Endogenous micropeptides as potential diagnostic biomarkers and therapeutic drugs DOI Creative Commons
Shiqi Zhong, Shuai Li, Jingxuan Zhang

и другие.

Frontiers in Pharmacology, Год журнала: 2025, Номер 16

Опубликована: Апрель 8, 2025

Micropeptides, these small proteins derived from non-coding RNA, typically consist of no more than 100 amino acids in length. Despite the challenges analysis and identification, their various critical functions within organisms cannot be overlooked. They play a significant role maintaining energy metabolism balance, regulating immune system, influencing development tumors, which also gives them decisive impact on occurrence diseases. This review aims to outline potential value micropeptides, introducing tissue classification distribution, biological functions, mechanisms, with focus as diagnostic markers therapeutic drugs.

Язык: Английский

LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations DOI Creative Commons
Li Zhao, Lin Liu, Changrui Feng

и другие.

Nucleic Acids Research, Год журнала: 2022, Номер 51(D1), С. D186 - D191

Опубликована: Окт. 19, 2022

LncBook, a comprehensive resource of human long non-coding RNAs (lncRNAs), has been used in wide range lncRNA studies across various biological contexts. Here, we present LncBook 2.0 (https://ngdc.cncb.ac.cn/lncbook), with significant updates and enhancements as follows: (i) incorporation 119 722 new transcripts, 9632 genes, gene structure update 21 305 lncRNAs; (ii) characterization conservation features genes 40 vertebrates; (iii) integration lncRNA-encoded small proteins; (iv) enrichment expression DNA methylation profiles more contexts (v) identification lncRNA-protein interactions improved prediction lncRNA-miRNA interactions. Collectively, accommodates high-quality collection 95 243 323 950 transcripts incorporates their abundant annotations at different omics levels, thereby enabling users to decipher functional significance lncRNAs

Язык: Английский

Процитировано

57
LINC00493‐encoded microprotein SMIM26 exerts anti‐metastatic activity in renal cell carcinoma DOI

Kun Meng,

Shaohua Lu,

Yuying Li

и другие.

EMBO Reports, Год журнала: 2023, Номер 24(6)

Опубликована: Апрель 3, 2023

Язык: Английский

Процитировано

23
Human PARP1 substrates and regulators of its catalytic activity: An updated overview DOI Creative Commons
Tao Zhu,

Juyan Zheng,

Lingling Huang

и другие.

Frontiers in Pharmacology, Год журнала: 2023, Номер 14

Опубликована: Фев. 23, 2023

Poly (ADP-ribose) polymerase 1 (PARP1) is a key DNA damage sensor that recruited to damaged sites after strand breaks initiate repair. This achieved by catalyzing attachment of ADP-ribose moieties, which are donated from NAD + , on the amino acid residues itself or other acceptor proteins. PARP inhibitors (PARPi) inhibit catalytic activity and induce trapping commonly used for treating BRCA1/2 -deficient breast ovarian cancers through synergistic lethality. Unfortunately, resistance PARPi frequently occurs. In this review, we present novel substrates regulators PARP1-catalyzed poly (ADP-ribosyl)ation (PARylatison) have been identified in last 3 years. The overall aim presentation protein interactions potential therapeutic intervention overcoming PARPi.

Язык: Английский

Процитировано

22
Small molecule agents for triple negative breast cancer: Current status and future prospects DOI Creative Commons

Yan Ou,

Mengchao Wang,

Qian Xu

и другие.

Translational Oncology, Год журнала: 2024, Номер 41, С. 101893 - 101893

Опубликована: Янв. 29, 2024

Triple-negative breast cancer (TNBC) is a subtype of with poor prognosis. The number cases increased by 2.26 million in 2020, making it the most commonly diagnosed type world. TNBCs lack hormone receptor (HR) and human epidermal growth factor 2 (HER2), which limits treatment options. Currently, paclitaxel-based drugs combined other chemotherapeutics remain main for TNBC. There currently no consensus on best therapeutic regimen However, there have been successful clinical trials exploring large-molecule monoclonal antibodies, small-molecule targeted drugs, novel antibody-drug conjugate (ADC). Although antibodies produced success, their large molecular weight can limit benefits. It worth noting that past 30 years, FDA has approved small molecule HER2-positive cancers. effective targets occurrence drug resistance pose significant challenges To improve prognosis TNBC, crucial to search overcome resistance. This review examines efficacy, adverse effects, mechanisms, potential solutions both monotherapies combination therapies. New targets, including nuclear export protein 1 (XPO1) hedgehog (Hh), are emerging as options researchers become integrated into Additionally, growing interest degradation chimeras (PROTACs), degraders rogue proteins, future therapy direction. provides potentially valuable insights implications.

Язык: Английский

Процитировано

12
The lncRNAMalat1is trafficked to the cytoplasm as a localized mRNA encoding a small peptide in neurons DOI Open Access
Wen Xiao, Reem Halabi, Chia-Ho Lin

и другие.

