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https://www.readbyqxmd.com/read/28087693/de-novo-genome-and-transcriptome-assembly-of-the-canadian-beaver-castor-canadensis
#1
Si Lok, Tara A Paton, Zhuozhi Wang, Gaganjot Kaur, Susan Walker, Ryan K C Yuen, Wilson W L Sung, Joseph Whitney, Janet A Buchanan, Brett Trost, Naina Singh, Beverly Apresto, Nan Chen, Matthew Coole, Travis J Dawson, Karen Y Ho, Zhizhou Hu, Sanjeev Pullenayegum, Kozue Samler, Arum Shipstone, Fiona Tsoi, Ting Wang, Sergio L Pereira, Pirooz Rostami, Carol Ann Ryan, Amy Hin Yan Tong, Karen Ng, Yogi Sundaravadanam, Jared T Simpson, Burton K Lim, Mark D Engstrom, Christopher J Dutton, Kevin C R Kerr, Maria Franke, William Rapley, Richard F Wintle, Stephen W Scherer
The Canadian beaver (Castor canadensis) is the largest indigenous rodent in North America. We report a draft annotated assembly of the beaver genome, the first for a large rodent and the first mammalian genome assembled directly from uncorrected and moderate coverage (< 30 ×) long-reads generated by single-molecule sequencing. The genome size is 2.7 Gb estimated by k-mer analysis. We assembled the beaver genome using the new Canu assembler optimized for noisy reads. The resulting assembly was refined using Pilon supported by shortreads (80 ×) and checked for accuracy by congruency against an independent short-read assembly...
January 13, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28079713/interrogating-idh-mutation-in-brain-tumor-magnetic-resonance-and-hyperpolarization
#2
Jingzhe Hu, Travis C Salzillo, Napapon Sailasuta, Frederick F Lang, Pratip Bhattacharya
Magnetic resonance spectroscopy (MRS) offers the possibility to noninvasively quantify 2HG concentration in the brain in the clinic, thereby serving as a valuable tool for patient-stratification as well as targeted treatment monitoring. Recently, hyperpolarized magnetic resonance techniques have opened up new opportunities for metabolic imaging not possible with conventional MRS in the brain. With over 10,000-fold increase in signal-to-noise ratio (SNR), dynamic metabolic processes can be interrogated in vivo with very high specificity by hyperpolarized MRI...
January 11, 2017: Topics in Magnetic Resonance Imaging: TMRI
https://www.readbyqxmd.com/read/28079521/isoform-specific-subcellular-localization-and-function-of-protein-kinase-a-identified-by-mosaic-imaging-of-mouse-brain
#3
Ronit Ilouz, Varda Lev-Ram, Eric A Bushong, Travis L Stiles, Dinorah Friedmann-Morvinski, Christopher Douglas, Geoffrey Goldberg, Mark H Ellisman, Susan S Taylor
Protein kinase A (PKA) plays critical roles in neuronal function that are mediated by different regulatory (R) subunits. Deficiency in either RIβ or RIIβ subunits results in distinct neuronal phenotypes. Although RIβ contributes to synaptic plasticity, it is the least studied isoform. Using isoform-specific antibodies we generated high-resolution large-scale immunohistochemical mosaic images of mouse brain that provide global views of several brain regions, including the hippocampus and cerebellum...
January 12, 2017: ELife
https://www.readbyqxmd.com/read/28078890/metamorphosis-affects-metal-concentrations-and-isotopic-signatures-in-a-mayfly-baetis-tricaudatus-implications-for-the-aquatic-terrestrial-transfer-of-metals
#4
Jeff S Wesner, David M Walters, Travis S Schmidt, Johanna M Kraus, Craig A Stricker, William H Clements, Ruth E Wolf
Insect metamorphosis often results in substantial chemical changes that can alter contaminant concentrations and fractionate isotopes. We exposed larval mayflies (Baetis tricaudatus) and their food (periphyton) to an aqueous zinc gradient (3-340 µg Zn/l) and measured zinc concentrations at different stages of metamorphosis: larval, subimago, and imago. We also measured changes in stable isotopes (δ15N and δ13C) in unexposed mayflies. Larval zinc concentrations were positively related to aqueous zinc, increasing 9-fold across the exposure gradient...
