keyword
https://read.qxmd.com/read/36928641/current-research-on-viral-proteins-that-interact-with-fibrillarin
#21
REVIEW
Stefano Decle-Carrasco, Alma Laura Rodríguez-Piña, Luis Carlos Rodríguez-Zapata, Enrique Castano
The nucleolus is a multifunctional nuclear domain primarily dedicated to ribosome biogenesis. Certain viruses developed strategies to manipulate host nucleolar proteins to facilitate their replication by modulating ribosomal RNA (rRNA) processing. This association interferes with nucleolar functions resulting in overactivation or arrest of ribosome biogenesis, induction or inhibition of apoptosis, and affecting stress response. The nucleolar protein fibrillarin (FBL) is an important target of some plant and animal viruses...
March 16, 2023: Molecular Biology Reports
https://read.qxmd.com/read/36893875/the-conservation-and-diversity-of-the-exons-encoding-the-glycine-and-arginine-rich-domain-of-the-fibrillarin-gene-in-vertebrates-with-special-focus-on-reptiles-and-birds
#22
JOURNAL ARTICLE
Yi-Chun Wang, Chien-Ping Chang, Yu-Chuan Lai, Chi-Ho Chan, Shan-Chia Ou, Sue-Hong Wang, Chuan Li
The nucleolar rRNA 2'-O-methyltransferase fibrillarin (FBL) contains a highly conserved methyltransferase domain at the C-terminus and a diverse glycine arginine-rich (GAR) domain at the N-terminus in eukaryotes. We found that a nine-exon configuration of fbl and exon 2-3 encoded GAR domain are conserved and specific in vertebrates. All internal exons except exon 2 and 3 are of the same lengths in different vertebrate lineages. The lengths of exon 2 and 3 vary in different vertebrate species but the ones with longer exon 2 usually have shorter exon 3 complementarily, limiting lengths of the GAR domain within a certain range...
March 7, 2023: Gene
https://read.qxmd.com/read/36882285/the-tudor-domain-of-smn-is-an-h3k79-me1-histone-mark-reader
#23
JOURNAL ARTICLE
Olivier Binda, Aimé Boris Kimenyi Ishimwe, Maxime Galloy, Karine Jacquet, Armelle Corpet, Amélie Fradet-Turcotte, Jocelyn Côté, Patrick Lomonte
Spinal muscular atrophy is the leading genetic cause of infant mortality and results from depleted levels of functional survival of motor neuron (SMN) protein by either deletion or mutation of the SMN1 gene. SMN is characterized by a central TUDOR domain, which mediates the association of SMN with arginine methylated (Rme ) partners, such as coilin, fibrillarin, and RNA pol II (RNA polymerase II). Herein, we biochemically demonstrate that SMN also associates with histone H3 monomethylated on lysine 79 (H3K79me1 ), defining SMN as not only the first protein known to associate with the H3K79me1 histone modification but also the first histone mark reader to recognize both methylated arginine and lysine residues...
June 2023: Life Science Alliance
https://read.qxmd.com/read/36833257/identification-and-characterization-of-glycine-and-arginine-rich-motifs-in-proteins-by-a-novel-gar-motif-finder-program
#24
JOURNAL ARTICLE
Yi-Chun Wang, Shang-Hsuan Huang, Chien-Ping Chang, Chuan Li
Glycine- and arginine-rich (GAR) motifs with different combinations of RG/RGG repeats are present in many proteins. The nucleolar rRNA 2'-O-methyltransferase fibrillarin (FBL) contains a conserved long N-terminal GAR domain with more than 10 RGG plus RG repeats separated by specific amino acids, mostly phenylanalines. We developed a GAR motif finder (GMF) program based on the features of the GAR domain of FBL. The G(0,3)-X(0,1)-R-G(1,2)-X(0,5)-G(0,2)-X(0,1)-R-G(1,2) pattern allows the accommodation of extra-long GAR motifs with continuous RG/RGG interrupted by polyglycine or other amino acids...
