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Items: 1 to 50 of 56

1.

The planktonic protist interactome: where do we stand after a century of research?

Bjorbækmo MFM, Evenstad A, Røsæg LL, Krabberød AK, Logares R.

ISME J. 2019 Nov 4. doi: 10.1038/s41396-019-0542-5. [Epub ahead of print]

PMID:
31685936
2.

Marked changes in diversity and relative activity of picoeukaryotes with depth in the world ocean.

Giner CR, Pernice MC, Balagué V, Duarte CM, Gasol JM, Logares R, Massana R.

ISME J. 2019 Oct 23. doi: 10.1038/s41396-019-0506-9. [Epub ahead of print]

PMID:
31645670
3.

Assessing the viral content of uncultured picoeukaryotes in the global-ocean by single cell genomics.

Castillo YM, Mangot JF, Benites LF, Logares R, Kuronishi M, Ogata H, Jaillon O, Massana R, Sebastián M, Vaqué D.

Mol Ecol. 2019 Sep;28(18):4272-4289. doi: 10.1111/mec.15210. Epub 2019 Sep 24.

PMID:
31448836
4.

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.

5.

Impact of grazing, resource availability and light on prokaryotic growth and diversity in the oligotrophic surface global ocean.

Teira E, Logares R, Gutiérrez-Barral A, Ferrera I, Varela MM, Morán XAG, Gasol JM.

Environ Microbiol. 2019 Apr;21(4):1482-1496. doi: 10.1111/1462-2920.14581. Epub 2019 Mar 20.

PMID:
30838751
6.

Primer Design for an Accurate View of Picocyanobacterial Community Structure by Using High-Throughput Sequencing.

Huber P, Cornejo-Castillo FM, Ferrera I, Sánchez P, Logares R, Metz S, Balagué V, Acinas SG, Gasol JM, Unrein F.

Appl Environ Microbiol. 2019 Mar 22;85(7). pii: e02659-18. doi: 10.1128/AEM.02659-18. Print 2019 Apr 1.

7.

Higher contribution of globally rare bacterial taxa reflects environmental transitions across the surface ocean.

Ruiz-González C, Logares R, Sebastián M, Mestre M, Rodríguez-Martínez R, Galí M, Sala MM, Acinas SG, Duarte CM, Gasol JM.

Mol Ecol. 2019 Apr;28(8):1930-1945. doi: 10.1111/mec.15026. Epub 2019 Apr 29.

PMID:
30663830
8.

Diatom diversity through HTS-metabarcoding in coastal European seas.

Piredda R, Claverie JM, Decelle J, de Vargas C, Dunthorn M, Edvardsen B, Eikrem W, Forster D, Kooistra WHCF, Logares R, Massana R, Montresor M, Not F, Ogata H, Pawlowski J, Romac S, Sarno D, Stoeck T, Zingone A.

Sci Rep. 2018 Dec 24;8(1):18059. doi: 10.1038/s41598-018-36345-9.

9.

Protist Diversity and Seasonal Dynamics in Skagerrak Plankton Communities as Revealed by Metabarcoding and Microscopy.

Gran-Stadniczeñko S, Egge E, Hostyeva V, Logares R, Eikrem W, Edvardsen B.

J Eukaryot Microbiol. 2019 May;66(3):494-513. doi: 10.1111/jeu.12700. Epub 2018 Nov 29.

10.

Quantifying long-term recurrence in planktonic microbial eukaryotes.

Giner CR, Balagué V, Krabberød AK, Ferrera I, Reñé A, Garcés E, Gasol JM, Logares R, Massana R.

Mol Ecol. 2019 Mar;28(5):923-935. doi: 10.1111/mec.14929. Epub 2019 Feb 4.

PMID:
30411822
11.

Seasonal succession of small planktonic eukaryotes inhabiting surface waters of a coastal upwelling system.

Hernández-Ruiz M, Barber-Lluch E, Prieto A, Álvarez-Salgado XA, Logares R, Teira E.

Environ Microbiol. 2018 Aug;20(8):2955-2973. doi: 10.1111/1462-2920.14313. Epub 2018 Sep 19.

PMID:
30187625
12.

Sinking particles promote vertical connectivity in the ocean microbiome.

Mestre M, Ruiz-González C, Logares R, Duarte CM, Gasol JM, Sala MM.

Proc Natl Acad Sci U S A. 2018 Jul 17;115(29):E6799-E6807. doi: 10.1073/pnas.1802470115. Epub 2018 Jul 2.

13.

Contrasting prevalence of selection and drift in the community structuring of bacteria and microbial eukaryotes.

