Carnegie Mellon University

2017 Publications

Boyd-Shiwarski CR, Shiwarski DJ, Roy A, Nkashama LJ, Namboodiri HN, Xie J, McClain KL, Marciszyn A, Kleyman TR, Tan RJ, Stolz DB, Puthenveedu MA, Huang CL, Subramanya AR. Potassium-Regulated Distal Tubule WNK Bodies are Kidney-Specific WNK1 Dependent. Mol Biol Cell. 2017 Dec 13. pii: mbc.E17-08-0529. doi: 10.1091/mbc.E17-08-0529. PMID: 29237822

Motib A, Guerreiro A, Al-Bayati F, Piletska E, Manzoor I, Shafeeq S, Kadam A, Kuipers O, Hiller L, Cowen T, Piletsky S, Andrew PW, Yesilkaya H. Modulation of Quorum Sensing in a Gram-Positive Pathogen by Linear Molecularly Imprinted Polymers with Anti-infective Properties. Angew Chem Int Ed Engl. 2017 Dec 22;56(52):16555-16558. doi: 10.1002/anie.201709313. Epub 2017 Dec 1. PMID: 29140595

Jeon BB, Kuhlman SJ. The underdog pathway gets a boost. Nat Neurosci. 2017 Dec;20(12):1655-1656. doi: 10.1038/s41593-017-0019-7. PMID: 29184213

Brasier DJ. Three Scientific Controversies to Engage Students in Reading Primary Literature. J Undergrad Neurosci Educ. 2017 Nov 15;16(1):R13-R19. eCollection 2017 Fall. PMID: 29371856

Liu L, Ye Q, Lu M, Chen ST, Tseng HW, Lo YC, Ho C. A New Approach to Deliver Anti-cancer Nanodrugs with Reduced Off-target Toxicities and Improved Efficiency by Temporarily Blunting the Reticuloendothelial System with Intralipid. Sci Rep. 2017 Nov 23;7(1):16106. doi: 10.1038/s41598-017-16293-6. PMID: 29170482.

Pratt CP, Kuljis DA, Homanics GE, He J, Kolodieznyi D, Dudem S, Hollywood MA, Barth AL, Bruchez MP. Tagging of Endogenous BK Channels with a Fluorogen-Activating Peptide Reveals β4-Mediated Control of Channel Clustering in Cerebellum. Front Cell Neurosci. 2017 Oct 31;11:337. doi: 10.3389/fncel.2017.00337. eCollection 2017. PMID: 29163049.

Khor JM, Ettensohn CA. Functional divergence of paralogous transcription factors supported the evolution of biomineralization in echinoderms. Elife. 2017 Nov 20;6. pii: e32728. doi: 10.7554/eLife.32728. PMID: 29154754.

Liu L, Ho C. Mesenchymal Stem Cell Preparation and Transfection-free Ferumoxytol Labeling for MRI Cell Tracking. Curr Protoc Stem Cell Biol. 2017 Nov 15;43:2B.7.1-2B.7.14. doi: 10.1002/cpsc.38. PMID: 29140566.

Yang MQ, Li D, Yang W, Zhang Y, Liu J, Tong W. A Gene Module-Based eQTL Analysis Prioritizing Disease Genes and Pathways in Kidney Cancer. Comput Struct Biotechnol J. 2017 Oct 10;15:463-470. doi: 10.1016/j.csbj.2017.09.003. PMID: 29158875

Antic I, Brothers KM, Stolzer M, Lai H, Powell E, Eutsey R, Cuevas RA, Miao X, Kowalski RP, Shanks RMQ, Durand D, Hiller NL. Gene Acquisition by a Distinct Phyletic Group within Streptococcus pneumoniae Promotes Adhesion to the Ocular Epithelium. mSphere. 2017 Oct 25;2(5). pii: e00213-17. doi:10.1128/mSphere.00213-17. eCollection 2017 Sep-Oct. PMID: 29085912.

Navlakha S, Bar-Joseph Z, Barth AL. Network Design and the Brain. Trends Cogn Sci. 2017 Oct 17. pii: S1364-6613(17)30200-0. doi: 10.1016/j.tics.2017.09.012. Review. PMID: 29054336.

Kuhlman SJ, Craig LM, Duffy JF. Introduction to Chronobiology. Cold Spring Harb Perspect Biol. 2017 Oct 16. pii: a033613. doi: 10.1101cshperspect.a033613. PMID: 29038118.

Corbit VL, Ahmari SE, Gittis AH. A Corticostriatal Balancing Act Supports Skill Learning. Neuron. 2017 Oct 11;96(2):253-255. doi: 10.1016/j.neuron.2017.09.046. PMID: 29024650.

