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Items: 28

1.

Marine DNA Viral Macro- and Microdiversity from Pole to Pole.

Gregory AC, Zayed AA, Conceição-Neto N, Temperton B, Bolduc B, Alberti A, Ardyna M, Arkhipova K, Carmichael M, Cruaud C, Dimier C, Domínguez-Huerta G, Ferland J, Kandels S, Liu Y, Marec C, Pesant S, Picheral M, Pisarev S, Poulain J, Tremblay JÉ, Vik D; Tara Oceans Coordinators, Babin M, Bowler C, Culley AI, de Vargas C, Dutilh BE, Iudicone D, Karp-Boss L, Roux S, Sunagawa S, Wincker P, Sullivan MB.

Cell. 2019 May 16;177(5):1109-1123.e14. doi: 10.1016/j.cell.2019.03.040. Epub 2019 Apr 25.

PMID:
31031001
2.

Discovering millions of plankton genomic markers from the Atlantic Ocean and the Mediterranean Sea.

Arif M, Gauthier J, Sugier K, Iudicone D, Jaillon O, Wincker P, Peterlongo P, Madoui MA.

Mol Ecol Resour. 2019 Mar;19(2):526-535. doi: 10.1111/1755-0998.12985.

PMID:
30575285
3.

The Water Mass Transformation Framework for Ocean Physics and Biogeochemistry.

Groeskamp S, Griffies SM, Iudicone D, Marsh R, Nurser AJG, Zika JD.

Ann Rev Mar Sci. 2019 Jan 3;11:271-305. doi: 10.1146/annurev-marine-010318-095421. Epub 2018 Sep 19.

PMID:
30230995
4.

Linking mixing processes and climate variability to the heat content distribution of the Eastern Mediterranean abyss.

Artale V, Falcini F, Marullo S, Bensi M, Kokoszka F, Iudicone D, Rubino A.

Sci Rep. 2018 Jul 27;8(1):11317. doi: 10.1038/s41598-018-29343-4.

5.

A global ocean atlas of eukaryotic genes.

Carradec Q, Pelletier E, Da Silva C, Alberti A, Seeleuthner Y, Blanc-Mathieu R, Lima-Mendez G, Rocha F, Tirichine L, Labadie K, Kirilovsky A, Bertrand A, Engelen S, Madoui MA, Méheust R, Poulain J, Romac S, Richter DJ, Yoshikawa G, Dimier C, Kandels-Lewis S, Picheral M, Searson S; Tara Oceans Coordinators, Jaillon O, Aury JM, Karsenti E, Sullivan MB, Sunagawa S, Bork P, Not F, Hingamp P, Raes J, Guidi L, Ogata H, de Vargas C, Iudicone D, Bowler C, Wincker P.

Nat Commun. 2018 Jan 25;9(1):373. doi: 10.1038/s41467-017-02342-1.

6.

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.

7.

Insights on the drivers of genetic divergence in the European anchovy.

Catanese G, Watteaux R, Montes I, Barra M, Rumolo P, Borme D, Buongiorno Nardelli B, Botte V, Mazzocchi MG, Genovese S, Di Capua I, Iriondo M, Estonba A, Ruggeri P, Tirelli V, Caputo-Barucchi V, Basilone G, Bonanno A, Iudicone D, Procaccini G.

Sci Rep. 2017 Jun 23;7(1):4180. doi: 10.1038/s41598-017-03926-z.

8.

Marine diatoms change their gene expression profile when exposed to microscale turbulence under nutrient replete conditions.

Amato A, Dell'Aquila G, Musacchia F, Annunziata R, Ugarte A, Maillet N, Carbone A, Ribera d'Alcalà M, Sanges R, Iudicone D, Ferrante MI.

Sci Rep. 2017 Jun 19;7(1):3826. doi: 10.1038/s41598-017-03741-6.

9.

Nutrient consumption and chain tuning in diatoms exposed to storm-like turbulence.

Dell'Aquila G, Ferrante MI, Gherardi M, Cosentino Lagomarsino M, Ribera d'Alcalà M, Iudicone D, Amato A.

Sci Rep. 2017 May 12;7(1):1828. doi: 10.1038/s41598-017-02084-6.

10.

Modelling plankton ecosystems in the meta-omics era. Are we ready?

Stec KF, Caputi L, Buttigieg PL, D'Alelio D, Ibarbalz FM, Sullivan MB, Chaffron S, Bowler C, Ribera d'Alcalà M, Iudicone D.