Logares R, Tesson SVM, Canbäck B, Pontarp M, Hedlund K, Rengefors K.

Environ Microbiol. 2018 Jun;20(6):2231-2240. doi: 10.1111/1462-2920.14265. Epub 2018 Jul 2.

PMID:
29727053
14.

Delineating closely related dinoflagellate lineages using phylotranscriptomics.

Annenkova NV, Ahrén D, Logares R, Kremp A, Rengefors K.

J Phycol. 2018 Aug;54(4):571-576. doi: 10.1111/jpy.12748. Epub 2018 Jun 13.

PMID:
29676790
15.

Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans.

Seeleuthner Y, Mondy S, Lombard V, Carradec Q, Pelletier E, Wessner M, Leconte J, Mangot JF, Poulain J, Labadie K, Logares R, Sunagawa S, de Berardinis V, Salanoubat M, Dimier C, Kandels-Lewis S, Picheral M, Searson S; Tara Oceans Coordinators, Pesant S, Poulton N, Stepanauskas R, Bork P, Bowler C, Hingamp P, Sullivan MB, Iudicone D, Massana R, Aury JM, Henrissat B, Karsenti E, Jaillon O, Sieracki M, de Vargas C, Wincker P.

Nat Commun. 2018 Jan 22;9(1):310. doi: 10.1038/s41467-017-02235-3.

16.

Large-scale ocean connectivity and planktonic body size.

Villarino E, Watson JR, Jönsson B, Gasol JM, Salazar G, Acinas SG, Estrada M, Massana R, Logares R, Giner CR, Pernice MC, Olivar MP, Citores L, Corell J, Rodríguez-Ezpeleta N, Acuña JL, Molina-Ramírez A, González-Gordillo JI, Cózar A, Martí E, Cuesta JA, Agustí S, Fraile-Nuez E, Duarte CM, Irigoien X, Chust G.

Nat Commun. 2018 Jan 10;9(1):142. doi: 10.1038/s41467-017-02535-8.

17.

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.

18.

Mixing of water masses caused by a drifting iceberg affects bacterial activity, community composition and substrate utilization capability in the Southern Ocean.

Dinasquet J, Richert I, Logares R, Yager P, Bertilsson S, Riemann L.

Environ Microbiol. 2017 Jun;19(6):2453-2467. doi: 10.1111/1462-2920.13769. Epub 2017 May 26.

PMID:
28429510
19.

Seasonal patterns in Arctic prasinophytes and inferred ecology of Bathycoccus unveiled in an Arctic winter metagenome.

Joli N, Monier A, Logares R, Lovejoy C.

ISME J. 2017 Jun;11(6):1372-1385. doi: 10.1038/ismej.2017.7. Epub 2017 Mar 7.

20.

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.

21.

Abundant and rare picoeukaryotic sub-communities present contrasting patterns in the epipelagic waters of marginal seas in the northwestern Pacific Ocean.

Wu W, Logares R, Huang B, Hsieh CH.

Environ Microbiol. 2017 Jan;19(1):287-300. doi: 10.1111/1462-2920.13606. Epub 2017 Jan 18.

PMID:
27871146
22.

Planktonic protistan communities in lakes along a large-scale environmental gradient.

Khomich M, Kauserud H, Logares R, Rasconi S, Andersen T.

FEMS Microbiol Ecol. 2017 Apr 1;93(4). doi: 10.1093/femsec/fiw231.

PMID:
27827804
23.

Probing the Rare Biosphere of the North-West Mediterranean Sea: An Experiment with High Sequencing Effort.

Crespo BG, Wallhead PJ, Logares R, Pedrós-Alió C.

PLoS One. 2016 Jul 21;11(7):e0159195. doi: 10.1371/journal.pone.0159195. eCollection 2016.

24.

Benthic protists: the under-charted majority.

Forster D, Dunthorn M, Mahé F, Dolan JR, Audic S, Bass D, Bittner L, Boutte C, Christen R, Claverie JM, Decelle J, Edvardsen B, Egge E, Eikrem W, Gobet A, Kooistra WH, Logares R, Massana R, Montresor M, Not F, Ogata H, Pawlowski J, Pernice MC, Romac S, Shalchian-Tabrizi K, Simon N, Richards TA, Santini S, Sarno D, Siano R, Vaulot D, Wincker P, Zingone A, de Vargas C, Stoeck T.

FEMS Microbiol Ecol. 2016 Aug;92(8). pii: fiw120. doi: 10.1093/femsec/fiw120. Epub 2016 Jun 5.

