Increased complexity of circRNA expression during species evolution

Dong, Rui; Ma, Xu-Kai; Chen, Lingling; Yang, Li

doi:10.1080/15476286.2016.1269999

Cited by 185 publications

(169 citation statements)

References 25 publications

Supporting

Mentioning

164

Contrasting

Order By: Relevance

“…What factors contribute to the survival of circRNA during hybridization and polyploidization? Recent research in the comparison of human and mouse circRNA found that circRNAs across species usually exhibit higher conservation in primary sequences and longer length of flanked introns . In our study, we also observed this phenomenon.…”

Section: Discussionsupporting

confidence: 85%

See 1 more Smart Citation

Characterization of conserved circular RNA in polyploid Gossypium species and their ancestors

Zhao

Wang

et al. 2017

FEBS Letters

View full text Add to dashboard Cite

Circular RNA (circRNA) is a regulatory class of long, noncoding RNA found in both plant and animal kingdoms. The profile and characterization of circRNA in cotton species remains to be explored. Here, using 24 rRNA-depleted RNA-seq libraries of putative diploid progenitors of Gossypium spp., Gossypium arboreum and Gossypium raimondii, their interspecies hybrid (F ) and allotetraploid Gossypium hirsutum, 1041, 1478, 1311, and 499 circRNAs were identified in each cotton species, respectively. A prevalence of 23 exon-circRNAs contain noncanonical GT/AG signals, and only ~ 10% of exon-circRNA is associated with reverse complementary intronic sequences. This result implies that plants employ a method of circRNA splicing distinct from that of animals. In addition, 432 circRNAs are stably expressed in multiple cotton species.

show abstract

Section: Discussionsupporting

confidence: 85%

“…In a previous study, it was found that 15% of cir-cRNAs in humans and 40% in mouse are conserved [38]. Another study found that~30% of circRNA is conserved in the mouse and rat genomes, and~10% is conserved across human, mouse and rat genomes [22].…”

Section: Features Of Conserved Circrna In Cottonmentioning

confidence: 97%

Characterization of conserved circular RNA in polyploid Gossypium species and their ancestors

Zhao

Wang

et al. 2017

FEBS Letters

View full text Add to dashboard Cite

show abstract

“…Thus, the inhibition of miRNA on target was eliminated and the number of target genes was increased. This mechanism is called the competitive endogenous RNA (ceRNA) mechanism . The RNAs research found that circRNAs play a key role in the development of the disease like EH.…”

Section: Introductionmentioning

confidence: 99%

Up‐regulation of circular RNA hsa_circ_0037909 promotes essential hypertension

Bao

Zheng

et al. 2019

Clinical Laboratory Analysis

View full text Add to dashboard Cite

AimsEssential hypertension (EH) is a high prevalence disease facing a public health challenge. People were little known about the genetics of diagnosing the cause of EH. Circular RNAs that have a continuous cycle of covalent closure, without affected by RNA exonuclease, and are more stable and hard to degrade may involve into the molecule regulation mechanism of EH as an important biomedical.MethodsqRT‐PCR was used to analyze circRNAs in total volume of human blood and the induced human aortic endothelial cells (HAECs) and human umbilical vein endothelial cells (HUVECs). Our case‐control study was involved with 48 pairs of case controls with sex and age (±3 years) match. We conducted t test, Pearson's χ2 test, and receiver operating characteristics (ROC) curve analysis for the corresponding analysis.ResultsThe expression level of hsa_circ_0037909 in EH patients was significantly higher than that in the healthy controls (P = 0.007), and the expression level of hsa‐miR‐637 in EH patients was significantly lower in than that in the healthy controls (P = 0.039); the same result appears in the HAECs and HUVECs. Hsa‐miR‐637 (adjusted P = 0.018), hsa_circ_0037909 (adjusted P = 0.005), HDL (adjusted P = 0.024), and serum creatinine (adjusted P = 0.014) were brought into the model which performed logistic regression analysis. The combination of two RNAs was excellent (P < 0.001) through ROC curve analysis. Hsa_circ_0037909 was significantly positively correlated with serum creatinine (P < 0.001) and low‐density lipoprotein (LDL) (P = 0.017).ConclusionsOur findings suggested that the combination of hsa_circ_0037911 and hsa‐miR‐637 may be a significant important biomarker for early diagnosis of EH. Hsa_circ_0037909 may affect serum creatinine or LDL leading to the formation of EH.

show abstract

“…Among them, at least two types of circular RNAs are processed from nuclear (m)RNA precursors through the spliceosomal pathway [4], including circular intronic RNAs (ciRNAs) [5] from excised introns and circular RNAs (circRNAs) [6][7][8][9][10] from back-spliced exon(s) (reviewed in [1,4]). By taking advantage of nonpolyadenylated transcriptome enrichment [11][12][13] and specific computational approaches that identify reads mapped to back-splice junction sites with a reversed genomic orientation ( Figure 1A) [10,15,16] (reviewed in [1,2,17]), a large amount of circRNAs have been recently re-discovered from thousands of gene loci in various cell lines/tissues and across different species [6][7][8]10,[18][19][20][21]. Increasing lines of evidence have suggested that circRNAs could play important roles in gene expression regulation with different mechanisms of action (reviewed in [1]).…”

Section: Introductionmentioning

confidence: 99%

Multifaceted roles of complementary sequences on circRNA formation

Yang¹,

Wang²,

Yang

2017

Quant. Biol.

Self Cite

View full text Add to dashboard Cite

Background: Circular RNAs (circRNAs) from back-spliced exon(s) are characterized by the covalently closed loop feature with neither 5′ to 3′ polarity nor polyadenylated tail. By using specific computational approaches that identify reads mapped to back-splice junctions with a reversed genomic orientation, ten thousands of circRNAs have been recently re-identified in various cell lines/tissues and across different species. Increasing lines of evidence suggest that back-splicing is catalyzed by the canonical spliceosomal machinery and modulated by cis-elements and trans-factors. Results: In this mini-review, we discuss our current understanding of circRNA biogenesis regulation, mainly focusing on the complex regulation of complementary sequences, especially Alus in human, on circRNA formation. Conclusions: Back-splicing can be significantly facilitated by RNA pair formed by orientation-opposite complementary sequences that juxtapose flanking introns of circularized exon(s). RNA pair formed within individual introns competes with RNA pair formed across flanking introns in the same gene locus, leading to distinct choices for either canonical splicing or back-splicing. Multiple RNA pairs that bracket different circle-forming exons compete for alternative back-splicing selection, resulting in multiple circRNAs generated in a single gene locus.

show abstract

Increased complexity of circRNA expression during species evolution

Cited by 185 publications

References 25 publications

Characterization of conserved circular RNA in polyploid Gossypium species and their ancestors

Characterization of conserved circular RNA in polyploid Gossypium species and their ancestors

Up‐regulation of circular RNA hsa_circ_0037909 promotes essential hypertension

Multifaceted roles of complementary sequences on circRNA formation

Contact Info

Product

Resources

About