High-throughput sequencing reveals differential expression of miRNAs in intestine from sea cucumber during aestivation.
High-throughput sequencing reveals differential expression of miRNAs in intestine from sea cucumber during aestivation.
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高通量测序揭示夏眠期间海参肠道中 miRNA 的差异表达
DOI：
10.1371/journal.pone.0076120
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Storey KB
中科院分区：
文献类型：
--
作者：
Chen M;Zhang X;Liu J;Storey KB
miRNA在基因表达调控中的作用是近年来在代谢调控中的一个新热点。海参夏眠是一个复杂的生理过程，其代谢功能明显降低，耗氧量和氨氮排泄率下降，肠道严重退化为细小的丝状体。为了确定miRNAs是否在这一过程中发挥调控作用，本研究利用Solexa深度测序技术分析了海参（Apostichopus）肠道中miRNAs的表达谱。我们鉴定了308个海参miRNAs，其中包括18个新的海参特异性miRNAs。将在至少15天的连续昏睡后的深夏眠（DA）期间采样的动物与非夏眠（NA）状态的动物（已通过夏眠并恢复到活动状态的动物）进行比较。我们鉴定了42种差异表达的miRNA [RPM（每百万读段数）>10，|FC| (|倍数变化|）≥1，FDR（假发现率）<0. 01]，这一结果也被另外两种miRNA谱分析方法：miRNA微阵列和实时荧光定量PCR所验证。在最突出的miRNA种类中，与非夏眠动物相比，miR-200- 3 p、miR-2004、miR-2010、miR-22、miR-252 a、miR-252 a-3 p和miR-92在深夏眠期间显著过表达。初步分析其靶基因和GO分析表明，这些miRNAs可能在夏眠期间的整体转录抑制和细胞分化中发挥重要作用。高通量测序数据和微阵列数据已提交到GEO数据库。
The regulatory role of miRNA in gene expression is an emerging hot new topic in the control of hypometabolism. Sea cucumber aestivation is a complicated physiological process that includes obvious hypometabolism as evidenced by a decrease in the rates of oxygen consumption and ammonia nitrogen excretion, as well as a serious degeneration of the intestine into a very tiny filament. To determine whether miRNAs play regulatory roles in this process, the present study analyzed profiles of miRNA expression in the intestine of the sea cucumber (Apostichopus japonicus), using Solexa deep sequencing technology. We identified 308 sea cucumber miRNAs, including 18 novel miRNAs specific to sea cucumber. Animals sampled during deep aestivation (DA) after at least 15 days of continuous torpor, were compared with animals from a non-aestivation (NA) state (animals that had passed through aestivation and returned to the active state). We identified 42 differentially expressed miRNAs [RPM (reads per million) >10, |FC| (|fold change|) ≥1, FDR (false discovery rate) <0.01] during aestivation, which were validated by two other miRNA profiling methods: miRNA microarray and real-time PCR. Among the most prominent miRNA species, miR-200-3p, miR-2004, miR-2010, miR-22, miR-252a, miR-252a-3p and miR-92 were significantly over-expressed during deep aestivation compared with non-aestivation animals. Preliminary analyses of their putative target genes and GO analysis suggest that these miRNAs could play important roles in global transcriptional depression and cell differentiation during aestivation. High-throughput sequencing data and microarray data have been submitted to GEO database.
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影响因子：
14.9
作者：
Chen C;Ridzon DA;Broomer AJ;Zhou Z;Lee DH;Nguyen JT;Barbisin M;Xu NL;Mahuvakar VR;Andersen MR;Lao KQ;Livak KJ;Guegler KJ
通讯作者：
Guegler KJ
DOI：
10.1016/j.bbagrm.2008.07.011
发表时间：
2008-10-01
影响因子：
4.7
作者：
Morin, Pier Jr.;Dubuc, Adrian;Storey, Kenneth B.
通讯作者：
Storey, Kenneth B.
影响因子：
16
作者：
Orom, Ulf Andersson;Nielsen, Finn Cilius;Lund, Anders H.
通讯作者：
Lund, Anders H.
DOI：
10.1016/j.bbagen.2007.10.009
发表时间：
2008-02-01
影响因子：
3
作者：
Abnous, Khalil;Dieni, Christopher A.;Storey, Kenneth B.
通讯作者：
Storey, Kenneth B.
影响因子：
3.7
作者：
Kadri S;Hinman VF;Benos PV
通讯作者：
Benos PV