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https://www.readbyqxmd.com/read/28494440/nuclear-architecture-of-mouse-spermatocytes-chromosome-topology-heterochromatin-and-nucleolus
#1
Soledad Berrios
The nuclear organization of spermatocytes in meiotic prophase I is primarily determined by the synaptic organization of the bivalents that are bound by their telomeres to the nuclear envelope and described as arc-shaped trajectories through the 3D nuclear space. However, over this basic meiotic organization, a spermatocyte nuclear architecture arises that is based on higher-ordered patterns of spatial associations among chromosomal domains from different bivalents that are conditioned by the individual characteristics of chromosomes and the opportunity for interactions between their domains...
May 12, 2017: Cytogenetic and Genome Research
https://www.readbyqxmd.com/read/28483825/replication-of-ribosomal-dna-in-arabidopsis-occurs-both-inside-and-outside-of-the-nucleolus-during-s-phase-progression
#2
Martina Dvořáčková, Berta Raposo, Petr Matula, Joerg Fuchs, Veit Schubert, Vratislav Peška, Bénédicte Desvoyes, Crisanto Gutierrez, Jiří Fajkus
Ribosomal RNA genes (rDNA) have been used as valuable experimental systems in numerous studies. Here we focus on elucidating the spatio-temporal organisation of rDNA replication in Arabidopsis thaliana. To determine the subnuclear distribution of rDNA and the progression of its replication during S phase, we apply a 5-ethynyl-2'-deoxyuridine (EdU) labelling, fluorescence-activated cell sorting, fluorescence in situ hybridization, and structured illumination microscopy. We show that rDNA is replicated inside and outside the nucleolus where active transcription occurs at the same time...
May 8, 2017: Journal of Cell Science
https://www.readbyqxmd.com/read/28468917/the-circadian-dynamics-of-small-nucleolar-rna-in-the-mouse-liver
#3
Stuart Aitken, Colin A Semple
The circadian regulation of gene expression allows plants and animals to anticipate predictable environmental changes. While the influence of the circadian clock has recently been shown to extend to ribosome biogenesis, the dynamics and regulation of the many small nucleolar RNA that are required in pre-ribosomal RNA folding and modification are unknown. Using a novel computational method, we show that 18S and 28S pre-rRNA are subject to circadian regulation in a nuclear RNA sequencing time course. A population of snoRNA with circadian expression is identified that is functionally associated with rRNA modification...
May 2017: Journal of the Royal Society, Interface
https://www.readbyqxmd.com/read/28467309/automated-antinuclear-immunofluorescence-antibody-analysis-is-a-reliable-approach-in-routine-clinical-laboratories
#4
Bing Zheng, Enling Li, Haoming Zhu, Jingbo Lu, Xinming Shi, Jie Zhang, Min Li
BACKGROUND: Indirect immunofluorescence (IIF) assays are recommended as the gold standard method for the detection of antinuclear antibodies (ANAs). This study aimed to investigate the reliability of an automated system. METHODS: We compared 3745 serum samples using NOVA View archived images with manual analysis via microscopy. A custom cutoff value was established to distinguish ANA titers and was validated in two clinical laboratories. The automatic ANA pattern recognition system was evaluated, and all ANA-positive sera were subjected to two commercial ANA IIF kits to compare the consistency of the pattern interpretation results...
May 3, 2017: Clinical Chemistry and Laboratory Medicine: CCLM
https://www.readbyqxmd.com/read/28465432/different-phosphoisoforms-of-rna-polymerase-ii-engage-the-rtt103-termination-factor-in-a-structurally-analogous-manner
#5
Corey M Nemec, Fan Yang, Joshua M Gilmore, Corinna Hintermair, Yi-Hsuan Ho, Sandra C Tseng, Martin Heidemann, Ying Zhang, Laurence Florens, Audrey P Gasch, Dirk Eick, Michael P Washburn, Gabriele Varani, Aseem Z Ansari
The carboxyl-terminal domain (CTD) of the largest subunit of RNA polymerase II (Pol II) orchestrates dynamic recruitment of specific cellular machines during different stages of transcription. Signature phosphorylation patterns of Y1S2P3T4S5P6S7 heptapeptide repeats of the CTD engage specific "readers." Whereas phospho-Ser5 and phospho-Ser2 marks are ubiquitous, phospho-Thr4 is reported to only impact specific genes. Here, we identify a role for phospho-Thr4 in transcription termination at noncoding small nucleolar RNA (snoRNA) genes...
