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Items: 24

1.

Phylogenomics suggests oxygen availability as a driving force in Thaumarchaeota evolution.

Ren M, Feng X, Huang Y, Wang H, Hu Z, Clingenpeel S, Swan BK, Fonseca MM, Posada D, Stepanauskas R, Hollibaugh JT, Foster PG, Woyke T, Luo H.

ISME J. 2019 Apr 25. doi: 10.1038/s41396-019-0418-8. [Epub ahead of print]

PMID:
31024152
2.

Novel Impactor and Microsphere-Based Assay Used to Measure Containment of Aerosols Generated in a Flow Cytometer Cell Sorter.

Perfetto SP, Hogarth PJ, Monard S, Fontes B, Reifel KM, Swan BK, Baijer J, Jellison ER, Lyon G, Lovelace P, Nguyen R, Ambrozak D, Holmes KL.

Cytometry A. 2019 Feb;95(2):173-182. doi: 10.1002/cyto.a.23680. Epub 2018 Dec 18.

PMID:
30561906
3.

Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation.

Pachiadaki MG, Sintes E, Bergauer K, Brown JM, Record NR, Swan BK, Mathyer ME, Hallam SJ, Lopez-Garcia P, Takaki Y, Nunoura T, Woyke T, Herndl GJ, Stepanauskas R.

Science. 2017 Nov 24;358(6366):1046-1051. doi: 10.1126/science.aan8260.

PMID:
29170234
4.

Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients.

Hawley AK, Nobu MK, Wright JJ, Durno WE, Morgan-Lang C, Sage B, Schwientek P, Swan BK, Rinke C, Torres-Beltrán M, Mewis K, Liu WT, Stepanauskas R, Woyke T, Hallam SJ.

Nat Commun. 2017 Nov 15;8(1):1507. doi: 10.1038/s41467-017-01376-9.

5.

Genomic exploration of individual giant ocean viruses.

Wilson WH, Gilg IC, Moniruzzaman M, Field EK, Koren S, LeCleir GR, Martínez Martínez J, Poulton NJ, Swan BK, Stepanauskas R, Wilhelm SW.

ISME J. 2017 Aug;11(8):1736-1745. doi: 10.1038/ismej.2017.61. Epub 2017 May 12.

6.

SAR202 Genomes from the Dark Ocean Predict Pathways for the Oxidation of Recalcitrant Dissolved Organic Matter.

Landry Z, Swan BK, Herndl GJ, Stepanauskas R, Giovannoni SJ.

MBio. 2017 Apr 18;8(2). pii: e00413-17. doi: 10.1128/mBio.00413-17.

7.

The Role of Ocean Currents in the Temperature Selection of Plankton: Insights from an Individual-Based Model.

Hellweger FL, van Sebille E, Calfee BC, Chandler JW, Zinser ER, Swan BK, Fredrick ND.

PLoS One. 2016 Dec 1;11(12):e0167010. doi: 10.1371/journal.pone.0167010. eCollection 2016.

8.

Single-cell genomics-based analysis of virus-host interactions in marine surface bacterioplankton.

Labonté JM, Swan BK, Poulos B, Luo H, Koren S, Hallam SJ, Sullivan MB, Woyke T, Wommack KE, Stepanauskas R.

ISME J. 2015 Nov;9(11):2386-99. doi: 10.1038/ismej.2015.48. Epub 2015 Apr 7.

9.

Genomic and metabolic diversity of Marine Group I Thaumarchaeota in the mesopelagic of two subtropical gyres.

Swan BK, Chaffin MD, Martinez-Garcia M, Morrison HG, Field EK, Poulton NJ, Masland ED, Harris CC, Sczyrba A, Chain PS, Koren S, Woyke T, Stepanauskas R.

PLoS One. 2014 Apr 17;9(4):e95380. doi: 10.1371/journal.pone.0095380. eCollection 2014.

10.

Comparing effective population sizes of dominant marine alphaproteobacteria lineages.

Luo H, Swan BK, Stepanauskas R, Hughes AL, Moran MA.

Environ Microbiol Rep. 2014 Apr;6(2):167-72. doi: 10.1111/1758-2229.12129. Epub 2013 Dec 5.

PMID:
24596290
11.

Evolutionary analysis of a streamlined lineage of surface ocean Roseobacters.

Luo H, Swan BK, Stepanauskas R, Hughes AL, Moran MA.

ISME J. 2014 Jul;8(7):1428-39. doi: 10.1038/ismej.2013.248. Epub 2014 Jan 23.

12.

Single-cell enabled comparative genomics of a deep ocean SAR11 bathytype.

Thrash JC, Temperton B, Swan BK, Landry ZC, Woyke T, DeLong EF, Stepanauskas R, Giovannoni SJ.

ISME J. 2014 Jul;8(7):1440-51. doi: 10.1038/ismej.2013.243. Epub 2014 Jan 23.

13.

Marine viruses, a genetic reservoir revealed by targeted viromics.

Martínez Martínez J, Swan BK, Wilson WH.

ISME J. 2014 May;8(5):1079-88. doi: 10.1038/ismej.2013.214. Epub 2013 Dec 5.

14.

