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Min Zhu, Xiuchang Ma, Yongxiang Gao, Xiaowu Li, Jiyuan Ke, Muhammad Hidayatullah Khan, Maikun Teng, Honghua Ge, Zhongliang Zhu, Liwen Niu
By bearing a papain-like core structure and a cysteine-based catalytic triad, deamidase can convert glutamine to glutamic acid or asparagine to aspartic acid to modify the functions of host target proteins resulting in the blocking of eukaryotic host cell function. Legionella pneumophila effector Lpg2148 (MvcA) is a deamidase, a structural homolog of cycle inhibiting factor (Cif) effectors. Lpg2148 and Cif effectors are functionally diverse, with Lpg2148 only catalyzing ubiquitin but not NEDD8. However, a detailed understanding of substrate specificity is still missing...
August 11, 2018: Biochemical and Biophysical Research Communications
Elham Jafari, Ali Gheysarzadeh, Karim Mahnam, Rezvan Shahmohammadi, Amir Ansari, Hadi Bakhtyari, Mohammad Reza Mofid
Insulin-like growth factor binding protein-3 (IGFBP-3) is a vital protein exist in circulation which interacts with high affinity to insulin-like growth factor (IGFs) altering their activities. Therefore, the interaction between IGFs and IGFBP-3 has a key role altering large spectrum of activities such as cell cycle progression, proliferation and apoptosis. Despite decades of research, the crystal structure of IGFBP-3 has not been identified possibly due to some technical challenge in its crystallizing. The three-dimensional (3D) structure of IGFBP-3 was predicted using homology modeling, Phyre2, and molecular dynamic...
August 2018: Research in Pharmaceutical Sciences
Sumeet S Teotia, Nicholas T Haddock
No abstract text is available yet for this article.
July 19, 2018: Plastic and Reconstructive Surgery
Andrew Haddock, Kyle T Mitchell, Andrew Miller, Jill L Ostrem, Howard J Chizeck, Svjetlana Miocinovic
Deep brain stimulation (DBS) programming, the systematic selection of fixed electrical stimulation parameters that deliver maximal therapeutic benefit while limiting side effects, poses several challenges in the treatment of movement disorders. DBS programming requires expertise of trained neurologists or nurses who assess patient symptoms according to standardized clinical rating scales and use patient reports of DBS-related side effects to adjust stimulation parameters and optimize therapy. In this study, we describe and validate an automated software platform for DBS programming for tremor associated with Parkinson's disease (PD) and essential tremor (ET)...
July 2, 2018: IEEE Transactions on Neural Systems and Rehabilitation Engineering
Min-Jeong Cho, Nicholas T Haddock, Andrew A Gassman, Sumeet S Teotia
The success of microvascular reconstruction depends on many factors. While many factors can't be dictated by a surgeon, the success of anastomosis can be maximized by honing the anastomotic skill. However, size discrepancy of vessels still remains a common challenge given the lack of an ideal technique. In our study, we introduce our experience in using composite deep inferior epigastric (DIE) arterial and venous grafts to overcome the vessel size and pedicle length discrepancy in lateral thigh flap (LTP) and superficial inferior epigastric artery (SIEA) flaps, which can lead to higher flap failures secondary to vessel thrombosis and size discrepancy...
June 30, 2018: Plastic and Reconstructive Surgery
D T Schultz, A A Kotlobay, R Ziganshin, A Bannikov, N M Markina, T V Chepurnyh, E S Shakhova, K Palkina, S H D Haddock, I V Yampolsky, Y Oba
No abstract text is available yet for this article.
June 25, 2018: Biochemical and Biophysical Research Communications
Zsuzsanna Orbán-Németh, Rebecca Beveridge, David M Hollenstein, Evelyn Rampler, Thomas Stranzl, Otto Hudecz, Johannes Doblmann, Peter Schlögelhofer, Karl Mechtler
In the version of this article initially published online, the authors used incorrectly defined restraints for specifying the distance between residues when using the HADDOCK portal. Following the publication of a Correspondence by the developers of the HADDOCK portal (Nat. Protoc., 2018) and a Reply by the authors of the Protocol (Nat. Protoc., 2018), the syntax in step 21 has been corrected. In addition, the input files (available as Supplementary Data 5-7) have been replaced...
