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https://www.readbyqxmd.com/read/28718810/dna2-an-important-player-in-dna-damage-response-or-just-another-dna-maintenance-protein
#1
REVIEW
Elzbieta Pawłowska, Joanna Szczepanska, Janusz Blasiak
The human DNA2 (DNA replication helicase/nuclease 2) protein is expressed in both the nucleus and mitochondria, where it displays ATPase-dependent nuclease and helicase activities. DNA2 plays an important role in the removing of long flaps in DNA replication and long-patch base excision repair (LP-BER), interacting with the replication protein A (RPA) and the flap endonuclease 1 (FEN1). DNA2 can promote the restart of arrested replication fork along with Werner syndrome ATP-dependent helicase (WRN) and Bloom syndrome protein (BLM)...
July 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28716095/development-of-real-time-and-lateral-flow-dipstick-recombinase-polymerase-amplification-assays-for-rapid-detection-of-goatpox-virus-and-sheeppox-virus
#2
Yang Yang, Xiaodong Qin, Xiangle Zhang, Zhixun Zhao, Wei Zhang, Xueliang Zhu, Guozheng Cong, Yanmin Li, Zhidong Zhang
BACKGROUND: Goatpox virus (GTPV) and sheeppox virus (SPPV), which belong to the Capripoxvirus (CaPV), are economically important pathogens of small ruminants. Therefore, a sensitive, specific and rapid diagnostic assay for detection of GTPV and SPPV is necessary to accurately and promptly control these diseases. METHODS: Recombinase polymerase amplification (RPA) assays combined with a real-time fluorescent detection (real-time RPA assay) and lateral flow dipstick (RPA LFD assay) were developed targeting the CaPV G-protein-coupled chemokine receptor (GPCR) gene, respectively...
July 17, 2017: Virology Journal
https://www.readbyqxmd.com/read/28711269/development-of-an-isothermal-amplification-based-assay-for-the-rapid-visual-detection-of-salmonella-bacteria
#3
Hai-Bin Liu, Yu-Xuan Zang, Xin-Jun Du, Ping Li, Shuo Wang
The efficient and timely detection of pathogens is a major concern worldwide. The aim of this study was to establish a rapid detection method for Salmonella bacteria in food samples to facilitate timely treatment. Widely used detection methods currently include culture-based methods and PCR-based methods. The former are time consuming, requiring 2 to 3 d, whereas the latter have higher accuracy but are typically complicated, requiring expertise and expensive instruments. In this study, a sensitive and rapid approach for the visual and point-of-use detection of Salmonella bacteria based on recombinase polymerase amplification (RPA) and a lateral-flow (LF) nucleic acid strip was established...
July 12, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28698370/g9a-coordinates-with-the-rpa-complex-to-promote-dna-damage-repair-and-cell-survival
#4
Qiaoyan Yang, Qian Zhu, Xiaopeng Lu, Yipeng Du, Linlin Cao, Changchun Shen, Tianyun Hou, Meiting Li, Zhiming Li, Chaohua Liu, Di Wu, Xingzhi Xu, Lina Wang, Haiying Wang, Ying Zhao, Yang Yang, Wei-Guo Zhu
Histone methyltransferase G9a has critical roles in promoting cancer-cell growth and gene suppression, but whether it is also associated with the DNA damage response is rarely studied. Here, we report that loss of G9a impairs DNA damage repair and enhances the sensitivity of cancer cells to radiation and chemotherapeutics. In response to DNA double-strand breaks (DSBs), G9a is phosphorylated at serine 211 by casein kinase 2 (CK2) and recruited to chromatin. The chromatin-enriched G9a can then directly interact with replication protein A (RPA) and promote loading of the RPA and Rad51 recombinase to DSBs...
July 11, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28696871/anomalous-origin-of-pulmonary-artery-from-aorta-neonatal-autologous-aortopulmonary-reconstruction
#5
Alexander J Eason, Brent Shafer, Kenneth A Murdison, Anastasios C Polimenakos
Anomalous origin of a branch pulmonary artery (PA) from the ascending aorta is rather rare within the spectrum of congenital cardiovascular anomalies. In the scarce subset of patients with anomalous origin of right PA (RPA) from the ascending aorta originating from the lateral aspect of the distal ascending aorta, early neonatal repair by employing native aortic tissue for RPA reconstruction combined with translocation of the aorta posteriorly to the RPA can be an alternative option in the surgical armamentarium...
