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https://www.readbyqxmd.com/read/28094993/the-biophysics-of-artificially-expanded-genetic-information-systems-thermodynamics-of-dna-duplexes-containing-matches-and-mismatches-involving-2-amino-3-nitropyridin-6-one-z-and-imidazo-1-2-a-1-3-5-triazin-4-8h-one-p
#1
Xiaoyu Wang, Shuichi Hoshika, Raymond J Peterson, Myong-Jung Kim, Steven A Benner, Jason D Kahn
Synthetic nucleobases presenting non-Watson Crick arrangements of hydrogen bond donor and acceptor groups can form additional nucleotide pairs that stabilize duplex DNA independent of the standard A:T and G:C pairs. The pair between 2-amino-3-nitropyridin-6-one 2'-deoxyriboside (presenting a {donor-donor-acceptor} hydrogen bonding pattern on the Watson-Crick face of the small component, trivially designated Z) and imidazo[1,2-a]-1,3,5-triazin-4(8H)one 2'-deoxyriboside (presenting an {acceptor-acceptor-donor} hydrogen bonding pattern on the large component, trivially designated P) is one of these extra pairs for which a substantial amount of molecular biology has been developed...
January 17, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28077881/a-pilot-study-of-penile-hemodynamics-in-men-with-penile-curvatures
#2
A A Zaazaa, I Fathy, O Ayman, A Hassanin, H Ghanem
Penile curvature (PC) is bothersome to the patient. PC is either congenital or acquired. In most of the circulatory system, blood flows in a laminar profile with minimal energy expenditure. When a fluid passes in a curved tube, the laminar profile is disturbed and changed into a turbulent flow. It increases the energy expenditure and reduces the flow. Turbulent flow may have a role in the development of an atherosclerotic plaque and in localizing its site. The aim of this research was to study penile hemodynamics before and after correction of PC...
January 12, 2017: International Journal of Impotence Research
https://www.readbyqxmd.com/read/28077560/mechanistic-insights-into-type-i-toxin-antitoxin-systems-in-helicobacter-pylori-the-importance-of-mrna-folding-in-controlling-toxin-expression
#3
Hélène Arnion, Dursun Nizam Korkut, Sara Masachis Gelo, Sandrine Chabas, Jérémy Reignier, Isabelle Iost, Fabien Darfeuille
Type I toxin-antitoxin (TA) systems have been identified in a wide range of bacterial genomes. Here, we report the characterization of a new type I TA system present on the chromosome of the major human gastric pathogen, Helicobacter pylori We show that the aapA1 gene encodes a 30 amino acid peptide whose artificial expression in H. pylori induces cell death. The synthesis of this toxin is prevented by the transcription of an antitoxin RNA, named IsoA1, expressed on the opposite strand of the toxin gene. We further reveal additional layers of post-transcriptional regulation that control toxin expression: (i) transcription of the aapA1 gene generates a full-length transcript whose folding impedes translation (ii) a 3' end processing of this message generates a shorter transcript that, after a structural rearrangement, becomes translatable (iii) but this rearrangement also leads to the formation of two stem-loop structures allowing formation of an extended duplex with IsoA1 via kissing-loop interactions...
January 10, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28074973/fluorescence-turn-on-hairpin-probe-pcr
#4
F Takei, K Nakatani
A new fluorescence turn-on type of PCR monitoring system (Hpro-PCR) using a hairpin probe and a primer having a tag sequence at the 5' end with the fluorescent molecule 2,7-diamino-1,8-naphthyridine derivative (DANP) has been developed. The Hpro-PCR exploited the modulation of the equilibrium states between the DANP-bound hairpin structure and probe-tag duplex, and the PCR progress alternated the equilibrium state, resulting in the change of fluorescent intensity.
January 11, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28073665/predictive-ability-of-the-society-for-vascular-surgery-wound-ischemia-and-foot-infection-wifi-classification-system-after-first-time-lower-extremity-revascularizations
#5
Jeremy D Darling, John C McCallum, Peter A Soden, Raul J Guzman, Mark C Wyers, Allen D Hamdan, Hence J Verhagen, Marc L Schermerhorn
OBJECTIVE: The Society for Vascular Surgery (SVS) Wound, Ischemia and foot Infection (WIfI) classification system was proposed to predict 1-year amputation risk and potential benefit from revascularization. Our goal was to evaluate the predictive ability of this scale in a real-world selection of patients undergoing a first-time lower extremity revascularization for chronic limb-threatening ischemia (CLTI). METHODS: From 2005 to 2014, 1336 limbs underwent a first-time lower extremity revascularization for CLTI, of which 992 had sufficient data to classify all three WIfI components (wound, ischemia, and foot infection)...