PMID:
27267932
25.

Restructuring of the sponge microbiome favors tolerance to ocean acidification.

Ribes M, Calvo E, Movilla J, Logares R, Coma R, Pelejero C.

Environ Microbiol Rep. 2016 Aug;8(4):536-44. doi: 10.1111/1758-2229.12430. Epub 2016 Jun 30.

PMID:
27264698
26.

Environmental Sequencing Provides Reasonable Estimates of the Relative Abundance of Specific Picoeukaryotes.

Giner CR, Forn I, Romac S, Logares R, de Vargas C, Massana R.

Appl Environ Microbiol. 2016 Jul 15;82(15):4757-4766. doi: 10.1128/AEM.00560-16. Print 2016 Aug 1.

27.

Ecological and evolutionary significance of novel protist lineages.

Del Campo J, Guillou L, Hehenberger E, Logares R, López-García P, Massana R.

Eur J Protistol. 2016 Aug;55(Pt A):4-11. doi: 10.1016/j.ejop.2016.02.002. Epub 2016 Feb 20.

28.

Weak Coherence in Abundance Patterns Between Bacterial Classes and Their Constituent OTUs Along a Regulated River.

Ruiz-González C, Salazar G, Logares R, Proia L, Gasol JM, Sabater S.

Front Microbiol. 2015 Nov 26;6:1293. doi: 10.3389/fmicb.2015.01293. eCollection 2015.

29.

Rarity in aquatic microbes: placing protists on the map.

Logares R, Mangot JF, Massana R.

Res Microbiol. 2015 Dec;166(10):831-41. doi: 10.1016/j.resmic.2015.09.009. Epub 2015 Oct 24. Review.

PMID:
26598213
30.

Large variability of bathypelagic microbial eukaryotic communities across the world's oceans.

Pernice MC, Giner CR, Logares R, Perera-Bel J, Acinas SG, Duarte CM, Gasol JM, Massana R.

ISME J. 2016 Apr;10(4):945-58. doi: 10.1038/ismej.2015.170. Epub 2015 Oct 9.

31.

Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing.

Massana R, Gobet A, Audic S, Bass D, Bittner L, Boutte C, Chambouvet A, Christen R, Claverie JM, Decelle J, Dolan JR, Dunthorn M, Edvardsen B, Forn I, Forster D, Guillou L, Jaillon O, Kooistra WH, Logares R, Mahé F, Not F, Ogata H, Pawlowski J, Pernice MC, Probert I, Romac S, Richards T, Santini S, Shalchian-Tabrizi K, Siano R, Simon N, Stoeck T, Vaulot D, Zingone A, de Vargas C.

Environ Microbiol. 2015 Oct;17(10):4035-49. doi: 10.1111/1462-2920.12955. Epub 2015 Aug 4.

PMID:
26119494
32.

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.

33.

Evidence of concurrent local adaptation and high phenotypic plasticity in a polar microeukaryote.

Rengefors K, Logares R, Laybourn-Parry J, Gast RJ.

Environ Microbiol. 2015 May;17(5):1510-9. doi: 10.1111/1462-2920.12571. Epub 2014 Sep 3.

PMID:
25041758
34.

Patterns of rare and abundant marine microbial eukaryotes.

Logares R, Audic S, Bass D, Bittner L, Boutte C, Christen R, Claverie JM, Decelle J, Dolan JR, Dunthorn M, Edvardsen B, Gobet A, Kooistra WH, Mahé F, Not F, Ogata H, Pawlowski J, Pernice MC, Romac S, Shalchian-Tabrizi K, Simon N, Stoeck T, Santini S, Siano R, Wincker P, Zingone A, Richards TA, de Vargas C, Massana R.

Curr Biol. 2014 Apr 14;24(8):813-21. doi: 10.1016/j.cub.2014.02.050. Epub 2014 Apr 3.

35.

Different bacterial communities in ectomycorrhizae and surrounding soil.

Vik U, Logares R, Blaalid R, Halvorsen R, Carlsen T, Bakke I, Kolstø AB, Økstad OA, Kauserud H.

Sci Rep. 2013 Dec 11;3:3471. doi: 10.1038/srep03471.

36.

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.

37.

Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities.

Logares R, Sunagawa S, Salazar G, Cornejo-Castillo FM, Ferrera I, Sarmento H, Hingamp P, Ogata H, de Vargas C, Lima-Mendez G, Raes J, Poulain J, Jaillon O, Wincker P, Kandels-Lewis S, Karsenti E, Bork P, Acinas SG.

