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Safety, pharmacokinetics, and antiviral effects of ABI-H0731, a hepatitis B virus core inhibitor: a randomised, placebo-controlled phase 1 trial.

Yuen MF, Agarwal K, Gane EJ, Schwabe C, Ahn SH, Kim DJ, Lim YS, Cheng W, Sievert W, Visvanathan K, Ruby E, Liaw S, Yan R, Huang Q, Colonno R, Lopatin U.

Lancet Gastroenterol Hepatol. 2020 Feb;5(2):152-166. doi: 10.1016/S2468-1253(19)30346-2. Epub 2019 Nov 9.


Insights into flagellar function and mechanism from the squid-vibrio symbiosis.

Aschtgen MS, Brennan CA, Nikolakakis K, Cohen S, McFall-Ngai M, Ruby EG.

NPJ Biofilms Microbiomes. 2019 Oct 25;5:32. doi: 10.1038/s41522-019-0106-5. eCollection 2019. Review.


The impact of Vibrio fischeri strain variation on host colonization.

Bongrand C, Ruby EG.

Curr Opin Microbiol. 2019 Aug;50:15-19. doi: 10.1016/j.mib.2019.09.002. Epub 2019 Oct 6. Review.


Acidic pH promotes lipopolysaccharide modification and alters colonization in a bacteria-animal mutualism.

Schwartzman JA, Lynch JB, Flores Ramos S, Zhou L, Apicella MA, Yew JY, Ruby EG.

Mol Microbiol. 2019 Oct;112(4):1326-1338. doi: 10.1111/mmi.14365. Epub 2019 Aug 27.


Ambient pH Alters the Protein Content of Outer Membrane Vesicles, Driving Host Development in a Beneficial Symbiosis.

Lynch JB, Schwartzman JA, Bennett BD, McAnulty SJ, Knop M, Nyholm SV, Ruby EG.

J Bacteriol. 2019 Sep 20;201(20). pii: e00319-19. doi: 10.1128/JB.00319-19. Print 2019 Oct 15.


Less fit Lamium amplexicaule plants produce more dispersible seeds.

Zinger E, Gueijman A, Obolski U, Ram Y, Ruby E, Binder M, Yechieli N, Ohad N, Hadany L.

Sci Rep. 2019 Apr 19;9(1):6299. doi: 10.1038/s41598-019-42158-1.


Critical symbiont signals drive both local and systemic changes in diel and developmental host gene expression.

Moriano-Gutierrez S, Koch EJ, Bussan H, Romano K, Belcaid M, Rey FE, Ruby EG, McFall-Ngai MJ.

Proc Natl Acad Sci U S A. 2019 Apr 16;116(16):7990-7999. doi: 10.1073/pnas.1819897116. Epub 2019 Mar 4.


Cross-Domain Association in Metacognitive Efficiency Depends on First-Order Task Types.

Lee ALF, Ruby E, Giles N, Lau H.

Front Psychol. 2018 Dec 4;9:2464. doi: 10.3389/fpsyg.2018.02464. eCollection 2018.


Comment on: What are the Social Causes of Rational Suicide in Older Adults?

Reines E, Ruby E, Kligler R.

J Am Geriatr Soc. 2019 Feb;67(2):407. doi: 10.1111/jgs.15703. Epub 2018 Dec 2. No abstract available.


Achieving a multi-strain symbiosis: strain behavior and infection dynamics.

Bongrand C, Ruby EG.

ISME J. 2019 Mar;13(3):698-706. doi: 10.1038/s41396-018-0305-8. Epub 2018 Oct 23.


Persistent Interactions with Bacterial Symbionts Direct Mature-Host Cell Morphology and Gene Expression in the Squid-Vibrio Symbiosis.

Kremer N, Koch EJ, El Filali A, Zhou L, Heath-Heckman EAC, Ruby EG, McFall-Ngai MJ.

mSystems. 2018 Oct 2;3(5). pii: e00165-18. doi: 10.1128/mSystems.00165-18. eCollection 2018 Sep-Oct.


The model squid-vibrio symbiosis provides a window into the impact of strain- and species-level differences during the initial stages of symbiont engagement.

Koehler S, Gaedeke R, Thompson C, Bongrand C, Visick KL, Ruby E, McFall-Ngai M.

Environ Microbiol. 2018 Aug 22. doi: 10.1111/1462-2920.14392. [Epub ahead of print]


On a 'failed' attempt to manipulate visual metacognition with transcranial magnetic stimulation to prefrontal cortex.

Ruby E, Maniscalco B, Peters MAK.

Conscious Cogn. 2018 Jul;62:34-41. doi: 10.1016/j.concog.2018.04.009. Epub 2018 Apr 30.


Telomere length and early trauma in schizophrenia.

