Viral Infection Identifies Micropeptides Differentially Regulated in smORF-Containing lncRNAs.
Viral Infection Identifies Micropeptides Differentially Regulated in smORF-Containing lncRNAs.
复制标题
病毒感染鉴定在含有SMORF的LNCRNA中受差异调节的微肽。
DOI：
10.3390/genes8080206
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发表时间：
2017-08-21
期刊：
影响因子：
3.5
通讯作者：
Tarakhovsky A
中科院分区：
文献类型：
--
作者：
Razooky BS;Obermayer B;O'May JB;Tarakhovsky A
Viral infection leads to a robust cellular response whereby the infected cell produces hundreds of molecular regulators to combat infection. Currently, non-canonical components, e.g., long noncoding RNAs (lncRNAs) have been added to the repertoire of immune regulators involved in the antiviral program. Interestingly, studies utilizing next-generation sequencing technologies show that a subset of the >10,000 lncRNAs in the mammalian genome contain small open reading frames (smORFs) associated with active translation, i.e., many lncRNAs are not noncoding. Here, we use genome-wide high-throughput methods to identify potential micropeptides in smORF-containing lncRNAs involved in the immune response. Using influenza as a viral infection model, we performed RNA-seq and ribosome profiling to track expression and translation of putative lncRNAs that may encode for peptides and identify tens of potential candidates. Interestingly, many of these peptides are highly conserved at the protein level, strongly suggesting biological relevance and activity. By perusing publicly available data sets, four potential peptides of interest seem common to stress induction and/or are highly conserved; potential peptides from the MMP24-AS1, ZFAS1, RP11-622K12.1, and MIR22HG genes. Interestingly, using an antibody against the potential peptide encoded by MIR22HG RNA, we show that the peptide is stably expressed in the absence of infection, and upregulated in response to infection, corroborating the prediction of the ribosome profiling results. These data show the utility of perturbation approaches in identifying potentially relevant novel molecules encoded in the genome.
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影响因子：
7.4
作者：
Ma J;Diedrich JK;Jungreis I;Donaldson C;Vaughan J;Kellis M;Yates JR 3rd;Saghatelian A
通讯作者：
Saghatelian A
DOI：
10.1126/science.1240925
发表时间：
2013-08-16
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Carpenter S;Aiello D;Atianand MK;Ricci EP;Gandhi P;Hall LL;Byron M;Monks B;Henry-Bezy M;Lawrence JB;O'Neill LA;Moore MJ;Caffrey DR;Fitzgerald KA
通讯作者：
Fitzgerald KA
DOI：
10.1093/bioinformatics/btr209
发表时间：
2011-07-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Lin MF;Jungreis I;Kellis M
通讯作者：
Kellis M
影响因子：
7
作者：
Pollard, Katherine S.;Hubisz, Melissa J.;Siepel, Adam
通讯作者：
Siepel, Adam
DOI：
10.1126/science.aad4076
发表时间：
2016-01-15
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Nelson BR;Makarewich CA;Anderson DM;Winders BR;Troupes CD;Wu F;Reese AL;McAnally JR;Chen X;Kavalali ET;Cannon SC;Houser SR;Bassel-Duby R;Olson EN
通讯作者：
Olson EN