ATF3- and ZIKV-dependent transcriptome of A549 cells
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ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE233049 | GEO | 2023/06/30
REPOSITORIES: GEO
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Project description:ATF3- and ZIKV-dependent transcriptome of A549 cells
| PRJNA974835 | ENA
Project description:Viral infection has a great impact on cellular expression profile of non-coding RNAs and genes. By microarray screening, our study identified 79 long non-coding RNAs (lncRNAs) and 140 mRNAs that were differentially expressed in human lung epithelial A549 cells infected with Zika virus (ZIKV). The bioinformatics analysis indicated that many differentially expressed lncRNAs were located in same chromosome as the differentially expressed mRNAs; and these lncRNAs and mRNAs were involved in the host responses to viral infection, including the innate immune response.
2018-12-20 | GSE124094 | GEO
Project description:To determine the effect of Zika virus infection on pre-implantation embryonic development, we performed single blastocyst RNA-Seq on MOCK and ZIKV infected embryos. ZIKV infection results in an increased risk of spontaneous abortion and poor intrauterine growth although the mechanisms underlying fetal loss remain undetermined. Little is known about the impact of ZIKV infection during the earliest stages of pregnancy, or pre- and peri-implantation, because most current studies of ZIKV infection in pregnancy models focus on post-implantation stages. Here, we demonstrate that trophectoderm cells of pre-implantation human and mouse embryos can be efficiently infected with ZIKV, and that trophectoderm can propagate virus causing cell death of neural progenitors. These findings were corroborated by our demonstration that hESC-derived trophectoderm cells are infected by ZIKV in a dose dependent manner. RNAseq of single blastocysts revealed key transcriptional changes in cellular and physiologic functions upon ZIKV infection, including nervous system development and function, prior to commitment to the neural cell lineage. Finally, the pregnancy rate of mice infected pre-implantation was > 50% lower than females infected at E4.5. These results demonstrate that pre-implantation ZIKV infection of trophectoderm leads to miscarriage or spontaneous abortion. Moreover, pre- and peri-implantation ZIKV infects trophectoderm cells that propagate virus over time causing cell death in neural progenitors. Cumulatively, these data demonstrate that vertical pre- and peri-implantation ZIKV infection of trophectoderm impairs fetal development and causes neural progenitor cell death, elucidating a previously unappreciated association of pre- and peri-implantation ZIKV infection and microcephaly.
2019-08-16 | GSE133254 | GEO
Project description:To characterise the human trophoblast cells derived from human ESCs and the effects of ZIKV infection on them, we performed RNA-seq on two sets of samples: 1)human ES cell line HuES8 and the trophoblast cells differentiated. 2)trophoblast cells infected at 4 days after differentiation by MOCK and ZIKV, and harvested 72hpi. Here, we demonstrate gene expression profile of trophoblasts derived from human ESCs is similar to the trophoectoderm cells isolated from human blastocysts. And ZIKV infection on the human ESCs derived trophoblasts activated a panel of pathways, including programmed cell death.
2019-08-16 | GSE133396 | GEO
Project description:To investigate cellular pathway dysregulation upon ZIKV infection, time-resolved phosphoproteomics LC-MS/MS analysis was used. ZIKV-infected SK-N-BE2 cells or mock-treated cells were harvested 24, 48 and 72 hours post virus infection and their phosphoproteome was quantitatively analyzed by label-free LC-MS/MS.
2018-09-03 | PXD009560 | Pride
Project description:ZIKV alters transcriptional responses of infected cells to avoid immune detection. We have compared the transcriptional responses of ZIKV-infected hBMECs and mock-infected hBMECs. Examination of transcriptional responses of ZIKV-infected hBMECs versus mock-infected hBMECs
2017-07-15 | GSE98889 | GEO
Project description:To identify the cellular interactors of ZIKV-NS4B-interacting proteins and their differential composition upon ZIKV infection, individual cDNAs expressing FLAG-tagged variants of the following ZIKV-NS4B-interacting proteins were generated (GeneBank and UniProt Accession numbers are given in parenthesis): CEND1 (BC034732.1; Q8N111), CHP1 (BC031293; Q99653), CLN6 (BC010849.1; Q9NWW5), TMEM41b (BC035034.1; Q5BJD5), RBFOX2 (NM_001082579.1; O43251-6), BSG (BC009040.2;P35613). Lentiviruses expressing each of these proteins were used to transduce SK-N-BE2 cells, which were either mock-infected or infected with ZIKV (H/PF/2013, MOI=3), and 72 hours later subjected to AP-MS/MS to identify the respective cellular interactors.
2018-09-03 | PXD009561 | Pride
Project description:Zika virus (ZIKV), a re-emerging flavivirus is associated with devastating developmental and neurological disease outcomes particularly in infants infected in utero. Towards understanding the molecular underpinning of the unique ZIKV disease pathologies, numerous transcriptome-wide studies have been undertaken. Notably, these studies have overlooked the assimilation of RNA-seq analysis from ZIKV-infected patients with cell culture and cell model systems. We determined that ZIKV-infection in human lung adenocarcinoma A549 cells, mirrored both transcriptional and alternative splicing profiles from previously published RNA-seq data of peripheral blood mononuclear cells collected from pediatric patients during early, late acute, and convalescent phases of ZIKV infection. Our analyses show that ZIKV infection in cultured cells correlates with transcriptional changes in patients, while the overlap in alternative splicing profiles was not as extensive. Overall, our data indicate that cell culture model systems support dissection of select molecular changes detected in patients and established the foundation for future studies elucidating the biological implications of alternative splicing during ZIKV infection.
2024-08-02 | GSE265922 | GEO
Project description:Analysis of death triggering pathways activated by experimental Zika virus infection in SH-SY5Y cells by expression profiling of 42 genes related to survival, anti-apoptotic and proapoptotic responses, and death receptors pathway, and 06 endogenous control genes. Commercially available neuroblastoma SH-SY5Y cells were grown in vitro, experimentally infected with Zika virus (MOI 0.5), and MOCK- and ZIKV-infected cells were harvested at 1 and 2 days post-infection. We used TaqMan ™ Array Human Apoptosis via Death Receptors (Thermo Fisher Scientific, MA, USA) to quantitate gene expression during ZIKV infection in SH-SY5Y cells.
2021-12-01 | GSE162096 | GEO
Project description:Glioma stem cells derived from patient samples were infected with ZIKV at MOI of 1 for 48hrs, total RNA was extracted and deep sequenced to compare the gene expression profiles between mock and ZIKV infected cells
2018-05-26 | GSE114907 | GEO