January 7, 2017: Journal of Vascular Surgery
https://www.readbyqxmd.com/read/28072487/the-structure-of-linkers-affects-the-dna-binding-properties-of-tethered-dinuclear-ruthenium-ii-metallo-intercalators
#6
Hiwa Saeed, Ibrahim Saeed, Niklaas Buurma, Jim Antony Thomas
With the long-term aim of enhancing the binding properties of dinuclear RuII-based DNA light-switch complexes, a series of eight structurally related mono- and dinuclear systems are reported in which the linker of the bridging ligand has been modulated. These tethered systems have been designed to explore issues of steric demand at the binding site and the thermodynamic cost of entropy loss upon binding. An analysis of detailed spectroscopic and isothermal titration calorimetry (ITC) studies on the new complexes reveal that one of the linkers produces a dinuclear systems that binds to duplex DNA with an affinity (Kb > 107 M-1) that is higher than its corresponding monometallic complex and is the highest affinity for a non-threading bis-intercalating metal complex...
January 10, 2017: Chemistry: a European Journal
https://www.readbyqxmd.com/read/28063094/stasis-dermatitis-pathophysiology-evaluation-and-management
#7
REVIEW
Swaminathan Sundaresan, Michael R Migden, Sirunya Silapunt
Stasis dermatitis commonly occurs in older age. It is caused by venous hypertension resulting from retrograde flow due to incompetent venous valves, valve destruction, or obstruction of the venous system. Further tissue changes arise from an inflammatory process mediated by metalloproteinases, which are up-regulated by ferric ion from extravasated red blood cells. Stasis dermatitis presents initially as poorly demarcated erythematous plaques of the lower legs bilaterally, classically involving the medial malleolus...
January 6, 2017: American Journal of Clinical Dermatology
https://www.readbyqxmd.com/read/28059291/experimental-study-of-wideband-in-band-full-duplex-communication-based-on-optical-self-interference-cancellation
#8
Yunhao Zhang, Shilin Xiao, Yinghong Yu, Cao Chen, Meihua Bi, Ling Liu, Lu Zhang, Weisheng Hu
In this paper, we experimentally demonstrate and study a wideband in-band full-duplex (IBFD) wireless communication system based on optical self-interference cancellation (SIC). The optical SIC performances based on antennas for broadband IBFD are firstly evaluated within high frequency bands (> 10GHz). In this system, two electro-absorption-modulated lasers (EMLs) and a balanced photo-detector (BPD) are employed to remove the wideband self-interference within received wireless signal. By theoretical derivation and experimental verification, the impact factors of SIC are analyzed, especially for non-flatness wireless channel case...
December 26, 2016: Optics Express
https://www.readbyqxmd.com/read/28054287/cerebral-ventricular-dimensions-after-decompressive-craniectomy-a-comparison-between-bedside-sonographic-duplex-technique-and-cranial-computed-tomography
#9
Habib Bendella, Marc Maegele, Alexander Hartmann, Joachim Spreer, Nadine Rommel, Rolf Lefering, Makoto Nakamura, Alhadi Igressa
BACKGROUND: The objective of this study was to assess and compare ventricle diameters in patients after decompressive craniectomy by using cranial computed tomography (CCT) versus sonographic duplex technique (SDT). METHODS: A total of 102 consecutive patients after decompressive craniectomy following brain infarct, bleeding and trauma were examined by CCT and SDT. SDT was performed within 24 h after repeated postinterventional control CCT and the correlation between both methods was assessed via measurement of dimensions of all four ventricles...
January 4, 2017: Neurocritical Care
https://www.readbyqxmd.com/read/28034958/structural-insights-into-rna-duplexes-with-multiple-2-5-linkages
#10
Fusheng Shen, Zhipu Luo, Hehua Liu, Rui Wang, Shenglong Zhang, Jianhua Gan, Jia Sheng
2'-5'-linked RNAs play important roles in many biological systems. In addition, the mixture of 2'-5' and 3'-5' phosphodiester bonds have emerged as a plausible structural element in prebiotic RNAs. Toward our mechanistic studies of RNA folding and structures with heterogeneous backbones, we recently reported two crystal structures of a decamer RNA duplex containing two and six 2'-5'-linkages, showing how RNA duplexes adjust the structures to accommodate these non-canonical linkages (Proc. Natl. Acad. Sci. USA, 2014, 111, 3050-3055)...
