The lncRNA Growth Arrest Specific 5 Regulates Cell Survival via Distinct Structural Modules with Independent Functions

Frank, Filipp; Kavousi, Nadieh; Bountali, Aikaterini; Dammer, Eric B.; Mourtada-Maarabouni, Mirna; Ortlund, Eric A.

doi:10.1016/j.celrep.2020.107933

Cited by 25 publications

(20 citation statements)

References 42 publications

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“…The primary transcripts are~600 nucleotides in length. The accumulation of GAS5 transcripts is impacted by various cellular stressors, including serum or nutrient deprivation as well as various drug treatments [107]. In cases such as these, where there is an inhibition of translation of GAS5 transcripts, cell proliferation and survival are negatively regulated ( Figure 3A).…”

Section: Notable Case: Lncrna Gas5 and Its Connection To Glucocorticomentioning

confidence: 99%

“…However, this may not be true in other cell types where proliferation is not necessarily dependent on GR signaling. Indeed, Frank et al, has used structure-function analysis to examine the other regions of GAS5 lncRNA that regulate cell survival [107]. Namely, functional studies performed by this group in Jurkat and CEM-C7 T-ALL cell lines show that GAS5 also possesses a 5 region that confers the ability of GAS5 to reduce cell survival, as well as a core region that is required for mediating the effects of mTOR inhibition.…”

Section: Notable Case: Lncrna Gas5 and Its Connection To Glucocorticomentioning

confidence: 99%

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Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia

Rodriguez

Paculova

Kogut

et al. 2021

IJMS

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Non-coding RNAs (ncRNAs) comprise a diverse class of non-protein coding transcripts that regulate critical cellular processes associated with cancer. Advances in RNA-sequencing (RNA-Seq) have led to the characterization of non-coding RNA expression across different types of human cancers. Through comprehensive RNA-Seq profiling, a growing number of studies demonstrate that ncRNAs, including long non-coding RNA (lncRNAs) and microRNAs (miRNA), play central roles in progenitor B-cell acute lymphoblastic leukemia (B-ALL) pathogenesis. Furthermore, due to their central roles in cellular homeostasis and their potential as biomarkers, the study of ncRNAs continues to provide new insight into the molecular mechanisms of B-ALL. This article reviews the ncRNA signatures reported for all B-ALL subtypes, focusing on technological developments in transcriptome profiling and recently discovered examples of ncRNAs with biologic and therapeutic relevance in B-ALL.

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Section: Notable Case: Lncrna Gas5 and Its Connection To Glucocorticomentioning

confidence: 99%

Section: Notable Case: Lncrna Gas5 and Its Connection To Glucocorticomentioning

confidence: 99%

Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia

Rodriguez

Paculova

Kogut

et al. 2021

IJMS

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“…Long noncoding RNAs (lncRNAs) are transcripts longer than 200 nucleotides without protein-coding function 10 , which performs diverse regulatory roles in many biological processes, such as gene regulation, mRNA splicing, and protein stabilization 11 , 12 . Aberrant expression of lncRNAs has been observed in many pathological conditions, regulating tumor metastasis 13 , cell viability 14 , metabolism alteration 15 , and innate immunity 16 . However, the regulatory roles of lncRNAs in the GCs function are not completely characterized.…”

Section: Introductionmentioning

confidence: 99%

LncRNA ZNF674-AS1 regulates granulosa cell glycolysis and proliferation by interacting with ALDOA

Wang

et al. 2021

Cell Death Discov.

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Granulosa cell (GC) is a critical somatic component of ovarian follicles to support oocyte development, while the regulatory role of long noncoding RNA (lncRNA) in GCs is largely unknown. Here, we identified a down-regulated lncRNA ZNF674-AS1 in GCs from patients with biochemical premature ovarian insufficiency (bPOI), and its expression correlates with serum levels of clinical ovarian reserve indicators. Functional experiments showed that ZNF674-AS1 is induced by energy stress, and regulates the proliferation and glycolysis of GCs, which possibly leads to follicular dysfunction. Mechanistically, low-expressed ZNF674-AS1 reduced the enzymatic activity of aldolase A (ALDOA), concomitant with promoting the association between ALDOA and v-ATPase to activate the lysosome localized AMP-activated protein kinase (AMPK). These findings identified a new lncRNA–ALDOA complex through which ZNF674-AS1 exerts its functions, expanding the understanding of epigenetic regulation of GCs function and POI pathogenesis.

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“…Experimental studies have shown that lncRNAs participate in the control of gene expression at different sites of individual cells [4][5][6][7] and even between cells [8]. Similarly, lncRNAs participate in the control of a variety of cellular processes, including stem cell differentiation and maintenance [9], proliferation, apoptosis [10] and response to stress [11]. Not surprisingly, therefore, that dysfunction of lncRNAs has been increasingly found linked to multiple human diseases [12][13][14], highlighting their use as potential bio-markers [15][16][17] and therapeutic targets [18].…”

Section: Introductionmentioning

confidence: 99%

FGGA-lnc: automatic gene ontology annotation of lncRNA sequences based on secondary structures

Spetale

Murillo

Villanova³

et al. 2021

Interface Focus.

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The study of long non-coding RNAs (lncRNAs), greater than 200 nucleotides, is central to understanding the development and progression of many complex diseases. Unlike proteins, the functionality of lncRNAs is only subtly encoded in their primary sequence. Current in-silico lncRNA annotation methods mostly rely on annotations inferred from interaction networks. But extensive experimental studies are required to build these networks. In this work, we present a graph-based machine learning method called FGGA-lnc for the automatic gene ontology (GO) annotation of lncRNAs across the three GO subdomains. We build upon FGGA (factor graph GO annotation), a computational method originally developed to annotate protein sequences from non-model organisms. In the FGGA-lnc version, a coding-based approach is introduced to fuse primary sequence and secondary structure information of lncRNA molecules. As a result, lncRNA sequences become sequences of a higher-order alphabet allowing supervised learning methods to assess individual GO-term annotations. Raw GO annotations obtained in this way are unaware of the GO structure and therefore likely to be inconsistent with it. The message-passing algorithm embodied by factor graph models overcomes this problem. Evaluations of the FGGA-lnc method on lncRNA data, from model and non-model organisms, showed promising results suggesting it as a candidate to satisfy the huge demand for functional annotations arising from high-throughput sequencing technologies.

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The lncRNA Growth Arrest Specific 5 Regulates Cell Survival via Distinct Structural Modules with Independent Functions

Cited by 25 publications

References 42 publications

Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia

Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia

LncRNA ZNF674-AS1 regulates granulosa cell glycolysis and proliferation by interacting with ALDOA

FGGA-lnc: automatic gene ontology annotation of lncRNA sequences based on secondary structures

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