July 2017: World Journal for Pediatric & Congenital Heart Surgery
https://www.readbyqxmd.com/read/28690087/an-exo-probe-based-recombinase-polymerase-amplification-assay-for-the-rapid-detection-of-porcine-parvovirus
#6
Jian-Chang Wang, Li-Bing Liu, Qing-An Han, Jin-Feng Wang, Wan-Zhe Yuan
Recombinase polymerase amplification (RPA), an isothermal amplification technology, has been developed as an alternative to PCR in pathogen detection. A real-time RPA assay (rt-RPA) was developed to detect the porcine parvovirus (PPV) using primers and exo probe specific for the VP2 gene. The amplification was performed at 39°C for 20min. There was no cross-reaction with other pathogens tested. Using the recombinant plasmid pPPV-VP2 as template, the analytical sensitivity was 103 copies. The assay performance was evaluated by testing 115 field samples by rt-RPA and a real-time PCR assay...
July 6, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28683444/replication-protein-a-3-is-associated-with-hepatocellular-carcinoma-tumorigenesis-and-poor-patient-survival
#7
Wenbo Xiao, Jun Zheng, Baoyong Zhou, Long Pan
BACKGROUND: Replication protein A (RPA) 3 is a subunit of the RPA protein complex, which functions in multiple processes of DNA metabolism. Dysregulation of RPA1 and RPA2 has been implicated in tumor progression in several cancer types. However, the function of RPA3 in hepatocellular carcinoma (HCC) tumorigenesis has not been elucidated. METHOD: In this study, we investigated the function of RPA3 in HCC development by stably knocking down its expression using short hairpin RNA (shRNA) in HepG2 cell line, followed by cell proliferation, colony formation, soft agar, and invasion assays...
July 7, 2017: Digestive Diseases
https://www.readbyqxmd.com/read/28683070/physical-activity-domains-and-risk-of-gastric-adenocarcinoma-in-the-mcc-spain-case-control-study
#8
José M Huerta, María Dolores Chirlaque, Antonio J Molina, Pilar Amiano, Vicente Martín, Tania Fernández-Villa, Beatriz Pérez-Gómez, Víctor Moreno, Rosana Burgui, Inés Gómez-Acebo, Manuel Ramos-Lora, Guillermo Fernández-Tardón, Rosana Peiró, Rocío Olmedo-Requena, Marina Pollán, Manolis Kogevinas, Gemma Castaño-Vinyals, Nuria Aragonés
BACKGROUND: Evidence for a protective role of physical activity against development of stomach cancer is yet inconclusive. We studied the association of domain-specific physical activity and the risk of gastric adenocarcinoma (GAC), by site and histology, in the MCC-Spain case-control study. METHODS: 428 histologically confirmed GAC cases (67% men) including the gastro-esophageal region and 3225 controls were included. Cases were recruited in hospitals from 10 different Spanish regions, whereas population controls were randomly selected within the respective hospitals' catchment areas...
2017: PloS One
https://www.readbyqxmd.com/read/28682374/on-the-connections-and-differences-among-three-mean-field-approximations-a-stringent-test
#9
Shasha Yi, Cong Pan, Liming Hu, Zhonghan Hu
This letter attempts to clarify the meaning of three closely related mean-field approximations: random phase approximation (RPA), local molecular field (LMF) approximation, and symmetry-preserving mean-field (SPMF) approximation, and their use of reliability and validity in the field of theory and simulation of liquids when the long-ranged component of the intermolecular interaction plays an important role in determining density fluctuations and correlations. The RPA in the framework of classical density functional theory (DFT) neglects the higher order correlations in the bulk and directly applies the long-ranged part of the potential to correct the pair direct correlation function of the short-ranged system while the LMF approach introduces a nonuniform mimic system under a reconstructed static external potential that accounts for the average effect arising from the long-ranged component of the interaction...
July 6, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28666913/clinical-and-molecular-prognostic-factors-for-long-term-survival-of-the-patients-with-glioblastomas-in-a-single-institutional-consecutive-cohort
#10
Yu Nakagawa, Hikaru Sasaki, Kentaro Ohara, Taketo Ezaki, Masahiro Toda, Takayuki Ohira, Takeshi Kawase, Kazunari Yoshida
OBJECTIVE: The purpose of this study was to clarify the clinical and molecular characteristics associated with long-term survival in patients with glioblastoma. METHODS: We analyzed the characteristics of 96 glioblastoma patients. Long-term survivors (LTSs) were classified into moderate LTSs (mLTSs), who survived more than 3 years, and LTSs survived more than 5 years, and compared with short-term survivors (STSs). Clinical and molecular factors were investigated...
