Circular RNAs Are Regulators of Diverse Animal Transcriptomes: One Health Perspective

Zucko, Dora; Boris‐Lawrie, Kathleen

doi:10.3389/fgene.2020.00999

Cited by 7 publications

(3 citation statements)

References 150 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The identification of circular RNAs in highly divergent species raises interesting questions about their evolutionary history, and functions ( Wang et al, 2014 ; Ji et al, 2019 ; Zucko and Boris-Lawrie, 2020 ). Li et al (2019) , who reviewed this topic, reported wide discrepancies: some studies claimed that circRNAs are evolutionarily highly conserved molecules, while others believe they are species-specific.…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of the Circular Transcriptome in Muscle, Liver, and Testis in Three Livestock Species

et al. 2021

View full text Add to dashboard Cite

Circular RNAs have been observed in a large number of species and tissues and are now recognized as a clear component of the transcriptome. Our study takes advantage of functional datasets produced within the FAANG consortium to investigate the pervasiveness of circular RNA transcription in farm animals. We describe here the circular transcriptional landscape in pig, sheep and bovine testicular, muscular and liver tissues using total 66 RNA-seq datasets. After an exhaustive detection of circular RNAs, we propose an annotation of exonic, intronic and sub-exonic circRNAs and comparative analyses of circRNA content to evaluate the variability between individuals, tissues and species. Despite technical bias due to the various origins of the datasets, we were able to characterize some features (i) (ruminant) liver contains more exonic circRNAs than muscle (ii) in testis, the number of exonic circRNAs seems associated with the sexual maturity of the animal. (iii) a particular class of circRNAs, sub-exonic circRNAs, are produced by a large variety of multi-exonic genes (protein-coding genes, long non-coding RNAs and pseudogenes) and mono-exonic genes (protein-coding genes from mitochondrial genome and small non-coding genes). Moreover, for multi-exonic genes there seems to be a relationship between the sub-exonic circRNAs transcription level and the linear transcription level. Finally, sub-exonic circRNAs produced by mono-exonic genes (mitochondrial protein-coding genes, ribozyme, and sno) exhibit a particular behavior. Caution has to be taken regarding the interpretation of the unannotated circRNA proportion in a given tissue/species: clusters of circRNAs without annotation were characterized in genomic regions with annotation and/or assembly problems of the respective animal genomes. This study highlights the importance of improving genome annotation to better consider candidate circRNAs and to better understand the circular transcriptome. Furthermore, it emphasizes the need for considering the relative “weight” of circRNAs/parent genes for comparative analyses of several circular transcriptomes. Although there are points of agreement in the circular transcriptome of the same tissue in two species, it will be not possible to do without the characterization of it in both species.

show abstract

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of the Circular Transcriptome in Muscle, Liver, and Testis in Three Livestock Species

et al. 2021

View full text Add to dashboard Cite

show abstract

“…Generally speaking, circRNAs overall transcript levels in brain steadily grow during the developmental and aging phases, from embryonic to adulthood (28,29). Circular RNAs expression during four different developmental stages (2,6,21, and 104 weeks) in rat brain tissues was previously studied, showing an increase in abundance as rats aged (30).…”

Section: Circrnas In Normal Condition Of the Nerve System Expression And Distributionmentioning

confidence: 99%

A Narrative Review of Circular RNAs in Brain Development and Diseases of Preterm Infants

Liu

et al. 2021

Front. Pediatr.

View full text Add to dashboard Cite

Circular RNAs (circRNAs) generated by back-splicing are the vital class of non-coding RNAs (ncRNAs). Circular RNAs are highly abundant and stable in eukaryotes, and many of them are evolutionarily conserved. They are blessed with higher expression in mammalian brains and could take part in the regulation of physiological and pathophysiological processes. In addition, premature birth is important in neurodevelopmental diseases. Brain damage in preterm infants may represent the main cause of long-term neurodevelopmental disorders in surviving babies. Until recently, more and more researches have been evidenced that circRNAs are involved in the pathogenesis of encephalopathy of premature. We aim at explaining neuroinflammation promoting the brain damage. In this review, we summarize the current findings of circRNAs properties, expression, and functions, as well as their significances in the neurodevelopmental impairments, white matter damage (WMD) and hypoxic-ischemic encephalopathy (HIE). So we think that circRNAs have a direct impact on neurodevelopment and brain injury, and will be a powerful tool in the repair of the injured immature brain. Even though their exact roles and mechanisms of gene regulation remain elusive, circRNAs have potential applications as diagnostic biomarkers for brain damage and the target for neuroprotective intervention.

show abstract

“…However, instead of combating diseases, farmers can select animals based on the genetic resistance of health traits, which has been regarded as a sustainable method [ 14 , 15 ]. Together with genetic markers, targeting epigenetic markers and miRNAs have been regarded as a further strategy for combating livestock diseases [ 19 , 20 , 21 , 22 , 23 ].…”

Section: Introductionmentioning

confidence: 99%

miRNA Regulatory Functions in Farm Animal Diseases, and Biomarker Potentials for Effective Therapies

Ngoc

Dudemaine

Mathur

et al. 2021

IJMS

View full text Add to dashboard Cite

MicroRNAs (miRNAs) are small endogenous RNAs that regulate gene expression post-transcriptionally by targeting either the 3′ untranslated or coding regions of genes. They have been reported to play key roles in a wide range of biological processes. The recent remarkable developments of transcriptomics technologies, especially next-generation sequencing technologies and advanced bioinformatics tools, allow more in-depth exploration of messenger RNAs (mRNAs) and non-coding RNAs (ncRNAs), including miRNAs. These technologies have offered great opportunities for a deeper exploration of miRNA involvement in farm animal diseases, as well as livestock productivity and welfare. In this review, we provide an overview of the current knowledge of miRNA roles in major farm animal diseases with a particular focus on diseases of economic importance. In addition, we discuss the steps and future perspectives of using miRNAs as biomarkers and molecular therapy for livestock disease management as well as the challenges and opportunities for understanding the regulatory mechanisms of miRNAs related to disease pathogenesis.

show abstract

Circular RNAs Are Regulators of Diverse Animal Transcriptomes: One Health Perspective

Cited by 7 publications

References 150 publications

Comparative Analysis of the Circular Transcriptome in Muscle, Liver, and Testis in Three Livestock Species

Comparative Analysis of the Circular Transcriptome in Muscle, Liver, and Testis in Three Livestock Species

A Narrative Review of Circular RNAs in Brain Development and Diseases of Preterm Infants

miRNA Regulatory Functions in Farm Animal Diseases, and Biomarker Potentials for Effective Therapies

Contact Info

Product

Resources

About