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Items: 22


Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities.

Beaulaurier J, Luo E, Eppley JM, Den Uyl P, Dai X, Burger A, Turner DJ, Pendleton M, Juul S, Harrington E, DeLong EF.

Genome Res. 2020 Feb 19. pii: gr.251686.119. doi: 10.1101/gr.251686.119. [Epub ahead of print]


Double-stranded DNA virioplankton dynamics and reproductive strategies in the oligotrophic open ocean water column.

Luo E, Eppley JM, Romano AE, Mende DR, DeLong EF.

ISME J. 2020 Feb 14. doi: 10.1038/s41396-020-0604-8. [Epub ahead of print]


Diel Oscillation of Microbial Gene Transcripts Declines With Depth in Oligotrophic Ocean Waters.

Vislova A, Sosa OA, Eppley JM, Romano AE, DeLong EF.

Front Microbiol. 2019 Sep 24;10:2191. doi: 10.3389/fmicb.2019.02191. eCollection 2019.


Biological composition and microbial dynamics of sinking particulate organic matter at abyssal depths in the oligotrophic open ocean.

Boeuf D, Edwards BR, Eppley JM, Hu SK, Poff KE, Romano AE, Caron DA, Karl DM, DeLong EF.

Proc Natl Acad Sci U S A. 2019 Jun 11;116(24):11824-11832. doi: 10.1073/pnas.1903080116. Epub 2019 May 24.


Diel cycling and long-term persistence of viruses in the ocean's euphotic zone.

Aylward FO, Boeuf D, Mende DR, Wood-Charlson EM, Vislova A, Eppley JM, Romano AE, DeLong EF.

Proc Natl Acad Sci U S A. 2017 Oct 24;114(43):11446-11451. doi: 10.1073/pnas.1714821114. Epub 2017 Oct 11.


Environmental drivers of a microbial genomic transition zone in the ocean's interior.

Mende DR, Bryant JA, Aylward FO, Eppley JM, Nielsen T, Karl DM, DeLong EF.

Nat Microbiol. 2017 Oct;2(10):1367-1373. doi: 10.1038/s41564-017-0008-3. Epub 2017 Aug 14.


Coordinated regulation of growth, activity and transcription in natural populations of the unicellular nitrogen-fixing cyanobacterium Crocosphaera.

Wilson ST, Aylward FO, Ribalet F, Barone B, Casey JR, Connell PE, Eppley JM, Ferrón S, Fitzsimmons JN, Hayes CT, Romano AE, Turk-Kubo KA, Vislova A, Armbrust EV, Caron DA, Church MJ, Zehr JP, Karl DM, DeLong EF.

Nat Microbiol. 2017 Jul 31;2:17118. doi: 10.1038/nmicrobiol.2017.118.


Improved Environmental Genomes via Integration of Metagenomic and Single-Cell Assemblies.

Mende DR, Aylward FO, Eppley JM, Nielsen TN, DeLong EF.

Front Microbiol. 2016 Feb 11;7:143. doi: 10.3389/fmicb.2016.00143. eCollection 2016.


Wind and sunlight shape microbial diversity in surface waters of the North Pacific Subtropical Gyre.

Bryant JA, Aylward FO, Eppley JM, Karl DM, Church MJ, DeLong EF.

ISME J. 2016 Jun;10(6):1308-22. doi: 10.1038/ismej.2015.221. Epub 2015 Dec 8.


Microbial community structure and function on sinking particles in the North Pacific Subtropical Gyre.

Fontanez KM, Eppley JM, Samo TJ, Karl DM, DeLong EF.

Front Microbiol. 2015 May 19;6:469. doi: 10.3389/fmicb.2015.00469. eCollection 2015.


Microbial community transcriptional networks are conserved in three domains at ocean basin scales.

Aylward FO, Eppley JM, Smith JM, Chavez FP, Scholin CA, DeLong EF.