June 27, 2017: World Neurosurgery
https://www.readbyqxmd.com/read/28666352/a-phosphorylation-and-ubiquitylation-circuitry-driving-atr-activation-and-homologous-recombination
#11
Jean-Christophe Dubois, Maïlyn Yates, Antoine Gaudreau-Lapierre, Geneviève Clément, Laurent Cappadocia, Luc Gaudreau, Lee Zou, Alexandre Maréchal
RPA-coated single-stranded DNA (RPA-ssDNA), a nucleoprotein structure induced by DNA damage, promotes ATR activation and homologous recombination (HR). RPA is hyper-phosphorylated and ubiquitylated after DNA damage. The ubiquitylation of RPA by PRP19 and RFWD3 facilitates ATR activation and HR, but how it is stimulated by DNA damage is still unclear. Here, we show that RFWD3 binds RPA constitutively, whereas PRP19 recognizes RPA after DNA damage. The recruitment of PRP19 by RPA depends on PIKK-mediated RPA phosphorylation and a positively charged pocket in PRP19...
June 28, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28656127/postoperative-fractionated-stereotactic-radiosurgery-to-the-tumor-bed-for-surgically-resected-brain-metastases
#12
Ryan K Cleary, Jessica Meshman, Michael Dewan, Liping Du, Anthony J Cmelak, Guozhen Luo, Manuel Morales-Paliza, Kyle Weaver, Reid Thompson, Lola B Chambless, Albert Attia
Introduction Stereotactic radiosurgery (SRS) is increasingly used as an alternative to whole brain radiotherapy (WBRT) following surgical resection of brain metastases. We analyzed the outcomes of postoperative frameless fractionated stereotactic radiosurgery (fSRS) cases for surgically resected brain metastases at our institution. Materials and Methods We performed a retrospective review of 85 patients who underwent fSRS to 87 resection beds from 2006 - 2014 with a median follow-up of 6.4 months. Clinically relevant outcomes were assessed with analysis to determine predictors of these outcomes...
May 26, 2017: Curēus
https://www.readbyqxmd.com/read/28654275/accurate-quasiparticle-spectra-from-the-t-matrix-self-energy-and-the-particle-particle-random-phase-approximation
#13
Du Zhang, Neil Qiang Su, Weitao Yang
The GW self-energy, especially G0W0 based on the particle-hole random phase approximation (phRPA), is widely used to study quasiparticle (QP) energies. Motivated by the desirable features of the particle-particle (pp) RPA compared to the conventional phRPA, we explore the pp counterpart of GW, that is, the T-matrix self-energy, formulated with the eigenvectors and eigenvalues of the ppRPA matrix. We demonstrate the accuracy of the T-matrix method for molecular QP energies, highlighting the importance of the pp channel for calculating QP spectra...
July 3, 2017: Journal of Physical Chemistry Letters
https://www.readbyqxmd.com/read/28647932/prospective-comparison-between-remnant-preserving-augmentation-and-double-bundle-reconstruction-in-anterior-cruciate-ligament-tears
#14
Noam Shohat, Dror Lindner, Eran Tamir, Yiftah Beer, Gabriel Agar
BACKGROUND: The debate continues regarding the best way to manage partial anterior cruciate ligament (ACL) tears. OBJECTIVES: To prospectively compare the clinical outcomes of remnant-preserving augmentation (RPA) and double-bundle reconstruction (DBR) in patients with ACL tears. METHODS: In this prospective study, we included 13 cases of RPA and 30 cases of DBR with a follow-up period of 6 months, 12 months and 24 months. We clinically compared the preoperative and postoperative range of motion, Knee Society Score (KSS), Visual Analog Scale (VAS), Lysholm score, Tegner activity score, Short Form Health Survey (SF-36), thigh and calf circumference and anterior translation (Using the KT-1000 knee arthrometer)...
