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Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat.

Lee JZ, Everroad RC, Karaoz U, Detweiler AM, Pett-Ridge J, Weber PK, Prufert-Bebout L, Bebout BM.

PLoS One. 2018 Sep 11;13(9):e0202792. doi: 10.1371/journal.pone.0202792. eCollection 2018.


Attachment between heterotrophic bacteria and microalgae influences symbiotic microscale interactions.

Samo TJ, Kimbrel JA, Nilson DJ, Pett-Ridge J, Weber PK, Mayali X.

Environ Microbiol. 2018 Dec;20(12):4385-4400. doi: 10.1111/1462-2920.14357. Epub 2018 Oct 24.


Cholesterol is enriched in the sphingolipid patches on the substrate near nonpolarized MDCK cells, but not in the sphingolipid domains in their plasma membranes.

Yeager AN, Weber PK, Kraft ML.

Biochim Biophys Acta Biomembr. 2018 Oct;1860(10):2004-2011. doi: 10.1016/j.bbamem.2018.04.008. Epub 2018 Apr 22.


Quantitative isotope incorporation reveals substrate partitioning in a coastal microbial community.

Mayali X, Weber PK.

FEMS Microbiol Ecol. 2018 May 1;94(5). doi: 10.1093/femsec/fiy047.


Multimodal LA-ICP-MS and nanoSIMS imaging enables copper mapping within photoreceptor megamitochondria in a zebrafish model of Menkes disease.

Ackerman CM, Weber PK, Xiao T, Thai B, Kuo TJ, Zhang E, Pett-Ridge J, Chang CJ.

Metallomics. 2018 Mar 1;10(3):474-485. doi: 10.1039/c7mt00349h. Epub 2018 Mar 6.


High Initial Sputter Rate Found for Vaccinia Virions Using Isotopic Labeling, NanoSIMS, and AFM.

Gates SD, Condit RC, Moussatche N, Stewart BJ, Malkin AJ, Weber PK.

Anal Chem. 2018 Feb 6;90(3):1613-1620. doi: 10.1021/acs.analchem.7b02786. Epub 2018 Jan 19.


Metagenomic analysis of intertidal hypersaline microbial mats from Elkhorn Slough, California, grown with and without molybdate.

D'haeseleer P, Lee JZ, Prufert-Bebout L, Burow LC, Detweiler AM, Weber PK, Karaoz U, Brodie EL, Glavina Del Rio T, Tringe SG, Bebout BM, Pett-Ridge J.

Stand Genomic Sci. 2017 Nov 15;12:67. doi: 10.1186/s40793-017-0279-6. eCollection 2017.


Phylogenetically conserved resource partitioning in the coastal microbial loop.

Bryson S, Li Z, Chavez F, Weber PK, Pett-Ridge J, Hettich RL, Pan C, Mayali X, Mueller RS.

ISME J. 2017 Dec;11(12):2781-2792. doi: 10.1038/ismej.2017.128. Epub 2017 Aug 11.


Hydrogen self-diffusion in single crystal olivine and electrical conductivity of the Earth's mantle.

Novella D, Jacobsen B, Weber PK, Tyburczy JA, Ryerson FJ, Du Frane WL.

Sci Rep. 2017 Jul 13;7(1):5344. doi: 10.1038/s41598-017-05113-6.


Elevated temperature increases carbon and nitrogen fluxes between phytoplankton and heterotrophic bacteria through physical attachment.

Arandia-Gorostidi N, Weber PK, Alonso-Sáez L, Morán XA, Mayali X.

ISME J. 2017 Mar;11(3):641-650. doi: 10.1038/ismej.2016.156. Epub 2016 Dec 6.


Tracking microbial interactions with NanoSIMS.

Musat N, Musat F, Weber PK, Pett-Ridge J.

Curr Opin Biotechnol. 2016 Oct;41:114-121. doi: 10.1016/j.copbio.2016.06.007. Epub 2016 Jul 12. Review.


Light Regimes Shape Utilization of Extracellular Organic C and N in a Cyanobacterial Biofilm.

Stuart RK, Mayali X, Boaro AA, Zemla A, Everroad RC, Nilson D, Weber PK, Lipton M, Bebout BM, Pett-Ridge J, Thelen MP.

MBio. 2016 Jun 28;7(3). pii: e00650-16. doi: 10.1128/mBio.00650-16.


Genome Evolution and Nitrogen Fixation in Bacterial Ectosymbionts of a Protist Inhabiting Wood-Feeding Cockroaches.

Tai V, Carpenter KJ, Weber PK, Nalepa CA, Perlman SJ, Keeling PJ.

Appl Environ Microbiol. 2016 Jul 15;82(15):4682-4695. doi: 10.1128/AEM.00611-16. Print 2016 Aug 1.


