Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation
To determine whether pro-inflammatory lipid lysophosphatidylinositols (LPIs) upregulate the expressions of membrane proteins for adhesion/signaling and secretory proteins in human aortic endothelial cell (HAEC) activation, we developed an EC biology knowledge-based transcriptomic formula to profile...
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Frontiers Media S.A.
2021
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oai:doaj.org-article:c4bf8b0069414bbbb53232479e033ca72021-12-01T13:32:49ZNovel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation2297-055X10.3389/fcvm.2021.773473https://doaj.org/article/c4bf8b0069414bbbb53232479e033ca72021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fcvm.2021.773473/fullhttps://doaj.org/toc/2297-055XTo determine whether pro-inflammatory lipid lysophosphatidylinositols (LPIs) upregulate the expressions of membrane proteins for adhesion/signaling and secretory proteins in human aortic endothelial cell (HAEC) activation, we developed an EC biology knowledge-based transcriptomic formula to profile RNA-Seq data panoramically. We made the following primary findings: first, G protein-coupled receptor 55 (GPR55), the LPI receptor, is expressed in the endothelium of both human and mouse aortas, and is significantly upregulated in hyperlipidemia; second, LPIs upregulate 43 clusters of differentiation (CD) in HAECs, promoting EC activation, innate immune trans-differentiation, and immune/inflammatory responses; 72.1% of LPI-upregulated CDs are not induced in influenza virus-, MERS-CoV virus- and herpes virus-infected human endothelial cells, which hinted the specificity of LPIs in HAEC activation; third, LPIs upregulate six types of 640 secretomic genes (SGs), namely, 216 canonical SGs, 60 caspase-1-gasdermin D (GSDMD) SGs, 117 caspase-4/11-GSDMD SGs, 40 exosome SGs, 179 Human Protein Atlas (HPA)-cytokines, and 28 HPA-chemokines, which make HAECs a large secretory organ for inflammation/immune responses and other functions; fourth, LPIs activate transcriptomic remodeling by upregulating 172 transcription factors (TFs), namely, pro-inflammatory factors NR4A3, FOS, KLF3, and HIF1A; fifth, LPIs upregulate 152 nuclear DNA-encoded mitochondrial (mitoCarta) genes, which alter mitochondrial mechanisms and functions, such as mitochondrial organization, respiration, translation, and transport; sixth, LPIs activate reactive oxygen species (ROS) mechanism by upregulating 18 ROS regulators; finally, utilizing the Cytoscape software, we found that three mechanisms, namely, LPI-upregulated TFs, mitoCarta genes, and ROS regulators, are integrated to promote HAEC activation. Our results provide novel insights into aortic EC activation, formulate an EC biology knowledge-based transcriptomic profile strategy, and identify new targets for the development of therapeutics for cardiovascular diseases, inflammatory conditions, immune diseases, organ transplantation, aging, and cancers.Keman XuYing ShaoFatma SaaoudAria GillespieCharles DrummerLu LiuYifan LuYu SunHang XiÇagla TükelDomenico PraticoXuebin QinJianxin SunEric T. ChoiXiaohua JiangXiaohua JiangHong WangXiaofeng YangXiaofeng YangFrontiers Media S.A.articletranscriptomic analysisinflammationsecretomesRNA-Seq analysisaortic endothelial cellDiseases of the circulatory (Cardiovascular) systemRC666-701ENFrontiers in Cardiovascular Medicine, Vol 8 (2021) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
transcriptomic analysis inflammation secretomes RNA-Seq analysis aortic endothelial cell Diseases of the circulatory (Cardiovascular) system RC666-701 |
| spellingShingle |