Riley G, Perrin M, Vaez-Azizi LM, Ruby E, Goetz RR, Dracxler R, Walsh-Messinger J, Keefe DL, Buckley PF, Szeszko PR, Malaspina D.

Schizophr Res. 2018 Sep;199:426-430. doi: 10.1016/j.schres.2018.02.059. Epub 2018 Apr 2.


Effectiveness of ravidasvir plus sofosbuvir in interferon-naïve and treated patients with chronic hepatitis C genotype-4.

Esmat G, Elbaz T, El Raziky M, Gomaa A, Abouelkhair M, Gamal El Deen H, Sabry A, Ashour M, Allam N, Abdel-Hamid M, Nada O, Helmy S, Abdel-Maguid H, Colonno R, Brown N, Ruby E, Vig P, Waked I.

J Hepatol. 2017 Sep 19. pii: S0168-8278(17)32286-9. doi: 10.1016/j.jhep.2017.09.006. [Epub ahead of print]


Motile cilia create fluid-mechanical microhabitats for the active recruitment of the host microbiome.

Nawroth JC, Guo H, Koch E, Heath-Heckman EAC, Hermanson JC, Ruby EG, Dabiri JO, Kanso E, McFall-Ngai M.

Proc Natl Acad Sci U S A. 2017 Sep 5;114(36):9510-9516. doi: 10.1073/pnas.1706926114. Epub 2017 Aug 23.


Model-enabled gene search (MEGS) allows fast and direct discovery of enzymatic and transport gene functions in the marine bacterium Vibrio fischeri.

Pan S, Nikolakakis K, Adamczyk PA, Pan M, Ruby EG, Reed JL.

J Biol Chem. 2017 Jun 16;292(24):10250-10261. doi: 10.1074/jbc.M116.763193. Epub 2017 Apr 26.


Bactericidal Permeability-Increasing Proteins Shape Host-Microbe Interactions.

Chen F, Krasity BC, Peyer SM, Koehler S, Ruby EG, Zhang X, McFall-Ngai MJ.

mBio. 2017 Apr 4;8(2). pii: e00040-17. doi: 10.1128/mBio.00040-17.


Transcriptional characterization of Vibrio fischeri during colonization of juvenile Euprymna scolopes.

Thompson LR, Nikolakakis K, Pan S, Reed J, Knight R, Ruby EG.

Environ Microbiol. 2017 May;19(5):1845-1856. doi: 10.1111/1462-2920.13684. Epub 2017 Mar 21.


Rotation of Vibrio fischeri Flagella Produces Outer Membrane Vesicles That Induce Host Development.

Aschtgen MS, Lynch JB, Koch E, Schwartzman J, McFall-Ngai M, Ruby E.

J Bacteriol. 2016 Jul 28;198(16):2156-65. doi: 10.1128/JB.00101-16. Print 2016 Aug 15.


A genomic comparison of 13 symbiotic Vibrio fischeri isolates from the perspective of their host source and colonization behavior.

Bongrand C, Koch EJ, Moriano-Gutierrez S, Cordero OX, McFall-Ngai M, Polz MF, Ruby EG.

ISME J. 2016 Dec;10(12):2907-2917. doi: 10.1038/ismej.2016.69. Epub 2016 Apr 29.


Stress as a Normal Cue in the Symbiotic Environment.

Schwartzman JA, Ruby EG.

Trends Microbiol. 2016 May;24(5):414-424. doi: 10.1016/j.tim.2016.02.012. Epub 2016 Mar 20. Review.


Diverse high-torque bacterial flagellar motors assemble wider stator rings using a conserved protein scaffold.

Beeby M, Ribardo DA, Brennan CA, Ruby EG, Jensen GJ, Hendrixson DR.

Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):E1917-26. doi: 10.1073/pnas.1518952113. Epub 2016 Mar 14. Erratum in: Proc Natl Acad Sci U S A. 2016 May 10;113(19):E2759.


Tools for the Microbiome: Nano and Beyond.

Biteen JS, Blainey PC, Cardon ZG, Chun M, Church GM, Dorrestein PC, Fraser SE, Gilbert JA, Jansson JK, Knight R, Miller JF, Ozcan A, Prather KA, Quake SR, Ruby EG, Silver PA, Taha S, van den Engh G, Weiss PS, Wong GC, Wright AT, Young TD.

ACS Nano. 2016 Jan 26;10(1):6-37. doi: 10.1021/acsnano.5b07826. Epub 2015 Dec 22. Review.


Characterization of the Vibrio fischeri Fatty Acid Chemoreceptors, VfcB and VfcB2.

Nikolakakis K, Monfils K, Moriano-Gutierrez S, Brennan CA, Ruby EG.

