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Items: 29

1.

Reconstruction of protein domain evolution using single-cell amplified genomes of uncultured choanoflagellates sheds light on the origin of animals.

López-Escardó D, Grau-Bové X, Guillaumet-Adkins A, Gut M, Sieracki ME, Ruiz-Trillo I.

Philos Trans R Soc Lond B Biol Sci. 2019 Nov 25;374(1786):20190088. doi: 10.1098/rstb.2019.0088. Epub 2019 Oct 7.

2.

Single cell ecogenomics reveals mating types of individual cells and ssDNA viral infections in the smallest photosynthetic eukaryotes.

Benites LF, Poulton N, Labadie K, Sieracki ME, Grimsley N, Piganeau G.

Philos Trans R Soc Lond B Biol Sci. 2019 Nov 25;374(1786):20190089. doi: 10.1098/rstb.2019.0089. Epub 2019 Oct 7.

PMID:
31587637
3.

Single cell genomics yields a wide diversity of small planktonic protists across major ocean ecosystems.

Sieracki ME, Poulton NJ, Jaillon O, Wincker P, de Vargas C, Rubinat-Ripoll L, Stepanauskas R, Logares R, Massana R.

Sci Rep. 2019 Apr 15;9(1):6025. doi: 10.1038/s41598-019-42487-1.

4.

Evaluation of single-cell genomics to address evolutionary questions using three SAGs of the choanoflagellate Monosiga brevicollis.

López-Escardó D, Grau-Bové X, Guillaumet-Adkins A, Gut M, Sieracki ME, Ruiz-Trillo I.

Sci Rep. 2017 Sep 8;7(1):11025. doi: 10.1038/s41598-017-11466-9.

5.

Exploring Microdiversity in Novel Kordia sp. (Bacteroidetes) with Proteorhodopsin from the Tropical Indian Ocean via Single Amplified Genomes.

Royo-Llonch M, Ferrera I, Cornejo-Castillo FM, Sánchez P, Salazar G, Stepanauskas R, González JM, Sieracki ME, Speich S, Stemmann L, Pedrós-Alió C, Acinas SG.

Front Microbiol. 2017 Jul 25;8:1317. doi: 10.3389/fmicb.2017.01317. eCollection 2017.

6.

Viral to metazoan marine plankton nucleotide sequences from the Tara Oceans expedition.

Alberti A, Poulain J, Engelen S, Labadie K, Romac S, Ferrera I, Albini G, Aury JM, Belser C, Bertrand A, Cruaud C, Da Silva C, Dossat C, Gavory F, Gas S, Guy J, Haquelle M, Jacoby E, Jaillon O, Lemainque A, Pelletier E, Samson G, Wessner M; Genoscope Technical Team, Acinas SG, Royo-Llonch M, Cornejo-Castillo FM, Logares R, Fernández-Gómez B, Bowler C, Cochrane G, Amid C, Hoopen PT, De Vargas C, Grimsley N, Desgranges E, Kandels-Lewis S, Ogata H, Poulton N, Sieracki ME, Stepanauskas R, Sullivan MB, Brum JR, Duhaime MB, Poulos BT, Hurwitz BL; Tara Oceans Consortium Coordinators, Pesant S, Karsenti E, Wincker P.

Sci Data. 2017 Aug 1;4:170093. doi: 10.1038/sdata.2017.93.

7.

Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells.

Mangot JF, Logares R, Sánchez P, Latorre F, Seeleuthner Y, Mondy S, Sieracki ME, Jaillon O, Wincker P, Vargas C, Massana R.

Sci Rep. 2017 Jan 27;7:41498. doi: 10.1038/srep41498.

8.

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean.

de Vargas C, Audic S, Henry N, Decelle J, Mahé F, Logares R, Lara E, Berney C, Le Bescot N, Probert I, Carmichael M, Poulain J, Romac S, Colin S, Aury JM, Bittner L, Chaffron S, Dunthorn M, Engelen S, Flegontova O, Guidi L, Horák A, Jaillon O, Lima-Mendez G, Lukeš J, Malviya S, Morard R, Mulot M, Scalco E, Siano R, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels-Lewis S; Tara Oceans Coordinators, Acinas SG, Bork P, Bowler C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Raes J, Sieracki ME, Speich S, Stemmann L, Sunagawa S, Weissenbach J, Wincker P, Karsenti E.

Science. 2015 May 22;348(6237):1261605. doi: 10.1126/science.1261605.

9.

The others: our biased perspective of eukaryotic genomes.

del Campo J, Sieracki ME, Molestina R, Keeling P, Massana R, Ruiz-Trillo I.