July 2018: Nature Protocols
Catriona Munro, Stefan Siebert, Felipe Zapata, Mark Howison, Alejandro Damian-Serrano, Samuel H Church, Freya E Goetz, Philip R Pugh, Steven H D Haddock, Casey W Dunn
Siphonophores are a diverse group of hydrozoans (Cnidaria) that are found at most depths of the ocean - from the surface, like the familiar Portuguese man of war, to the deep sea. They play important roles in ocean ecosystems, and are among the most abundant gelatinous predators. A previous phylogenetic study based on two ribosomal RNA genes provided insight into the internal relationships between major siphonophore groups. There was, however, little support for many deep relationships within the clade Codonophora...
October 2018: Molecular Phylogenetics and Evolution
David W Hawman, Elaine Haddock, Kimberly Meade-White, Brandi Williamson, Patrick W Hanley, Kyle Rosenke, Takashi Komeno, Yousuke Furuta, Brian B Gowen, Heinz Feldmann
Crimean-Congo hemorrhagic fever virus (CCHFV) is a cause of serious hemorrhagic disease in humans. Humans infected with CCHFV develop a non-specific febrile illness and then progress to the hemorrhagic phase where case fatality rates can be as high as 30%. Currently there is lack of vaccines and the recommended antiviral treatment, ribavirin, has inconsistent efficacy in both human and animal studies. In this study we developed a model of CCHFV infection in type I interferon deficient mice using the clinical CCHFV isolate strain Hoti...
September 2018: Antiviral Research
Lauren M Stein, Christopher J Haddock, Willis K Samson, Grant R Kolar, Gina L C Yosten
Using a series of classical protein purification techniques, coupled with more modern molecular approaches, a family of neuropeptides, the Phoenixins, was identified to be produced in brain and heart, and to bind selectively in pituitary gland, ovary and brain. These same binding sites were revealed, using a novel receptor identification strategy, to express the orphan G protein-coupled receptor, GPR173, the expression of which was required for the actions of phoenixin both in vivo and in vitro. In fact, studies using small interfering RNA molecules to compromise GPR173 expression revealed the physiologic relevance of the initially reported pharmacologic actions of the peptides...
August 2018: Peptides
Jacob Beal, Traci Haddock-Angelli, Geoff Baldwin, Markus Gershater, Ari Dwijayanti, Marko Storch, Kim de Mora, Meagan Lizarazo, Randy Rettberg
Fluorescent reporters are commonly used to quantify activities or properties of both natural and engineered cells. Fluorescence is still typically reported only in arbitrary or normalized units, however, rather than in units defined using an independent calibrant, which is problematic for scientific reproducibility and even more so when it comes to effective engineering. In this paper, we report an interlaboratory study showing that simple, low-cost unit calibration protocols can remedy this situation, producing comparable units and dramatic improvements in precision over both arbitrary and normalized units...
2018: PloS One
Emma B Holliday, Scott C Lester, W Scott Harmsen, Cathy Eng, Michael G Haddock, Sunil Krishnan, Prajnan Das, Christopher L Hallemeier
PURPOSE: To report cancer control rates and adverse events (AEs) of curative-intent, extended-field chemoradiation therapy administered to patients with squamous cell carcinoma (SCC) of the anal canal presenting with distant metastasis limited to the para-aortic (PA) lymph nodes. METHODS: This was a retrospective review of patients with SCC of the anal canal metastatic to the PA lymph nodes at initial diagnosis who were treated with curative-intent, extended-field chemoradiation therapy between September 2002 and February 2016 at two tertiary care centers...
May 5, 2018: International Journal of Radiation Oncology, Biology, Physics
William F Regine, Kathryn Winter, Ross A Abrams, Howard Safran, Ivan L Kessel, Yuhchyau Chen, James A Fugazzi, Eric D Donnelly, Thomas A DiPetrillo, Samir Narayan, John P Plastaras, Rakesh Gaur, Guila Delouya, John H Suh, Joshua E Meyer, Michael G Haddock, Mukund S Didolkar, Gilbert D A Padula, David Johnson, John P Hoffman, Christopher H Crane
Purpose: NRG Oncology RTOG 9704 was the first adjuvant trial to validate the prognostic value of postresection CA19-9 levels for survival in patients with pancreatic carcinoma. The data resulting from this study also provide information about predictors of recurrence that may be used to tailor individualized management in this disease setting. This secondary analysis assessed the prognostic value of postresection CA19-9 and surgical margin status (SMS) in predicting patterns of disease recurrence...