Single-cell genomics shedding light on marine Thaumarchaeota diversification.

Luo H, Tolar BB, Swan BK, Zhang CL, Stepanauskas R, Ann Moran M, Hollibaugh JT.

ISME J. 2014 Mar;8(3):732-6. doi: 10.1038/ismej.2013.202. Epub 2013 Nov 7.

15.

Insights into the phylogeny and coding potential of microbial dark matter.

Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ, Cheng JF, Darling A, Malfatti S, Swan BK, Gies EA, Dodsworth JA, Hedlund BP, Tsiamis G, Sievert SM, Liu WT, Eisen JA, Hallam SJ, Kyrpides NC, Stepanauskas R, Rubin EM, Hugenholtz P, Woyke T.

Nature. 2013 Jul 25;499(7459):431-7. doi: 10.1038/nature12352. Epub 2013 Jul 14.

PMID:
23851394
16.

Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean.

Swan BK, Tupper B, Sczyrba A, Lauro FM, Martinez-Garcia M, González JM, Luo H, Wright JJ, Landry ZC, Hanson NW, Thompson BP, Poulton NJ, Schwientek P, Acinas SG, Giovannoni SJ, Moran MA, Hallam SJ, Cavicchioli R, Woyke T, Stepanauskas R.

Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):11463-8. doi: 10.1073/pnas.1304246110. Epub 2013 Jun 25.

17.

Capturing single cell genomes of active polysaccharide degraders: an unexpected contribution of Verrucomicrobia.

Martinez-Garcia M, Brazel DM, Swan BK, Arnosti C, Chain PS, Reitenga KG, Xie G, Poulton NJ, Lluesma Gomez M, Masland DE, Thompson B, Bellows WK, Ziervogel K, Lo CC, Ahmed S, Gleasner CD, Detter CJ, Stepanauskas R.

PLoS One. 2012;7(4):e35314. doi: 10.1371/journal.pone.0035314. Epub 2012 Apr 20.

18.

Unveiling in situ interactions between marine protists and bacteria through single cell sequencing.

Martinez-Garcia M, Brazel D, Poulton NJ, Swan BK, Gomez ML, Masland D, Sieracki ME, Stepanauskas R.

ISME J. 2012 Mar;6(3):703-7. doi: 10.1038/ismej.2011.126. Epub 2011 Sep 22.

19.

Potential for chemolithoautotrophy among ubiquitous bacteria lineages in the dark ocean.

Swan BK, Martinez-Garcia M, Preston CM, Sczyrba A, Woyke T, Lamy D, Reinthaler T, Poulton NJ, Masland ED, Gomez ML, Sieracki ME, DeLong EF, Herndl GJ, Stepanauskas R.

Science. 2011 Sep 2;333(6047):1296-300. doi: 10.1126/science.1203690.

20.

High-throughput single-cell sequencing identifies photoheterotrophs and chemoautotrophs in freshwater bacterioplankton.

Martinez-Garcia M, Swan BK, Poulton NJ, Gomez ML, Masland D, Sieracki ME, Stepanauskas R.

ISME J. 2012 Jan;6(1):113-23. doi: 10.1038/ismej.2011.84. Epub 2011 Jun 30.

21.

Use of fatty acid methyl ester profiles for discrimination of Bacillus cereus T-strain spores grown on different media.

Ehrhardt CJ, Chu V, Brown T, Simmons TL, Swan BK, Bannan J, Robertson JM.

Appl Environ Microbiol. 2010 Mar;76(6):1902-12. doi: 10.1128/AEM.02443-09. Epub 2010 Jan 22.

22.

Archaeal and bacterial communities respond differently to environmental gradients in anoxic sediments of a California hypersaline lake, the Salton Sea.

Swan BK, Ehrhardt CJ, Reifel KM, Moreno LI, Valentine DL.

Appl Environ Microbiol. 2010 Feb;76(3):757-68. doi: 10.1128/AEM.02409-09. Epub 2009 Nov 30.

23.

Functional metagenomic profiling of nine biomes.

Dinsdale EA, Edwards RA, Hall D, Angly F, Breitbart M, Brulc JM, Furlan M, Desnues C, Haynes M, Li L, McDaniel L, Moran MA, Nelson KE, Nilsson C, Olson R, Paul J, Brito BR, Ruan Y, Swan BK, Stevens R, Valentine DL, Thurber RV, Wegley L, White BA, Rohwer F.

Nature. 2008 Apr 3;452(7187):629-32. doi: 10.1038/nature06810. Epub 2008 Mar 12. Erratum in: Nature. 2008 Oct 9;455(7214):830.

PMID:
18337718
24.

Biodiversity and biogeography of phages in modern stromatolites and thrombolites.

Desnues C, Rodriguez-Brito B, Rayhawk S, Kelley S, Tran T, Haynes M, Liu H, Furlan M, Wegley L, Chau B, Ruan Y, Hall D, Angly FE, Edwards RA, Li L, Thurber RV, Reid RP, Siefert J, Souza V, Valentine DL, Swan BK, Breitbart M, Rohwer F.

Nature. 2008 Mar 20;452(7185):340-3. doi: 10.1038/nature06735. Epub 2008 Mar 2.

PMID:
18311127

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