Genes & Development, Год журнала: 2024, Номер 38(7-8), С. 294 - 307

Опубликована: Апрель 1, 2024

Synaptic function in neurons is modulated by local translation of mRNAs that are transported to distal portions axons and dendrites. The metastasis‐associated lung adenocarcinoma transcript 1 ( MALAT1 ) broadly expressed across cell types, almost exclusively as a nuclear long noncoding RNA. We found differentiating neurons, portion Malat1 RNA redistributes the cytoplasm. Depletion using antisense oligonucleotides (ASOs) stimulates expression particular pre- postsynaptic proteins, implicating their regulation. Neuronal localized puncta both dendrites costain with Staufen1 protein, similar neuronal granules formed locally translated mRNAs. Ribosome profiling cultured mouse cortical identified ribosome footprints within 5′ region containing short open reading frames. upstream-most frame (M1) locus was linked GFP-coding sequence embryonic stem cells. When these gene-edited cells were differentiated into glutamatergic M1-GFP fusion protein expressed. Antibody staining for M1 peptide confirmed its presence wild-type showed enhanced synaptic stimulation KCl. Our results indicate serves cytoplasmic coding brain modulates function.

Язык: Английский

Процитировано

9
Current understanding of functional peptides encoded by lncRNA in cancer DOI Creative Commons
Hua Tian, Lu Tang, Zihan Yang

и другие.

Cancer Cell International, Год журнала: 2024, Номер 24(1)

Опубликована: Июль 19, 2024

Abstract Dysregulated gene expression and imbalance of transcriptional regulation are typical features cancer. RNA always plays a key role in these processes. Human transcripts contain many RNAs without long open reading frames (ORF, > 100 aa) that more than 200 bp length. They usually regarded as non-coding (lncRNA) which play an important cancer regulation, including chromatin remodeling, translational miRNA sponges. With the advancement ribosome profiling sequencing technologies, increasing research evidence revealed some ORFs lncRNA can also encode peptides participate multiple organ tumors, undoubtedly opens new chapter field oncology research. In this review, we discuss biological function current methods to evaluate their coding potential functional small encoded by cancers. Investigating understanding regulatory mechanisms may contribute deeper development targeted anticancer therapies.

Язык: Английский

Процитировано

9
A Zea genus-specific micropeptide controls kernel dehydration in maize DOI Creative Commons

Yanhui Yu,

Wen‐Qiang Li, Yongmin Liu

и другие.

Cell, Год журнала: 2024, Номер unknown

Опубликована: Ноя. 1, 2024

Kernel dehydration rate (KDR) is a crucial production trait that affects mechanized harvesting and kernel quality in maize; however, the underlying mechanisms remain unclear. Here, we identified quantitative locus (QTL), qKDR1, as non-coding sequence regulates expression of qKDR1 REGULATED PEPTIDE GENE (RPG). RPG encodes 31 amino acid micropeptide, microRPG1, which controls KDR by precisely modulating two genes, ZmETHYLENE-INSENSITIVE3-like 1 3, ethylene signaling pathway kernels after filling. microRPG1 Zea genus-specific micropeptide originated de novo from sequence. Knockouts result faster maize. By contrast, overexpression or exogenous application shows opposite effect both maize Arabidopsis. Our findings reveal molecular mechanism provide an important tool for future crop breeding.

Язык: Английский

Процитировано

9
Micropeptides: potential treatment strategies for cancer DOI Creative Commons

Zhou He,

Yan Wu,

Cai Ji

и другие.

Cancer Cell International, Год журнала: 2024, Номер 24(1)

Опубликована: Апрель 15, 2024

Abstract Some noncoding RNAs (ncRNAs) carry open reading frames (ORFs) that can be translated into micropeptides, although have been previously assumed to constitute a class of RNA transcripts without coding capacity. Furthermore, recent studies revealed ncRNA-derived micropeptides exhibit regulatory functions in the development many tumours. Although some these inhibit tumour growth, others promote it. Understanding role ncRNA-encoded cancer poses new challenges for research, but also offers promising prospects therapy. In this review, we summarize types ncRNAs encode highlighting technical developments made it easier research such as ribosome analysis, mass spectrometry, bioinformatics methods, and CRISPR/Cas9. based on distribution different subcellular locations, explain biological human cancers discuss their underestimated potential diagnostic biomarkers anticancer therapeutic targets clinical applications, information may contribute discovery micropeptide-based tools early diagnosis drug development.

Язык: Английский

Процитировано

8
Cancer-related micropeptides encoded by ncRNAs: Promising drug targets and prognostic biomarkers DOI

Sarra Setrerrahmane,

Mengwei Li,

Abdelmoumin Zoghbi

и другие.

Cancer Letters, Год журнала: 2022, Номер 547, С. 215723 - 215723

Опубликована: Май 7, 2022

Язык: Английский

Процитировано

35
Small Open Reading Frame-Encoded Micro-Peptides: An Emerging Protein World DOI Open Access
Xiao‐Ping Dong, Kun Zhang,

Chengfeng Xun

и другие.

International Journal of Molecular Sciences, Год журнала: 2023, Номер 24(13), С. 10562 - 10562

Опубликована: Июнь 23, 2023

Small open reading frames (sORFs) are often overlooked features in genomes. In the past, they were labeled as noncoding or “transcriptional noise”. However, accumulating evidence from recent years suggests that sORFs may be transcribed and translated to produce sORF-encoded polypeptides (SEPs) with less than 100 amino acids. The vigorous development of computational algorithms, ribosome profiling, peptidome has facilitated prediction identification many new SEPs. These SEPs revealed involved a wide range basic biological processes, such gene expression regulation, embryonic development, cellular metabolism, inflammation, even carcinogenesis. To effectively understand potential functions SEPs, we discuss history newly emerging research on particular, review recently discovered bioinformatics tools for identifying, predicting, validating well variety biochemical experiments characterizing SEP functions. Lastly, this underlines challenges future directions identifying their encoded micropeptides, providing significant reference upcoming peptides.

Язык: Английский

Процитировано

16