Three-dimensional imaging of cholesterol and sphingolipids within a Madin-Darby canine kidney cell.

Yeager AN, Weber PK, Kraft ML.

Biointerphases. 2016 Jun 8;11(2):02A309. doi: 10.1116/1.4939681.


Temporal succession in carbon incorporation from macromolecules by particle-attached bacteria in marine microcosms.

Mayali X, Stewart B, Mabery S, Weber PK.

Environ Microbiol Rep. 2016 Feb;8(1):68-75. doi: 10.1111/1758-2229.12352. Epub 2015 Dec 21.


Cyanobacterial reuse of extracellular organic carbon in microbial mats.

Stuart RK, Mayali X, Lee JZ, Craig Everroad R, Hwang M, Bebout BM, Weber PK, Pett-Ridge J, Thelen MP.

ISME J. 2016 May;10(5):1240-51. doi: 10.1038/ismej.2015.180. Epub 2015 Oct 23.


Reconstructing the Migratory Behavior and Long-Term Survivorship of Juvenile Chinook Salmon under Contrasting Hydrologic Regimes.

Sturrock AM, Wikert JD, Heyne T, Mesick C, Hubbard AE, Hinkelman TM, Weber PK, Whitman GE, Glessner JJ, Johnson RC.

PLoS One. 2015 May 20;10(5):e0122380. doi: 10.1371/journal.pone.0122380. eCollection 2015.


Hemagglutinin clusters in the plasma membrane are not enriched with cholesterol and sphingolipids.

Wilson RL, Frisz JF, Klitzing HA, Zimmerberg J, Weber PK, Kraft ML.

Biophys J. 2015 Apr 7;108(7):1652-1659. doi: 10.1016/j.bpj.2015.02.026.


Subcellular metal imaging identifies dynamic sites of Cu accumulation in Chlamydomonas.

Hong-Hermesdorf A, Miethke M, Gallaher SD, Kropat J, Dodani SC, Chan J, Barupala D, Domaille DW, Shirasaki DI, Loo JA, Weber PK, Pett-Ridge J, Stemmler TL, Chang CJ, Merchant SS.

Nat Chem Biol. 2015 Mar;11(3):235. doi: 10.1038/nchembio0315-235c. No abstract available.


Subcellular metal imaging identifies dynamic sites of Cu accumulation in Chlamydomonas.

Hong-Hermesdorf A, Miethke M, Gallaher SD, Kropat J, Dodani SC, Chan J, Barupala D, Domaille DW, Shirasaki DI, Loo JA, Weber PK, Pett-Ridge J, Stemmler TL, Chang CJ, Merchant SS.

Nat Chem Biol. 2014 Dec;10(12):1034-42. doi: 10.1038/nchembio.1662. Epub 2014 Oct 26. Erratum in: Nat Chem Biol. 2015 Mar;11(3):235.


Revisiting N₂ fixation in Guerrero Negro intertidal microbial mats with a functional single-cell approach.

Woebken D, Burow LC, Behnam F, Mayali X, Schintlmeister A, Fleming ED, Prufert-Bebout L, Singer SW, Cortés AL, Hoehler TM, Pett-Ridge J, Spormann AM, Wagner M, Weber PK, Bebout BM.

ISME J. 2015 Feb;9(2):485-96. doi: 10.1038/ismej.2014.144. Epub 2014 Oct 10.


Phylogenetic patterns in the microbial response to resource availability: amino acid incorporation in San Francisco Bay.

Mayali X, Weber PK, Mabery S, Pett-Ridge J.

PLoS One. 2014 Apr 21;9(4):e95842. doi: 10.1371/journal.pone.0095842. eCollection 2014.


Identification of Desulfobacterales as primary hydrogenotrophs in a complex microbial mat community.

Burow LC, Woebken D, Marshall IP, Singer SW, Pett-Ridge J, Prufert-Bebout L, Spormann AM, Bebout BM, Weber PK, Hoehler TM.

Geobiology. 2014 May;12(3):221-30. doi: 10.1111/gbi.12080.


Fermentation couples Chloroflexi and sulfate-reducing bacteria to Cyanobacteria in hypersaline microbial mats.

Lee JZ, Burow LC, Woebken D, Everroad RC, Kubo MD, Spormann AM, Weber PK, Pett-Ridge J, Bebout BM, Hoehler TM.

Front Microbiol. 2014 Feb 26;5:61. doi: 10.3389/fmicb.2014.00061. eCollection 2014.


Correlated SEM, FIB-SEM, TEM, and NanoSIMS imaging of microbes from the hindgut of a lower termite: methods for in situ functional and ecological studies of uncultivable microbes.

