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| Status |
Public on Dec 20, 2020 |
| Title |
Integrated analysis of mRNAs and lncRNAs repertoires involved immune response in panleukopenia virus-infected feline kidney cell line |
| Organism |
Felis catus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
Expression profiling by high throughput sequencing
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| Summary |
Purporse: FPV can cause a viral disease that occurs in cats, causing severe leukopenia, gastro-enteritis and nervous signs and leads to significant losses. LncRNAs biochemically resemble mRNAs posited by Jacob and Monod, yet do not template protein synthesis. Rather, lncRNAs functioning as RNA genes to play an important role in many biological and pathological processes such as inflammation and viral infection. However, lncRNAs have not been comprehensively identified in felines. Here, microarrays of mRNAs and lncRNAs were globally performed to identify the lncRNAs related to immune response of feline panleukopenia virus infection in F81 cells.
Methods:lncRNA and mRNA sequencing analysis was performed on an Illumina Hiseq 4000 (LC Sciences, USA) following the vendor's recommended protocol
Results: Through RNA sequencing, we performed a comprehensive analysis of lncRNAs and mRNAs in FPV infected F81 cells. F81 cells infected or uninfected FPV were used to prepare six libraries to generate 14.66 to 15.45 gigabytes (GB) clean reads per sample. We obtained 90588 novel lncRNAs, and 291 are differential expressed lncRNAs between FPV infected cells and uninfected cells. Consistent with previous studies, lncRNAs showed features distinct from mRNAs, such as shorter lengths, lesser exon numbers, and lower expression levels compared to mRNAs. The GO enrichment and KEGG pathway analyses showed that a majority of genes and lncRNAs were mainly related to the immune response of host cells with FPV infection. By differentially expressed target genes as well as co-expression network construction analysis, 21 key differentially expressed genes (19 upregulated & 2 downregulated) related to immune regulation of FPV infection in F81 cells were identified. Moreover, fifteen differentially expressed genes (five lncRNAs, ten mRNAs) were selected and independently validated by reverse-transcription qPCR and the results were consistent with the sequencing results.
Conclusion: The present study is the first to provide insights into the biological connection of lncRNAs and FPV infection, which can be further explore for the potential link between lncRNA expression and the pathogenesis of FPV infection.
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| Overall design |
We designed two groups in this study, FPV group ( Feline Panleukopenia Virus infected) and Ctrl group ( Feline Panleukopenia Virus uninfected). Each group includes three replicates, so there are six library were constructed.
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| Contributor(s) |
Zhang L, Cui S |
| Citation missing |
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| Submission date |
Sep 23, 2019 |
| Last update date |
Dec 20, 2020 |
| Contact name |
Lingling Zhang |
| E-mail(s) |
zll080504@163.com
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| Phone |
15169117826
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| Organization name |
Institute of Animal Sciences, Chinese Academy of Agricultural Sciences
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| Street address |
Yuanmingyuan West Road No.2
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| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
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| Platforms (1) |
| GPL23056 |
Illumina HiSeq 4000 (Felis catus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA573728 |
| SRA |
SRP223023 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE137896_merged.fa.gz |
71.0 Mb |
(ftp)(http) |
FA |
| GSE137896_processed_data_lncRNA-seq_Ctrl_and_FPV.xlsx |
6.1 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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