January 27, 2023: Genes
https://read.qxmd.com/read/36705084/arabidopsis-smo2-modulates-ribosome-biogenesis-by-maintaining-the-rid2-abundance-during-organ-growth
#25
JOURNAL ARTICLE
Zhengfei Guo, Xiaoyu Wang, Yan Li, Aiming Xing, Chengyun Wu, Daojun Li, Chunfei Wang, Anne de Bures, Yonghong Zhang, Siyi Guo, Julio Sáez-Vasquez, Zhenguo Shen, Zhubing Hu
Ribosome biogenesis is a process of making ribosomes that is tightly linked with plant growth and development. Here, through a suppressor screen for the smo2 mutant, we found that lack of a ribosomal stress response mediator, ANAC082 partially restored growth defects of the smo2 mutant, indicating SMO2 is required for the repression of nucleolar stress. Consistently, the smo2 knock-out mutant exhibited typical phenotypes characteristic of ribosome biogenesis mutants, such as pointed leaves, aberrant leaf venation, disrupted nucleolar structure, abnormal distribution of rRNA precursors, and enhanced tolerance to aminoglycoside antibiotics that target ribosomes...
April 2023: Plant Journal
https://read.qxmd.com/read/36675584/autoantibodies-and-clinical-correlations-in-polish-systemic-sclerosis-patients-a-cross-sectional-study
#26
JOURNAL ARTICLE
Paweł Żebryk, Piotr Przymuszała, Jan Krzysztof Nowak, Tomasz Piorunek, Tatiana Mularek-Kubzdela, Mariusz Puszczewicz
We evaluated the prevalence of systemic sclerosis (SSc)-related autoantibodies and their clinical significance and compared the sensitivity of two line immunoblot assays on a prospective study group of 96 Polish SSc patients (ACR-EULAR 2013 criteria) whose sera were assessed by indirect immunofluorescence (HEp-2 and monkey liver) and line immunoblot assays: ANA Profile 3 and Systemic Sclerosis Profile by EUROIMMUN (Lübeck, Germany). Organ involvement was evaluated according to the EUSTAR Minimal Essential Data Set...
January 13, 2023: Journal of Clinical Medicine
https://read.qxmd.com/read/36633090/nucleophagy-contributes-to-genome-stability-through-degradation-of-type-ii-topoisomerases-a-and-b-and-nucleolar-components
#27
JOURNAL ARTICLE
Gabriel Muciño-Hernández, Pilar Sarah Acevo-Rodríguez, Sandra Cabrera-Benitez, Adán Oswaldo Guerrero, Horacio Merchant-Larios, Susana Castro-Obregón
The nuclear architecture of mammalian cells can be altered as a consequence of anomalous accumulation of nuclear proteins or genomic alterations. Most of the knowledge about nuclear dynamics comes from studies on cancerous cells. How normal healthy cells maintain genome stability, avoiding accumulation of nuclear damaged material, is less understood. Here, we describe that primary mouse embryonic fibroblasts develop a basal level of nuclear buds and micronuclei, which increase after etoposide-induced DNA double-stranded breaks...
January 1, 2023: Journal of Cell Science
https://read.qxmd.com/read/36630080/genome-wide-analysis-of-the-chromatin-sites-targeted-by-hex-70a-storage-protein-in-the-honeybee-brain-and-fat-body
#28
JOURNAL ARTICLE
Juliana R Martins, Daniel G Pinheiro, Amy C C Ahmed, Silvana Giuliatti, Craig A Mizzen, Márcia M G Bitondi
Hexamerins, the proteins massively stored in the larval hemolymph of insects, are gradually used throughout metamorphosis as a source of raw material and energy for the development of adult tissues. Such behavior defined hexamerins as storage proteins. Immunofluorescence experiments coupled with confocal microscopy show a hexamerin, HEX 70a, in the nucleus of the brain and fat body cells from honeybee workers, an unexpected localization for a storage protein. HEX 70a colocalizes with fibrillarin, a nucleolar-specific protein, and H3 histone, thus suggesting a potential role as a chromatin-binding protein...
