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UFGI Publication round-up week 12/24-12/31

Comparative analysis of gammaherpesvirus circRNA repertoires: conserved and unique viral circRNAs.

Ungerleider N, Jain V, Wang Y, Maness NJ, Blair RV, Alvarez X, Midkiff C, Kolson D, Bai S, Roberts C, Moss WN, Wang X, Serfecz J, Seddon M, Lehman T, Ma T, Dong Y, Renne R, Tibbetts SA, Flemington EK.

J Virol. 2018 Dec 19. pii: JVI.01952-18. doi: 10.1128/JVI.01952-18. [Epub ahead of print]

PMID: 30567979


Urinary metals and leukocyte telomere length in American Indian communities: The Strong Heart and the Strong Heart Family Study.

Grau-Perez M, Zhao J, Pierce B, Francesconi KA, Goessler W, Zhu Y, An Q, Umans J, Best L, Cole SA, Navas-Acien A, Tellez-Plaza M.

Environ Pollut. 2018 Dec 5;246:311-318. doi: 10.1016/j.envpol.2018.12.010. [Epub ahead of print]

PMID: 30557805

Relative Diagnostic Profile: A Subscore Reporting Framework.

Liu R, Qian H, Luo X, Woo A.

Educ Psychol Meas. 2018 Dec;78(6):1072-1088. doi: 10.1177/0013164417740170. Epub 2017 Nov 2.

PMID: 30559514


Comparison of the Chinese bamboo partridge and red Junglefowl genome sequences highlights the importance of demography in genome evolution.

Tiley GP, Kimball RT, Braun EL, Burleigh JG.

BMC Genomics. 2018 May 8;19(1):336. doi: 10.1186/s12864-018-4711-0.

PMID: 29739321


Biochemical and Structural Analysis of Substrate Specificity of a Phenylalanine Ammonia-Lyase.

Jun SY, Sattler SA, Cortez GS, Vermerris W, Sattler SE, Kang C.

Plant Physiol. 2018 Feb;176(2):1452-1468. doi: 10.1104/pp.17.01608. Epub 2017 Dec 1.

PMID: 29196539


Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy.

Shan S, Mavrodiev EV, Li R, Zhang Z, Hauser BA, Soltis PS, Soltis DE, Yang B.

Mol Ecol Resour. 2018 Nov;18(6):1427-1443. doi: 10.1111/1755-0998.12935. Epub 2018 Sep 11.

PMID: 30086204


Elucidating the Role of Chromatin State and Transcription Factors on the Regulation of the Yeast Metabolic Cycle: A Multi-Omic Integrative Approach.

Sánchez-Gaya V, Casaní-Galdón S, Ugidos M, Kuang Z, Mellor J, Conesa A, Tarazona S.

Front Genet. 2018 Nov 30;9:578. doi: 10.3389/fgene.2018.00578. eCollection 2018.

PMID: 30555512


A Highly Potent Class of Halogenated Phenazine Antibacterial and Biofilm-Eradicating Agents Accessed Through a Modular Wohl-Aue Synthesis.

Yang H, Abouelhassan Y, Burch GM, Kallifidas D, Huang G, Yousaf H, Jin S, Luesch H, Huigens RW.

Sci Rep. 2017 May 17;7(1):2003. doi: 10.1038/s41598-017-01045-3.

PMID: 28515440


Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation.

Beaulaurier J, Zhu S, Deikus G, Mogno I, Zhang XS, Davis-Richardson A, Canepa R, Triplett EW, Faith JJ, Sebra R, Schadt EE, Fang G.

Nat Biotechnol. 2018 Jan;36(1):61-69. doi: 10.1038/nbt.4037. Epub 2017 Dec 11.

PMID: 29227468


Update on clinical gene therapy for hemophilia.

Perrin GQ, Herzog RW, Markusic DM.

Blood. 2018 Dec 17. pii: blood-2018-07-820720. doi: 10.1182/blood-2018-07-820720. [Epub ahead of print]

PMID: 30559260


Barcoding blood meals: New vertebrate-specific primer sets for assigning taxonomic identities to host DNA from mosquito blood meals.

