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长链非编码RNA uc.417的生物信息学分析及其在棕色脂肪细胞中的表达研究

Bioinformatics analysis of long non-coding RNA uc.417 and its expression in brown adipocytes

摘要目的:对长链非编码RNA(lncRNA)uc.417进行系统的生物信息学分析,预测其可能参与的生物学过程,并初步研究其在棕色脂肪细胞中的表达。方法应用UCSC在线数据库获取lncRNA uc.417的序列、位置,并分析其特征;应用Ensemble数据库预测lncRNA uc.417靶基因。分离C57BL/6J小鼠肩胛部棕色脂肪,胶原酶法消化、接种培养并诱导其向成熟的棕色脂肪细胞分化。采用逆转录PCR法检测lncRNA uc.417,同源异型基因B6(HOXB6)及同源异型基因B7(HOXB7)在棕色脂肪细胞分化过程中的表达变化,采用t检验比较三者在分化过程第0~10天的表达差异。结果lncRNA uc.417在各物种之间高度保守,其序列所在染色体区域存在众多顺式作用元件结合位置以及大量表观遗传调控线索,可能的调控靶标为HOXB6与HOXB7。lncRNA uc.417在分化过程D4天的相对表达量显著高于D2(2.07±0.77比0.89±0.18,t=4.103,P<0.01),分化过程D8天的相对表达量显著高于D6(10.68±3.28比3.12±0.88,t=-4.238,P<0.01)。结论 lncRNA uc.417在棕色脂肪细胞成脂分化过程中表达量逐渐增加,生物信息学分析提示可能通过调控下游靶基因,参与棕色脂肪细胞成脂分化过程。

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abstractsObjective To predict the biological process in which long non-coding RNA (lncRNA) uc.417 might be involved by a series of bioinformatics analysis, and detect its expression in brown adipocytes, so as to lay foundations and provide theoretical basis for the further studies of lncRNA uc.417 biological functions in brown preadipocytes and obesity. Methods The sequence, position and structure characteristics of lncRNA uc.417 was acquired from UCSC database, and target genes of lncRNA uc.417 were predicted by Ensemble database. The brown preadipocytes were removed, collagenase digestied, incubated and induced to differentiate into mature brown fat cells from C57BL/6J mice. The expression of lncRNA uc.417, homeotic gene B6 (HOXB6) and homeotic gene B7 (HOXB7) were dected using real-time quantitative polymerase chain reaction(PCR). Student′s t test was used to compare their expression level during the differention. Results LncRNA uc.417 had highly conserved property among different species. The chromosomal regions of lncRNA uc.417 had many cis element binding locations and epigenetic regulation clues, and the possible candidate target genes were HOXB6 and HOXB7. The relative expression of lncRNA uc.417 in differentiation day 4 was significantly higher than day 2 (2.07±0.77 vs 0.89±0.18 , t=4.103, P<0.01) , day 8 was significantly higher than day 6 (10.68 ± 3.28 vs 3.12 ± 0.88, t=-4.238, P<0.01). Conclusion The expression of lncRNA uc.417 in brown adipocytes increases during the differentiation. It may play a crucial role in the process of brown preadipocyte-adipocyte transition via regualting the downstream target genes.

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