Trends Ecol Evol. 2014 May;29(5):252-9. doi: 10.1016/j.tree.2014.03.006. Epub 2014 Apr 11.

10.

Exploring the uncultured microeukaryote majority in the oceans: reevaluation of ribogroups within stramenopiles.

Massana R, del Campo J, Sieracki ME, Audic S, Logares R.

ISME J. 2014 Apr;8(4):854-66. doi: 10.1038/ismej.2013.204. Epub 2013 Nov 7.

11.

Taming the smallest predators of the oceans.

del Campo J, Not F, Forn I, Sieracki ME, Massana R.

ISME J. 2013 Feb;7(2):351-8. doi: 10.1038/ismej.2012.85. Epub 2012 Jul 19.

12.

A holistic approach to marine eco-systems biology.

Karsenti E, Acinas SG, Bork P, Bowler C, De Vargas C, Raes J, Sullivan M, Arendt D, Benzoni F, Claverie JM, Follows M, Gorsky G, Hingamp P, Iudicone D, Jaillon O, Kandels-Lewis S, Krzic U, Not F, Ogata H, Pesant S, Reynaud EG, Sardet C, Sieracki ME, Speich S, Velayoudon D, Weissenbach J, Wincker P; Tara Oceans Consortium.

PLoS Biol. 2011 Oct;9(10):e1001177. doi: 10.1371/journal.pbio.1001177. Epub 2011 Oct 18.

13.

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.

14.

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.

15.

Targeted sorting of single virus-infected cells of the coccolithophore Emiliania huxleyi.

Martínez Martínez J, Poulton NJ, Stepanauskas R, Sieracki ME, Wilson WH.

PLoS One. 2011;6(7):e22520. doi: 10.1371/journal.pone.0022520. Epub 2011 Jul 26.

16.

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.

17.

Planktonic microbes in the Gulf of Maine area.

Li WK, Andersen RA, Gifford DJ, Incze LS, Martin JL, Pilskaln CH, Rooney-Varga JN, Sieracki ME, Wilson WH, Wolff NH.

PLoS One. 2011;6(6):e20981. doi: 10.1371/journal.pone.0020981. Epub 2011 Jun 15. Review.

18.

Single-cell genomics reveals organismal interactions in uncultivated marine protists.

Yoon HS, Price DC, Stepanauskas R, Rajah VD, Sieracki ME, Wilson WH, Yang EC, Duffy S, Bhattacharya D.

Science. 2011 May 6;332(6030):714-7. doi: 10.1126/science.1203163.

19.

Capturing diversity of marine heterotrophic protists: one cell at a time.

Heywood JL, Sieracki ME, Bellows W, Poulton NJ, Stepanauskas R.

ISME J. 2011 Apr;5(4):674-84. doi: 10.1038/ismej.2010.155. Epub 2010 Oct 21.

20.

Assembling the marine metagenome, one cell at a time.

Woyke T, Xie G, Copeland A, González JM, Han C, Kiss H, Saw JH, Senin P, Yang C, Chatterji S, Cheng JF, Eisen JA, Sieracki ME, Stepanauskas R.

PLoS One. 2009;4(4):e5299. doi: 10.1371/journal.pone.0005299. Epub 2009 Apr 23.

21.

Matching phylogeny and metabolism in the uncultured marine bacteria, one cell at a time.

Stepanauskas R, Sieracki ME.

Proc Natl Acad Sci U S A. 2007 May 22;104(21):9052-7. Epub 2007 May 14.

22.

Phylogenetic diversity and specificity of bacteria closely associated with Alexandrium spp. and other phytoplankton.

Jasti S, Sieracki ME, Poulton NJ, Giewat MW, Rooney-Varga JN.

Appl Environ Microbiol. 2005 Jul;71(7):3483-94.

23.

Effects of mismatched refractive indices in aquatic flow cytometry.

Cucci TL, Sieracki ME.

Cytometry. 2001 Jul 1;44(3):173-8.

24.
25.

Model-based frequency response characterization of a digital-image analysis system for epifluorescence microscopy.

Hazra R, Viles CL, Park SK, Reichenbach SE, Sieracki ME.

Appl Opt. 1992 Mar 10;31(8):1083-92. doi: 10.1364/AO.31.001083.

PMID:
20720725
27.
28.

Algorithm to estimate cell biovolume using image analyzed microscopy.

Sieracki ME, Viles CL, Webb KL.

Cytometry. 1989 Sep;10(5):551-7.

29.

Detection, enumeration, and sizing of planktonic bacteria by image-analyzed epifluorescence microscopy.

Sieracki ME, Johnson PW, Sieburth JM.

Appl Environ Microbiol. 1985 Apr;49(4):799-810.

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