Reeves LE, Gillett-Kaufman JL, Kawahara AY, Kaufman PE.

PLoS Negl Trop Dis. 2018 Aug 30;12(8):e0006767. doi: 10.1371/journal.pntd.0006767. eCollection 2018 Aug.

PMID: 30161128


Construction of two whole genome radiation hybrid panels for dromedary (Camelus dromedarius): 5000RAD and 15000RAD.

Perelman PL, Pichler R, Gaggl A, Larkin DM, Raudsepp T, Alshanbari F, Holl HM, Brooks SA, Burger PA, Periasamy K.

Sci Rep. 2018 Jan 31;8(1):1982. doi: 10.1038/s41598-018-20223-5.

PMID: 29386528


Sub-2 Å Ewald curvature corrected structure of an AAV2 capsid variant.

Tan YZ, Aiyer S, Mietzsch M, Hull JA, McKenna R, Grieger J, Samulski RJ, Baker TS, Agbandje-McKenna M, Lyumkis D.

Nat Commun. 2018 Sep 7;9(1):3628. doi: 10.1038/s41467-018-06076-6.

PMID: 30194371


Comparison of the Chinese bamboo partridge and red Junglefowl genome sequences highlights the importance of demography in genome evolution.

Tiley GP, Kimball RT, Braun EL, Burleigh JG.

BMC Genomics. 2018 May 8;19(1):336. doi: 10.1186/s12864-018-4711-0.

PMID: 29739321


Immune Response-Dependent Assembly of IMP Dehydrogenase Filaments.

Calise SJ, Abboud G, Kasahara H, Morel L, Chan EKL.

Front Immunol. 2018 Nov 29;9:2789. doi: 10.3389/fimmu.2018.02789. eCollection 2018.

PMID: 30555474

Experimental manipulation reveals a trade-off between weapons and testes.

Somjee U, Miller CW, Tatarnic NJ, Simmons LW.

J Evol Biol. 2018 Jan;31(1):57-65. doi: 10.1111/jeb.13193. Epub 2017 Nov 22.

PMID: 29164722


G-Quadruplex-Based Nanoscale Coordination Polymers to Modulate Tumor Hypoxia and Achieve Nuclear-Targeted Drug Delivery for Enhanced Photodynamic Therapy.

Yang Y, Zhu W, Feng L, Chao Y, Yi X, Dong Z, Yang K, Tan W, Liu Z, Chen M.

Nano Lett. 2018 Nov 14;18(11):6867-6875. doi: 10.1021/acs.nanolett.8b02732. Epub 2018 Oct 10.

PMID: 30303384

Liquid-state quantitative SERS analyzer on self-ordered metal liquid-like plasmonic arrays.

Tian L, Su M, Yu F, Xu Y, Li X, Li L, Liu H, Tan W.

Nat Commun. 2018 Sep 7;9(1):3642. doi: 10.1038/s41467-018-05920-z.

PMID: 30194348


Local, transient tensile stress on the nuclear membrane causes membrane rupture.

Zhang Q, Tamashunas AC, Agrawal A, Torbati M, Katiyar A, Dickinson RB, Lammerding J, Lele TP.

Mol Biol Cell. 2018 Dec 19:mbcE18090604. doi: 10.1091/mbc.E18-09-0604. [Epub ahead of print]

PMID: 30566037


Review: The Perioperative Use of Thromboelastography for Liver Transplant Patients.

Hawkins RB, Raymond SL, Hartjes T, Efron PA, Larson SD, Andreoni KA, Thomas EM.

Transplant Proc. 2018 Dec;50(10):3552-3558. doi: 10.1016/j.transproceed.2018.07.032. Epub 2018 Aug 9.

PMID: 30577236


The impact of standardized protocol implementation for surgical damage control and temporary abdominal closure after emergent laparotomy.

Loftus TJ, Efron PA, Bala TM, Rosenthal MD, Croft CA, Walters MS, Smith RS, Moore FA, Mohr AM, Brakenridge SC.

J Trauma Acute Care Surg. 2018 Dec 18. doi: 10.1097/TA.0000000000002170. [Epub ahead of print]

PMID: 30562327

Structural Equation Modeling and Whole-Genome Scans Uncover Chromosome Regions and Enriched Pathways for Carcass and Meat Quality in Beef.

