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Report of the 2018-2019 Research and Graduate Affairs Committee.

O'Donnell JM, Anand S, Brown SD, Fuji KT, Guy RK, Kawaguchi-Suzuki M, Meier KE, Nelson CE, Vyas A, Block KF, Farrell DF.

Am J Pharm Educ. 2019 Dec;83(10):7595. doi: 10.5688/ajpe7595.


Species-Specific Differences in the Microbiomes and Organic Exudates of Crustose Coralline Algae Influence Bacterioplankton Communities.

Quinlan ZA, Ritson-Williams R, Carroll BJ, Carlson CA, Nelson CE.

Front Microbiol. 2019 Nov 8;10:2397. doi: 10.3389/fmicb.2019.02397. eCollection 2019.


Targeted transcriptional modulation with type I CRISPR-Cas systems in human cells.

Pickar-Oliver A, Black JB, Lewis MM, Mutchnick KJ, Klann TS, Gilcrest KA, Sitton MJ, Nelson CE, Barrera A, Bartelt LC, Reddy TE, Beisel CL, Barrangou R, Gersbach CA.

Nat Biotechnol. 2019 Dec;37(12):1493-1501. doi: 10.1038/s41587-019-0235-7. Epub 2019 Sep 23.


Robust Iterative Stimulation with Self-Antigens Overcomes CD8+ T Cell Tolerance to Self- and Tumor Antigens.

Nelson CE, Thompson EA, Quarnstrom CF, Fraser KA, Seelig DM, Bhela S, Burbach BJ, Masopust D, Vezys V.

Cell Rep. 2019 Sep 17;28(12):3092-3104.e5. doi: 10.1016/j.celrep.2019.08.038.


Case Series: Redefining Severe Grade 5 Vaginismus.

Pacik PT, Babb CR, Polio A, Nelson CE, Goekeler CE, Holmes LN.

Sex Med. 2019 Dec;7(4):489-497. doi: 10.1016/j.esxm.2019.07.006. Epub 2019 Aug 28.


Diel population and functional synchrony of microbial communities on coral reefs.

Kelly LW, Nelson CE, Haas AF, Naliboff DS, Calhoun S, Carlson CA, Edwards RA, Fox MD, Hatay M, Johnson MD, Kelly ELA, Lim YW, Macherla S, Quinlan ZA, Silva GGZ, Vermeij MJA, Zgliczynski B, Sandin SA, Smith JE, Rohwer F.

Nat Commun. 2019 Apr 12;10(1):1691. doi: 10.1038/s41467-019-09419-z.


Proteomic Analysis of the Pseudomonas aeruginosa Iron Starvation Response Reveals PrrF Small Regulatory RNA-Dependent Iron Regulation of Twitching Motility, Amino Acid Metabolism, and Zinc Homeostasis Proteins.

Nelson CE, Huang W, Brewer LK, Nguyen AT, Kane MA, Wilks A, Oglesby-Sherrouse AG.

J Bacteriol. 2019 May 22;201(12). pii: e00754-18. doi: 10.1128/JB.00754-18. Print 2019 Jun 15.


Long-term evaluation of AAV-CRISPR genome editing for Duchenne muscular dystrophy.

Nelson CE, Wu Y, Gemberling MP, Oliver ML, Waller MA, Bohning JD, Robinson-Hamm JN, Bulaklak K, Castellanos Rivera RM, Collier JH, Asokan A, Gersbach CA.

Nat Med. 2019 Mar;25(3):427-432. doi: 10.1038/s41591-019-0344-3. Epub 2019 Feb 18.


Evolution education is a complex landscape.

Dunk RDP, Barnes ME, Reiss MJ, Alters B, Asghar A, Carter BE, Cotner S, Glaze AL, Hawley PH, Jensen JL, Mead LS, Nadelson LS, Nelson CE, Pobiner B, Scott EC, Shtulman A, Sinatra GM, Southerland SA, Walter EM, Brownell SE, Wiles JR.

Nat Ecol Evol. 2019 Mar;3(3):327-329. doi: 10.1038/s41559-019-0802-9. No abstract available.


Virus-specific memory T cells populate tumors and can be repurposed for tumor immunotherapy.

Rosato PC, Wijeyesinghe S, Stolley JM, Nelson CE, Davis RL, Manlove LS, Pennell CA, Blazar BR, Chen CC, Geller MA, Vezys V, Masopust D.

Nat Commun. 2019 Feb 4;10(1):567. doi: 10.1038/s41467-019-08534-1.


Reprogramming responsiveness to checkpoint blockade in dysfunctional CD8 T cells.

Nelson CE, Mills LJ, McCurtain JL, Thompson EA, Seelig DM, Bhela S, Quarnstrom CF, Fife BT, Vezys V.

