Characterization of N6-methyladenosine long non-coding RNAs in sporadic congenital cataract and age-related cataract DOI
Hongfei Ye, Xiang Zhang, Zhennan Zhao

et al.

International Journal of Ophthalmology, Journal Year: 2024, Volume and Issue: 17(11), P. 1973 - 1986

Published: Oct. 23, 2024

AIM: To characterize the N6-methyladenosine (m6A) modification patterns in long non-coding RNAs (lncRNAs) sporadic congenital cataract (CC) and age-related (ARC). METHODS: Anterior capsule of lens were collected from patients with CC ARC. Methylated RNA immunoprecipitation next-generation sequencing performed to identify m6A-tagged lncRNAs expression. Kyoto Encyclopedia Genes Genomes pathway enrichment analyses Gene Ontology annotation used predict potential functions m6A-lncRNAs. RESULTS: Large amount m6A peaks within lncRNA identified for both ARC, while level was much higher ARC (49 870 peaks) than that (18 688 peaks), yet those difference between younger age group (ARC-1) elder (ARC-2) quite slight. A total 1305 hypermethylated 1178 hypomethylated lncRNAs, as well 182 differential expressed exhibited compared CC. On other hand, 5893 5213 155 significantly altered ARC-2 ARC-1. Altered mainly associated organization biogenesis intracellular organelles, nucleotide excision repair. CONCLUSION: Our results first time present an overview methylomes providing a solid basis uncovering new insight reveal pathogenic mechanism

Language: Английский

Artificial miRNAs and target-mimics as potential tools for crop improvement DOI
Tilahun Rabuma, Neeti Sanan‐Mishra

Physiology and Molecular Biology of Plants, Journal Year: 2025, Volume and Issue: 31(1), P. 67 - 91

Published: Jan. 1, 2025

Language: Английский

Citations

1
Deciphering the epigenetic role of long non‐coding RNAs in mood disorders: Focus on human brain studies DOI Creative Commons
Bhaskar Roy,

Anuj Kumar Verma,

Yu Funahashi

et al.

Clinical and Translational Medicine, Journal Year: 2025, Volume and Issue: 15(3)

Published: March 1, 2025

Language: Английский

Citations

1
Involvement of Toxoplasma gondii natural antisense transcripts in cellular stress responses. DOI

Yong Gou,

Luis Vallejo,

Ana Podadera

et al.

Experimental Parasitology, Journal Year: 2025, Volume and Issue: unknown, P. 108931 - 108931

Published: March 1, 2025

Language: Английский

Citations

0
Noncoding RNAs in nuclear organization DOI Creative Commons

Thembalami Dube,

Dawn M. Carone

Nucleus, Journal Year: 2025, Volume and Issue: 16(1)

Published: March 13, 2025

Language: Английский

Citations

0
Identification of long noncoding RNAs (lncRNAs) and co-transcriptional analysis of mRNAs and lncRNAs in transcriptomes of Anopheles gambiae DOI Creative Commons
Jiannong Xu, Kai Hu, Michelle M. Riehle

et al.

Frontiers in RNA Research, Journal Year: 2025, Volume and Issue: 3

Published: April 15, 2025

Introduction Anopheles gambiae is a primary malaria vector mosquito in Africa. RNA-seq based transcriptome analysis has been widely used to study gene expression underlying life traits such as development, reproduction, immunity, metabolism, and behavior. While it appreciated that long non-coding RNAs (lncRNAs) are expressed ubiquitously transcriptomes across metazoans, lncRNAs remain relatively underexplored An. gambiae, including their identity, profiles, biological functions. The lncRNA genes were poorly annotated the current reference of PEST genome gambiae. In this study, set publicly available datasets was leveraged identify diverse contexts, whole mosquitoes, cells tissues (such hemocytes, midguts, salivary glands), well under various physiological conditions (e.g., sugar-feeding, blood-feeding, bacterial challenges, Plasmodium infections). Methods A Transcript Discovery module implemented CLC genomics workbench from selected published datasets. Results Across pool transcriptomes, 2684 unique genes, comprising 4082 transcripts, identified. Following identification, these integrated into annotation, which served for analyzing both mRNAs transcriptional dynamics conditions. Unsurprisingly, similar what reported mRNAs, exhibited context-dependent patterns. Co-expression networks constructed using weighted co-expression network (WGCNA) highlighted interconnections among provide potential functional involved. Furthermore, we identified polysome-associated within polysome-captured suggesting likely involved translation regulation contribute coding capacity micropeptides. ChIP-seq dataset revealed correlation between activities observed epigenetic signatures. Discussion Overall, our demonstrated transcribed alongside contexts. genome-wide annotation integration enable simultaneous co-analysis mRNA lncRNA, will enhance understanding functions shed light on regulatory roles biology.

Language: Английский

Citations

0
Pseudogene: Relevant or Irrelevant? DOI Creative Commons
Yang-Hsiang Lin,

Chau‐Ting Yeh,

Cheng‐Yi Chen

et al.

Biomedical Journal, Journal Year: 2024, Volume and Issue: unknown, P. 100790 - 100790

Published: Sept. 1, 2024

Language: Английский

Citations

2
Characterization of N6-methyladenosine long non-coding RNAs in sporadic congenital cataract and age-related cataract DOI
Hongfei Ye, Xiang Zhang, Zhennan Zhao

et al.

International Journal of Ophthalmology, Journal Year: 2024, Volume and Issue: 17(11), P. 1973 - 1986

Published: Oct. 23, 2024

AIM: To characterize the N6-methyladenosine (m6A) modification patterns in long non-coding RNAs (lncRNAs) sporadic congenital cataract (CC) and age-related (ARC). METHODS: Anterior capsule of lens were collected from patients with CC ARC. Methylated RNA immunoprecipitation next-generation sequencing performed to identify m6A-tagged lncRNAs expression. Kyoto Encyclopedia Genes Genomes pathway enrichment analyses Gene Ontology annotation used predict potential functions m6A-lncRNAs. RESULTS: Large amount m6A peaks within lncRNA identified for both ARC, while level was much higher ARC (49 870 peaks) than that (18 688 peaks), yet those difference between younger age group (ARC-1) elder (ARC-2) quite slight. A total 1305 hypermethylated 1178 hypomethylated lncRNAs, as well 182 differential expressed exhibited compared CC. On other hand, 5893 5213 155 significantly altered ARC-2 ARC-1. Altered mainly associated organization biogenesis intracellular organelles, nucleotide excision repair. CONCLUSION: Our results first time present an overview methylomes providing a solid basis uncovering new insight reveal pathogenic mechanism

Language: Английский

Citations

0