December 29, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/28003211/lower-limb-hot-water-immersion-acutely-induces-beneficial-hemodynamic-and-cardiovascular-responses-in-peripheral-arterial-disease-and-healthy-elderly-controls
#11
Kate N Thomas, Andre Marie van Rij, Samuel J E Lucas, James D Cotter
Passive heat induces beneficial perfusion profiles, provides substantive cardiovascular strain and reduces blood pressure, thereby holding potential for healthy and cardiovascular disease populations. The aim of this study was to assess acute responses to passive heat via lower-limb hot-water immersion in patients with peripheral arterial disease (PAD) and healthy, elderly controls. Eleven patients with PAD (age 71±6 y, 7 male) and ten Controls (age 72±7 y, 8 male) underwent hot-water immersion (30 min waist-level immersion in 42...
December 21, 2016: American Journal of Physiology. Regulatory, Integrative and Comparative Physiology
https://www.readbyqxmd.com/read/27994330/a-prospective-study-in-comparison-of-ambulatory-phlebectomy-and-duplex-guided-foam-sclerotherapy-in-the-management-of-varicosities-with-isolated-perforator-incompetence
#12
R Kishore, T Bavani Sankar, A Anandi, S Nedunchezhian, Valarmathy Murugan
Perforators are those which connect the superficial and deep venous system either directly to main veins or indirectly through the muscular and soleal venous plexus. The emergence of minimally invasive techniques like ambulatory phlebectomy (AP) and foam sclerotherapy (FS) has led to increasing interest about the appropriate therapy for the treatment of isolated perforator incompetence. There have been no studies which have compared the effectiveness of these in-office procedures in isolated perforator incompetence due to the low prevalence of cases...
October 2016: Indian Journal of Surgery
https://www.readbyqxmd.com/read/27990345/fundamentals-of-multiplexing-with-digital-pcr
#13
REVIEW
Alexandra S Whale, Jim F Huggett, Svilen Tzonev
Over the past decade numerous publications have demonstrated how digital PCR (dPCR) enables precise and sensitive quantification of nucleic acids in a wide range of applications in both healthcare and environmental analysis. This has occurred in parallel with the advances in partitioning fluidics that enable a reaction to be subdivided into an increasing number of partitions. As the majority of dPCR systems are based on detection in two discrete optical channels, most research to date has focused on quantification of one or two targets within a single reaction...
December 2016: Biomolecular Detection and Quantification
https://www.readbyqxmd.com/read/27990113/iliofemoral-venous-thrombosis-mainly-related-to-iliofemoral-venous-obstruction-by-external-tumor-compression-in-cancer-patients
#14
Tzu-Yao Liao, Hui-Ching Hsu, Min-Sheng Wen, Yu-Hsiang Juan, Yu-Hsin Hung, Chuang-Chi Liaw
BACKGROUND: To study iliofemoral venous thrombosis related to iliofemoral venous obstruction in cancer patients. METHODS: In this case series study, 829 cancer patients were surveyed for iliofemoral obstruction/thrombosis within 10 years. The criteria for inclusion were: (1) presence of unilateral lower-extremity swelling; (2) computed tomography (CT) scans showing a tumor with external compression of the iliac or femoral vein, and (3) duplex ultrasound scans showing venous thrombosis or venous flow insufficiency over a femoral vein or saphenous vein...
September 2016: Case Reports in Oncology
https://www.readbyqxmd.com/read/27989439/c2c1-sgrna-complex-structure-reveals-rna-guided-dna-cleavage-mechanism
#15
Liang Liu, Peng Chen, Min Wang, Xueyan Li, Jiuyu Wang, Maolu Yin, Yanli Wang
C2c1 is a type V-B CRISPR-Cas system dual-RNA-guided DNA endonuclease. Here, we report the crystal structure of Alicyclobacillus acidoterrestris C2c1 in complex with a chimeric single-molecule guide RNA (sgRNA). AacC2c1 exhibits a bi-lobed architecture consisting of a REC and NUC lobe. The sgRNA scaffold forms a tetra-helical structure, distinct from previous predictions. The crRNA is located in the central channel of C2c1, and the tracrRNA resides in an external surface groove. Although AacC2c1 lacks a PAM-interacting domain, our analysis revealed that the PAM duplex has a similar binding position found in Cpf1...