Venkat S, Linstedt AD. Manganese-induced trafficking and turnover of GPP130 is mediated by sortilin. Mol Biol Cell. 2017 Aug 2. pii: mbc.E17-05-0326. doi: 10.1091/mbc.E17-05-0326. [Epub ahead of print] PMID: 28768823.

Sinha K, Rule GS. The Structure of Thymidylate Kinase from Candida albicans Reveals a Unique Structural Element. Biochemistry. 2017 Aug 9. doi: 10.1021/acs.biochem.7b00498. [Epub ahead of print] PMID: 28742342.

Pettersson JR, Lanni F, Rule GS. Dual Lifetimes for Complexes between Glutathione-S-transferase (hGSTA1-1) and Product-like Ligands Detected by Single-Molecule Fluorescence Imaging. Biochemistry. 2017 Aug 8;56(31):4073-4083.  doi: 10.1021/acs.biochem.7b00030. Epub 2017 Jul 27. PMID: 28677395.

Tan X, Constantin TP, Sloane KL, Waggoner AS, Bruchez MP, Armitage BA. Fluoromodules Consisting of a Promiscuous RNA Aptamer and Red or Blue Fluorogenic Cyanine Dyes: Selection, Characterization, and Bioimaging. J Am Chem Soc. 2017 Jul 5;139(26):9001-9009. doi: 10.1021/jacs.7b04211. Epub 2017 Jun 23. PMID: 28644615

Lee J, Barth AL. Constructing the External World. Neuron. 2017 Jun 21;94(6):1048-1050. doi: 10.1016/j.neuron.2017.06.006. PMID: 28641104

Gallo E, Jarvik JW. Breaking the color barrier: a multi-selective antibody reporter offers innovative strategies of fluorescence detection. J Cell Sci. 2017 Jun 14. pii: jcs.202952. doi: 10.1242/jcs.202952. [Epub ahead of print] PMID: 28615413

Cary GA, Cheatle Jarvela AM, Francolini RD, Hinman VF. Genome-wide use of high- and low-affinity Tbrain transcription factor binding sites during echinoderm development. Proc Natl Acad Sci U S A. 2017 Jun 6;114(23):5854-5861. doi: 10.1073/pnas.1610611114. PMID: 28584099

Thompson JR, Erkenbrack EM, Hinman VF, McCauley BS, Petsios E, Bottjer DJ. Paleogenomics of echinoids reveals an ancient origin for the double-negative specification of micromeres in sea urchins. Proc Natl Acad Sci U S A. 2017 Jun 6;114(23):5870-5877. doi: 10.1073/pnas.1610603114. PMID: 28584090

Shiwarski DJ, Darr M, Telmer CA, Bruchez MP, Puthenveedu MA. PI3K Class II α regulates δ-Opioid Receptor Export from the trans-Golgi Network. Mol Biol Cell. 2017 May 31. pii: mbc.E17-01-0030. doi: 10.1091/mbc.E17-01-0030. PMID: 28566554

Cuevas RA, Eutsey R, Kadam A, West-Roberts JA, Woolford CA, Mitchell AP, Mason KM, Hiller NL. A novel streptococcal cell-cell communication peptide promotes pneumococcal virulence and biofilm formation. Mol Microbiol. 2017 May 29. doi: 10.1111/mmi.13721. PMID: 28557053

Kadam A, Eutsey RA, Rosch J, Miao X, Longwell M, Xu W, Woolford CA, Hillman T, Motib AS, Yesilkaya H, Mitchell AP, Hiller NL. Promiscuous signaling by a regulatory system unique to the pandemic PMEN1 pneumococcal lineage. PLoS Pathog. 2017 May 18;13(5):e1006339. doi: 10.1371/journal.ppat.1006339. eCollection 2017 May. PMID: 28542565

Mastro KJ, Zitelli KT, Willard AM, Leblanc KH, Kravitz AV, Gittis AH. Cell-specific pallidal intervention induces long-lasting motor recovery in dopamine-depleted mice. Nat Neurosci. 2017 May 8. doi: 10.1038/nn.4559. [Epub ahead of print] PMID: 28481350

Ackerman DS, Vasilev KV, Schmidt BF, Cohen LB, Jarvik JW. Tethered Fluorogen Assay to Visualize Membrane Apposition in Living Cells. Bioconjug Chem. 2017 May 17;28(5):1356-1362. doi: 10.1021/acs.bioconjchem.7b00047. Epub 2017 Apr 26. PMID: 28414915

Lagree K, Mitchell AP. Fungal Biofilms: Inside Out. Microbiol Spectr. 2017 Apr;5(2). doi: 10.1128/microbiolspec.FUNK-0024-2016. PMID: 28387175