Mar Genomics. 2017 Apr;32:1-17. doi: 10.1016/j.margen.2017.02.006. Epub 2017 Mar 7. Review.

PMID:
28283424
11.

Survey of the green picoalga Bathycoccus genomes in the global ocean.

Vannier T, Leconte J, Seeleuthner Y, Mondy S, Pelletier E, Aury JM, de Vargas C, Sieracki M, Iudicone D, Vaulot D, Wincker P, Jaillon O.

Sci Rep. 2016 Nov 30;6:37900. doi: 10.1038/srep37900.

12.

The formation of the ocean's anthropogenic carbon reservoir.

Iudicone D, Rodgers KB, Plancherel Y, Aumont O, Ito T, Key RM, Madec G, Ishii M.

Sci Rep. 2016 Nov 3;6:35473. doi: 10.1038/srep35473.

13.

Regulation of chain length in two diatoms as a growth-fragmentation process.

Gherardi M, Amato A, Bouly JP, Cheminant S, Ferrante MI, d'Alcalá MR, Iudicone D, Falciatore A, Cosentino Lagomarsino M.

Phys Rev E. 2016 Aug;94(2-1):022418. doi: 10.1103/PhysRevE.94.022418. Epub 2016 Aug 23.

PMID:
27627344
14.

Delineating ecologically significant taxonomic units from global patterns of marine picocyanobacteria.

Farrant GK, Doré H, Cornejo-Castillo FM, Partensky F, Ratin M, Ostrowski M, Pitt FD, Wincker P, Scanlan DJ, Iudicone D, Acinas SG, Garczarek L.

Proc Natl Acad Sci U S A. 2016 Jun 14;113(24):E3365-74. doi: 10.1073/pnas.1524865113. Epub 2016 Jun 2.

15.

Seasonal heterogeneity of ocean warming: a mortality sink for ectotherm colonizers.

Maffucci F, Corrado R, Palatella L, Borra M, Marullo S, Hochscheid S, Lacorata G, Iudicone D.

Sci Rep. 2016 Apr 5;6:23983. doi: 10.1038/srep23983.

16.

TURBOGEN: Computer-controlled vertically oscillating grid system for small-scale turbulence studies on plankton.

Amato A, Fortini S, Watteaux R, Diano M, Espa S, Esposito S, Ferrante MI, Peters F, Iudicone D, Ribera d'Alcalà M.

Rev Sci Instrum. 2016 Mar;87(3):035119. doi: 10.1063/1.4944813.

PMID:
27036831
17.

Insights into global diatom distribution and diversity in the world's ocean.

Malviya S, Scalco E, Audic S, Vincent F, Veluchamy A, Poulain J, Wincker P, Iudicone D, de Vargas C, Bittner L, Zingone A, Bowler C.

Proc Natl Acad Sci U S A. 2016 Mar 15;113(11):E1516-25. doi: 10.1073/pnas.1509523113. Epub 2016 Feb 29.

18.

Plankton networks driving carbon export in the oligotrophic ocean.

Guidi L, Chaffron S, Bittner L, Eveillard D, Larhlimi A, Roux S, Darzi Y, Audic S, Berline L, Brum J, Coelho LP, Espinoza JCI, Malviya S, Sunagawa S, Dimier C, Kandels-Lewis S, Picheral M, Poulain J, Searson S; Tara Oceans coordinators, Stemmann L, Not F, Hingamp P, Speich S, Follows M, Karp-Boss L, Boss E, Ogata H, Pesant S, Weissenbach J, Wincker P, Acinas SG, Bork P, de Vargas C, Iudicone D, Sullivan MB, Raes J, Karsenti E, Bowler C, Gorsky G.

Nature. 2016 Apr 28;532(7600):465-470. doi: 10.1038/nature16942. Epub 2016 Feb 10.

19.

Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages.

Lescot M, Hingamp P, Kojima KK, Villar E, Romac S, Veluchamy A, Boccara M, Jaillon O, Iudicone D, Bowler C, Wincker P, Claverie JM, Ogata H.

ISME J. 2016 May;10(5):1134-46. doi: 10.1038/ismej.2015.192. Epub 2015 Nov 27.

20.

The diatom molecular toolkit to handle nitrogen uptake.

Rogato A, Amato A, Iudicone D, Chiurazzi M, Ferrante MI, d'Alcalà MR.

