UFGI Publication Round-up: Week of 9/27/21

Perszyk RE, Yip MC, McConnell OL, Wang ET, Jenkins A, Traynelis SF, Forest CR.

Mol Pharmacol. 2021 Jul;100(1):73-82. doi: 10.1124/molpharm.120.000195. Epub 2021 May 6.

PMID: 33958481

Repeat length increases disease penetrance and severity in C9orf72 ALS/FTD BAC transgenic mice.

Pattamatta A, Nguyen L, Olafson HR, Scotti MM, Laboissonniere LA, Richardson J, Berglund JA, Zu T, Wang ET, Ranum LPW.

Hum Mol Genet. 2021 Feb 25;29(24):3900-3918. doi: 10.1093/hmg/ddaa279.

PMID: 33378537

Metabolomics Signature of Plasma Renin Activity and Linkage with Blood Pressure Response to Beta Blockers and Thiazide Diuretics in Hypertensive European American Patients.

Mehanna M, McDonough CW, Smith SM, Gong Y, Gums JG, Chapman AB, Johnson JA, McIntyre L, Cooper-DeHoff RM.

Metabolites. 2021 Sep 21;11(9):645. doi: 10.3390/metabo11090645.

PMID: 34564461

Quantitative mapping of the cellular small RNA landscape with AQRNA-seq.

Hu JF, Yim D, Ma D, Huber SM, Davis N, Bacusmo JM, Vermeulen S, Zhou J, Begley TJ, DeMott MS, Levine SS, de Crécy-Lagard V, Dedon PC, Cao B.

Nat Biotechnol. 2021 Aug;39(8):978-988. doi: 10.1038/s41587-021-00874-y. Epub 2021 Apr 15.

PMID: 33859402

Identification of Biomarkers for Systemic Distribution of Nanovesicles From Lactobacillus johnsonii N6.2.

Harrison NA, Gardner CL, da Silva DR, Gonzalez CF, Lorca GL.

Front Immunol. 2021 Aug 31;12:723433. doi: 10.3389/fimmu.2021.723433. eCollection 2021.

PMID: 34531870

Monogenic Diabetes and Integrated Stress Response Genes Display Altered Gene Expression in Type 1 Diabetes.

Hiller H, Beachy DE, Lebowitz JJ, Engler S, Mason JR, Miller DR, Kusmarteva I, Jacobsen LM, Posgai AL, Khoshbouei H, Oram RA, Schatz DA, Hattersley AT, Bodenmiller B, Atkinson MA, Nick HS, Wasserfall CH.

Diabetes. 2021 Aug;70(8):1885-1897. doi: 10.2337/db21-0070. Epub 2021 May 25.

PMID: 34035041

The Value of Integrating Fluorescent Imaging and Immunohistochemistry for Future Anatomical Studies in Aesthetic Surgery: Lessons From the Cerebrospinal Fluid Circulatory System of Human Nerves and Brain.

Pessa JE, Smith D, Sieber DA, Kenkel JM, Arbique G, Nahai F, Heldermon CD, Scott EW.

Aesthet Surg J. 2021 Sep 14;41(10):1197-1206. doi: 10.1093/asj/sjaa247.

PMID: 32827254

Novel CD33 antibodies unravel localization, biology and therapeutic implications of CD33 isoforms.

Gbadamosi MO, Shastri VM, Hylkema T, Papageorgiou I, Pardo L, Cogle CR, Doty A, Loken MR, Meshinchi S, Lamba JK.

Future Oncol. 2021 Jan;17(3):263-277. doi: 10.2217/fon-2020-0746. Epub 2020 Dec 24.

PMID: 33356566

Metabolites Associated with Early Cognitive Changes Implicated in Alzheimer’s Disease.

Darst BF, Huo Z, Jonaitis EM, Koscik RL, Clark LR, Lu Q, Kremen WS, Franz CE, Rana B, Lyons MJ, Hogan KJ, Zhao J, Johnson SC, Engelman CD.

J Alzheimers Dis. 2021;79(3):1041-1054. doi: 10.3233/JAD-200176.

PMID: 33427733

Choline acts during preimplantation development of the bovine embryo to program postnatal growth and alter muscle DNA methylation.

Estrada-Cortés E, Ortiz W, Rabaglino MB, Block J, Rae O, Jannaman EA, Xiao Y, Hansen PJ.

FASEB J. 2021 Oct;35(10):e21926. doi: 10.1096/fj.202100991R.

PMID: 34533870

Generation of a Novel SARS-CoV-2 Sub-genomic RNA Due to the R203K/G204R Variant in Nucleocapsid: Homologous Recombination has Potential to Change SARS-CoV-2 at Both Protein and RNA Level.