January 12, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28078360/multimodal-nerve-monitoring-during-periacetabular-osteotomy-identifies-surgical-steps-associated-with-risk-of-injury
#5
Eduardo N Novais, Travis Heare, Lauryn Kestel, Patricia Oliver, Willy Boucharel, Jason Koerner, Kim Strupp
PURPOSE: Sciatic nerve palsy after periacetabular osteotomy (PAO) is a serious complication. The purpose of this study was to determine whether a multimodal sciatic monitoring technique allows for identification of surgical steps that place the sciatic nerve at risk. METHODS: Transcranial electrical motor evoked potentials (TcMEPs), somatosensory evoked potentials (SSEPs), and spontaneous electromyography (EMG) were monitored in a consecutive series of 34 patients (40 hips) who underwent PAO for the treatment of symptomatic hip dysplasia between January 2012 and November 2014...
January 11, 2017: International Orthopaedics
https://www.readbyqxmd.com/read/28077797/repression-of-fyn-related-kinase-in-breast-cancer-cells-is-associated-with-promoter-site-specific-cpg-methylation
#6
Edward T Bagu, Sayem Miah, Chenlu Dai, Travis Spriggs, Yetunde Ogunbolude, Erika Beaton, Michelle Sanders, Raghuveera K Goel, Keith Bonham, Kiven E Lukong
The triple-negative breast cancer subtype is highly aggressive and has no defined therapeutic target. Fyn-related kinase (FRK) is a non-receptor tyrosine kinase, reported to be downregulated in breast cancer and gliomas, where it is suggested to have tumor suppressor activity. We examined the expression profile of FRK in a panel of 40 breast cancer cells representing all the major subtypes, as well as in 4 non-malignant mammary epithelial cell lines. We found that FRK expression was significantly repressed in a proportion of basal B breast cancer cell lines...
January 6, 2017: Oncotarget
https://www.readbyqxmd.com/read/28077719/suppressing-n-acetyl-l-aspartate-synthesis-prevents-loss-of-neurons-in-a-murine-model-of-canavan-leukodystrophy
#7
Jiho Sohn, Peter Bannerman, Fuzheng Guo, Travis Burns, Laird Miers, Christopher Croteau, Naveen K Singhal, Jennifer A McDonough, David Pleasure
: Canavan disease is a leukodystrophy caused by aspartoacylase (ASPA) deficiency. The lack of functional ASPA, an enzyme enriched in oligodendroglia that cleaves N-acetyl-l-aspartate (NAA) to acetate and l-aspartic acid, elevates brain NAA and causes "spongiform" vacuolation of superficial brain white matter and neighboring gray matter. In children with Canavan disease, neuroimaging shows early-onset dysmyelination and progressive brain atrophy. Neuron loss has been documented at autopsy in some cases...
January 11, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/28077575/effector-attenuating-substitutions-that-maintain-antibody-stability-and-reduce-toxicity-in-mice
#8
Megan Lo, Hok Seon Kim, Raymond K Tong, Travis W Bainbridge, Jean-Michel Vernes, Yin Zhang, Yuwen Linda Lin, Shan Chung, Mark S Dennis, Y Joy Yu Zuchero, Ryan J Watts, Jessica A Couch, Y Gloria Meng, Jasvinder K Atwal, Randall J Brezski, Christoph Spiess, James A Ernst
The antibody Fc region regulates antibody cytotoxic activities and serum half-life. In a therapeutic context however, the cytotoxic effector function of an antibody is often not desirable and can create safety liabilities by activating native host immune defenses against cells expressing the receptor-antigens. Several amino acid changes in the Fc region have been reported to silence or reduce the effector function of antibodies. These earlier studies focused primarily on the interaction of human antibodies with human Fc-Gamma; receptors, and it remains largely unknown how such changes to the Fc might translate in the context of a murine antibody...
January 11, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28077131/granulocyte-colony-stimulating-factor-g-csf-promotes-spermatogenic-regeneration-from-surviving-spermatogonia-after-high-dose-alkylating-chemotherapy
#9
Travis Kotzur, Roberto Benavides-Garcia, Jennifer Mecklenburg, Jamila R Sanchez, Matthew Reilly, Brian P Hermann
BACKGROUND: The lifesaving chemotherapy and radiation treatments that allow patients to survive cancer can also result in a lifetime of side-effects, including male infertility. Infertility in male cancer survivors is thought to primarily result from killing of the spermatogonial stem cells (SSCs) responsible for producing spermatozoa since SSCs turn over slowly and are thereby sensitive to antineoplastic therapies. We previously demonstrated that the cytokine granulocyte colony-stimulating factor (G-CSF) can preserve spermatogenesis after alkylating chemotherapy (busulfan)...