transcriptomic analysis inflammation secretomes RNA-Seq analysis aortic endothelial cell Diseases of the circulatory (Cardiovascular) system RC666-701 Keman Xu Ying Shao Fatma Saaoud Aria Gillespie Charles Drummer Lu Liu Yifan Lu Yu Sun Hang Xi Çagla Tükel Domenico Pratico Xuebin Qin Jianxin Sun Eric T. Choi Xiaohua Jiang Xiaohua Jiang Hong Wang Xiaofeng Yang Xiaofeng Yang Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| description |
To determine whether pro-inflammatory lipid lysophosphatidylinositols (LPIs) upregulate the expressions of membrane proteins for adhesion/signaling and secretory proteins in human aortic endothelial cell (HAEC) activation, we developed an EC biology knowledge-based transcriptomic formula to profile RNA-Seq data panoramically. We made the following primary findings: first, G protein-coupled receptor 55 (GPR55), the LPI receptor, is expressed in the endothelium of both human and mouse aortas, and is significantly upregulated in hyperlipidemia; second, LPIs upregulate 43 clusters of differentiation (CD) in HAECs, promoting EC activation, innate immune trans-differentiation, and immune/inflammatory responses; 72.1% of LPI-upregulated CDs are not induced in influenza virus-, MERS-CoV virus- and herpes virus-infected human endothelial cells, which hinted the specificity of LPIs in HAEC activation; third, LPIs upregulate six types of 640 secretomic genes (SGs), namely, 216 canonical SGs, 60 caspase-1-gasdermin D (GSDMD) SGs, 117 caspase-4/11-GSDMD SGs, 40 exosome SGs, 179 Human Protein Atlas (HPA)-cytokines, and 28 HPA-chemokines, which make HAECs a large secretory organ for inflammation/immune responses and other functions; fourth, LPIs activate transcriptomic remodeling by upregulating 172 transcription factors (TFs), namely, pro-inflammatory factors NR4A3, FOS, KLF3, and HIF1A; fifth, LPIs upregulate 152 nuclear DNA-encoded mitochondrial (mitoCarta) genes, which alter mitochondrial mechanisms and functions, such as mitochondrial organization, respiration, translation, and transport; sixth, LPIs activate reactive oxygen species (ROS) mechanism by upregulating 18 ROS regulators; finally, utilizing the Cytoscape software, we found that three mechanisms, namely, LPI-upregulated TFs, mitoCarta genes, and ROS regulators, are integrated to promote HAEC activation. Our results provide novel insights into aortic EC activation, formulate an EC biology knowledge-based transcriptomic profile strategy, and identify new targets for the development of therapeutics for cardiovascular diseases, inflammatory conditions, immune diseases, organ transplantation, aging, and cancers. |
| format |
article |
| author |
Keman Xu Ying Shao Fatma Saaoud Aria Gillespie Charles Drummer Lu Liu Yifan Lu Yu Sun Hang Xi Çagla Tükel Domenico Pratico Xuebin Qin Jianxin Sun Eric T. Choi Xiaohua Jiang Xiaohua Jiang Hong Wang Xiaofeng Yang Xiaofeng Yang |
| author_facet |
Keman Xu Ying Shao Fatma Saaoud Aria Gillespie Charles Drummer Lu Liu Yifan Lu Yu Sun Hang Xi Çagla Tükel Domenico Pratico Xuebin Qin Jianxin Sun Eric T. Choi Xiaohua Jiang Xiaohua Jiang Hong Wang Xiaofeng Yang Xiaofeng Yang |
| author_sort |
Keman Xu |
| title |
Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| title_short |
Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| title_full |
Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| title_fullStr |
Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| title_full_unstemmed |
Novel Knowledge-Based Transcriptomic Profiling of Lipid Lysophosphatidylinositol-Induced Endothelial Cell Activation |
| title_sort |
novel knowledge-based transcriptomic profiling of lipid lysophosphatidylinositol-induced endothelial cell activation |
| publisher |
Frontiers Media S.A. |
| publishDate |
2021 |
| url |
https://doaj.org/article/c4bf8b0069414bbbb53232479e033ca7 |
| work_keys_str_mv |
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1718405137361272832 |