Proc Natl Acad Sci U S A. 2019 Feb 12;116(7):2640-2645. doi: 10.1073/pnas.1810326116. Epub 2019 Jan 24.


Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data.

Wang T, Li B, Nelson CE, Nabavi S.

BMC Bioinformatics. 2019 Jan 18;20(1):40. doi: 10.1186/s12859-019-2599-6.


The human innate immune protein calprotectin induces iron starvation responses in Pseudomonas aeruginosa.

Zygiel EM, Nelson CE, Brewer LK, Oglesby-Sherrouse AG, Nolan EM.

J Biol Chem. 2019 Mar 8;294(10):3549-3562. doi: 10.1074/jbc.RA118.006819. Epub 2019 Jan 8.


AAV CRISPR editing rescues cardiac and muscle function for 18 months in dystrophic mice.

Hakim CH, Wasala NB, Nelson CE, Wasala LP, Yue Y, Louderman JA, Lessa TB, Dai A, Zhang K, Jenkins GJ, Nance ME, Pan X, Kodippili K, Yang NN, Chen SJ, Gersbach CA, Duan D.

JCI Insight. 2018 Dec 6;3(23). pii: 124297. doi: 10.1172/jci.insight.124297.


Elevated pCO2 alters marine heterotrophic bacterial community composition and metabolic potential in response to a pulse of phytoplankton organic matter.

James AK, Kelly LW, Nelson CE, Wilbanks EG, Carlson CA.

Environ Microbiol. 2019 Feb;21(2):541-556. doi: 10.1111/1462-2920.14484. Epub 2019 Jan 21.


The effects of food stoichiometry and temperature on copepods are mediated by ontogeny.

Mathews L, Faithfull CL, Lenz PH, Nelson CE.

Oecologia. 2018 Sep;188(1):75-84. doi: 10.1007/s00442-018-4183-6. Epub 2018 Jun 13.


Ultrasound features of purulent skin and soft tissue infection without abscess.

Nelson CE, Chen AE, Bellah RD, Biko DM, Ho-Fung VM, Francavilla ML, Xiao R, Kaplan SL.

Emerg Radiol. 2018 Oct;25(5):505-511. doi: 10.1007/s10140-018-1612-0. Epub 2018 Jun 6.


Nutrient pollution disrupts key ecosystem functions on coral reefs.

Silbiger NJ, Nelson CE, Remple K, Sevilla JK, Quinlan ZA, Putnam HM, Fox MD, Donahue MJ.

Proc Biol Sci. 2018 Jun 13;285(1880). pii: 20172718. doi: 10.1098/rspb.2017.2718.


RNA-guided transcriptional silencing in vivo with S. aureus CRISPR-Cas9 repressors.

Thakore PI, Kwon JB, Nelson CE, Rouse DC, Gemberling MP, Oliver ML, Gersbach CA.

Nat Commun. 2018 Apr 26;9(1):1674. doi: 10.1038/s41467-018-04048-4.


Ecosystem Microbiology of Coral Reefs: Linking Genomic, Metabolomic, and Biogeochemical Dynamics from Animal Symbioses to Reefscape Processes.

Wegley Kelly L, Haas AF, Nelson CE.

mSystems. 2018 Mar 13;3(2). pii: e00162-17. doi: 10.1128/mSystems.00162-17. eCollection 2018 Mar-Apr.


Synergy among Microbiota and Their Hosts: Leveraging the Hawaiian Archipelago and Local Collaborative Networks To Address Pressing Questions in Microbiome Research.

Hynson NA, Frank KL, Alegado RA, Amend AS, Arif M, Bennett GM, Jani AJ, Medeiros MCI, Mileyko Y, Nelson CE, Nguyen NH, Nigro OD, Prisic S, Shin S, Takagi D, Wilson ST, Yew JY.

mSystems. 2018 Mar 13;3(2). pii: e00159-17. doi: 10.1128/mSystems.00159-17. eCollection 2018 Mar-Apr.


Primer selection impacts specific population abundances but not community dynamics in a monthly time-series 16S rRNA gene amplicon analysis of coastal marine bacterioplankton.

Wear EK, Wilbanks EG, Nelson CE, Carlson CA.

Environ Microbiol. 2018 Aug;20(8):2709-2726. doi: 10.1111/1462-2920.14091. Epub 2018 Apr 6.


In vitro and in vivo characterization of three Cellvibrio japonicus glycoside hydrolase family 5 members reveals potent xyloglucan backbone-cleaving functions.

Attia MA, Nelson CE, Offen WA, Jain N, Davies GJ, Gardner JG, Brumer H.

Biotechnol Biofuels. 2018 Feb 17;11:45. doi: 10.1186/s13068-018-1039-6. eCollection 2018.


Management of Skin and Soft-Tissue Infections Before and After Clinical Pathway Implementation.

Nelson CE, Chen A, McAndrew L, Tay KY, Balamuth F.

