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https://www.readbyqxmd.com/read/29289594/cd4-t-cells-promote-renal-cell-carcinoma-proliferation-via-modulating-ybx1
#1
Yong Wang, Yiting Wang, Liang Xu, Xianqi Lu, Donghe Fu, Jing Su, Hua Geng, Guoxuan Qin, Ruibing Chen, Changyi Quan, Yuanjie Niu, Dan Yue
Renal cell carcinoma (RCC) is a common urologic tumor and the third leading cause of death among urological tumors. Recent studies demonstrate that RCC tumors are more heavily infiltrated by lymphocytes than other cancers. However, the exact roles played by CD4 + T cells in RCC proliferation remain unknown. In this study, we cocultured RCC cells with CD4 + T cells. Stable knockdown of YBX1 in RCC cells was constructed. The effects of CD4 + T cells, TGFβ1 and YBX1 on RCC cells were investigated using cell viability assays...
December 28, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/29228146/identification-and-characterization-of-a-specific-13-mirna-expression-signature-during-follicle-activation-in-the-zebrafish-ovary
#2
Queenie Wing-Lei Wong, Ming-An Sun, Shuk-Wa Lau, Chirag Parsania, Shaolong Zhou, Silin Zhong, Wei Ge
Ovarian folliculogenesis is always of great interest in reproductive biology. However, the molecular mechanisms that control follicle development, particularly the early phase of follicle activation or recruitment, still remain poorly understood. In an attempt to decipher the gene networks and signaling pathways involved in such transition, we conducted a transcriptomic analysis (RNA-seq) on zebrafish primary growth (PG, stage I; inactive) and pre-vitellogenic (PV, stage II; activated) follicles. A total of 118 unique microRNAs (miRNAs) (11 down-regulated and 83 up-regulated during PG/PV transition) and 56711 unique messenger RNAs (mRNAs) (1839 down-regulated and 7243 up-regulated during PG/PV transition) were identified...
December 6, 2017: Biology of Reproduction
https://www.readbyqxmd.com/read/29180470/er-alpha-binding-by-transcription-factors-nfib-and-ybx1-enables-fgfr2-signalling-to-modulate-estrogen-responsiveness-in-breast-cancer
#3
Thomas M Campbell, Mauro Aa Castro, Kelin Gonçalves deOliveira, Bruce Aj Ponder, Kerstin B Meyer
Two opposing clusters of transcription factors (TF) have been associated with the differential risks of estrogen receptor positive or negative breast cancers, but the mechanisms underlying the opposing functions of the two clusters are undefined. In this study, we identified NFIB and YBX1 as novel interactors of the estrogen receptor alpha (ESR1). NFIB and YBX1 are both risk TF associated with progression of ESR1-negative disease. Notably, they both interacted with the ESR1-FOXA1 complex and inhibited the transactivational potential of ESR1...
November 27, 2017: Cancer Research
https://www.readbyqxmd.com/read/29175387/baicalein-inhibits-cervical-cancer-progression-via-downregulating-long-noncoding-rna-bdlnr-and-its-downstream-pi3k-akt-pathway
#4
Xiaolan Yu, Jiyi Xia, Yan Li, Yong Cao, Li Tang, Yingcheng Yang, Feng Chen
Baicalein, an active flavonoid extracted from the root of Scutellaria baicalensis Georgi, has fascinating anti-cancer effects on many cancers. Our previous study also found that baicalein inhibited cervical cancer cell proliferation and migration, and induced cervical cancer cell apoptosis and cell cycle arrest. However, the molecular mechanisms underlying the anti-cancer effects of baicalein are largely unknown. In this study, we identified a novel long noncoding RNA (lncRNA), which is downregulated by baicalein in a dose- and time-dependent manner in cervical cancer...
November 23, 2017: International Journal of Biochemistry & Cell Biology
https://www.readbyqxmd.com/read/29131639/proteomic-characterization-of-transcription-and-splicing-factors-associated-with-a-metastatic-phenotype-in-colorectal-cancer
#5
Sofía Torres, Irene García-Palmero, Consuelo Marín-Vicente, Rubén A Bartolomé, Eva Calviño, María Jesús Fernández-Aceñero, J Ignacio Casal
We investigated new transcription and splicing factors associated with the metastatic phenotype in colorectal cancer. A concatenated tandem array of consensus transcription factor (TF)-response elements was used to pull down nuclear extracts in two different pairs of colorectal cancer cells, KM12SM/KM12C and SW620/480, genetically related but differing in metastatic ability. Proteins were analyzed by label-free LC-MS and quantified with MaxLFQ. We found 240 proteins showing a significant dysregulation in highly metastatic KM12SM cells relative to nonmetastatic KM12C cells and 257 proteins in metastatic SW620 versus SW480...