June 2017: Israel Medical Association Journal: IMAJ
https://www.readbyqxmd.com/read/28645374/reconstituted-system-for-the-examination-of-repair-dna-synthesis-in-homologous-recombination
#15
Youngho Kwon, James M Daley, Patrick Sung
In homologous recombination (HR), DNA polymerase δ-mediated DNA synthesis occurs within the displacement loop (D-loop) that is made by the recombinase Rad51 in conjunction with accessory factors. We describe in this chapter the reconstitution of the D-loop and repair DNA synthesis reactions using purified Saccharomyces cerevisiae HR (Rad51, RPA, and Rad54) and DNA replication (PCNA, RFC, and DNA polymerase δ) proteins and document the role of the Pif1 helicase in DNA synthesis via a migrating DNA bubble intermediate...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28625161/recombinase-polymerase-amplification-rpa-an-isothermal-technique-suitable-for-a-range-of-applications-evaluation-of-rpa-volume-tolerance
#16
(no author information available yet)
No abstract text is available yet for this article.
June 1, 2017: BioTechniques
https://www.readbyqxmd.com/read/28607004/rpa-activates-the-xpf-ercc1-endonuclease-to-initiate-processing-of-dna-interstrand-crosslinks
#17
Ummi B Abdullah, Joanna F McGouran, Sanja Brolih, Denis Ptchelkine, Afaf H El-Sagheer, Tom Brown, Peter J McHugh
During replication-coupled DNA interstrand crosslink (ICL) repair, the XPF-ERCC1 endonuclease is required for the incisions that release, or "unhook", ICLs, but the mechanism of ICL unhooking remains largely unknown. Incisions are triggered when the nascent leading strand of a replication fork strikes the ICL Here, we report that while purified XPF-ERCC1 incises simple ICL-containing model replication fork structures, the presence of a nascent leading strand, modelling the effects of replication arrest, inhibits this activity...
July 14, 2017: EMBO Journal
https://www.readbyqxmd.com/read/28604711/the-anaphase-promoting-complex-impacts-repair-choice-by-protecting-ubiquitin-signalling-at-dna-damage-sites
#18
Kyungsoo Ha, Chengxian Ma, Han Lin, Lichun Tang, Zhusheng Lian, Fang Zhao, Ju-Mei Li, Bei Zhen, Huadong Pei, Suxia Han, Marcos Malumbres, Jianping Jin, Huan Chen, Yongxiang Zhao, Qing Zhu, Pumin Zhang
Double-strand breaks (DSBs) are repaired through two major pathways, homology-directed recombination (HDR) and non-homologous end joining (NHEJ). While HDR can only occur in S/G2, NHEJ can happen in all cell cycle phases (except mitosis). How then is the repair choice made in S/G2 cells? Here we provide evidence demonstrating that APC(Cdh1) plays a critical role in choosing the repair pathways in S/G2 cells. Our results suggest that the default for all DSBs is to recruit 53BP1 and RIF1. BRCA1 is blocked from being recruited to broken ends because its recruitment signal, K63-linked poly-ubiquitin chains on histones, is actively destroyed by the deubiquitinating enzyme USP1...
June 12, 2017: Nature Communications
https://www.readbyqxmd.com/read/28598461/acute-retropharyngeal-abscess-masquerading-as-meningitis
#19
P Sakthivel, R Yogal, H Verma, A Saini, A Chandran
Retropharyngeal abscess is a potentially serious deep neck space infection occurring more frequently in children than in adults. The clinical picture of RPA is highly variable with paucity of physical findings. Prompt diagnosis of RPA especially in infants is mandatory to prevent potential fatal complications including airway obstruction. The diagnosis of RPA should be based on high index of clinical suspicion with supportive imaging studies like lateral X-ray of neck and CT. We present a case of acute retropharyngeal abscess which was initially misdiagnosed as meningitis and led to airway obstruction...
January 2017: JNMA; Journal of the Nepal Medical Association
https://www.readbyqxmd.com/read/28594346/interactive-roles-of-dna-helicases-and-translocases-with-the-single-stranded-dna-binding-protein-rpa-in-nucleic-acid-metabolism
#20
REVIEW
Sanket Awate, Robert M Brosh
Helicases and translocases use the energy of nucleoside triphosphate binding and hydrolysis to unwind/resolve structured nucleic acids or move along a single-stranded or double-stranded polynucleotide chain, respectively. These molecular motors facilitate a variety of transactions including replication, DNA repair, recombination, and transcription. A key partner of eukaryotic DNA helicases/translocases is the single-stranded DNA binding protein Replication Protein A (RPA). Biochemical, genetic, and cell biological assays have demonstrated that RPA interacts with these human molecular motors physically and functionally, and their association is enriched in cells undergoing replication stress...
June 8, 2017: International Journal of Molecular Sciences
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