April 2018: Advances in Radiation Oncology
Revansiddha Katte, Chin Yu
The proteins S100A9 and S100A12 are associated with the human S100 calcium-binding protein family. These proteins promote interaction with target proteins and alter their conformation when they bind to calcium ions in EF-hand motifs. The V domain of RAGE (Receptor for Advanced Glycation End products) is crucial for S100A9 binding. The binding of RAGE with S100 family proteins aids in cell proliferation. In this report, we demonstrate that S100A12 protein hinders the binding of S100A9 with the RAGE V-domain...
2018: PloS One
Andrea Marzi, Elaine Haddock, Masahiro Kajihara, Heinz Feldmann, Ayato Takada
Marburg virus (MARV), family Filoviridae, causes Marburg hemorrhagic fever (MHF) in humans and nonhuman primates with case fatality rates of up to 90%. There is no approved therapeutic for MHF, yet several experimental approaches have been evaluated in preclinical studies including small interfering RNA and monoclonal antibody (mAb) treatment. In this study we attempted to improve the therapeutic efficacy of the neutralizing mAb M4 by combining treatment with 1 or 2 of blocking but nonneutralizing mAbs 126-15 and 127-8...
June 8, 2018: Journal of Infectious Diseases
Jacob Beal, Traci Haddock-Angelli, Natalie Farny, Randy Rettberg
For synthetic biology to mature, composition of devices into functional systems must become routine. This requires widespread adoption of comparable and replicable units of measurement. Interlaboratory studies organized through the International Genetically Engineered Machine (iGEM) competition show that fluorescence can be calibrated with simple, low-cost protocols, so fluorescence should no longer be published without units.
June 4, 2018: Trends in Biotechnology
Austin Hembd, Sumeet Teotia, Hong Zhu, Nicholas Haddock
INTRODUCTION: This study aims to elucidate the important predicting factors for fat necrosis and abdominal morbidity in the patient undergoing DIEP flap reconstruction. METHODS: Retrospective review of 866 free-flap breast reconstructions performed at one institution from 2010-2016. 28 potential predictors were included in multivariable analyses to control for possible confounding interactions. RESULTS: 409 total DIEA perforator flaps were included in our statistical analysis...
June 2, 2018: Plastic and Reconstructive Surgery
Elaine Haddock, Heinz Feldmann, Andrea Marzi
The mouse model for Ebola virus (EBOV) is an established and often used animal model for countermeasure development. Although it has its limitations, it recapitulates certain key features of human EBOV disease and principally shows uniform lethality. However, in the recent past, several studies reported surviving animals when evaluating treatment or vaccine approaches. Therefore, we analyzed the severity of disease and lethality of mouse-adapted (MA-) EBOV infection in 6 different mouse strains. We identified outbred CD-1 mice to be the only strain tested resulting in uniform lethality when infected with different doses of MA-EBOV or reverse genetics-generated MA-EBOV...
June 7, 2018: Journal of Infectious Diseases
Ferga C Gleeson, Erik J Tryggestad, Nicholas B Remmes, Chris J Beltran, Jon J Kruse, Michael G Haddock, Christopher L Hallemeier, Andrew C Storm, Michael J Levy
Background and study aims : Little consideration has been given to selection of endoscopic ultrasound-guided fiducials for proton radiotherapy and the resulting perturbations in the therapy dose and pattern. Our aim was to assess the impact of perturbations caused by six fiducials of different composition and dimensions in a phantom gel model. Materials and methods:  The phantom was submerged in a water bath and irradiated with a uniform 10 cm × 10 cm field of 119...
June 2018: Endoscopy International Open
Bjørn Henrik Hansen, Lisbet Sørensen, Patricia Almeira Carvalho, Sonnich Meier, Andy M Booth, Dag Altin, Julia Farkas, Trond Nordtug
Crude oil accidentally spilled into the marine environment undergoes natural weathering processes that result in oil components being dissolved into the water column or present in particulate form as dispersed oil droplets. Oil components dissolved in seawater are typically considered as more bioavailable to pelagic marine organisms and the main driver of crude oil toxicity, however, recent studies indicate that oil droplets may also contribute. The adhesion of crude oil droplets onto the eggs of pelagic fish species may cause enhanced transfer of oil components via the egg surface causing toxicity during the sensitive embryonic developmental stage...
November 1, 2018: Science of the Total Environment
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