November 21, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29113949/dysregulated-expression-of-the-microrna-mir-137-and-its-target-yb-1-contribute-to-the-invasive-characteristics-of-malignant-pleural-mesothelioma
#6
Thomas G Johnson, Karin Schelch, Yuen Y Cheng, Marissa Williams, Kadir H Sarun, Michaela B Kirschner, Steven Kao, Anthony Linton, Sonja Klebe, Brian C McCaughan, Ruby Cy Lin, Christine Pirker, Walter Berger, Annette Lasham, Nico van Zandwijk, Glen Reid
BACKGROUND: Malignant pleural mesothelioma (MPM) is an aggressive malignancy linked to asbestos exposure. On a genomic level, MPM is characterised by frequent chromosomal deletions of tumour suppressors, including microRNAs. MiR-137 plays a tumour suppressor role in other cancers, so the aim of this study was to characterise it and its target Y-box binding protein-1 (YB-1) in MPM. BASIC PROCEDURES: Expression, methylation and copy number status of miR-137 and its host gene MIR137HG were assessed by PCR...
November 4, 2017: Journal of Thoracic Oncology
https://www.readbyqxmd.com/read/29073095/broad-role-for-ybx1-in-defining-the-small-noncoding-rna-composition-of-exosomes
#7
Matthew J Shurtleff, Jun Yao, Yidan Qin, Ryan M Nottingham, Morayma M Temoche-Diaz, Randy Schekman, Alan M Lambowitz
RNA is secreted from cells enclosed within extracellular vesicles (EVs). Defining the RNA composition of EVs is challenging due to their coisolation with contaminants, lack of knowledge of the mechanisms of RNA sorting into EVs, and limitations of conventional RNA-sequencing methods. Here we present our observations using thermostable group II intron reverse transcriptase sequencing (TGIRT-seq) to characterize the RNA extracted from HEK293T cell EVs isolated by flotation gradient ultracentrifugation and from exosomes containing the tetraspanin CD63 further purified from the gradient fractions by immunoisolation...
October 24, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29059375/translational-co-regulation-of-a-ligand-and-inhibitor-by-a-conserved-rna-element
#8
Andreas Zaucker, Agnieszka Nagorska, Pooja Kumari, Nikolai Hecker, Yin Wang, Sizhou Huang, Ledean Cooper, Lavanya Sivashanmugam, Shruthi VijayKumar, Jan Brosens, Jan Gorodkin, Karuna Sampath
In many organisms, transcriptional and post-transcriptional regulation of components of pathways or processes has been reported. However, to date, there are few reports of translational co-regulation of multiple components of a developmental signaling pathway. Here, we show that an RNA element which we previously identified as a dorsal localization element (DLE) in the 3'UTR of zebrafish nodal-related1/squint (ndr1/sqt) ligand mRNA, is shared by the related ligand nodal-related2/cyclops (ndr2/cyc) and the nodal inhibitors, lefty1 (lft1) and lefty2 mRNAs...
October 20, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29029484/ybx1-promotes-tumor-growth-by-elevating-glycolysis-in-human-bladder-cancer
#9
Liuyu Xu, Hongyun Li, Longchao Wu, Shiming Huang
Aerobic glycolysis, also known as Warburg effect, is a key hallmark of cancers. The Y-box-binding protein 1 (YBX1) is a well-known oncoprotein implicated in multiple malignant phenotypes of cancers. Meanwhile, little is known about the oncogenic functions and mechanisms of YBX1 in bladder cancer. Based on gene set enrichment analysis (GSEA) of TCGA RNAseq data, we find that YBX1 was profoundly involved in the glycolysis part of glucose metabolism. Loss- and gain-of-function studies show that YBX1 can enhance glycolysis as revealed by expression of glycolytic enzymes, glucose uptake, lactate secretion and extracellular acidification rate (ECAR)...
September 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29028411/expanding-the-map-of-protein-rna-interaction-sites-via-cell-fusion-followed-by-par-clip
#10
Florian Hinze, Philipp Drewe-Boß, Miha Milek, Uwe Ohler, Markus Landthaler, Michael Gotthardt
PAR-CLIP (photoactivatable ribonucleoside-enhanced crosslinking and immunoprecipitation) facilitates the identification and mapping of protein/RNA interactions. So far, it has been limited to select cell-lines as it requires efficient 4SU uptake. To increase transcriptome complexity and thus identify additional RNA-protein interaction sites we fused HEK 293 T-Rex cells (HEK293-Y) that express the RNA binding protein YBX1 with PC12 cells expressing eGFP (PC12-eGFP). The resulting hybrids enable PAR-CLIP on a neuronally expanded transcriptome (Fusion-CLIP) and serve as a proof of principle...
