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Laura R Hardy, Amrita Salvi, Joanna E Burdette
High-grade serous ovarian cancer is a deadly disease that can originate from the fallopian tube or the ovarian surface epithelium. The PAX (paired box) genes PAX2 and PAX8 are lineage-specific transcription factors required during development of the fallopian tube but not in the development of the ovary. PAX2 expression is lost early in serous cancer progression, while PAX8 is expressed ubiquitously. These proteins are implicated in migration, invasion, proliferation, cell survival, stem cell maintenance, and tumor growth...
August 8, 2018: Cancers
Andrea Hoffmeier, Lydia Gramzow, Amey S Bhide, Nina Kottenhagen, Andreas Greifenstein, Olesia Schubert, Klaus Mummenhoff, Annette Becker, Günter Theißen
Genes are 'born', and eventually they 'die'. These processes shape the phenotypic evolution of organisms and are hence of great biological interest. If genes die in plants, they generally do so quite rapidly. Here, we describe the fate of GOA-like genes that evolve in a dramatically different manner. GOA-like genes belong to the subfamily of Bsister genes of MIKC-type MADS-box genes. Typical MIKC-type genes encode conserved transcription factors controlling plant development. We show that ABS-like genes, a clade of Bsister genes, are indeed highly conserved in crucifers (Brassicaceae) maintaining the ancestral function of Bsister genes in ovule and seed development...
July 25, 2018: Molecular Biology and Evolution
Daniel Todt, Nora Moeller, Dimas Praditya, Volker Kinast, Martina Friesland, Michael Engelmann, Lieven Verhoye, Ibrahim M Sayed, Patrick Behrendt, Viet Loan Dao Thi, Philip Meuleman, Eike Steinmann
Hepatitis E virus (HEV) is the causative agent of hepatitis E in humans and a member of the genus Orthohepevirus in the family Hepeviridae. HEV infections are the common cause of acute hepatitis but can also take chronic courses. Ribavirin is the treatment of choice for most patients and type I interferon (IFN) has been evaluated in a few infected transplantation patients in vivo. However, no effective and specific treatments against HEV infections are currently available. In this study, we evaluated the natural compound silvestrol, isolated from the plant Aglaia foveolata, and known for its specific inhibition of the DEAD-box RNA helicase eIF4A in state-of-the-art HEV experimental model systems...
September 2018: Antiviral Research
Yaqian Li, Huilin Li, Na Su, Dejian Liu, Rui Luo, Hui Jin
DEAD (Asp-Glu-Ala-Asp) box polypeptide 41 (DDX41), a receptor belonging to DExD/H-box helicase family, acts as an intracellular DNA sensor and induces type I IFN production in mammals and fish. However, the function of avian DDX41 in innate immune response is still unknown. In this study, the full-length duck DDX41 (duDDX41) cDNA sequence was cloned for the first time and encoded a putative protein of 618 amino acid residues which showed the high sequence similarity with both zebra finch and chicken DDX41s...
July 17, 2018: Developmental and Comparative Immunology
María Eugenia Loureiro, Andre Luiz Zorzetto-Fernandes, Sheli Radoshitzky, Xiaoli Chi, Simone Dallari, Nuha Marooki, Psylvia Lèger, Sabrina Foscaldi, Vince Harjono, Sonia Sharma, Brian M Zid, Nora López, Juan Carlos de la Torre, Sina Bavari, Elina Zúñiga
Several arenaviruses cause hemorrhagic fever (HF) diseases that are associated with high morbidity and mortality in humans. Accordingly, HF arenaviruses have been listed as top-priority emerging diseases for which countermeasures are urgently needed. Because arenavirus nucleoprotein (NP) plays critical roles in both virus multiplication and immune-evasion, we used an unbiased proteomic approach to identify NP-interacting proteins in human cells. DDX3, a DEAD-box ATP-dependent-RNA-helicase, interacted with NP in both NP-transfected and virus-infected cells...