Carpenter KJ, Weber PK, Davisson ML, Pett-Ridge J, Haverty MI, Keeling PJ.

Microsc Microanal. 2013 Dec;19(6):1490-501. doi: 10.1017/S1431927613013482. Epub 2013 Oct 11.


Sphingolipid domains in the plasma membranes of fibroblasts are not enriched with cholesterol.

Frisz JF, Klitzing HA, Lou K, Hutcheon ID, Weber PK, Zimmerberg J, Kraft ML.

J Biol Chem. 2013 Jun 7;288(23):16855-61. doi: 10.1074/jbc.M113.473207. Epub 2013 Apr 22.


An arbuscular mycorrhizal fungus significantly modifies the soil bacterial community and nitrogen cycling during litter decomposition.

Nuccio EE, Hodge A, Pett-Ridge J, Herman DJ, Weber PK, Firestone MK.

Environ Microbiol. 2013 Jun;15(6):1870-81. doi: 10.1111/1462-2920.12081. Epub 2013 Jan 30.


Direct chemical evidence for sphingolipid domains in the plasma membranes of fibroblasts.

Frisz JF, Lou K, Klitzing HA, Hanafin WP, Lizunov V, Wilson RL, Carpenter KJ, Kim R, Hutcheon ID, Zimmerberg J, Weber PK, Kraft ML.

Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):E613-22. doi: 10.1073/pnas.1216585110. Epub 2013 Jan 28.


Anoxic carbon flux in photosynthetic microbial mats as revealed by metatranscriptomics.

Burow LC, Woebken D, Marshall IP, Lindquist EA, Bebout BM, Prufert-Bebout L, Hoehler TM, Tringe SG, Pett-Ridge J, Weber PK, Spormann AM, Singer SW.

ISME J. 2013 Apr;7(4):817-29. doi: 10.1038/ismej.2012.150. Epub 2012 Nov 29.


Secondary ion mass spectrometry imaging of biological membranes at high spatial resolution.

Klitzing HA, Weber PK, Kraft ML.

Methods Mol Biol. 2013;950:483-501. doi: 10.1007/978-1-62703-137-0_26.


Taxon-specific C/N relative use efficiency for amino acids in an estuarine community.

Mayali X, Weber PK, Pett-Ridge J.

FEMS Microbiol Ecol. 2013 Feb;83(2):402-12. doi: 10.1111/j.1574-6941.12000.x. Epub 2012 Sep 20.


NanoSIP: NanoSIMS applications for microbial biology.

Pett-Ridge J, Weber PK.

Methods Mol Biol. 2012;881:375-408. doi: 10.1007/978-1-61779-827-6_13.


Managed metapopulations: do salmon hatchery 'sources' lead to in-river 'sinks' in conservation?

Johnson RC, Weber PK, Wikert JD, Workman ML, MacFarlane RB, Grove MJ, Schmitt AK.

PLoS One. 2012;7(2):e28880. doi: 10.1371/journal.pone.0028880. Epub 2012 Feb 8.


Fluorinated colloidal gold immunolabels for imaging select proteins in parallel with lipids using high-resolution secondary ion mass spectrometry.

Wilson RL, Frisz JF, Hanafin WP, Carpenter KJ, Hutcheon ID, Weber PK, Kraft ML.

Bioconjug Chem. 2012 Mar 21;23(3):450-60. doi: 10.1021/bc200482z. Epub 2012 Feb 15.


Identification of a novel cyanobacterial group as active diazotrophs in a coastal microbial mat using NanoSIMS analysis.

Woebken D, Burow LC, Prufert-Bebout L, Bebout BM, Hoehler TM, Pett-Ridge J, Spormann AM, Weber PK, Singer SW.

ISME J. 2012 Jul;6(7):1427-39. doi: 10.1038/ismej.2011.200. Epub 2012 Jan 12.


High-throughput isotopic analysis of RNA microarrays to quantify microbial resource use.

Mayali X, Weber PK, Brodie EL, Mabery S, Hoeprich PD, Pett-Ridge J.

ISME J. 2012 Jun;6(6):1210-21. doi: 10.1038/ismej.2011.175. Epub 2011 Dec 8.


Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay.

Burow LC, Woebken D, Bebout BM, McMurdie PJ, Singer SW, Pett-Ridge J, Prufert-Bebout L, Spormann AM, Weber PK, Hoehler TM.

ISME J. 2012 Apr;6(4):863-74. doi: 10.1038/ismej.2011.142. Epub 2011 Oct 20.


Introduction of a new model for time-continuous and non-contact investigations of in-vitro thrombolysis under physiological flow conditions.

Roessler FC, Ohlrich M, Marxsen JH, Schmieger M, Weber PK, Stellmacher F, Trillenberg P, Eggers J, Seidel G.