October 13, 2017: RNA Biology
https://www.readbyqxmd.com/read/29024700/high-ybx1-expression-indicates-poor-prognosis-and-promotes-cell-migration-and-invasion-in-nasopharyngeal-carcinoma
#11
Lei-Lei Zhou, Jie Ni, Wan-Ting Feng, Rong Yao, Shun Yue, Ya-Ning Zhu, Hai-Yan Tang, Ling-Yun Lv, Ji-Feng Feng, Wei-Guo Zhu
Y-box binding protein-1 (YBX1) is a multifunctional protein and often acts as an indicator of poor prognosis in cancers. Increasing evidence has shown that the levels of YBX1 protein were closely associated with multidrug resistance, relapse, metastasis and poor prognosis in cancers. However, its role in nasopharyngeal carcinoma (NPC) metastasis remains unknown. In our study, we discovered that the expression of YBX1 was increased in nasopharyngeal carcinoma tissues. YBX1 protein levels positively correlated with T stage and metastasis of NPC patients...
October 9, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/28927269/discovery-of-tamoxifen-and-n-desmethyl-tamoxifen-protein-targets-in-mcf-7-cells-using-large-scale-protein-folding-and-stability-measurements
#12
Ryenne N Ogburn, Lorrain Jin, He Meng, Michael C Fitzgerald
The proteins in an MCF-7 cell line were probed for tamoxifen (TAM) and n-desmethyl tamoxifen (NDT) induced stability changes using the Stability of Proteins from Rates of Oxidation (SPROX) technique in combination with two different quantitative proteomics strategies, including one based on SILAC and one based on isobaric mass tags. Over 1000 proteins were assayed for TAM- and NDT-induced protein stability changes, and a total of 163 and 200 protein hits were identified in the TAM and NDT studies, respectively...
November 3, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28869005/human-interactome-of-the-influenza-b-virus-ns1-protein
#13
Corinna Patzina, Catherine H Botting, Adolfo García-Sastre, Richard E Randall, Benjamin G Hale
NS1 proteins of influenza A and B viruses share limited sequence homology, yet both are potent manipulators of host cell processes, particularly interferon (IFN) induction. Although many cellular partners are reported for A/NS1, only a few (e.g. PKR and ISG15) have been identified for B/NS1. Here, affinity-purification and mass spectrometry were used to expand the known host interactome of B/NS1. We identified 22 human proteins as new putative targets for B/NS1, validating several, including DHX9, ILF3, YBX1 and HNRNPC...
September 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28610763/inflammatory-cell-infiltration-and-resolution-of%C3%A2-kidney-inflammation-is-orchestrated-by-the-cold-shock-protein-y-box-binding-protein-1
#14
Anja Bernhardt, Alexander Fehr, Sabine Brandt, Saskia Jerchel, Tobias M Ballhause, Lars Philipsen, Saskia Stolze, Robert Geffers, Honglei Weng, Klaus-Dieter Fischer, Berend Isermann, Monika C Brunner-Weinzierl, Arvind Batra, Britta Siegmund, Cheng Zhu, Jonathan A Lindquist, Peter R Mertens
Tubular cells recruit monocytic cells in inflammatory tubulointerstitial kidney diseases. The cell-cell communication that establishes pro- or anti-inflammatory activities is mainly influenced by cytokines, reactive oxygen species, nitric oxide, and phagocytosis. Key proteins orchestrating these processes such as cold-shock proteins linked with chemoattraction and cell maturation have been identified. The prototypic member of the cold-shock protein family, Y-box binding protein (YB)-1, governs specific phenotypic alterations in monocytic cells and was explored in the present study...
November 2017: Kidney International
https://www.readbyqxmd.com/read/28428004/long-noncoding-rna-awpph-promotes-hepatocellular-carcinoma-progression-through-ybx1-and-serves-as-a-prognostic-biomarker
#15
Xiaodong Zhao, Yanbo Liu, Shuo Yu
Long noncoding RNAs (lncRNAs) have been shown to play important roles in various cancers. However, the clinical significances and biological roles of lncRNAs in hepatocellular carcinoma (HCC) remain largely unknown. In this study, using online-available data sets and quantitative real-time PCR, we identified a novel lncRNA termed lncRNA-AWPPH, which is highly expressed in HCC tissues. Its upregulation is correlated with encapsulation incomplete, microvascular invasion, advanced TNM stage and BCLC stage. Cox proportional hazards regression analysis revealed that high lncRNA-AWPPH expression is an independent prognostic factor for poor recurrence-free and overall survival...