July 2018: PLoS Pathogens
Xiaocheng Shi, Cheng-Chew Lim, Peng Shi, Shengyuan Xu
This paper focuses on the problem of adaptive output-constrained neural tracking control for uncertain nonstrict-feedback systems in the presence of unknown symmetric output dead zone and input saturation. A Nussbaum-type function-based dead-zone model is introduced such that the dynamic surface control approach can be used for controller design. The variable separation technique is employed to decompose the unknown function of entire states in each subsystem into a series of smooth functions. Radial basis function neural networks are utilized to approximate the unknown black-box functions derived from Young's inequality...
February 6, 2018: IEEE Transactions on Neural Networks and Learning Systems
Ling Dai, Guangdong Pan, Xiaojia Liu, Jiang Huang, Zhiqing Jiang, Xiaobao Zhu, Xinli Gan, Qing Xu, Ning Tan
Purpose: The identification of prognostic markers for colorectal cancer (CRC) is needed for clinical practice. Fructose-bisphosphate aldolase A (ALDOA) and DEAD box p68 RNA helicase (DDX5) are commonly overexpressed in cancer and correlate with tumorigenesis. However, association between expression of ALDOA and DDX5, and CRC outcome has not been reported. Patients and methods: We used 141 formalin-fixed paraffin-embedded (FFPE) specimens collected from 105 patients with CRC treated at the Affiliated Hospital of Guilin Medical University and the People's Hospital of Liuzhou...
2018: Cancer Management and Research
Toshihiro Tajirika, Yoshihisa Tokumaru, Kohei Taniguchi, Nobuhiko Sugito, Nobuhisa Matsuhashi, Manabu Futamura, Kazuyoshi Yanagihara, Yukihiro Akao, Kazuhiro Yoshida
The human DEAD/H-box RNA helicase DDX6 (RCK/p54) is a protein encoded by the fusion gene from the t(11;14)(q23;q32) chromosomal translocation observed in human B-cell lymphoma cell line RC-K8. DDX6 has a variety of functions such as translation initiation, pre-mRNA splicing, and ribosome assembly. However, details of the regulatory mechanism governing DDX6 and the functions of DDX6 are largely unknown. Previously, we reported that DDX6 is overexpressed in most malignant cell lines and clinical colorectal tumor samples and that DDX6 positively contributes to the pathogenesis of various cancers...
July 9, 2018: International Journal of Molecular Sciences
Shengjun Li, Ran Xu, Aixia Li, Kan Liu, Liqing Gu, Mu Li, Hairui Zhang, Yueying Zhang, Shangshang Zhuang, Quanhui Wang, Gang Gao, Na Li, Chi Zhang, Yunhai Li, Bin Yu
MicroRNAs (miRNAs) are a class of small non-coding RNAs that repress gene expression. In plants, the RNase III enzyme Dicer-like (DCL1) processes primary miRNAs (pri-miRNAs) into miRNAs. Here, we show that SMALL1 (SMA1), a homolog of the DEAD-box pre-mRNA splicing factor Prp28, plays essential roles in miRNA biogenesis in Arabidopsis. A hypomorphic sma1-1 mutation causes growth defects and reduces miRNA accumulation correlated with increased target transcript levels. SMA1 interacts with the DCL1 complex and positively influences pri-miRNA processing...
June 30, 2018: Nucleic Acids Research
Yu-Siang Su, Ai-Hsuan Tsai, Yueh-Feng Ho, Shin-Yi Huang, Yen-Chun Liu, Lih-Hwa Hwang
The translation of enterovirus 71 (EV71) is mediated by an internal ribosome entry site (IRES)-dependent manner. EV71 IRES comprises five highly structured domains (domains II-VI) in the 5'-untranslated region of the viral mRNA. A conserved AUG triplet residing in domain VI is proposed to be the ribosome entry site. It is thus envisaged that the highly structured conformation of domain VI may actually reduce the accessibility of the AUG triplet to the ribosome. This study identified a DEAD-box family RNA helicase, DDX3X, that positively regulated the EV71 IRES-dependent translation...