January 11, 2023: Insect Molecular Biology
https://read.qxmd.com/read/36566215/c-d-box-small-nucleolar-rna-snord104-promotes-endometrial-cancer-by-regulating-the-2-o-methylation-of-parp1
#29
JOURNAL ARTICLE
Bingfeng Lu, Xi Chen, Xin Liu, Jingwen Chen, Honglei Qin, Shuo Chen, Yang Zhao
BACKGROUND: Small nucleolar RNAs (snoRNAs) are dysregulated in many cancers, although their exact role in tumor genesis and progression remains unclear. METHODS: The expression profiles of snoRNAs in endometrial cancer (EC) tissues were analyzed using data from The Cancer Genome Atlas, and SNORD104 was identified as an upregulated snoRNA in EC. The tumorigenic role of SNORD104 in EC was established in CCK8, colony formation, EdU, apoptosis, Transwell, and in vivo xenograft experiments...
December 24, 2022: Journal of Translational Medicine
https://read.qxmd.com/read/36562475/snord60-promotes-the-tumorigenesis-and-progression-of-endometrial-cancer-through-binding-pik3ca-and-regulating-pi3k-akt-mtor-signaling-pathway
#30
JOURNAL ARTICLE
Wu Wu, Xi Chen, Xin Liu, Hai-Juan Bao, Qian-Hui Li, Jing-Yuan Xian, Bing-Feng Lu, Yang Zhao, Shuo Chen
Endometrial carcinoma is a common gynecological malignant tumor, small nucleolar RNAs (snoRNAs) are involved in cancer development. However, researches on the roles of snoRNAs in endometrial carcinoma are limited. The expression levels of snoRNAs in endometrial cancer tissues were analyzed using The Cancer Genome Atlas (TCGA) database. Antisense oligonucleotides (ASOs) and plasmids were used for transfection. Moreover, CCK-8, EdU, wound-healing assay, transwell, cell apoptosis, western blotting, and xenograft model were employed to examine the biological functions of related molecules...
April 2023: Molecular Carcinogenesis
https://read.qxmd.com/read/36457689/relationship-between-changes-observed-in-nailfold-capillaroscopy-and-serological-profile-lung-fibrosis-and-elevated-risk-of-pulmonary-hypertension-in-patients-with-systemic-sclerosis-and-mixed-connective-tissue-disease
#31
JOURNAL ARTICLE
Karolina Niklas, Arkadiusz Niklas, Tatiana Mularek-Kubzdela, Mariusz Puszczewicz, Włodzimierz Samborski
INTRODUCTION: Microvascular changes play a significant role in systemic sclerosis (SSc) and mixed connective tissue disease (MCTD). The most serious complications of SSc and MCTD are lung fibrosis (LF) and pulmonary hypertension (PH). AIM: To determine the relationship of the changes observed in capillaries with the serological profile, LF, PH, and finger ulcerations in patients with SSc and MCTD. MATERIAL AND METHODS: The tested group comprised 80 persons (61 SSc, 19 MCTD); mean age 53...
October 2022: Postȩpy Dermatologii i Alergologii
https://read.qxmd.com/read/36403538/autoreactive-b-cell-responses-targeting-nuclear-antigens-in-systemic-sclerosis-implications-for-disease-pathogenesis
#32
REVIEW
Sophie I E Liem, Sam Neppelenbroek, Cynthia M Fehres, Corrie Wortel, René E M Toes, Tom W J Huizinga, Hans U Scherer, Jeska K de Vries-Bouwstra
A hallmark of disease pathogenesis of systemic sclerosis (SSc) is the presence of autoreactive B cell responses targeting nuclear proteins. Almost all SSc-patients harbour circulating antinuclear autoantibodies of which anti-topoisomerase 1, anti-centromere protein, anti-RNA polymerase III and anti-fibrillarin autoantibodies (ATA, ACA, ARA and AFA, respectively) are the most common and specific for SSc. In clinical practice, autoantibodies serve as diagnostic biomarkers and can aid in the identification of clinical phenotypes of the disease...