BMC Neurol. 2011 May 26;11:58. doi: 10.1186/1471-2377-11-58.


Oxygen isotope variations at the margin of a CAI records circulation within the solar nebula.

Simon JI, Hutcheon ID, Simon SB, Matzel JE, Ramon EC, Weber PK, Grossman L, DePaolo DJ.

Science. 2011 Mar 4;331(6021):1175-8. doi: 10.1126/science.1197970.


A bacterium that can grow by using arsenic instead of phosphorus.

Wolfe-Simon F, Switzer Blum J, Kulp TR, Gordon GW, Hoeft SE, Pett-Ridge J, Stolz JF, Webb SM, Weber PK, Davies PC, Anbar AD, Oremland RS.

Science. 2011 Jun 3;332(6034):1163-6. doi: 10.1126/science.1197258. Epub 2010 Dec 2.


Correlated AFM and NanoSIMS imaging to probe cholesterol-induced changes in phase behavior and non-ideal mixing in ternary lipid membranes.

Anderton CR, Lou K, Weber PK, Hutcheon ID, Kraft ML.

Biochim Biophys Acta. 2011 Jan;1808(1):307-15. doi: 10.1016/j.bbamem.2010.09.016. Epub 2010 Sep 29.


NanoSIMS imaging of Bacillus spores sectioned by focused ion beam.

Weber PK, Graham GA, Teslich NE, Chan WM, Ghosal S, Leighton TJ, Wheeler KE.

J Microsc. 2010 Jun 1;238(3):189-99. doi: 10.1111/j.1365-2818.2009.03336.x.


Spatially resolved characterization of water and ion incorporation in Bacillus spores.

Ghosal S, Leighton TJ, Wheeler KE, Hutcheon ID, Weber PK.

Appl Environ Microbiol. 2010 May;76(10):3275-82. doi: 10.1128/AEM.02485-09. Epub 2010 Mar 26.


Constraints on the formation age of cometary material from the NASA Stardust mission.

Matzel JE, Ishii HA, Joswiak D, Hutcheon ID, Bradley JP, Brownlee D, Weber PK, Teslich N, Matrajt G, McKeegan KD, MacPherson GJ.

Science. 2010 Apr 23;328(5977):483-6. doi: 10.1126/science.1184741. Epub 2010 Feb 25.


High-pressure highly reduced nitrides and oxides from chromitite of a Tibetan ophiolite.

Dobrzhinetskaya LF, Wirth R, Yang J, Hutcheon ID, Weber PK, Green HW 2nd.

Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19233-8. doi: 10.1073/pnas.0905514106. Epub 2009 Oct 30.


N-doping of graphene through electrothermal reactions with ammonia.

Wang X, Li X, Zhang L, Yoon Y, Weber PK, Wang H, Guo J, Dai H.

Science. 2009 May 8;324(5928):768-71. doi: 10.1126/science.1170335. Erratum in: Science. 2010 Sep 17;329(5998):1467.


Fixation and fate of C and N in the cyanobacterium Trichodesmium using nanometer-scale secondary ion mass spectrometry.

Finzi-Hart JA, Pett-Ridge J, Weber PK, Popa R, Fallon SJ, Gunderson T, Hutcheon ID, Nealson KH, Capone DG.

Proc Natl Acad Sci U S A. 2009 Apr 14;106(15):6345-50. doi: 10.1073/pnas.0810547106. Epub 2009 Mar 30. Erratum in: Proc Natl Acad Sci U S A. 2009 Jun 16;106(24):9931.


Advances in imaging secondary ion mass spectrometry for biological samples.

Boxer SG, Kraft ML, Weber PK.

Annu Rev Biophys. 2009;38:53-74. doi: 10.1146/annurev.biophys.050708.133634. Review.


Imaging and 3D elemental characterization of intact bacterial spores by high-resolution secondary ion mass spectrometry.

Ghosal S, Fallon SJ, Leighton TJ, Wheeler KE, Kristo MJ, Hutcheon ID, Weber PK.

Anal Chem. 2008 Aug 1;80(15):5986-92. doi: 10.1021/ac8006279. Epub 2008 Jun 26.


Linking microbial phylogeny to metabolic activity at the single-cell level by using enhanced element labeling-catalyzed reporter deposition fluorescence in situ hybridization (EL-FISH) and NanoSIMS.

Behrens S, Lösekann T, Pett-Ridge J, Weber PK, Ng WO, Stevenson BS, Hutcheon ID, Relman DA, Spormann AM.

Appl Environ Microbiol. 2008 May;74(10):3143-50. doi: 10.1128/AEM.00191-08. Epub 2008 Mar 21.

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