Clin Pediatr (Phila). 2018 Jun;57(6):660-666. doi: 10.1177/0009922817738329. Epub 2017 Oct 30.


Comprehensive functional characterization of the glycoside hydrolase family 3 enzymes from Cellvibrio japonicus reveals unique metabolic roles in biomass saccharification.

Nelson CE, Attia MA, Rogowski A, Morland C, Brumer H, Gardner JG.

Environ Microbiol. 2017 Dec;19(12):5025-5039. doi: 10.1111/1462-2920.13959. Epub 2017 Dec 7.


Utilization of Antipyretics for Nonurgent Fever in a Pediatric Emergency Department.

Nelson CE, Ostapenko S, Zorc JJ, Balamuth F.

Clin Pediatr (Phila). 2018 Jun;57(6):722-726. doi: 10.1177/0009922817734356. Epub 2017 Oct 9.


Neurochemical Heterogeneity Among Lateral Hypothalamic Hypocretin/Orexin and Melanin-Concentrating Hormone Neurons Identified Through Single-Cell Gene Expression Analysis.

Mickelsen LE, Kolling FW 4th, Chimileski BR, Fujita A, Norris C, Chen K, Nelson CE, Jackson AC.

eNeuro. 2017 Sep 22;4(5). pii: ENEURO.0013-17.2017. doi: 10.1523/ENEURO.0013-17.2017. eCollection 2017 Sep-Oct.


Genome engineering: a new approach to gene therapy for neuromuscular disorders.

Nelson CE, Robinson-Hamm JN, Gersbach CA.

Nat Rev Neurol. 2017 Nov;13(11):647-661. doi: 10.1038/nrneurol.2017.126. Epub 2017 Sep 29. Review.


A Teenager With Sickle Cell Disease and Scalp Swelling.

Nelson CE, Scarfone RJ.

Pediatr Emerg Care. 2018 Sep;34(9):e168-e170. doi: 10.1097/PEC.0000000000001295.


Sonographically Occult Abscesses of the Buttock and Perineum in Children.

Nelson CE, Kaplan S, Bellah RD, Chen AE.

Pediatr Emerg Care. 2017 Sep 25. doi: 10.1097/PEC.0000000000001294. [Epub ahead of print]


Generation and comparison of CRISPR-Cas9 and Cre-mediated genetically engineered mouse models of sarcoma.

Huang J, Chen M, Whitley MJ, Kuo HC, Xu ES, Walens A, Mowery YM, Van Mater D, Eward WC, Cardona DM, Luo L, Ma Y, Lopez OM, Nelson CE, Robinson-Hamm JN, Reddy A, Dave SS, Gersbach CA, Dodd RD, Kirsch DG.

Nat Commun. 2017 Jul 10;8:15999. doi: 10.1038/ncomms15999.


Survey of Hand and Upper Extremity Injuries Among Rock Climbers.

Nelson CE, Rayan GM, Judd DI, Ding K, Stoner JA.

Hand (N Y). 2017 Jul;12(4):389-394. doi: 10.1177/1558944716679600. Epub 2016 Dec 27.


Cascading influence of inorganic nitrogen sources on DOM production, composition, lability and microbial community structure in the open ocean.

Goldberg SJ, Nelson CE, Viviani DA, Shulse CN, Church MJ.

Environ Microbiol. 2017 Sep;19(9):3450-3464. doi: 10.1111/1462-2920.13825. Epub 2017 Aug 14.


Correspondence of coral holobiont metabolome with symbiotic bacteria, archaea and Symbiodinium communities.

Sogin EM, Putnam HM, Nelson CE, Anderson P, Gates RD.

Environ Microbiol Rep. 2017 Jun;9(3):310-315. doi: 10.1111/1758-2229.12541. Epub 2017 May 9.


EphA4 Regulates Neuroblast and Astrocyte Organization in a Neurogenic Niche.

Todd KL, Baker KL, Eastman MB, Kolling FW, Trausch AG, Nelson CE, Conover JC.

J Neurosci. 2017 Mar 22;37(12):3331-3341. doi: 10.1523/JNEUROSCI.3738-16.2017. Epub 2017 Mar 3.


Systems analysis in Cellvibrio japonicus resolves predicted redundancy of β-glucosidases and determines essential physiological functions.

Nelson CE, Rogowski A, Morland C, Wilhide JA, Gilbert HJ, Gardner JG.

Mol Microbiol. 2017 Apr;104(2):294-305. doi: 10.1111/mmi.13625. Epub 2017 Feb 28.


Local Delivery of PHD2 siRNA from ROS-Degradable Scaffolds to Promote Diabetic Wound Healing.

Martin JR, Nelson CE, Gupta MK, Yu F, Sarett SM, Hocking KM, Pollins AC, Nanney LB, Davidson JM, Guelcher SA, Duvall CL.