April 18, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28400280/transcriptional-activation-of-nanog-by-ybx1-promotes-lung-cancer-stem-like-properties-and-metastasis
#16
Tao Guo, Jing Kong, Yang Liu, Zhuoshi Li, Jianglong Xia, Yan Zhang, Shilei Zhao, Fengzhou Li, Jinxiu Li, Chundong Gu
Aberrant overexpression of the transcription/translation factor Y-box-binding protein-1 (YBX1) is associated with non-small cell lung cancer (NSCLC) aggressiveness. Cancer stem cells (CSCs) contribute to the tumorigenesis and metastasis of NSCLC. Hitherto, the mechanism by which YBX1 regulates CSCs and metastasis in NSCLC remains unclear. Here, we demonstrated that YBX1 levels were elevated in NSCLC tissues and cell lines. Enforced expression of YBX1 promoted NSCLC cells invasion, sphere forming ability and ALDH1(+) population...
May 20, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28302118/ybx1-gene-silencing-inhibits-migratory-and-invasive-potential-via-coro1c-in-breast-cancer-in-vitro
#17
Jia Pei Lim, Sukanya Shyamasundar, Jayantha Gunaratne, Olivia Jane Scully, Ken Matsumoto, Boon Huat Bay
BACKGROUND: Y-box binding protein-1 is an evolutionary conserved transcription and translation regulating protein that is overexpressed in various human malignancies, including breast cancer. Despite reports of YB-1 and its association with distant spread of breast cancer, the intrinsic mechanism underlying this observation remains elusive. This study investigates the role of YB-1 in mediating metastasis in highly invasive breast cancer cell lines. METHODS: Silencing the YBX1 gene (which encodes the YB-1 protein) by small interfering RNA (siRNA) was performed in MDA-MB-231 and Hs578T breast cancer cell lines, followed by phenotypic assays including cell migration and invasion assays...
March 16, 2017: BMC Cancer
https://www.readbyqxmd.com/read/28263985/robust-stratification-of-breast-cancer-subtypes-using-differential-patterns-of-transcript-isoform-expression
#18
Thomas P Stricker, Christopher D Brown, Chaitanya Bandlamudi, Megan McNerney, Ralf Kittler, Vanessa Montoya, April Peterson, Robert Grossman, Kevin P White
Breast cancer, the second leading cause of cancer death of women worldwide, is a heterogenous disease with multiple different subtypes. These subtypes carry important implications for prognosis and therapy. Interestingly, it is known that these different subtypes not only have different biological behaviors, but also have distinct gene expression profiles. However, it has not been rigorously explored whether particular transcriptional isoforms are also differentially expressed among breast cancer subtypes, or whether transcript isoforms from the same sets of genes can be used to differentiate subtypes...
March 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28115289/profibrotic-ihg-1-complexes-with-renal-disease-associated-hspa5-and-trap1-in-mitochondria
#19
Una Bhreathnach, Brenda Griffin, Eoin Brennan, Leah Ewart, Debra Higgins, Madeline Murphy
The highly conserved mitochondrial protein induced in high glucose-1 (IHG-1) functions to maintain mitochondrial quality and is associated with the development of fibrosis in diabetic nephropathy. Towards identifying novel approaches to treating diabetic kidney disease, IHG-1-protein-protein interactions were investigated using epitope-tagged immunoprecipitation analyses followed by mass spectrometry. Here we show that IHG-1 is solely expressed in mitochondria and localised to the inner mitochondrial membrane, the region where mitochondrial reactive oxygen species are generated...
April 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28107702/c1qbp-regulates-ybx1-to-suppress-the-androgen-receptor-ar-enhanced-rcc-cell-invasion
#20
Dan Yue, Yong Wang, Yin Sun, Yuanjie Niu, Chawnshang Chang
Early studies suggested that the androgen receptor (AR) might play important roles to promote the renal cell carcinoma (RCC) progression; however, the detailed mechanisms remain unclear. Here we demonstrated the higher YBX1 expression with lower C1QBP expression in human RCC clinical tissues, and the intensity of C1QBP was negatively correlated with the YBX1 nuclear expression. Mechanism dissection found C1QBP could interact with YBX1 to suppress the YBX1 activation via altering the YBX1 phosphorylation and nuclear translocation in RCC cells...
February 2017: Neoplasia: An International Journal for Oncology Research
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