May 2, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28456843/dynamic-nucleolar-activity-in-wheat%C3%A2-%C3%A3-%C3%A2-aegilops-hybrids-evidence-of-c-genome-dominance
#6
Ghader Mirzaghaderi, Zinat Abdolmalaki, Mohsen Zohouri, Zeinab Moradi, Annaliese S Mason
NOR loci of C-subgenome are dominant in wheat × Aegilops interspecific hybrids, which may have evolutionary implications for wheat group genome dynamics and evolution. After interspecific hybridisation, some genes are often expressed from only one of the progenitor species, shaping subsequent allopolyploid genome evolution processes. A well-known example is nucleolar dominance, i.e. the formation of cell nucleoli from chromosomes of only one parental species. We studied nucleolar organizing regions (NORs) in diploid Aegilops markgrafii (syn: Ae...
April 29, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/28282787/long-non-coding-rna-snhg20-predicts-a-poor-prognosis-for-hcc-and-promotes-cell-invasion-by-regulating-the-epithelial-to-mesenchymal-transition
#7
Jinxia Liu, Cuihua Lu, Mingbing Xiao, Feng Jiang, Lishuai Qu, Runzhou Ni
BACKGROUND: Recently, Accumulating evidence indicates that long noncoding RNAs (lncRNAs) have been shown to have critical regulatory roles in human tumor biology and development. However, the expression pattern and biological function of lncRNA small nucleolar RNA host gene 20 (SNHG20) in hepatocellular carcinoma (HCC) remains largely unknown. METHODS: The expression of SNHG20 in 96 paired HCC tissues and cell lines were detected by quantitative real-time PCR (qRT-PCR) analysis...
May 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/28252005/serum-snornas-as-biomarkers-for-joint-ageing-and-post-traumatic-osteoarthritis
#8
Mandy M F Steinbusch, Yongxiang Fang, Peter I Milner, Peter D Clegg, David A Young, Tim J M Welting, Mandy J Peffers
The development of effective treatments for the age-related disease osteoarthritis and the ability to predict disease progression has been hampered by the lack of biomarkers able to demonstrate the course of the disease. Profiling the expression patterns of small nucleolar RNAs (snoRNAs) in joint ageing and OA may provide diagnostic biomarkers and therapeutic targets. This study determined expression patterns of snoRNAs in joint ageing and OA and examined them as potential biomarkers. Using SnoRNASeq and real-time quantitative PCR (qRT-PCR) we demonstrate snoRNA expression levels in murine ageing and OA joints and serum for the first time...
March 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28237925/hep-2-specimen-image-segmentation-and-classification-using-very-deep-fully-convolutional-network
#9
Yuexiang Li, Linlin Shen, Shiqi Yu
Reliable identification of Human Epithelial-2 (HEp-2) cell patterns can facilitate the diagnosis of systemic autoimmune diseases. However, traditional approach requires experienced experts to manually recognize the cell patterns, which suffers from the inter-observer variability. In this paper, an automatic pattern recognition system using fully convolutional network (FCN) was proposed to simultaneously address the segmentation and classification problem of HEp-2 specimen images. The proposed system transforms the residual network (ResNet) to fully convolutional residual network (FCRN) enabling the network to perform semantic segmentation task...
February 22, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28225893/lncrna-snhg12-promotes-cell-growth-and-inhibits-cell-apoptosis-in-colorectal-cancer-cells
#10
J Z Wang, C L Xu, H Wu, S J Shen
Several long non-coding RNA (lncRNA) might be correlated with the prognosis of colorectal cancer (CRC) and serve as a diagnostic and prognostic biomarker. However, the exact expression pattern of small nucleolar RNA host gene 12 (SNHG12) in colorectal cancer and its clinical significance remains unclear. The level of SNHG12 was detected by qRT-PCR in CRC tissues and CRC cells. MTT assay and colony formation assay were performed to examine the cell proliferation of CRC cells transfected with pcDNA-SNHG12 or si-SNHG12...
February 20, 2017: Brazilian Journal of Medical and Biological Research, Revista Brasileira de Pesquisas Médicas e Biológicas
https://www.readbyqxmd.com/read/28218222/human-u-three-protein-14a-expression-is-increased-in-hepatocellular-carcinoma-and-associated-with-poor-prognosis
#11
Jing-Yi Zhang, Da Xu, Zhen-Zhen Liu, Yuan Li, Li-Jun Wang, Bao-Cai Xing
BACKGROUND: Human U three protein 14a (hUTP14a) promotes p53 degradation. Moreover, hUTP14a expression is upregulated in several types of tumors. However, the expression pattern of hUTP14a in hepatocellular carcinoma (HCC) remains unknown. The aim of this study was to investigate hUTP14a expression and its prognostic value in HCC. METHODS: The hUTP14a expression was evaluated using immunohistochemistry (IHC) in HCC tissue specimens. The correlations between hUTP14a expression and clinicopathological variables were analyzed...