December 14, 2016: Molecular Cell
https://www.readbyqxmd.com/read/27987617/determining-the-origin-of-superficial-venous-reflux-in-the-groin-with-duplex-ultrasound-and-implications-for-varicose-vein-surgery
#16
Paul Zollmann, Christine Zollmann, Philipp Zollmann, Juergen Veltman, Dennis Kerzig, Martin Doerler, Markus Stücker
OBJECTIVE: The purpose of this paper was to describe patterns of superficial reflux in the groin with respect to the terminal valve (TV), which is located at the saphenous opening to the common femoral vein, the great saphenous vein, and its tributary veins. METHODS: This study included 2019 legs with chronic venous insufficiency that received endoluminal varicose vein treatment because of varicosities with insufficiency of the saphenofemoral junction (SFJ). In a preoperative duplex ultrasound investigation of the superficial vein system, reflux after provocation in the SFJ, great saphenous vein, cranial veins (superficial external pudendal vein, superficial epigastric vein, superficial circumflex iliac vein), and anterior and posterior accessory saphenous veins was recorded and classified on the basis of the origin of reflux...
January 2017: Journal of Vascular Surgery. Venous and Lymphatic Disorders
https://www.readbyqxmd.com/read/27964829/the-role-of-voiding-cystourethrography-in-asymptomatic-unilateral-isolated-ureteropelvic-junction-obstruction-a-retrospective-study
#17
Mohammed S ElSheemy, Waleed Ghoneima, Mohammad Abdelwahhab, Waseem Aboulela, Kareem Daw, Ahmed M Shouman, Ahmed I Shoukry, Mohamed El Ghoneimy, Hany A Morsi, Hesham Badawy
INTRODUCTION: The presence of concomitant vesicoureteric reflux (VUR) and ureteropelvic junction obstruction (UPJO) is uncommon. Nevertheless, the reported VUR coexisting with asymptomatic unilateral isolated hydronephrosis (AUIH) requiring pyeloplasty for correction of UPJO was of low grade and mostly resolved during conservative follow-up. Therefore, VCUG may be not indicated in these children except if voiding symptoms, urinary tract infection (UTI), dilated ureters, or bladder and ureteric abnormalities are suspected...
November 24, 2016: Journal of Pediatric Urology
https://www.readbyqxmd.com/read/27943676/development-of-a-multiplex-real-time-pcr-for-determination-of-apricot-in-marzipan-using-the-plexor-system
#18
Stefanie Schelm, Ilka Haase, Christin Fischer, Markus Fischer
Marzipan is a confectionary which is mostly offered in form of filled chocolate, pralines, or pure. According to the German guidelines for oil seeds only almonds, sugar and water are admitted ingredients of marzipan. A product very similar in taste is persipan which is used in the confectionary industry because of its stronger flavor. For persipan production almonds are replaced by debittered apricot or peach kernels. To guarantee high quality products for consumers, German raw paste producers have agreed a limit of apricot kernels in marzipan raw paste of 0...
January 18, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/27936442/label-free-colorimetric-detection-of-cancer-related-gene-based-on-two-step-amplification-of-molecular-machine
#19
Huo Xu, Dong Wu, Chen-Qiao Li, Zheng Lu, Xiao-Yun Liao, Jie Huang, Zai-Sheng Wu
Highly sensitive detection of K-ras gene is of great significance in biomedical research and clinical diagnosis. Here, we developed a colorimetric biosensing system for the detection of proto-oncogene K-ras based on enhanced amplification effect of DNA molecular machine, where dual isothermal circular strand-displacement amplification (D-SDA) occurs on two arms in one-to-one correspondence. Specifically, we designed a primer-locked hairpin probe (HP) and a primer-contained linear polymerization template (PPT)...
April 15, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/27934475/proximity-induced-h-aggregation-of-cyanine-dyes-on-dna-duplexes
#20
Francesca Nicoli, Matthias K Roos, Elisa A Hemmig, Marco Di Antonio, Regina de Vivie-Riedle, Tim Liedl
A wide variety of organic dyes form, under certain conditions, clusters know as J- and H-aggregates. Cyanine dyes are such a class of molecules where the spatial proximity of several dyes leads to overlapping electron orbitals and thus to the creation of a new energy landscape compared to that of the individual units. In this work, we create artificial H-aggregates of exactly two Cyanine 3 (Cy3) dyes by covalently linking them to a DNA molecule with controlled subnanometer distances. The absorption spectra of these coupled systems exhibit a blue-shifted peak, whose intensity varies depending on the distance between the dyes and the rigidity of the DNA template...
December 22, 2016: Journal of Physical Chemistry. A
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