, Guiyang 550005, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yichen","family":"Luo","sequence":"additional","affiliation":[{"name":"The College of Veterinary Medicine, Southwest University, Chongqing 402460, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2025,2,13]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","unstructured":"Ahmed, R., and Nasheri, N. (2023). Animal reservoirs for hepatitis E virus within the Paslahepevirus genus. Vet. Microbiol., 278.","DOI":"10.1016\/j.vetmic.2022.109618"},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"9860","DOI":"10.1073\/pnas.94.18.9860","article-title":"A novel virus in swine is closely related to the human hepatitis E virus","volume":"94","author":"Meng","year":"1997","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"2697","DOI":"10.1080\/22221751.2020.1858178","article-title":"Infectivity and pathogenicity of different hepatitis E virus genotypes\/subtypes in rabbit model","volume":"9","author":"Li","year":"2020","journal-title":"Emerg. Microbes Infect."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"7955","DOI":"10.3748\/wjg.v20.i24.7955","article-title":"Seroprevalence and evolutionary dynamics of genotype 4 hepatitis E virus in Shandong Province, China","volume":"20","author":"Yang","year":"2014","journal-title":"World J. Gastroenterol."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"105338","DOI":"10.1016\/j.micinf.2024.105338","article-title":"Cross-species transmission and animal infection model of hepatitis E virus","volume":"27","author":"Xu","year":"2024","journal-title":"Microbes Infect."},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"103501","DOI":"10.1016\/j.psj.2024.103501","article-title":"Hepatitis E virus causes apoptosis of ovarian cells in hens and resulting in a decrease in egg production","volume":"103","author":"Zhang","year":"2024","journal-title":"Poult. Sci."},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"1867","DOI":"10.1097\/HEP.0000000000000421","article-title":"Soluble ORF2 protein enhances HEV replication and induces long-lasting antibody response and protective immunity in vivo","volume":"78","author":"Ralfs","year":"2023","journal-title":"Hepatology"},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"1907","DOI":"10.1016\/j.csbj.2021.03.038","article-title":"Structural and molecular biology of hepatitis E virus","volume":"19","author":"Wang","year":"2021","journal-title":"Comput. Struct. Biotechnol. J."},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"Baha, S., Zhang, M., Behloul, N., Liu, Z., Wei, W., and Meng, J. (2022). Efficient production and characterization of immunogenic HEV-PCV2 chimeric virus-like particles. Vet. Microbiol., 268.","DOI":"10.1016\/j.vetmic.2022.109410"},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"729","DOI":"10.1111\/jvh.13998","article-title":"NLRP3 Inflammasome Activation Mediates Hepatitis E Virus-Induced Neuroinflammation","volume":"31","author":"Wei","year":"2024","journal-title":"J. Viral Hepat."},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"Kobayashi, T., Takahashi, M., Ohta, S., Hoshino, Y., Yamada, K., Jirintai, S., Primadharsini, P.P., Nagashima, S., Murata, K., and Okamoto, H. (2024). Production and Characterization of Self-Assembled Virus-like Particles Comprising Capsid Proteins from Genotypes 3 and 4 Hepatitis E Virus (HEV) and Rabbit HEV Expressed in Escherichia coli. Viruses, 16.","DOI":"10.3390\/v16091400"},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"E3273","DOI":"10.1111\/tbed.14585","article-title":"Genomic characteristics and recombination patterns of swine hepatitis E virus in China","volume":"69","author":"Bahoussi","year":"2022","journal-title":"Transbound. Emerg. Dis."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"886","DOI":"10.1002\/vms3.707","article-title":"Research on a rat model of genotype IV swine hepatitis E virus","volume":"8","author":"Jian","year":"2022","journal-title":"Vet. Med. Sci."},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"6914","DOI":"10.1073\/pnas.1705446114","article-title":"Pig model mimicking chronic hepatitis E virus infection in immunocompromised patients to assess immune correlates during chronicity","volume":"114","author":"Cao","year":"2017","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"ref_15","doi-asserted-by":"crossref","unstructured":"Nemes, K., Persson, S., and Simonsson, M. (2023). Hepatitis A Virus and Hepatitis E Virus as Food- and Waterborne Pathogens\u2014Transmission Routes and Methods for Detection in Food. Viruses, 15.","DOI":"10.3390\/v15081725"},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"1109","DOI":"10.1016\/j.jhep.2022.05.006","article-title":"Chronic hepatitis E: Advancing research and patient care","volume":"77","author":"Ma","year":"2022","journal-title":"J. Hepatol."},{"key":"ref_17","doi-asserted-by":"crossref","unstructured":"Wang, Y. (2023). Transmission of Hepatitis E Virus. Hepatitis E Virus, Springer Nature.","DOI":"10.1007\/978-981-99-1304-6_17"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"105000","DOI":"10.1016\/j.rvsc.2023.105000","article-title":"High circulation of hepatitis E virus (HEV) in pigs from the central region of Argentina without evidence of virus occurrence in pork meat and derived products","volume":"164","author":"Fantilli","year":"2023","journal-title":"Res. Vet. Sci."},{"key":"ref_19","doi-asserted-by":"crossref","unstructured":"Monini, M., Ianiro, G., De Sabato, L., Bivona, M., Ostanello, F., and Di Bartolo, I. (2024). Persistence of hepatitis E virus (HEV) subtypes 3c and 3e: Long-term cold storage and heat treatments. Food Microbiol., 121.","DOI":"10.1016\/j.fm.2024.104529"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"1361","DOI":"10.1007\/s00705-009-0447-0","article-title":"Analysis of the helicase gene of Korean swine hepatitis E virus isolates and trends in viral infection","volume":"154","author":"Lee","year":"2009","journal-title":"Arch. Virol."