January 11, 2017: Reproductive Biology and Endocrinology: RB&E
https://www.readbyqxmd.com/read/28075636/how-has-legal-recreational-cannabis-affected-adolescents-in-your-state-a-window-of-opportunity
#10
Sarah W Feldstein Ewing, Travis I Lovejoy, Esther K Choo
No abstract text is available yet for this article.
February 2017: American Journal of Public Health
https://www.readbyqxmd.com/read/28075009/the-physiological-costs-of-prey-switching-reinforce-foraging-specialization
#11
Oliver E Hooker, Travis E Van Leeuwen, Colin E Adams
Sympatric speciation is thought to be strongly linked to resource specialization with alternative resource use acting as a fundamental agent driving divergence. However, sympatric speciation through niche expansion is dependent on foraging specialization being consistent over space and time. Standard metabolic rate is the minimal maintenance metabolic rate of an ectotherm in a post-absorptive and inactive state and can constitute a significant portion of an animal's energy budget; thus standard metabolic rate and growth rate are two measures frequently used as an indication of the physiological performance of individuals...
January 11, 2017: Journal of Animal Ecology
https://www.readbyqxmd.com/read/28074543/low-distress-tolerance-predicts-heightened-drug-seeking-and-taking-after-extended-abstinence-from-cocaine-self-administration
#12
Travis M Moschak, Douglas R Terry, Stacey B Daughters, Regina M Carelli
Distress tolerance (DT), defined as the ability to persist in goal-directed behavior while experiencing psychological distress, is associated with greater frequency of substance use and poor treatment outcomes. To examine a potential causal role substance use may play in DT, we developed a rodent model of DT in which rats had to press a lever within a continuously decreasing time window for reward while receiving negative feedback on failure trials. DT was defined as the time rats continued to seek reward before quitting the task...
January 11, 2017: Addiction Biology
https://www.readbyqxmd.com/read/28074256/erratum-to-visions-of-restoration-in-fire-adapted-forest-landscapes-lessons-from-the-collaborative-forest-landscape-restoration-program
#13
Lauren S Urgenson, Clare M Ryan, Charles B Halpern, Jonathan D Bakker, R Travis Belote, Jerry F Franklin, Ryan D Haugo, Cara R Nelson, Amy E M Waltz
No abstract text is available yet for this article.
January 10, 2017: Environmental Management
https://www.readbyqxmd.com/read/28072895/standing-up-for-scope
#14
Joey Berlin
The Texas Medical Association triumphed when a Travis County district court sided with medicine in a lawsuit against the Texas Board of Chiropractic Examiners over its granting chiropractors the authority to perform certain diagnostic tests.
January 1, 2017: Texas Medicine
https://www.readbyqxmd.com/read/28069860/in-opioid-withdrawal-with-no-help-in-sight
#15
Travis N Rieder
A patient receives prescription opioids after an accident-and no support from his physicians as he weans himself off.
January 1, 2017: Health Affairs
https://www.readbyqxmd.com/read/28067906/prophage-mediated-defence-against-viral-attack-and-viral-counter-defence
#16
Rebekah M Dedrick, Deborah Jacobs-Sera, Carlos A Guerrero Bustamante, Rebecca A Garlena, Travis N Mavrich, Welkin H Pope, Juan C Cervantes Reyes, Daniel A Russell, Tamarah Adair, Richard Alvey, J Alfred Bonilla, Jerald S Bricker, Bryony R Brown, Deanna Byrnes, Steven G Cresawn, William B Davis, Leon A Dickson, Nicholas P Edgington, Ann M Findley, Urszula Golebiewska, Julianne H Grose, Cory F Hayes, Lee E Hughes, Keith W Hutchison, Sharon Isern, Allison A Johnson, Margaret A Kenna, Karen K Klyczek, Catherine M Mageeney, Scott F Michael, Sally D Molloy, Matthew T Montgomery, James Neitzel, Shallee T Page, Marie C Pizzorno, Marianne K Poxleitner, Claire A Rinehart, Courtney J Robinson, Michael R Rubin, Joseph N Teyim, Edwin Vazquez, Vassie C Ware, Jacqueline Washington, Graham F Hatfull
Temperate phages are common, and prophages are abundant residents of sequenced bacterial genomes. Mycobacteriophages are viruses that infect mycobacterial hosts including Mycobacterium tuberculosis and Mycobacterium smegmatis, encompass substantial genetic diversity and are commonly temperate. Characterization of ten Cluster N temperate mycobacteriophages revealed at least five distinct prophage-expressed viral defence systems that interfere with the infection of lytic and temperate phages that are either closely related (homotypic defence) or unrelated (heterotypic defence) to the prophage...
