Long Non-Coding RNAs in the Control of Gametogenesis: Lessons from Fission Yeast

Andric, Vedrana

doi:10.3390/ncrna7020034

Cited by 6 publications

(5 citation statements)

References 103 publications

(180 reference statements)

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“…The binding site for Mei2 in Erh1 has not been established yet but, since Mmi1 is also present in this dot and might form EMC, it seems that the S. pombe ERH (Erh1) could also interact simultaneously with two partners there [122,132]. Mei2 and Mmi1 also interact indirectly via binding to some lncRNAs, including meiRNA encoded by the sme2 gene, at which locus the dot is formed [133][134][135].…”

Section: Data Inferred From Partners Of the Proteinmentioning

confidence: 97%

Thirty Years with ERH: An mRNA Splicing and Mitosis Factor Only or Rather a Novel Genome Integrity Protector?

Kozlowski

2023

Cells

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ERH is a 100 to about 110 aa nuclear protein with unique primary and three-dimensional structures that are very conserved from simple eukaryotes to humans, albeit some species have lost its gene, with most higher fungi being a noteworthy example. Initially, studies on Drosophila melanogaster implied its function in pyrimidine metabolism. Subsequently, research on Xenopus laevis suggested that it acts as a transcriptional repressor. Finally, studies in humans pointed to a role in pre-mRNA splicing and in mitosis but further research, also in Caenorhabditis elegans and Schizosaccharomyces pombe, demonstrated its much broader activity, namely involvement in the biogenesis of mRNA, and miRNA, piRNA and some other ncRNAs, and in repressive heterochromatin formation. ERH interacts with numerous, mostly taxon-specific proteins, like Mmi1 and Mei2 in S. pombe, PID-3/PICS-1, TOST-1 and PID-1 in C. elegans, and DGCR8, CIZ1, PDIP46/SKAR and SAFB1/2 in humans. There are, however, some common themes in this wide range of processes and partners, such as: (a) ERH homodimerizes to form a scaffold for several complexes involved in the metabolism of nucleic acids, (b) all these RNAs are RNA polymerase II transcripts, (c) pre-mRNAs, whose splicing depends on ERH, are enriched in transcripts of DNA damage response and DNA metabolism genes, and (d) heterochromatin is formed to silence unwanted transcription, e.g., from repetitive elements. Thus, it seems that ERH has been adopted for various pathways that serve to maintain genome integrity.

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Section: Data Inferred From Partners Of the Proteinmentioning

confidence: 97%

Thirty Years with ERH: An mRNA Splicing and Mitosis Factor Only or Rather a Novel Genome Integrity Protector?

Kozlowski

2023

Cells

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“…Most characterized lncRNAs function sequence independently by forming tertiary structures and interacting with proteins as a scaffold ( Yoon et al, 2013 ; Andric and Rougemaille, 2021 ). Dozens of protein partners of lncRNAs have been reported ( Gerstberger et al, 2014 ), among which the PRC2 (Polycomb Repressive Complex 2) complex has been well-studied.…”

Section: The Biogenesis and Function Of Lncrnamentioning

confidence: 99%

Functional knockout of long non-coding RNAs with genome editing

Lyu,

Zhang,

Zhang

et al. 2023

Front. Genet.

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An effective loss-of-function study is necessary to investigate the biological function of long non-coding RNA (lncRNA). Various approaches are available, including RNA silencing, antisense oligos, and CRISPR-based genome editing. CRISPR-based genome editing is the most widely used for inactivating lncRNA function at the genomic level. Knocking out the lncRNA function can be achieved by removing the promoter and the first exon (PE1), introducing pre-termination poly(A) signals, or deleting the entire locus, unlike frameshift strategies used for messenger RNA (mRNA). However, the intricate genomic interplay between lncRNA and neighbor genes makes it challenging to interpret lncRNA function accurately. This article discusses the advantages and disadvantages of each lncRNA knockout method and envisions the potential future directions to facilitate lncRNA functional study.

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“…One early study suggests a regulatory role of anti-sense lncRNA during the mitosis-to-meiosis transition [ 77 ]. Later studies identified a set of functional lncRNAs that regulate meiotic-specific chromosomal events at the transcriptional or post-transcriptional level [ 78 ]. Considering the potentially larger pool of lncRNAs and their complicated regulation in higher eukaryote systems, we reason that a considerable portion of lncRNAs perform a function in meiosis, which has yet to be explored.…”

Section: Opportunities and Challengesmentioning

confidence: 99%

LncRNA Functional Screening in Organismal Development

Zhai

Tong

et al. 2023

ncRNA

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Controversy continues over the functional prevalence of long non-coding RNAs (lncRNAs) despite their being widely investigated in all kinds of cells and organisms. In animals, lncRNAs have aroused general interest from exponentially increasing transcriptomic repertoires reporting their highly tissue-specific and developmentally dynamic expression, and more importantly, from growing experimental evidence supporting their functionality in facilitating organogenesis and individual fitness. In mammalian testes, while a great multitude of lncRNA species are identified, only a minority of them have been shown to be useful, and even fewer have been demonstrated as true requirements for male fertility using knockout models to date. This noticeable gap is attributed to the virtual existence of a large number of junk lncRNAs, the lack of an ideal germline culture system, difficulty in loss-of-function interrogation, and limited screening strategies. Facing these challenges, in this review, we discuss lncRNA functionality in organismal development and especially in mouse testis, with a focus on lncRNAs with functional screening.

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Long Non-Coding RNAs in the Control of Gametogenesis: Lessons from Fission Yeast

Cited by 6 publications

References 103 publications

Thirty Years with ERH: An mRNA Splicing and Mitosis Factor Only or Rather a Novel Genome Integrity Protector?

Thirty Years with ERH: An mRNA Splicing and Mitosis Factor Only or Rather a Novel Genome Integrity Protector?

Functional knockout of long non-coding RNAs with genome editing

LncRNA Functional Screening in Organismal Development

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