Identification and analysis of long non-coding RNAs and mRNAs in chicken macrophages infected with avian infectious bronchitis coronavirus.
BACKGROUND
Avian infectious bronchitis virus (IBV) is a gamma coronavirus that severely affects the poultry industry worldwide. Long non-coding RNAs (lncRNAs), a subset of non-coding RNAs with a length of more than 200 nucleotides, have been recently recognized as pivotal factors in the pathogenesis of viral infections. However, little is known about the function of lncRNAs in host cultured cells in response to IBV infection.


RESULTS
We used next-generation high throughput sequencing to reveal the expression profiles of mRNAs and lncRNAs in IBV-infected HD11 cells. Compared with the uninfected cells, we identified 153 differentially expressed (DE) mRNAs (106 up-regulated mRNAs, 47 down-regulated mRNAs) and 181 DE lncRNAs (59 up-regulated lncRNAs, 122 down-regulated lncRNAs) in IBV-infected HD11 cells. Moreover, gene ontology (GO) and pathway enrichment analyses indicated that DE mRNAs and lncRNAs were mainly involved in cellular innate immunity, amino acid metabolism, and nucleic acid metabolism. In addition, 2640 novel chicken lncRNAs were identified, and a competing endogenous RNA (ceRNAs) network centered on gga-miR-30d and miR-146a-5p was established.


CONCLUSIONS
We identified expression profiles of mRNAs and lncRNAs during IBV infection that provided new insights into the pathogenesis of IBV.
['Li|Hao|H|', 'Cui|Pengfei|P|', 'Fu|Xue|X|', 'Zhang|Lan|L|', 'Yan|Wenjun|W|', 'Zhai|Yaru|Y|', 'Lei|Changwei|C|', 'Wang|Hongning|H|', 'Yang|Xin|X|http://orcid.org/0000-0002-7940-714X']
D000818:Animals D002460:Cell Line D002645:Chickens D018352:Coronavirus Infections D020869:Gene Expression Profiling D063990:Gene Ontology D001351:Infectious bronchitis virus D008264:Macrophages D011201:Poultry Diseases D062085:RNA, Long Noncoding D012333:RNA, Messenger D015398:Signal Transduction D059467:Transcriptome D014774:Virulence
Chicken Coronavirus IBV lncRNA HD11 Gga-miR-30d miR-146a-5p