Appl Environ Microbiol. 2015 Nov 13;82(2):696-704. doi: 10.1128/AEM.02856-15. Print 2016 Jan 15.


MICROBIOME. A unified initiative to harness Earth's microbiomes.

Alivisatos AP, Blaser MJ, Brodie EL, Chun M, Dangl JL, Donohue TJ, Dorrestein PC, Gilbert JA, Green JL, Jansson JK, Knight R, Maxon ME, McFall-Ngai MJ, Miller JF, Pollard KS, Ruby EG, Taha SA; Unified Microbiome Initiative Consortium.

Science. 2015 Oct 30;350(6260):507-8. doi: 10.1126/science.aac8480. Epub 2015 Oct 28. No abstract available.


Vibrio fischeri-derived outer membrane vesicles trigger host development.

Aschtgen MS, Wetzel K, Goldman W, McFall-Ngai M, Ruby E.

Cell Microbiol. 2016 Apr;18(4):488-99. doi: 10.1111/cmi.12525. Epub 2015 Oct 23.


A conserved chemical dialog of mutualism: lessons from squid and vibrio.

Schwartzman JA, Ruby EG.

Microbes Infect. 2016 Jan;18(1):1-10. doi: 10.1016/j.micinf.2015.08.016. Epub 2015 Sep 15. Review.


A Single Host-Derived Glycan Impacts Key Regulatory Nodes of Symbiont Metabolism in a Coevolved Mutualism.

Pan M, Schwartzman JA, Dunn AK, Lu Z, Ruby EG.

mBio. 2015 Jul 14;6(4):e00811. doi: 10.1128/mBio.00811-15.


Use of Hybridization Chain Reaction-Fluorescent In Situ Hybridization To Track Gene Expression by Both Partners during Initiation of Symbiosis.

Nikolakakis K, Lehnert E, McFall-Ngai MJ, Ruby EG.

Appl Environ Microbiol. 2015 Jul;81(14):4728-35. doi: 10.1128/AEM.00890-15. Epub 2015 May 8.


Telomere length variability is related to symptoms and cognition in schizophrenia.

Vaez-Azizi LM, Ruby E, Dracxler R, Rothman K, Perrin M, Walsh-Messinger J, Antonius D, Goetz RR, Goetz DM, Keefe DL, Malaspina D.

Schizophr Res. 2015 May;164(1-3):268-9. doi: 10.1016/j.schres.2015.03.011. Epub 2015 Apr 1. No abstract available.


Influence of early trauma on features of schizophrenia.

Ruby E, Rothman K, Corcoran C, Goetz RR, Malaspina D.

Early Interv Psychiatry. 2017 Aug;11(4):322-333. doi: 10.1111/eip.12239. Epub 2015 Mar 23.


The chemistry of negotiation: rhythmic, glycan-driven acidification in a symbiotic conversation.

Schwartzman JA, Koch E, Heath-Heckman EA, Zhou L, Kremer N, McFall-Ngai MJ, Ruby EG.

Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):566-71. doi: 10.1073/pnas.1418580112. Epub 2014 Dec 30.


Pathways Associating Childhood Trauma to the Neurobiology of Schizophrenia.

Ruby E, Polito S, McMahon K, Gorovitz M, Corcoran C, Malaspina D.

Front Psychol Behav Sci. 2014 Jan 1;3(1):1-17.


The putative oligosaccharide translocase SypK connects biofilm formation with quorum signaling in Vibrio fischeri.

Miyashiro T, Oehlert D, Ray VA, Visick KL, Ruby EG.

Microbiologyopen. 2014 Dec;3(6):836-48. doi: 10.1002/mbo3.199. Epub 2014 Sep 25.


The dual nature of haemocyanin in the establishment and persistence of the squid-vibrio symbiosis.

Kremer N, Schwartzman J, Augustin R, Zhou L, Ruby EG, Hourdez S, McFall-Ngai MJ.

Proc Biol Sci. 2014 May 7;281(1785):20140504. doi: 10.1098/rspb.2014.0504. Print 2014 Jun 22.


A model symbiosis reveals a role for sheathed-flagellum rotation in the release of immunogenic lipopolysaccharide.

Brennan CA, Hunt JR, Kremer N, Krasity BC, Apicella MA, McFall-Ngai MJ, Ruby EG.

Elife. 2014 Mar 4;3:e01579. doi: 10.7554/eLife.01579.


Non-native acylated homoserine lactones reveal that LuxIR quorum sensing promotes symbiont stability.

Studer SV, Schwartzman JA, Ho JS, Geske GD, Blackwell HE, Ruby EG.

Environ Microbiol. 2014 Aug;16(8):2623-2634. doi: 10.1111/1462-2920.12322. Epub 2013 Nov 28.