Proc Natl Acad Sci U S A. 2015 Apr 28;112(17):5443-8. doi: 10.1073/pnas.1502883112. Epub 2015 Mar 9.


Reply to Schouten et al.: Marine Group II planktonic Euryarchaeota are significant contributors to tetraether lipids in the ocean.

Lincoln SA, Wai B, Eppley JM, Church MJ, Summons RE, DeLong EF.

Proc Natl Acad Sci U S A. 2014 Oct 14;111(41):E4286. doi: 10.1073/pnas.1416736111. Epub 2014 Sep 19. No abstract available.


Draft genome sequence of marine alphaproteobacterial strain HIMB11, the first cultivated representative of a unique lineage within the Roseobacter clade possessing an unusually small genome.

Durham BP, Grote J, Whittaker KA, Bender SJ, Luo H, Grim SL, Brown JM, Casey JR, Dron A, Florez-Leiva L, Krupke A, Luria CM, Mine AH, Nigro OD, Pather S, Talarmin A, Wear EK, Weber TS, Wilson JM, Church MJ, DeLong EF, Karl DM, Steward GF, Eppley JM, Kyrpides NC, Schuster S, Rappé MS.

Stand Genomic Sci. 2014 Mar 15;9(3):632-45. doi: 10.4056/sigs.4998989. eCollection 2014 Jun 15.


Ocean microbes. Multispecies diel transcriptional oscillations in open ocean heterotrophic bacterial assemblages.

Ottesen EA, Young CR, Gifford SM, Eppley JM, Marin R 3rd, Schuster SC, Scholin CA, DeLong EF.

Science. 2014 Jul 11;345(6193):207-12. doi: 10.1126/science.1252476.


Planktonic Euryarchaeota are a significant source of archaeal tetraether lipids in the ocean.

Lincoln SA, Wai B, Eppley JM, Church MJ, Summons RE, DeLong EF.

Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9858-63. doi: 10.1073/pnas.1409439111. Epub 2014 Jun 19.


Pattern and synchrony of gene expression among sympatric marine microbial populations.

Ottesen EA, Young CR, Eppley JM, Ryan JP, Chavez FP, Scholin CA, DeLong EF.

Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):E488-97. doi: 10.1073/pnas.1222099110. Epub 2013 Jan 23.


Microbial community phylogenetic and trait diversity declines with depth in a marine oxygen minimum zone.

Bryant JA, Stewart FJ, Eppley JM, DeLong EF.

Ecology. 2012 Jul;93(7):1659-73.


Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria.

Grote J, Bayindirli C, Bergauer K, Carpintero de Moraes P, Chen H, D'Ambrosio L, Edwards B, Fernández-Gómez B, Hamisi M, Logares R, Nguyen D, Rii YM, Saeck E, Schutte C, Widner B, Church MJ, Steward GF, Karl DM, Delong EF, Eppley JM, Schuster SC, Kyrpides NC, Rappé MS.

Stand Genomic Sci. 2011 Dec 31;5(3):269-78. doi: 10.4056/sigs.1854551. Epub 2011 Dec 23.


Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities.

Stewart FJ, Sharma AK, Bryant JA, Eppley JM, DeLong EF.

Genome Biol. 2011;12(3):R26. doi: 10.1186/gb-2011-12-3-r26. Epub 2011 Mar 22.


Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean.

Shi Y, Tyson GW, Eppley JM, DeLong EF.

ISME J. 2011 Jun;5(6):999-1013. doi: 10.1038/ismej.2010.189. Epub 2010 Dec 9.


Strainer: software for analysis of population variation in community genomic datasets.

Eppley JM, Tyson GW, Getz WM, Banfield JF.

BMC Bioinformatics. 2007 Oct 17;8:398.


Genetic exchange across a species boundary in the archaeal genus ferroplasma.

Eppley JM, Tyson GW, Getz WM, Banfield JF.

Genetics. 2007 Sep;177(1):407-16. Epub 2007 Jul 1.

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