Leary S, Gaudieri S, Parker MD, Chopra A, James I, Pakala S, Alves E, John M, Lindsey BB, Keeley AJ, Rowland-Jones SL, Swanson MS, Ostrov DA, Bubenik JL, Das SR, Sidney J, Sette A; COVID-19 Genomics UK (COG-UK) consortium, de Silva TI, Phillips E, Mallal S.

Pathog Immun. 2021 Aug 20;6(2):27-49. doi: 10.20411/pai.v6i2.460. eCollection 2021.

PMID: 34541432

Reverse Plasticity Underlies Rapid Evolution by Clonal Selection within Populations of Fibroblasts Propagated on a Novel Soft Substrate.

Purkayastha P, Pendyala K, Saxena AS, Hakimjavadi H, Chamala S, Dixit P, Baer CF, Lele TP.

Mol Biol Evol. 2021 Jul 29;38(8):3279-3293. doi: 10.1093/molbev/msab102.

PMID: 33871606

Comparative analysis on the photolysis kinetics of four neonicotinoid pesticides and their photo-induced toxicity to Vibrio Fischeri: Pathway and toxic mechanism.

Fan L, Wang J, Huang Y, Su L, Li C, Zhao YH, Martyniuk CJ.

Chemosphere. 2021 Sep 20;287(Pt 3):132303. doi: 10.1016/j.chemosphere.2021.132303. Online ahead of print.

PMID: 34562705

A cross-species comparative approach to assessing multi- and transgenerational effects of endocrine disrupting chemicals.

Robaire B, Delbes G, Head JA, Marlatt VL, Martyniuk CJ, Reynaud S, Trudeau VL, Mennigen JA.

Environ Res. 2021 Sep 22:112063. doi: 10.1016/j.envres.2021.112063. Online ahead of print.

PMID: 34562476

Comprehensive Interrogation of Metabolic and Bioenergetic Responses of Early-Staged Zebrafish (Danio rerio) to a Commercial Copper Hydroxide Nanopesticide.

Wang X, Qin Y, Li X, Yan B, Martyniuk CJ.

Environ Sci Technol. 2021 Sep 23. doi: 10.1021/acs.est.1c04431. Online ahead of print.

PMID: 34553928

Discrimination of active and inactive substances in cytotoxicity based on Tox21 10K compound library: Structure alert and mode of action.

Huang Y, Wang J, Wang S, Xu X, Qin W, Wen Y, Zhao YH, Martyniuk CJ.

Toxicology. 2021 Sep 13;462:152948. doi: 10.1016/j.tox.2021.152948. Online ahead of print.

PMID: 34530041

Plastics in our water: Fish microbiomes at risk?

Adamovsky O, Bisesi JH Jr, Martyniuk CJ.

Comp Biochem Physiol Part D Genomics Proteomics. 2021 Sep;39:100834. doi: 10.1016/j.cbd.2021.100834. Epub 2021 Apr 21.

PMID: 33930774

Multisite evaluation of institutional processes and implementation determinants for pharmacogenetic testing to guide antidepressant therapy.

Tuteja S, Salloum RG, Elchynski AL, Smith DM, Rowe E, Blake KV, Limdi NA, Aquilante CL, Bates J, Beitelshees AL, Cipriani A, Duong BQ, Empey PE, Formea CM, Hicks JK, Mroz P, Oslin D, Pasternak AL, Petry N, Ramsey LB, Schlichte A, Swain SM, Ward KM, Wiisanen K, Skaar TC, Van Driest SL, Cavallari LH, Bishop JR; IGNITE Pharmacogenetics Working Group.

Clin Transl Sci. 2021 Sep 25. doi: 10.1111/cts.13154. Online ahead of print.

PMID: 34562070

Antibiotics and the developing intestinal microbiome, metabolome and inflammatory environment in a randomized trial of preterm infants.

Russell JT, Lauren Ruoss J, de la Cruz D, Li N, Bazacliu C, Patton L, McKinley KL, Garrett TJ, Polin RA, Triplett EW, Neu J.

Sci Rep. 2021 Jan 21;11(1):1943. doi: 10.1038/s41598-021-80982-6.

PMID: 33479274

Fast and exact quantification of motif occurrences in biological sequences.

Prosperi M, Marini S, Boucher C.

BMC Bioinformatics. 2021 Sep 18;22(1):445. doi: 10.1186/s12859-021-04355-6.

PMID: 34537012

Genomic prediction in family bulks using different traits and cross-validations in pine.

Rios EF, Andrade MHML, Resende MFR, Kirst M, de Resende MDV, de Almeida Filho JE, Gezan SA, Munoz P.

G3 (Bethesda). 2021 Sep 6;11(9):jkab249. doi: 10.1093/g3journal/jkab249.

PMID: 34544139

Disease mechanisms of X-linked cone dystrophy caused by missense mutations in the red and green cone opsins.