February 2023: Seminars in Arthritis and Rheumatism
https://read.qxmd.com/read/36362378/buffy-coat-transcriptomic-analysis-reveals-alterations-in-host-cell-protein-synthesis-and-cell-cycle-in-severe-covid-19-patients
#33
JOURNAL ARTICLE
Liliane Tavares de Faria Cavalcante, Guilherme Cordenonsi da Fonseca, Luciane Almeida Amado Leon, Andreza Lemos Salvio, Otávio José Brustolini, Alexandra Lehmkuhl Gerber, Ana Paula de Campos Guimarães, Carla Augusta Barreto Marques, Renan Amphilophio Fernandes, Carlos Henrique Ferreira Ramos Filho, Rafael Lopes Kader, Marisa Pimentel Amaro, João Paulo da Costa Gonçalves, Soniza Vieira Alves-Leon, Ana Tereza Ribeiro Vasconcelos
Transcriptome studies have reported the dysregulation of cell cycle-related genes and the global inhibition of host mRNA translation in COVID-19 cases. However, the key genes and cellular mechanisms that are most affected by the severe outcome of this disease remain unclear. For this work, the RNA-seq approach was used to study the differential expression in buffy coat cells of two groups of people infected with SARS-CoV-2: (a) Mild, with mild symptoms; and (b) SARS (Severe Acute Respiratory Syndrome), who were admitted to the intensive care unit with the severe COVID-19 outcome...
November 5, 2022: International Journal of Molecular Sciences
https://read.qxmd.com/read/36323972/single-base-resolution-mapping-of-2-o-methylation-sites-by-an-exoribonuclease-enriched-chemical-method
#34
JOURNAL ARTICLE
Ping Zhang, Junhong Huang, Wujian Zheng, Lifan Chen, Shurong Liu, Anrui Liu, Jiayi Ye, Jie Zhou, Zhirong Chen, Qiaojuan Huang, Shun Liu, Keren Zhou, Lianghu Qu, Bin Li, Jianhua Yang
2'-O-methylation (Nm) is one of the most abundant RNA epigenetic modifications and plays a vital role in the post-transcriptional regulation of gene expression. Current Nm mapping approaches are normally limited to highly abundant RNAs and have significant technical hurdles in mRNAs or relatively rare non-coding RNAs (ncRNAs). Here, we developed a new method for enriching Nm sites by using RNA exoribonuclease and periodate oxidation reactivity to eliminate 2'-hydroxylated (2'-OH) nucleosides, coupled with sequencing (Nm-REP-seq)...
October 28, 2022: Science China. Life Sciences
https://read.qxmd.com/read/36316318/the-snorna-like-lncrna-lnc-sno49ab-drives-leukemia-by-activating-the-rna-editing-enzyme-adar1
#35
JOURNAL ARTICLE
Wei Huang, Yu-Meng Sun, Qi Pan, Ke Fang, Xiao-Tong Chen, Zhan-Cheng Zeng, Tian-Qi Chen, Shun-Xin Zhu, Li-Bin Huang, Xue-Qun Luo, Wen-Tao Wang, Yue-Qin Chen
Long noncoding RNAs (lncRNAs) are usually 5' capped and 3' polyadenylated, similar to most typical mRNAs. However, recent studies revealed a type of snoRNA-related lncRNA with unique structures, leading to questions on how they are processed and how they work. Here, we identify a novel snoRNA-related lncRNA named LNC-SNO49AB containing two C/D box snoRNA sequences, SNORD49A and SNORD49B; and show that LNC-SNO49AB represents an unreported type of lncRNA with a 5'-end m7G and a 3'-end snoRNA structure. LNC-SNO49AB was found highly expressed in leukemia patient samples, and silencing LNC-SNO49AB dramatically suppressed leukemia progression in vitro and in vivo...