Environ Microbiol. 2014 Sep;16(9):2659-71. doi: 10.1111/1462-2920.12250. Epub 2013 Sep 18.

PMID:
24102695
38.

General patterns of diversity in major marine microeukaryote lineages.

Pernice MC, Logares R, Guillou L, Massana R.

PLoS One. 2013;8(2):e57170. doi: 10.1371/journal.pone.0057170. Epub 2013 Feb 21.

39.

Biogeography of bacterial communities exposed to progressive long-term environmental change.

Logares R, Lindström ES, Langenheder S, Logue JB, Paterson H, Laybourn-Parry J, Rengefors K, Tranvik L, Bertilsson S.

ISME J. 2013 May;7(5):937-48. doi: 10.1038/ismej.2012.168. Epub 2012 Dec 20.

40.

Eukaryotic versus prokaryotic marine picoplankton ecology.

Massana R, Logares R.

Environ Microbiol. 2013 May;15(5):1254-61. doi: 10.1111/1462-2920.12043. Epub 2012 Dec 4. Review.

PMID:
23206217
41.

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote small sub-unit rRNA sequences with curated taxonomy.

Guillou L, Bachar D, Audic S, Bass D, Berney C, Bittner L, Boutte C, Burgaud G, de Vargas C, Decelle J, Del Campo J, Dolan JR, Dunthorn M, Edvardsen B, Holzmann M, Kooistra WH, Lara E, Le Bescot N, Logares R, Mahé F, Massana R, Montresor M, Morard R, Not F, Pawlowski J, Probert I, Sauvadet AL, Siano R, Stoeck T, Vaulot D, Zimmermann P, Christen R.

Nucleic Acids Res. 2013 Jan;41(Database issue):D597-604. doi: 10.1093/nar/gks1160. Epub 2012 Nov 27.

42.

Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches.

Logares R, Haverkamp TH, Kumar S, Lanzén A, Nederbragt AJ, Quince C, Kauserud H.

J Microbiol Methods. 2012 Oct;91(1):106-13. doi: 10.1016/j.mimet.2012.07.017. Epub 2012 Jul 28. Review.

PMID:
22849829
43.

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.

44.

Polar lakes may act as ecological islands to aquatic protists.

Rengefors K, Logares R, Laybourn-Parry J.

Mol Ecol. 2012 Jul;21(13):3200-9. doi: 10.1111/j.1365-294X.2012.05596.x. Epub 2012 May 7.

45.

Diversity patterns and activity of uncultured marine heterotrophic flagellates unveiled with pyrosequencing.

Logares R, Audic S, Santini S, Pernice MC, de Vargas C, Massana R.

ISME J. 2012 Oct;6(10):1823-33. doi: 10.1038/ismej.2012.36. Epub 2012 Apr 26.

46.

Low evolutionary diversification in a widespread and abundant uncultured protist (MAST-4).

Rodríguez-Martínez R, Rocap G, Logares R, Romac S, Massana R.

Mol Biol Evol. 2012 May;29(5):1393-406. doi: 10.1093/molbev/msr303. Epub 2011 Dec 13.

PMID:
22319144
47.

A data mining approach to dinoflagellate clustering according to sterol composition: correlations with evolutionary history.

Leblond JD, Lasiter AD, Li C, Logares R, Rengefors K, Evens TJ.

Int J Data Min Bioinform. 2010;4(4):431-51.

PMID:
20815141
48.

Freshwater Perkinsea and marine-freshwater colonizations revealed by pyrosequencing and phylogeny of environmental rDNA.

Bråte J, Logares R, Berney C, Ree DK, Klaveness D, Jakobsen KS, Shalchian-Tabrizi K.

ISME J. 2010 Sep;4(9):1144-53. doi: 10.1038/ismej.2010.39. Epub 2010 Apr 15.

PMID:
20393574
49.

Infrequent transitions between saline and fresh waters in one of the most abundant microbial lineages (SAR11).

Logares R, Bråte J, Heinrich F, Shalchian-Tabrizi K, Bertilsson S.

Mol Biol Evol. 2010 Feb;27(2):347-57. doi: 10.1093/molbev/msp239. Epub 2009 Oct 6.

PMID:
19808864
50.

Infrequent marine-freshwater transitions in the microbial world.

Logares R, Bråte J, Bertilsson S, Clasen JL, Shalchian-Tabrizi K, Rengefors K.

Trends Microbiol. 2009 Sep;17(9):414-22. doi: 10.1016/j.tim.2009.05.010. Epub 2009 Aug 31. Review.

PMID:
19726194

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