February 20, 2017: Chinese Medical Journal
https://www.readbyqxmd.com/read/28153390/nucleolin-staining-may-aid-in-the-identification-of-circulating-prostate-cancer-cells
#12
Heather J Chalfin, James E Verdone, Emma E van der Toom, Stephanie Glavaris, Michael A Gorin, Kenneth J Pienta
INTRODUCTION: Circulating tumor cells (CTCs) have great potential as circulating biomarkers for solid malignancies. Currently available assays for CTC detection rely on epithelial markers with somewhat limited sensitivity and specificity. We found that the staining pattern of nucleolin, a common nucleolar protein in proliferative cells, separates CTCs from white blood cells (WBCs) in men with metastatic prostate cancer. PATIENTS AND METHODS: Whole peripheral blood from 3 men with metastatic prostate cancer was processed with the AccuCyte CTC system (RareCyte, Seattle, WA)...
January 4, 2017: Clinical Genitourinary Cancer
https://www.readbyqxmd.com/read/28129629/hepatoprotective-effect-of-engineered-silver-nanoparticles-coated-bioactive-compounds-against-diethylnitrosamine-induced-hepatocarcinogenesis-in-experimental-mice
#13
Govindaraj Prasannaraj, Perumal Venkatachalam
Nanoparticle based drug delivery can rapidly improves the therapeutic potential of anti-cancer agents. The present study focused to evaluate the hepatoprotective activity of silver nanoparticles (AgNPs) synthesized using aqueous extracts of Andrographis paniculata leaves (ApAgNPs) and Semecarpus anacardium nuts (SaAgNPs) against diethylnitrosamine (DEN) induced liver cancer in mice model. The physico-chemical properties of synthesized AgNPs were characterized by Fourier transform infrared (FTIR) spectroscopy, Transmission Electron Microscopy (TEM), Selected Area Electron Diffraction (SAED), X-ray Diffraction (XRD), Energy Dispersive X-ray (EDX) spectrum, Zeta potential and Dynamic Light Scattering (DLS) analysis...
February 2017: Journal of Photochemistry and Photobiology. B, Biology
https://www.readbyqxmd.com/read/28051134/validation-of-suitable-normalizers-for-mir-expression-patterns-analysis-covering-tumour-heterogeneity
#14
C Morata-Tarifa, M Picon-Ruiz, C Griñan-Lison, H Boulaiz, M Perán, M A Garcia, J A Marchal
Oncogenic microRNAs (miRs) have emerged as diagnostic biomarkers and novel molecular targets for anti-cancer drug therapies. Real-time quantitative PCR (qPCR) is one of the most powerful techniques for analyzing miRs; however, the use of unsuitable normalizers might bias the results. Tumour heterogeneity makes even more difficult the selection of an adequate endogenous normalizer control. Here, we have evaluated five potential referenced small RNAs (U6, rRNA5s, SNORD44, SNORD24 and hsa-miR-24c-3p) using RedFinder algorisms to perform a stability expression analysis in i) normal colon cells, ii) colon and breast cancer cell lines and iii) cancer stem-like cell subpopulations...
January 4, 2017: Scientific Reports
https://www.readbyqxmd.com/read/27979657/undifferentiated-connective-tissue-disease-and-interstitial-lung-disease-trying-to-define-patterns
#15
María Laura Alberti, Francisco Paulin, Heidegger Mateos Toledo, Martín Eduardo Fernández, Fabián Matías Caro, Jorge Rojas-Serrano, Mayra Edith Mejía
OBJECTIVES: To identify clinical or immunological features in patients with undifferentiated connective tissue disease (UCTD) associated interstitial lung disease (ILD), in order to group them and recognize different functional and high resolution computed tomography (HRCT) behavior. METHODS: Retrospective cohort study. Patients meeting Kinder criteria for UCTD were included. We defined the following predictive variables: 'highly specific' connective tissue disease (CTD) manifestations (Raynaud's phenomenon, dry eyes or arthritis), high antinuclear antibody (ANA) titer (above 1: 320), and 'specific' ANA staining patterns (centromere, cytoplasmic and nucleolar patterns)...