Adv Healthc Mater. 2016 Nov;5(21):2751-2757. doi: 10.1002/adhm.201600820. Epub 2016 Sep 26.


Custom fabrication of biomass containment devices using 3-D printing enables bacterial growth analyses with complex insoluble substrates.

Nelson CE, Beri NR, Gardner JG.

J Microbiol Methods. 2016 Nov;130:136-143. doi: 10.1016/j.mimet.2016.09.013. Epub 2016 Sep 21.


Using viromes to predict novel immune proteins in non-model organisms.

Quistad SD, Lim YW, Silva GG, Nelson CE, Haas AF, Kelly LW, Edwards RA, Rohwer FL.

Proc Biol Sci. 2016 Aug 31;283(1837). pii: 20161200. doi: 10.1098/rspb.2016.1200.


Global microbialization of coral reefs.

Haas AF, Fairoz MF, Kelly LW, Nelson CE, Dinsdale EA, Edwards RA, Giles S, Hatay M, Hisakawa N, Knowles B, Lim YW, Maughan H, Pantos O, Roach TN, Sanchez SE, Silveira CB, Sandin S, Smith JE, Rohwer F.

Nat Microbiol. 2016 Apr 25;1(6):16042. doi: 10.1038/nmicrobiol.2016.42.


Engineering Delivery Vehicles for Genome Editing.

Nelson CE, Gersbach CA.

Annu Rev Chem Biomol Eng. 2016 Jun 7;7:637-62. doi: 10.1146/annurev-chembioeng-080615-034711. Epub 2016 Apr 21. Review.


Cas9 loosens its grip on off-target sites.

Nelson CE, Gersbach CA.

Nat Biotechnol. 2016 Mar;34(3):298-9. doi: 10.1038/nbt.3501. No abstract available.


Shortened Intervals during Heterologous Boosting Preserve Memory CD8 T Cell Function but Compromise Longevity.

Thompson EA, Beura LK, Nelson CE, Anderson KG, Vezys V.

J Immunol. 2016 Apr 1;196(7):3054-63. doi: 10.4049/jimmunol.1501797. Epub 2016 Feb 22.


Structural and Functional Analysis of a Lytic Polysaccharide Monooxygenase Important for Efficient Utilization of Chitin in Cellvibrio japonicus.

Forsberg Z, Nelson CE, Dalhus B, Mekasha S, Loose JS, Crouch LI, Røhr ÅK, Gardner JG, Eijsink VG, Vaaje-Kolstad G.

J Biol Chem. 2016 Apr 1;291(14):7300-12. doi: 10.1074/jbc.M115.700161. Epub 2016 Feb 8.


In vivo genome editing improves muscle function in a mouse model of Duchenne muscular dystrophy.

Nelson CE, Hakim CH, Ousterout DG, Thakore PI, Moreb EA, Castellanos Rivera RM, Madhavan S, Pan X, Ran FA, Yan WX, Asokan A, Zhang F, Duan D, Gersbach CA.

Science. 2016 Jan 22;351(6271):403-7. doi: 10.1126/science.aad5143. Epub 2015 Dec 31.


Hydrolytic charge-reversal of PEGylated polyplexes enhances intracellular un-packaging and activity of siRNA.

Werfel TA, Swain C, Nelson CE, Kilchrist KV, Evans BC, Miteva M, Duvall CL.

J Biomed Mater Res A. 2016 Apr;104(4):917-27. doi: 10.1002/jbm.a.35629. Epub 2016 Jan 11.


Technologies for controlled, local delivery of siRNA.

Sarett SM, Nelson CE, Duvall CL.

J Control Release. 2015 Nov 28;218:94-113. doi: 10.1016/j.jconrel.2015.09.066. Review.


In-Frame Deletions Allow Functional Characterization of Complex Cellulose Degradation Phenotypes in Cellvibrio japonicus.

Nelson CE, Gardner JG.

Appl Environ Microbiol. 2015 Sep 1;81(17):5968-75. doi: 10.1128/AEM.00847-15. Epub 2015 Jun 26.


Electronic prescription writing errors in the pediatric emergency department.

Nelson CE, Selbst SM.

Pediatr Emerg Care. 2015 May;31(5):368-72. doi: 10.1097/PEC.0000000000000428. No abstract available.


Cutting edge: identification of autoreactive CD4+ and CD8+ T cell subsets resistant to PD-1 pathway blockade.

Pauken KE, Nelson CE, Martinov T, Spanier JA, Heffernan JR, Sahli NL, Quarnstrom CF, Osum KC, Schenkel JM, Jenkins MK, Blazar BR, Vezys V, Fife BT.

J Immunol. 2015 Apr 15;194(8):3551-3555. doi: 10.4049/jimmunol.1402262. Epub 2015 Mar 13.

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