November 1, 2022: Cell Discovery
https://read.qxmd.com/read/36225928/a-cell-based-assay-for-detection-of-anti-fibrillarin-autoantibodies-with-performance-equivalent-to-immunoprecipitation
#36
JOURNAL ARTICLE
Gerson Dierley Keppeke, Minoru Satoh, Cristiane Kayser, Pedro Matos, Tomoko Hasegawa, Shin Tanaka, Larissa Diogenes, Rogerio Quintiliano Amaral, Silvia Helena Rodrigues, Luis Eduardo Coelho Andrade
Anti-fibrillarin autoantibodies are useful for the diagnosis and prognosis of systemic sclerosis (SSc). Anti-fibrillarin produces a clumpy nucleolar pattern in indirect immunofluorescence assay on HEp-2 cells (HEp-2 IFA). Here we develop and validate a reliable cell-based anti-fibrillarin assay (Fibrillarin/CBA) for use in clinical diagnostic laboratories. A TransMembrane Signal was fused to the human fibrillarin gene (TMS-fibrillarin). HEp-2 cells overexpressing transgenic TMS-fibrillarin at the cytoplasmic membrane were used as IFA substrate in the Fibrillarin/CBA...
2022: Frontiers in Immunology
https://read.qxmd.com/read/36211456/sirtuin1-meditated-modification-of-notch1-intracellular-domain-regulates-nucleolar-localization-and-activation-of-distinct-signaling-cascades
#37
JOURNAL ARTICLE
Neetu Saini, Geetha Bheeshmachar, Apurva Sarin
Notch signaling is involved in cell fate decisions in the development and maintenance of tissue homeostasis. Spatial regulation of the Notch1 intracellular domain (NIC1), has been shown to underpin signaling outcomes mediated by this receptor. We recently reported a putative Nucleolar Localization Sequence (NoLS) in NIC1. Here we investigate if the putative NoLS identified in NIC1 regulates localization in the nucleolus and anti-apoptotic activity. Confocal imaging of live cells expressing NIC1 or forms modified by deletion or site-directed mutagenesis established that the putative NoLS in NIC1 is required for nucleolar localization and regulated by the deacetylase Sirtuin1...
2022: Frontiers in Cell and Developmental Biology
https://read.qxmd.com/read/36127125/methylation-guide-rnas-without-box-c-d-motifs
#38
JOURNAL ARTICLE
Jiayin Wang, Zuxiao Yang, Keqiong Ye
Box C/D RNAs guide site-specific 2'-O-methylation of RNAs in archaea and eukaryotes. The defining feature of methylation guide RNAs is two sets of box C and D motifs that form kink-turn structures specifically recognized by L7Ae family proteins. Here, we engineered a new type of methylation guide that lacks C/D motifs and requires no L7Ae for assembly and function. We determined a crystal structure of a bipartite C/D-free guide RNA in complex with Nop5, fibrillarin and substrate in the active form at 2.2 Å resolution...
December 2022: RNA
https://read.qxmd.com/read/36064227/assessment-of-transcription-inhibition-as-a-characteristic-of-immunogenic-cell-death
#39
JOURNAL ARTICLE
Giulia Cerrato, Juliette Humeau, Allan Sauvat, Oliver Kepp, Guido Kroemer
Anticancer drugs that suppress DNA-to-RNA transcription are particularly efficient in stimulating immunogenic cell death and hence eradicate malignant cells in a way that they will ignite an antitumor immune response. This is therapeutically relevant as it allows treatment response to last beyond drug discontinuation. For this reason, it is important to measure transcription inhibition in a precise fashion. Here, we detail two complementary assays for the assessment of transcription inhibition, one that detects the physical separation of fibrillarin and nucleolin by two-color immunofluorescence and another that measures the diminution of incorporated 5-ethynyl uridine (EU) into RNA, as revealed by click chemistry and the per-cell-intensity of a fluorescent signal...
2022: Methods in Cell Biology
https://read.qxmd.com/read/36017207/fibrillarin-antibodies-in-systemic-sclerosis
#40
JOURNAL ARTICLE
Adrian Lee
No abstract text is available yet for this article.
June 2022: Archives of Rheumatology
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