Zhu P, Dyka F, Ma X, Yin L, Yu H, Baehr W, Hauswirth WW, Deng WT.

FASEB J. 2021 Oct;35(10):e21927. doi: 10.1096/fj.202101066R.

PMID: 34547123

The Arabidopsis MIK2 receptor elicits immunity by sensing a conserved signature from phytocytokines and microbes.

Hou S, Liu D, Huang S, Luo D, Liu Z, Xiang Q, Wang P, Mu R, Han Z, Chen S, Chai J, Shan L, He P.

Nat Commun. 2021 Sep 17;12(1):5494. doi: 10.1038/s41467-021-25580-w.

PMID: 34535661

A mutation of a single core gene, tssM, of Type VI secretion system of Xanthomonas perforans influences virulence, epiphytic survival and transmission during pathogenesis on tomato.

Liyanapathiranage P, Jones JB, Potnis N.

Phytopathology. 2021 Sep 20. doi: 10.1094/PHYTO-02-21-0069-R. Online ahead of print.

PMID: 34543058

Spatial regulation by multiple Gremlin1 enhancers provides digit development with cis-regulatory robustness and evolutionary plasticity.

Malkmus J, Ramos Martins L, Jhanwar S, Kircher B, Palacio V, Sheth R, Leal F, Duchesne A, Lopez-Rios J, Peterson KA, Reinhardt R, Onimaru K, Cohn MJ, Zuniga A, Zeller R.

Nat Commun. 2021 Sep 21;12(1):5557. doi: 10.1038/s41467-021-25810-1.

PMID: 34548488

Systematic Analysis of Extracting Data on Advance Directives from Patient Electronic Health Records (EHR) in Terminal Oncology Patients.

Starr JS, Skelton WP 4th, Rahmanian KP, Guenther R, Allen WL, George TJ, Moseley RE.

J Palliat Care. 2021 Oct;36(4):211-218. doi: 10.1177/08258597211001153. Epub 2021 Mar 12.

PMID: 33711237

Elevated common variant genetic risk for tourette syndrome in a densely-affected pedigree.

Halvorsen M, Szatkiewicz J, Mudgal P, Yu D; Psychiatric Genomics Consortium TS/OCD Working Group, Nordsletten AE, Mataix-Cols D, Mathews CA, Scharf JM, Mattheisen M, Robertson MM, McQuillin A, Crowley JJ.

Mol Psychiatry. 2021 Sep 15. doi: 10.1038/s41380-021-01277-w. Online ahead of print.

PMID: 34526668

Differential analysis of chromatin accessibility and gene expression profiles identifies cis-regulatory elements in rat adipose and muscle.

Nair VD, Vasoya M, Nair V, Smith GR, Pincas H, Ge Y, Douglas CM, Esser KA, Sealfon SC.

Genomics. 2021 Sep 18:S0888-7543(21)00355-4. doi: 10.1016/j.ygeno.2021.09.013. Online ahead of print.

PMID: 34547403

Binge Alcohol Disrupts Skeletal Muscle Core Molecular Clock Independent of Glucocorticoids.

Tice AL, Laudato JA, Rossetti ML, Wolff CA, Esser KA, Lee C, Lang CH, Vied C, Gordon BS, Steiner JL.

Am J Physiol Endocrinol Metab. 2021 Sep 20. doi: 10.1152/ajpendo.00187.2021. Online ahead of print.

PMID: 34541876

Reply to: “Experience with a New Index to Differentiate Parkinson’s Disease and Progressive Supranuclear Palsy”.

Quattrone A, Antonini A, Vaillancourt DE, Seppi K, Ceravolo R, Strafella AP, Quattrone A.

Mov Disord. 2021 Sep;36(9):2208-2209. doi: 10.1002/mds.28725.

PMID: 34543468

Effect of a Mediterranean diet intervention on gastrointestinal function in Parkinson’s disease (the MEDI-PD study): study protocol for a randomised controlled trial.

Rusch C, Beke M, Tucciarone L, Dixon K, Nieves C Jr, Mai V, Stiep T, Tholanikunnel T, Ramirez-Zamora A, Hess CW, Langkamp-Henken B.

BMJ Open. 2021 Sep 22;11(9):e053336. doi: 10.1136/bmjopen-2021-053336.

PMID: 34551955

Discovery of a Novel BCL-X_L PROTAC Degrader with Enhanced BCL-2 Inhibition.

Pal P, Thummuri D, Lv D, Liu X, Zhang P, Hu W, Poddar SK, Hua N, Khan S, Yuan Y, Zhang X, Zhou D, Zheng G.

J Med Chem. 2021 Sep 17. doi: 10.1021/acs.jmedchem.1c00517. Online ahead of print.

PMID: 34533954