利用 scRNA-seq 分析银屑病皮肤中的 lncRNA。

Rachael Bogle, Matthew T Patrick, Sutharzan Sreeskandarajan, Mehrnaz Gharaee-Kermani, Haihan Zhang, Qinmengge Li, Ruiwen Zhou, Feiyang Ma, J Michelle Kahlenberg, Olesya Plazyo, James T Elder, Allison C Billi, Johann E Gudjonsson, Lam C Tsoi
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引用次数: 0

摘要

以前曾利用批量 RNA-seq 确定了长非编码 RNA(lncRNA)的表达及其在表皮分化中的作用。尽管lncRNA具有组织特异性表达谱,但大多数lncRNA并没有在单细胞水平上得到很好的标注。在这里,我们使用来自 6 名银屑病患者的数据,评估了使用 scRNA-seq 对 lncRNAs 进行剖析和定性的情况。尽管它们的整体表达量较低,但我们还是检测到了超过 7,000 个皮肤表达的 lncRNA 及其细胞来源。差异基因表达分析揭示了银屑病(PP)皮损皮肤中137个差异表达的lncRNA,并确定了169个细胞类型特异的lncRNA。角质形成细胞在银屑病皮肤中差异表达的 lncRNA 数量最多,我们利用空间转录组数据验证了这一点。我们进一步发现,角质形成细胞特异性 lncRNA AC020916.1 的表达在病变皮肤中上调,与参与细胞增殖/表皮分化的基因(包括 SPRR2E 和转录因子 ZFP36)的表达显著相关,尤其是在银屑病皮肤中。我们的研究强调了利用 scRNA-seq 分析皮肤表达的 lncRNA 转录本并推断其细胞来源的潜力,提供了一种可用于研究其他炎症性皮肤病的重要方法。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Profiling Long Noncoding RNA in Psoriatic Skin Using Single-Cell RNA Sequencing.

The expressions of long noncoding RNAs (lncRNAs) and their roles in epidermal differentiation have been previously defined using bulk RNA sequencing. Despite their tissue-specific expression profiles, most lncRNAs are not well-annotated at the single-cell level. In this study, we evaluated the use of single-cell RNA sequencing to profile and characterize lncRNAs using data from 6 patients with psoriasis with paired uninvolved and lesional psoriatic skin. Despite their overall lower expression, we were able to detect >7000 skin-expressing lncRNAs and their cellular sources. Differential gene expression analysis revealed 137 differentially expressed lncRNAs in lesional psoriasis skin and identified 169 cell-type-specific lncRNAs. Keratinocytes had the highest number of differentially expressed lncRNA in psoriatic skin, which we validated using spatial transcriptomic data. We further showed that expression of the keratinocyte-specific lncRNA, AC020916.1, upregulated in lesional skin, is significantly correlated with expressions of genes participating in cell proliferation/epidermal differentiation, including SPRR2E and transcription factor ZFP36, particularly in the psoriatic skin. Our study highlights the potential for using single-cell RNA sequencing to profile skin-expressing lncRNA transcripts and to infer their cellular origins, providing a crucial approach that can be applied to the study of other inflammatory skin conditions.

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