Mar Genomics. 2015 Dec;24 Pt 1:95-108. doi: 10.1016/j.margen.2015.05.018. Epub 2015 Jun 6. Review.

PMID:
26055207
21.

Open science resources for the discovery and analysis of Tara Oceans data.

Pesant S, Not F, Picheral M, Kandels-Lewis S, Le Bescot N, Gorsky G, Iudicone D, Karsenti E, Speich S, Troublé R, Dimier C, Searson S; Tara Oceans Consortium Coordinators.

Sci Data. 2015 May 26;2:150023. doi: 10.1038/sdata.2015.23. eCollection 2015.

22.

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.

23.

Ocean plankton. Patterns and ecological drivers of ocean viral communities.

Brum JR, Ignacio-Espinoza JC, Roux S, Doulcier G, Acinas SG, Alberti A, Chaffron S, Cruaud C, de Vargas C, Gasol JM, Gorsky G, Gregory AC, Guidi L, Hingamp P, Iudicone D, Not F, Ogata H, Pesant S, Poulos BT, Schwenck SM, Speich S, Dimier C, Kandels-Lewis S, Picheral M, Searson S; Tara Oceans Coordinators, Bork P, Bowler C, Sunagawa S, Wincker P, Karsenti E, Sullivan MB.

Science. 2015 May 22;348(6237):1261498. doi: 10.1126/science.1261498. Erratum in: Science. 2016 Aug 12;353(6300). pii: aah6502. doi: 10.1126/science.aah6502.

24.

Ocean plankton. Environmental characteristics of Agulhas rings affect interocean plankton transport.

Villar E, Farrant GK, Follows M, Garczarek L, Speich S, Audic S, Bittner L, Blanke B, Brum JR, Brunet C, Casotti R, Chase A, Dolan JR, d'Ortenzio F, Gattuso JP, Grima N, Guidi L, Hill CN, Jahn O, Jamet JL, Le Goff H, Lepoivre C, Malviya S, Pelletier E, Romagnan JB, Roux S, Santini S, Scalco E, Schwenck SM, Tanaka A, Testor P, Vannier T, Vincent F, Zingone A, Dimier C, Picheral M, Searson S, Kandels-Lewis S; Tara Oceans Coordinators, Acinas SG, Bork P, Boss E, de Vargas C, Gorsky G, Ogata H, Pesant S, Sullivan MB, Sunagawa S, Wincker P, Karsenti E, Bowler C, Not F, Hingamp P, Iudicone D.

Science. 2015 May 22;348(6237):1261447. doi: 10.1126/science.1261447.

25.

Ocean plankton. Structure and function of the global ocean microbiome.

Sunagawa S, Coelho LP, Chaffron S, Kultima JR, Labadie K, Salazar G, Djahanschiri B, Zeller G, Mende DR, Alberti A, Cornejo-Castillo FM, Costea PI, Cruaud C, d'Ovidio F, Engelen S, Ferrera I, Gasol JM, Guidi L, Hildebrand F, Kokoszka F, Lepoivre C, Lima-Mendez G, Poulain J, Poulos BT, Royo-Llonch M, Sarmento H, Vieira-Silva S, Dimier C, Picheral M, Searson S, Kandels-Lewis S; Tara Oceans coordinators, Bowler C, de Vargas C, Gorsky G, Grimsley N, Hingamp P, Iudicone D, Jaillon O, Not F, Ogata H, Pesant S, Speich S, Stemmann L, Sullivan MB, Weissenbach J, Wincker P, Karsenti E, Raes J, Acinas SG, Bork P.

Science. 2015 May 22;348(6237):1261359. doi: 10.1126/science.1261359.

26.

The dynamics of sexual phase in the marine diatom Pseudo-nitzschia multistriata (Bacillariophyceae).

Scalco E, Stec K, Iudicone D, Ferrante MI, Montresor M.

J Phycol. 2014 Oct;50(5):817-28. doi: 10.1111/jpy.12225. Epub 2014 Sep 14.

PMID:
26988637
27.

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.

28.

Numerical analysis of cumulative impact of phytoplankton photoresponses to light variation on carbon assimilation.

Esposito S, Botte V, Iudicone D, d'Alcala' MR.

J Theor Biol. 2009 Dec 7;261(3):361-71. doi: 10.1016/j.jtbi.2009.07.032. Epub 2009 Aug 3.

PMID:
19654013

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