Song L, Linstedt AD. Inhibitor of ppGalNAc-T3-mediated O-glycosylation blocks cancer cell invasiveness and lowers FGF23 levels. Elife. 2017 Mar 31;6. pii: e24051. doi: 10.7554/eLife.24051. PMID: 28362263

Mitchell AP. Location, location, location: Use of CRISPR-Cas9 for genome editing in human pathogenic fungi. PLoS Pathog. 2017 Mar 30;13(3):e1006209. doi: 10.1371/journal.ppat.1006209. eCollection 2017 Mar. PMID: 28358867

Winsor J, Hackney DD, Lee TH. The crossover conformational shift of the GTPase atlastin provides the energy driving ER fusion. J Cell Biol. 2017 May 1;216(5):1321-1335. doi: 10.1083/jcb.201609071. Epub 2017 Mar 29. PMID: 28356327

Audette NJ, Urban-Ciecko J, Matsushita M, Barth AL. POm Thalamocortical Input Drives Layer-Specific Microcircuits in Somatosensory Cortex. Cereb Cortex. 2017 Mar 10:1-17. doi: 10.1093/cercor/bhx044. [Epub ahead of print] PMID: 28334225

Huang MY, Mitchell AP. Marker Recycling in Candida albicans through CRISPR-Cas9-Induced Marker Excision. mSphere. 2017 Mar 15;2(2). pii: e00050-17. doi: 10.1128/mSphere.00050-17. eCollection 2017 Mar-Apr. PMID: 28317025

Snyder JC, Rochelle LK, Ray C, Pack TF, Bock CB, Lubkov V, Lyerly HK, Waggoner AS, Barak LS, Caron MG. Inhibiting clathrin-mediated endocytosis of the leucine-rich G protein-coupled receptor-5 diminishes cell fitness. J Biol Chem. 2017 Apr 28;292(17):7208-7222. doi: 10.1074/jbc.M116.756635. Epub 2017 Mar 8. PMID: 28275053

Shiwarski DJ, Tipton A, Giraldo MD, Schmidt BF, Gold MS, Pradhan AA, Puthenveedu MA. A PTEN-Regulated Checkpoint Controls Surface Delivery of δ Opioid Receptors. J Neurosci. 2017 Apr 5;37(14):3741-3752. doi: 10.1523/JNEUROSCI.2923-16.2017. Epub 2017 Mar 6. PMID: 28264976

Ambler R, Ruan X, Murphy RF, Wülfing C. Systems Imaging of the Immune Synapse. Methods Mol Biol. 2017;1584:409-421. doi: 10.1007/978-1-4939-6881-7_25. PMID: 28255716

Johnson GR, Kangas JD, Dovzhenko A, Trojok R, Voigt K, Majarian TD, Palme K, Murphy RF. A method for characterizing phenotypic changes in highly variable cell populations and its application to high content screening of Arabidopsis thaliana protoplasts. Cytometry A. 2017 Apr;91(4):326-335. doi: 10.1002/cyto.a.23067. Epub 2017 Feb 28. PMID: 28245335

Cary GA, Hinman VF. Echinoderm development and evolution in the post-genomic era. Dev Biol. 2017 Feb 7. pii: S0012-1606(16)30574-7. doi: 10.1016/j.ydbio.2017.02.003. [Epub ahead of print] Review. PMID: 28185788

Weinberg ZY, Zajac AS, Phan T, Shiwarski DJ, Puthenveedu MA. Sequence-Specific Regulation of Endocytic Lifetimes Modulates Arrestin-Mediated Signaling at the µ Opioid Receptor. Mol Pharmacol. 2017 Apr;91(4):416-427. doi: 10.1124/mol.116.106633. Epub 2017 Feb 2. PMID: 28153854

Wang Y, Ballou B, Schmidt BF, Andreko S, St Croix CM, Watkins SC, Bruchez MP. Affibody-targeted fluorogen activating protein for in vivo tumor imaging. Chem Commun (Camb). 2017 Feb 7;53(12):2001-2004. doi: 10.1039/c6cc09137g. PMID: 28120951

Darby CA, Stolzer M, Ropp PJ, Barker D, Durand D. Xenolog classification. Bioinformatics. 2017 Mar 1;33(5):640-649. doi: 10.1093/bioinformatics/btw686.PMID: 27998934

Lal J, Maccarini M, Fouquet P, Ho NT, Ho C, Makowski L. Modulation of hemoglobin dynamics by an allosteric effector. Protein Sci. 2017 Mar;26(3):505-514. doi: 10.1002/pro.3099. Epub 2017 Feb 14. PMID: 27977887