December 12, 2016: Reumatología Clinica
https://www.readbyqxmd.com/read/27919229/unique-nucleolar-dominance-patterns-in-distant-hybrid-lineage-derived-from-megalobrama-amblycephala%C3%A2-%C3%A3-%C3%A2-culter-alburnus
#16
Jun Xiao, Fangzhou Hu, Kaikun Luo, Wuhui Li, Shaojun Liu
BACKGROUND: Nucleolar dominance is an epigenetic phenomenon that occurs in interspecific hybrids and involves the expression of 45S rRNA genes inherited from one progenitor due to the silencing of the other progenitor's rRNA genes. In this paper, changes in the genetics and expression of 45S rRNA genes in F1 and F2 hybrid progeny of blunt snout bream (BSB, Megalobrama amblycephala) × topmouth culter (TC, Culter alburnus) are investigated. RESULTS: The 45S rDNA loci were analyzed by cloning, RT-PCR and sequencing methods...
December 5, 2016: BMC Genetics
https://www.readbyqxmd.com/read/27871485/unusual-processing-generates-spa-lncrnas-that-sequester-multiple-rna-binding-proteins
#17
Huang Wu, Qing-Fei Yin, Zheng Luo, Run-Wen Yao, Chuan-Chuan Zheng, Jun Zhang, Jian-Feng Xiang, Li Yang, Ling-Ling Chen
We identify a type of polycistronic transcript-derived long noncoding RNAs (lncRNAs) that are 5' small nucleolar RNA (snoRNA) capped and 3' polyadenylated (SPAs). SPA processing is associated with nascent mRNA 3' processing and kinetic competition between XRN2 trimming and Pol II elongation. Following cleavage/polyadenylation of its upstream gene, the downstream uncapped pre-SPA is trimmed by XRN2 until this exonuclease reaches the co-transcriptionally assembled snoRNP. This snoRNP complex prevents further degradation, generates a snoRNA 5' end, and allows continuous Pol II elongation...
November 3, 2016: Molecular Cell
https://www.readbyqxmd.com/read/27852862/adeno-associated-virus-aav-assembly-activating-protein-is-not-an-essential-requirement-for-capsid-assembly-of-aav-serotypes-4-5-and-11
#18
Lauriel F Earley, John M Powers, Kei Adachi, Joshua T Baumgart, Nancy L Meyer, Qing Xie, Michael S Chapman, Hiroyuki Nakai
Adeno-associated virus (AAV) vectors have made great progress in their use for gene therapy; however, fundamental aspects of AAV's capsid assembly remain poorly characterized. In this regard, the discovery of assembly-activating protein (AAP) sheds new light on this crucial part of AAV biology and vector production. Previous studies have shown that AAP is essential for assembly; however, how its mechanistic roles in assembly might differ among AAV serotypes remains uncharacterized. Here, we show that biological properties of AAPs and capsid assembly processes are surprisingly distinct among AAV serotypes 1 to 12...
February 1, 2017: Journal of Virology
https://www.readbyqxmd.com/read/27795408/nonstructural-protein-nss-of-schmallenberg-virus-is-targeted-to-the-nucleolus-and-induces-nucleolar-disorganization
#19
Julie Gouzil, Aurore Fablet, Estelle Lara, Grégory Caignard, Marielle Cochet, Cindy Kundlacz, Massimo Palmarini, Mariana Varela, Emmanuel Breard, Corinne Sailleau, Cyril Viarouge, Muriel Coulpier, Stéphan Zientara, Damien Vitour
Schmallenberg virus (SBV) was discovered in Germany in late 2011 and then spread rapidly to many European countries. SBV is an orthobunyavirus that causes abortion and congenital abnormalities in ruminants. A virus-encoded nonstructural protein, termed NSs, is a major virulence factor of SBV, and it is known to promote the degradation of Rpb1, a subunit of the RNA polymerase II (Pol II) complex, and therefore hampers global cellular transcription. In this study, we found that NSs is mainly localized in the nucleus of infected cells and specifically appears to target the nucleolus through a nucleolar localization signal (NoLS) localized between residues 33 and 51 of the protein...
January 1, 2017: Journal of Virology
https://www.readbyqxmd.com/read/27790225/cytomolecular-analysis-of-ribosomal-dna-evolution-in-a-natural-allotetraploid-brachypodium-hybridum-and-its-putative-ancestors-dissecting-complex-repetitive-structure-of-intergenic-spacers
#20
Natalia Borowska-Zuchowska, Miroslaw Kwasniewski, Robert Hasterok
Nucleolar dominance is an epigenetic phenomenon associated with nuclear 35S rRNA genes and consists in selective suppression of gene loci inherited from one of the progenitors in the allopolyploid. Our understanding of the exact mechanisms that determine this process is still fragmentary, especially in case of the grass species. This study aimed to shed some light on the molecular basis of this genome-specific inactivation of 35S rDNA loci in an allotetraploid Brachypodium hybridum (2n = 30), which arose from the interspecific hybridization between two diploid ancestors that were very similar to modern B...
2016: Frontiers in Plant Science
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