Leal-Gutiérrez JD, Rezende FM, Elzo MA, Johnson D, Peñagaricano F, Mateescu RG.

Front Genet. 2018 Nov 13;9:532. doi: 10.3389/fgene.2018.00532. eCollection 2018.

PMID: 30555508


Stepping up protein degradation.

Maupin-Furlow JA.

Proc Natl Acad Sci U S A. 2018 Dec 19. pii: 201819949. doi: 10.1073/pnas.1819949116. [Epub ahead of print] No abstract available.

PMID: 30567974

Developmental toxicity of the triazole fungicide cyproconazole in embryo-larval stages of zebrafish (Danio rerio).

Cao F, Souders CL 2nd, Li P, Pang S, Qiu L, Martyniuk CJ.

Environ Sci Pollut Res Int. 2018 Dec 19. doi: 10.1007/s11356-018-3957-z. [Epub ahead of print]

PMID: 30569354


Transcriptional profiling of the mutualistic bacterium Vibrio fischeri and an hfq mutant under modeled microgravity.

Duscher AA, Conesa A, Bishop M, Vroom MM, Zubizarreta SD, Foster JS.

NPJ Microgravity. 2018 Dec 18;4:25. doi: 10.1038/s41526-018-0060-1. eCollection 2018.

PMID: 30588486


Persistent inflammation, immunosuppression, and catabolism and the development of chronic critical illness after surgery.

Efron PA, Mohr AM, Bihorac A, Horiguchi H, Hollen MK, Segal MS, Baker HV, Leeuwenburgh C, Moldawer LL, Moore FA, Brakenridge SC.

Surgery. 2018 Aug;164(2):178-184. doi: 10.1016/j.surg.2018.04.011. Epub 2018 May 26. Review.

PMID: 29807651


Spatial Phylogenetics of Florida Vascular Plants: The Effects of Calibration and Uncertainty on Diversity Estimates.

Allen JM, Germain-Aubrey CC, Barve N, Neubig KM, Majure LC, Laffan SW, Mishler BD, Owens HL, Smith SA, Whitten WM, Abbott JR, Soltis DE, Guralnick R, Soltis PS.

iScience. 2018 Dec 8;11:57-70. doi: 10.1016/j.isci.2018.12.002. [Epub ahead of print]

PMID: 30590251


Islands as Hotspots for Emerging Mosquito-Borne Viruses: A One-Health Perspective.

Mavian C, Dulcey M, Munoz O, Salemi M, Vittor AY, Capua I.

Viruses. 2018 Dec 25;11(1). pii: E11. doi: 10.3390/v11010011. Review.

PMID: 30585228


Open-ended interview questions and saturation.

Weller SC, Vickers B, Bernard HR, Blackburn AM, Borgatti S, Gravlee CC, Johnson JC.

PLoS One. 2018 Jun 20;13(6):e0198606. doi: 10.1371/journal.pone.0198606. eCollection 2018.

PMID: 29924873

Lentiviral-based reporter constructs for profiling chondrogenic activity in primary equine cell populations.

Martin-Pena A, Porter RM, Plumton G, McCarrel TM, Morton AJ, Guijarro MV, Ghivizzani SC, Sharma B, Palmer GD.

Eur Cell Mater. 2018 Oct 12;36:156-170. doi: 10.22203/eCM.v036a12.

PMID: 30311630


TALEN-mediated targeted mutagenesis of more than 100 COMT copies/alleles in highly polyploid sugarcane improves saccharification efficiency without compromising biomass yield.

Kannan B, Jung JH, Moxley GW, Lee SM, Altpeter F.

Plant Biotechnol J. 2018 Apr;16(4):856-866. doi: 10.1111/pbi.12833. Epub 2017 Nov 18.

PMID: 28905511

Big data hurdles in precision medicine and precision public health.

Prosperi M, Min JS, Bian J, Modave F.

BMC Med Inform Decis Mak. 2018 Dec 29;18(1):139. doi: 10.1186/s12911-018-0719-2.

PMID: 30594159