2018: Frontiers in Microbiology
Andreas Schmitt, Florian Hamann, Piotr Neumann, Ralf Ficner
The DEAH-box ATPase Prp2 plays a key role in the activation of the spliceosome as it promotes the transition from the Bact to the catalytically active B* spliceosome. Here, four crystal structures of Prp2 are reported: one of the nucleotide-free state and three different structures of the ADP-bound state. The overall conformation of the helicase core, formed by two RecA-like domains, does not differ significantly between the ADP-bound and the nucleotide-free states. However, intrinsic flexibility of Prp2 is observed, varying the position of the C-terminal domains with respect to the RecA domains...
July 1, 2018: Acta Crystallographica. Section D, Structural Biology
Alban Chauderlier, Melissa Gilles, Andrea Spolcova, Raphaelle Caillierez, Maggy Chwastyniak, Michel Kress, Herve Drobecq, Eliette Bonnefoy, Florence Pinet, Dominique Weil, Luc Buée, Marie-Christine Galas, Bruno Lefebvre
Tauopathies, such as Alzheimer's disease, are characterized by intracellular aggregates of insoluble Tau proteins. Originally described as a microtubule binding protein, recent studies demonstrated additional physiological roles for Tau. The fact that a single protein can regulate multiple cellular functions has posed challenge in terms of understanding mechanistic cues behind the pathology. Here, we used tandem-affinity purification methodology coupled to mass spectrometry to identify novel interaction partners...
August 2018: Biochimica et Biophysica Acta
Youguo Chen, Ziqian Sun, Jingbo Xu, Peifang Wang, Juan Tang, Xiaorui Shi, Jingjing Liu, Fangfang Ren, Lan Xu
Ovarian cancer is one of the most commonly occurring types of cancer and one of the most common causes of cancer-associated mortality in women. Diagnosis of ovarian cancer at an early stage is difficult due to the lack of specific symptoms. In the present study, it is demonstrated that active vitamin D treatment prohibited the proliferation and invasion of ovarian cancer cells, and the expression level of a germ cell specific marker DEAD (Asp-Glu-Ala-Asp)-box helicase 4 (DDX4), which is overexpressed in ovarian cancer, was downregulated by active vitamin D treatment...
July 2018: Oncology Letters
Wei Zheng, Chun-Yan Zhou, Xin-Qing Zhu, Xue-Jian Wang, Zi-Yao Li, Xiao-Chi Chen, Feng Chen, Xiang-Yu Che, Xin Xie
BACKGROUND: 5-fluorouracil (5-FU) is widely used for the treatment of renal carcinoma. However, drug resistance remains the reason for failure of chemotherapy. Oridonin, extracted from Chinese herb medicine, displays anti-tumor effect in several types of cancer. Whether oridonin could enhance the effect of 5-FU in renal carcinoma has not been studied. METHODS: 786-O cells were used in the current study. Cell death was measured by MTT assay or live- and dead-cell staining assay...
June 26, 2018: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
Ulf-Peter Guenther, David E Weinberg, Meghan M Zubradt, Frank A Tedeschi, Brittany N Stawicki, Leah L Zagore, Gloria A Brar, Donny D Licatalosi, David P Bartel, Jonathan S Weissman, Eckhard Jankowsky
The conserved and essential DEAD-box RNA helicase Ded1p from yeast and its mammalian orthologue DDX3 are critical for the initiation of translation1 . Mutations in DDX3 are linked to tumorigenesis2-4 and intellectual disability5 , and the enzyme is targeted by a range of viruses6 . How Ded1p and its orthologues engage RNAs during the initiation of translation is unknown. Here we show, by integrating transcriptome-wide analyses of translation, RNA structure and Ded1p-RNA binding, that the effects of Ded1p on the initiation of translation are connected to near-cognate initiation codons in 5' untranslated regions...