Features governing symbiont persistence in the squid-vibrio association.

Koch EJ, Miyashiro T, McFall-Ngai MJ, Ruby EG.

Mol Ecol. 2014 Mar;23(6):1624-34. doi: 10.1111/mec.12474. Epub 2013 Oct 1.


Initial symbiont contact orchestrates host-organ-wide transcriptional changes that prime tissue colonization.

Kremer N, Philipp EE, Carpentier MC, Brennan CA, Kraemer L, Altura MA, Augustin R, Häsler R, Heath-Heckman EA, Peyer SM, Schwartzman J, Rader BA, Ruby EG, Rosenstiel P, McFall-Ngai MJ.

Cell Host Microbe. 2013 Aug 14;14(2):183-94. doi: 10.1016/j.chom.2013.07.006.


Genetic determinants of swimming motility in the squid light-organ symbiont Vibrio fischeri.

Brennan CA, Mandel MJ, Gyllborg MC, Thomasgard KA, Ruby EG.

Microbiologyopen. 2013 Aug;2(4):576-94. doi: 10.1002/mbo3.96. Epub 2013 Jun 12.


Prevention of suicidal behavior in adolescents with post-traumatic stress disorder.

Ruby E, Sher L.

Int J Adolesc Med Health. 2013;25(3):283-93. doi: 10.1515/ijamh-2013-0064. Review.


The first engagement of partners in the Euprymna scolopes-Vibrio fischeri symbiosis is a two-step process initiated by a few environmental symbiont cells.

Altura MA, Heath-Heckman EA, Gillette A, Kremer N, Krachler AM, Brennan C, Ruby EG, Orth K, McFall-Ngai MJ.

Environ Microbiol. 2013 Nov;15(11):2937-50. doi: 10.1111/1462-2920.12179. Epub 2013 Jul 3.


Animals in a bacterial world, a new imperative for the life sciences.

McFall-Ngai M, Hadfield MG, Bosch TC, Carey HV, Domazet-Lošo T, Douglas AE, Dubilier N, Eberl G, Fukami T, Gilbert SF, Hentschel U, King N, Kjelleberg S, Knoll AH, Kremer N, Mazmanian SK, Metcalf JL, Nealson K, Pierce NE, Rawls JF, Reid A, Ruby EG, Rumpho M, Sanders JG, Tautz D, Wernegreen JJ.

Proc Natl Acad Sci U S A. 2013 Feb 26;110(9):3229-36. doi: 10.1073/pnas.1218525110. Epub 2013 Feb 7. Review.


Squid-derived chitin oligosaccharides are a chemotactic signal during colonization by Vibrio fischeri.

Mandel MJ, Schaefer AL, Brennan CA, Heath-Heckman EA, Deloney-Marino CR, McFall-Ngai MJ, Ruby EG.

Appl Environ Microbiol. 2012 Jul;78(13):4620-6. doi: 10.1128/AEM.00377-12. Epub 2012 Apr 20.


Shedding light on bioluminescence regulation in Vibrio fischeri.

Miyashiro T, Ruby EG.

Mol Microbiol. 2012 Jun;84(5):795-806. doi: 10.1111/j.1365-2958.2012.08065.x. Epub 2012 May 2.


O-antigen and core carbohydrate of Vibrio fischeri lipopolysaccharide: composition and analysis of their role in Euprymna scolopes light organ colonization.

Post DM, Yu L, Krasity BC, Choudhury B, Mandel MJ, Brennan CA, Ruby EG, McFall-Ngai MJ, Gibson BW, Apicella MA.

J Biol Chem. 2012 Mar 9;287(11):8515-30. doi: 10.1074/jbc.M111.324012. Epub 2012 Jan 13.


The novel sigma factor-like regulator RpoQ controls luminescence, chitinase activity, and motility in Vibrio fischeri.

Cao X, Studer SV, Wassarman K, Zhang Y, Ruby EG, Miyashiro T.

mBio. 2012 Jan 10;3(1). pii: e00285-11. doi: 10.1128/mBio.00285-11. Print 2012.


The N-acetyl-D-glucosamine repressor NagC of Vibrio fischeri facilitates colonization of Euprymna scolopes.

Miyashiro T, Klein W, Oehlert D, Cao X, Schwartzman J, Ruby EG.

Mol Microbiol. 2011 Nov;82(4):894-903. doi: 10.1111/j.1365-2958.2011.07858.x. Epub 2011 Oct 12.


Polyphyly of non-bioluminescent Vibrio fischeri sharing a lux-locus deletion.

Wollenberg MS, Preheim SP, Polz MF, Ruby EG.

Environ Microbiol. 2012 Mar;14(3):655-68. doi: 10.1111/j.1462-2920.2011.02608.x. Epub 2011 Oct 9.

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