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"359","DOI":"10.1111\/j.1574-695X.2010.00770.x","article-title":"Proteomic analysis of swine hepatitis E virus (sHEV)-infected livers reveals upregulation of apolipoprotein and downregulation of ferritin heavy chain","volume":"61","author":"Lee","year":"2011","journal-title":"FEMS Immunol. Med. Microbiol."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1007\/s11262-013-0912-4","article-title":"Identification of miR-221 and -222 as important regulators in genotype IV swine hepatitis E virus ORF3-expressing HEK 293 cells","volume":"47","author":"Cheng","year":"2013","journal-title":"Virus Genes"},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"6375","DOI":"10.1128\/JVI.02571-08","article-title":"The hepatitis E virus open reading frame 3 product interacts with microtubules and interferes with their dynamics","volume":"83","author":"Kannan","year":"2009","journal-title":"J. Virol."},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Jiao, H., Shuai, X., Luo, Y., Zhou, Z., Zhao, Y., Li, B., Gu, G., Li, W., Li, M., and Zeng, H. (2021). Deep Insight Into Long Non-coding RNA and mRNA Transcriptome Profiling in HepG2 Cells Expressing Genotype IV Swine Hepatitis E Virus ORF3. Front. Vet. Sci., 8.","DOI":"10.3389\/fvets.2021.625609"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"096368972110550","DOI":"10.1177\/09636897211055042","article-title":"Identifying Circular RNAs in HepG2 Expressing Genotype IV Swine Hepatitis E Virus ORF3 Via Whole Genome Sequencing","volume":"30","author":"Jiao","year":"2021","journal-title":"Cell Transplant."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1016\/j.jinf.2023.05.003","article-title":"Genotype 4 Hepatitis E virus replicates in the placenta, causes severe histopathological damage, and vertically transmits to fetuses","volume":"87","author":"Qian","year":"2023","journal-title":"J. Infect."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"2332657","DOI":"10.1080\/22221751.2024.2332657","article-title":"Hepatitis E virus infects human testicular tissue and Sertoli cells","volume":"13","author":"Liu","year":"2024","journal-title":"Emerg. Microbes Infect."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"1","DOI":"10.15212\/ZOONOSES-2022-0023","article-title":"Advances in Acute Severe Hepatitis of Unknown Etiology in Children","volume":"2","author":"Zhou","year":"2022","journal-title":"Zoonoses"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"e29691","DOI":"10.1002\/jmv.29691","article-title":"Multifunctional ORF3 protein of hepatitis E virus","volume":"96","author":"Li","year":"2024","journal-title":"J. Med. Virol."},{"key":"ref_30","doi-asserted-by":"crossref","unstructured":"Lei, Q., Li, L., Zhang, S., Li, T., Zhang, X., Ding, X., and Qin, B. (2018). HEV ORF3 downregulates TLR7 to inhibit the generation of type I interferon via impairment of multiple signaling pathways. Sci. Rep., 8.","DOI":"10.1038\/s41598-018-26975-4"},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Xu, J., Wu, F., Tian, D., Wang, J., Zheng, Z., and Xia, N. (2014). Open Reading Frame 3 of Genotype 1 Hepatitis E Virus Inhibits Nuclear Factor-\u03baappa B Signaling Induced by Tumor Necrosis Factor-\u03b1 in Human A549 Lung Epithelial Cells. PLoS ONE, 9.","DOI":"10.1371\/journal.pone.0100787"},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"1112","DOI":"10.1002\/jmv.25400","article-title":"HEV ORF3 downregulatesCD14 and CD64 to impair macrophages phagocytosis through inhibiting JAK\/STAT pathway","volume":"91","author":"Lei","year":"2019","journal-title":"J. Med. Virol."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"907","DOI":"10.1038\/s41587-019-0201-4","article-title":"Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype","volume":"37","author":"Kim","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"294","DOI":"10.1111\/jvh.12491","article-title":"Disparity of basal and therapeutically activated interferon signalling in constraining hepatitis E virus infection","volume":"23","author":"Zhou","year":"2016","journal-title":"J. Viral Hepat."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"826","DOI":"10.1111\/hepr.12028","article-title":"Serum tumor necrosis factor-alpha level in hepatitis E virus-related acute viral hepatitis and fulminant hepatic failure in pregnant women","volume":"43","author":"Salam","year":"2013","journal-title":"Hepatol. Res."},{"key":"ref_36","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1016\/j.actatropica.2019.02.004","article-title":"Serological evidence of hepatitis E virus and influenza A virus infection in farmed wild boars in China","volume":"192","author":"Liang","year":"2019","journal-title":"Acta Trop."}],"container-title":["Microorganisms"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2076-2607\/13\/2\/412\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,9]],"date-time":"2025-10-09T16:33:08Z","timestamp":1760027588000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2076-2607\/13\/2\/412"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,2,13]]},"references-count":36,"journal-issue":{"issue":"2","published-online":{"date-parts":[[2025,2]]}},"alternative-id":["microorganisms13020412"],"URL":"https:\/\/doi.org\/10.3390\/microorganisms13020412","relation":{},"ISSN":["2076-2607"],"issn-type":[{"value":"2076-2607","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,2,13]]}}}