July 2018: Nature
Rocío Daviña Núñez, Matthias Budt, Sandra Saenger, Katharina Paki, Ulrike Arnold, Anne Sadewasser, Thorsten Wolff
Virus infections induce sensitive antiviral responses within the host cell. The RNA helicase retinoic acid-inducible gene I (RIG-I) is a key sensor of influenza virus RNA that induces the expression of antiviral type I interferons. Recent evidence suggests a complex pattern of RIG-I regulation involving multiple interactions and cellular sites. In an approach employing affinity purification and quantitative mass spectrometry, we identified proteins with increased binding to RIG-I in response to influenza B virus infection...
June 26, 2018: International Journal of Molecular Sciences
Dhiraj Sinha, Vitali Bialevich, Katsiaryna Shamayeva, Alena Guzanova, Alexandra Sisakova, Eva Csefalvay, David Reha, Lumir Krejci, Jannette Carey, Marie Weiserova, Rüdiger Ettrich
Type I restriction-modification enzymes differ significantly from the type II enzymes commonly used as molecular biology reagents. On hemi-methylated DNAs type I enzymes like the EcoR124I restriction-modification complex act as conventional adenine methylases at their specific target sequences, but unmethylated targets induce them to translocate thousands of base pairs through the stationary enzyme before cleaving distant sites nonspecifically. EcoR124I is a superfamily 2 DEAD-box helicase like eukaryotic double-strand DNA translocase Rad54, with two RecA-like helicase domains and seven characteristic sequence motifs that are implicated in translocation...
June 26, 2018: Journal of Molecular Modeling
Jun-Xia Ma, Jiang-Yuan Li, Dong-Dong Fan, Wei Feng, Ai-Fu Lin, Li-Xin Xiang, Jian-Zhong Shao
DDX41 is an important sensor for host recognition of DNA viruses and initiation of nuclear factor-κB (NF-κB) and IFN signaling pathways in mammals. However, its occurrence and functions in other vertebrates remain poorly defined. Here, a DDX41 ortholog [ Danio rerio DDX41 ( Dr DDX41)] with various conserved structural features to its mammalian counterparts was identified from a zebrafish model. This Dr DDX41 was found to be a trafficking protein distributed in the nucleus of resting cells but transported into the cytoplasm under DNA stimulation...
2018: Frontiers in Immunology
Marie-Pierre Lambert, Sophie Terrone, Guillaume Giraud, Clara Benoit-Pilven, David Cluet, Valérie Combaret, Franck Mortreux, Didier Auboeuf, Cyril F Bourgeois
The Repressor Element 1-silencing transcription factor (REST) represses a number of neuronal genes in non-neuronal cells or in undifferentiated neural progenitors. Here, we report that the DEAD box RNA helicase DDX17 controls important REST-related processes that are critical during the early phases of neuronal differentiation. First, DDX17 associates with REST, promotes its binding to the promoter of a subset of REST-targeted genes and co-regulates REST transcriptional repression activity. During neuronal differentiation, we observed a downregulation of DDX17 along with that of the REST complex that contributes to the activation of neuronal genes...
June 21, 2018: Nucleic Acids Research
Ewan K S McRae, David E Davidson, Steven J Dupas, Sean A McKenna
Guanine quadruplexes can form in both DNA and RNA and influence many biological processes through various protein interactions. The DEAD-box RNA helicase protein DDX21 has been shown to bind and remodel RNA quadruplexes but little is known about its specificity for different quadruplex species. Previous reports have suggested DDX21 may interact with telomeric repeat containing RNA quadruplex (TERRA), an integral component of the telomere that contributes to telomeric heterochromatin formation and telomere length regulation...
September 2018: Biochimica et Biophysica Acta
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