January 9, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28065741/essential-roles-for-cdx-in-murine-primitive-hematopoiesis
#17
Travis Brooke-Bisschop, Joanne G A Savory, Tanya Foley, Randy Ringuette, David Lohnes
The Cdx transcription factors play essential roles in primitive hematopoiesis in the zebrafish where they exert their effects, in part, through regulation of hox genes. Defects in hematopoiesis have also been reported in Cdx mutant murine embryonic stem cell models, however, to date no mouse model reflecting the zebrafish Cdx mutant hematopoietic phenotype has been described. This is likely due, in part, to functional redundancy among Cdx members and the early lethality of Cdx2 null mutants. To circumvent these limitations, we used Cre-mediated conditional deletion to assess the impact of concomitant loss of Cdx1 and Cdx2 on murine primitive hematopoiesis...
January 5, 2017: Developmental Biology
https://www.readbyqxmd.com/read/28065350/preoperative-urine-culture-results-correlate-poorly-with-bacteriology-of-urologic-prosthetic-device-infections
#18
Nicholas L Kavoussi, Jordan A Siegel, Boyd R Viers, Travis J Pagliara, Matthias D Hofer, Billy H Cordon, Nabeel Shakir, Jeremy M Scott, Allen F Morey
INTRODUCTION: Although preoperative negative urine culture results and treatment of urinary tract infections are generally advised before artificial urinary sphincter (AUS) and penile prosthesis (PP) surgery to prevent device infection, limited evidence exists to support this practice. AIM: To evaluate the relation between preoperative urine culture results and the bacteriology of prosthetic device infections. METHODS: Men undergoing AUS and/or PP placement at a tertiary referral center from 2007 through 2015 were analyzed...
January 2017: Journal of Sexual Medicine
https://www.readbyqxmd.com/read/28064384/gut-microbiota-composition-associated-with-alterations-in-cardiorespiratory-fitness-and-psychosocial-outcomes-among-breast-cancer-survivors
#19
Jesseca A Paulsen, Travis S Ptacek, Stephen J Carter, Nianjun Liu, Ranjit Kumar, LaKeshia Hyndman, Elliot J Lefkowitz, Casey D Morrow, Laura Q Rogers
PURPOSE: In this proof-of-concept pilot study, our purpose was to determine correlations between gut microbiota composition and alterations in cardiorespiratory fitness and psychosocial outcomes among post-primary treatment breast cancer survivors (BCS). METHODS: Composition of the gut microbiota in BCS (n = 12) was assessed at baseline (M0) and at the end of 3 months (M3) using Illumina MiSeq DNA Sequencing of the 16S rRNA gene. Gut microbiota composition was analyzed using the QIIME bioinformatics software and represented through diversity metrics and taxa analyses...
January 7, 2017: Supportive Care in Cancer: Official Journal of the Multinational Association of Supportive Care in Cancer
https://www.readbyqxmd.com/read/28063761/comparison-of-radiographs-and-computed-tomography-for-the-screening-of-anterior-inferior-iliac-spine-impingement
#20
Broc R Schindler, Melanie B Venderley, Jacob D Mikula, Jorge Chahla, Grant J Dornan, Travis Lee Turnbull, Robert F LaPrade, Marc J Philippon
PURPOSE: To compare radiographic and 3-dimensional (3D) computed tomography (CT) imaging modalities for the screening of anterior inferior iliac spine (AIIS) impingement by establishing imaging measurement related to the AIIS. METHODS: Anteroposterior and false-profile radiographs and 3D CT scans were obtained on 10 human cadaveric pelvises. On the anteroposterior view for each methodology, 2 measurements were calculated: distance to the most lateral AIIS from the 12 o'clock position on the acetabular rim, and the angle between the lateral AIIS and the sagittal plane...
January 4, 2017: Arthroscopy: the Journal of Arthroscopic & related Surgery
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