Enhancer RNA (eRNA) in Human Diseases

Wang, Yunzhe; Zhang, Chenyang; Wang, Yuxiang; Liu, Xiuping; Zhang, Zhao

doi:10.3390/ijms231911582

Cited by 9 publications

(4 citation statements)

References 164 publications

(225 reference statements)

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“…ERNA is a type of non-coding RNA, that is transcribed from enhancer regions. eRNA has been shown to play a significant role in the activation of oncogenes and aberrant signaling pathways, which contribute to tumorigenesis 19 , 20 . Several studies have demonstrated that oncogene-induced eRNAs can directly promote tumorigenesis.…”

Section: Discussionmentioning

confidence: 99%

Downregulation of enhancer RNA AC003092.1 is associated with poor prognosis in kidney renal clear cell carcinoma

Li,

Gan,

Chen

et al. 2024

Sci Rep

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Kidney renal clear cell carcinoma (KIRC) is the most common histological type of renal cancer, enhancer RNA plays a significant role in tumor growth, however, it has been less studied in renal cancer. The aim of this study was to investigate the role of eRNA AC003092.1 in KIRC. Clinical and RNA expression data were downloaded from a TCGA database, and performed bioinformatics analysis, including expression level analysis, survival analysis, clinical correlation analysis, immune correlation analysis. We further confirmed the expression level of AC003092.1 between normal and tumor cell, predicted the biological role of AC003092.1 in KIRC, and performed cell proliferation and wound healing assays, followed by GSEA enrichment analysis and western blot to detect the proteins of the enriched pathway. Bioinformatics results showed that AC003092.1 expression was elevated in tumor tissues, and knockdown of AC003092.1 expression inhibited cell proliferation and migration. GSEA and western blot results showed that knockdown AC003092.1 expression alleviated the extracellular matrix (ECM) process in KIRC cell lines. Our study provides evidence that AC003092.1 play an important role in KIRC, and AC003092.1 may promote tumor cell progression by affecting the ECM process during tumor development.

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Section: Discussionmentioning

confidence: 99%

Downregulation of enhancer RNA AC003092.1 is associated with poor prognosis in kidney renal clear cell carcinoma

Li,

Gan,

Chen

et al. 2024

Sci Rep

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“…For instance, Schmidt (2001) showed that beehives marked with synthetic Nasonov pheromone were more attractive to honeybees and Mayer, Britt et al, 1989, Mayer, Johansen et al (1989) found that NGP increased honeybee visitation and fruit set in apple, cherry and pear in the USA. In China, the application of NGP lures increased the honeybee visitation frequency and fruit set in blueberry (Liu et al, 2016) and sweet cheery (Wang et al, 2021). However, in orchards without beehives pear flower visitation rates were low, despite the 27.6‐fold higher flower visitation rates in trees with NGP lures than without NGP lures (1.38 ± 0.96 vs. 0.05 ± 0.05 visits per 40 min).…”

Section: Discussionmentioning

confidence: 99%

Synthetic Nasonov gland pheromone enhances abundance and visitation of honeybee, Apis mellifera, in Korla fragrant pear, Pyrus sinkiangensis

Sun

Liu

et al. 2023

Agri and Forest Entomology

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1. Korla fragrant pear (Pyrus sinkiangensis Yü) depends on cross-pollination by honeybees (Apis mellifera) but may suffer from low honeybee visitation.2. We assessed whether honeybee abundance and visitation frequency are enhanced by using synthetic Nasonov gland pheromone (NGP), which is naturally produced by worker bees to stimulate the aggregation of bees to food resources or nesting sites.3. The response of honeybees to synthetic NGP was firstly assessed using Y-tube olfactometer tests in the laboratory, and subsequently in the field, by placing NGP lures on Korla fragrant pear trees in orchards with and without beehives. Honeybee abundance was assessed using coloured pan traps while honeybee visits were assessed by visual observations on pear flowers. 4. Y-tube olfactometer tests showed a significant preference of honeybees for NGP.

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“…In vivo, eRNA has multiple regulatory functions, such as mediating the formation of enhancer-promoter loops, maintaining an open chromatin state, changing the chromatin spatial conformation, and recruiting RNAP2 and other transcription initiation complex molecules [ 13 , 15 – 17 ]. In recent years, the important biological functions of eRNAs have just began to be unraveled in the regulation of diseases, such as cancer, neurodegenerative diseases, cardiovascular diseases, and metabolic diseases [ 18 ]. Therefore, comprehensively analyzing the role of eRNAs, as a hub in integrating signaling from upstream transcription factors (TF) to regulate downstream target genes, would significantly contribute to understanding the genetic basis of complex traits.…”

Section: Introductionmentioning

confidence: 99%

Constructing eRNA-mediated gene regulatory networks to explore the genetic basis of muscle and fat-relevant traits in pigs

Wang,

Chen,

Lei

et al. 2024

Genet Sel Evol

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Background Enhancer RNAs (eRNAs) play a crucial role in transcriptional regulation. While significant progress has been made in understanding epigenetic regulation mediated by eRNAs, research on the construction of eRNA-mediated gene regulatory networks (eGRN) and the identification of critical network components that influence complex traits is lacking. Results Here, employing the pig as a model, we conducted a comprehensive study using H3K27ac histone ChIP-seq and RNA-seq data to construct eRNA expression profiles from multiple tissues of two distinct pig breeds, namely Enshi Black (ES) and Duroc. In addition to revealing the regulatory landscape of eRNAs at the tissue level, we developed an innovative network construction and refinement method by integrating RNA-seq, ChIP-seq, genome-wide association study (GWAS) signals and enhancer-modulating effects of single nucleotide polymorphisms (SNPs) measured by self-transcribing active regulatory region sequencing (STARR-seq) experiments. Using this approach, we unraveled eGRN that significantly influence the growth and development of muscle and fat tissues, and identified several novel genes that affect adipocyte differentiation in a cell line model. Conclusions Our work not only provides novel insights into the genetic basis of economic pig traits, but also offers a generalizable approach to elucidate the eRNA-mediated transcriptional regulation underlying a wide spectrum of complex traits for diverse organisms.

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Enhancer RNA (eRNA) in Human Diseases

Cited by 9 publications

References 164 publications

Downregulation of enhancer RNA AC003092.1 is associated with poor prognosis in kidney renal clear cell carcinoma

Downregulation of enhancer RNA AC003092.1 is associated with poor prognosis in kidney renal clear cell carcinoma

Synthetic Nasonov gland pheromone enhances abundance and visitation of honeybee, Apis mellifera, in Korla fragrant pear, Pyrus sinkiangensis

Constructing eRNA-mediated gene regulatory networks to explore the genetic basis of muscle and fat-relevant traits in pigs

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