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Items: 1 to 50 of 63

1.

Reaction of O2 with a diiron protein generates a mixed-valent Fe2+/Fe3+ center and peroxide.

Bradley JM, Svistunenko DA, Pullin J, Hill N, Stuart RK, Palenik B, Wilson MT, Hemmings AM, Moore GR, Le Brun NE.

Proc Natl Acad Sci U S A. 2019 Feb 5;116(6):2058-2067. doi: 10.1073/pnas.1809913116. Epub 2019 Jan 18.

PMID:
30659147
2.

Temporal dynamics of eukaryotic microbial diversity at a coastal Pacific site.

Nagarkar M, Countway PD, Du Yoo Y, Daniels E, Poulton NJ, Palenik B.

ISME J. 2018 Sep;12(9):2278-2291. doi: 10.1038/s41396-018-0172-3. Epub 2018 Jun 13.

PMID:
29899506
3.

Feeding and grazing impact by the bloom-forming euglenophyte Eutreptiella eupharyngea on marine eubacteria and cyanobacteria.

Yoo YD, Seong KA, Kim HS, Jeong HJ, Yoon EY, Park J, Kim JI, Shin W, Palenik B.

Harmful Algae. 2018 Mar;73:98-109. doi: 10.1016/j.hal.2018.02.003. Epub 2018 Feb 21.

PMID:
29602510
4.

Transcriptomic and microRNAomic profiling reveals multi-faceted mechanisms to cope with phosphate stress in a dinoflagellate.

Shi X, Lin X, Li L, Li M, Palenik B, Lin S.

ISME J. 2017 Oct;11(10):2209-2218. doi: 10.1038/ismej.2017.81. Epub 2017 May 26.

5.

Use of plankton-derived vitamin B1 precursors, especially thiazole-related precursor, by key marine picoeukaryotic phytoplankton.

Paerl RW, Bouget FY, Lozano JC, Vergé V, Schatt P, Allen EE, Palenik B, Azam F.

ISME J. 2017 Mar;11(3):753-765. doi: 10.1038/ismej.2016.145. Epub 2016 Dec 9.

6.

Copper toxicity response influences mesotrophic Synechococcus community structure.

Stuart RK, Bundy R, Buck K, Ghassemain M, Barbeau K, Palenik B.

Environ Microbiol. 2017 Feb;19(2):756-769. doi: 10.1111/1462-2920.13630. Epub 2017 Jan 26.

PMID:
27884049
7.

Comparison of the seasonal variations of Synechococcus assemblage structures in estuarine waters and coastal waters of Hong Kong.

Xia X, Vidyarathna NK, Palenik B, Lee P, Liu H.

Appl Environ Microbiol. 2015 Nov;81(21):7644-55. doi: 10.1128/AEM.01895-15. Epub 2015 Aug 28.

8.

Diversity and genome dynamics of marine cyanophages using metagenomic analyses.

Ma Y, Allen LZ, Palenik B.

Environ Microbiol Rep. 2014 Dec;6(6):583-94.

PMID:
25756111
9.

Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities.

Dupont CL, McCrow JP, Valas R, Moustafa A, Walworth N, Goodenough U, Roth R, Hogle SL, Bai J, Johnson ZI, Mann E, Palenik B, Barbeau KA, Venter JC, Allen AE.

ISME J. 2015 May;9(5):1076-92. doi: 10.1038/ismej.2014.198. Epub 2014 Oct 21.

10.

Molecular mechanisms by which marine phytoplankton respond to their dynamic chemical environment.

Palenik B.

Ann Rev Mar Sci. 2015;7:325-40. doi: 10.1146/annurev-marine-010814-015639. Epub 2014 Sep 3. Review.

PMID:
25195866
11.

Broad-host-range vector system for synthetic biology and biotechnology in cyanobacteria.

Taton A, Unglaub F, Wright NE, Zeng WY, Paz-Yepes J, Brahamsha B, Palenik B, Peterson TC, Haerizadeh F, Golden SS, Golden JW.

Nucleic Acids Res. 2014;42(17):e136. doi: 10.1093/nar/gku673. Epub 2014 Jul 29.

12.

Genome of the halotolerant green alga Picochlorum sp. reveals strategies for thriving under fluctuating environmental conditions.

Foflonker F, Price DC, Qiu H, Palenik B, Wang S, Bhattacharya D.

Environ Microbiol. 2015 Feb;17(2):412-26. doi: 10.1111/1462-2920.12541. Epub 2014 Jul 24.

PMID:
24965277
13.

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing.

Keeling PJ, Burki F, Wilcox HM, Allam B, Allen EE, Amaral-Zettler LA, Armbrust EV, Archibald JM, Bharti AK, Bell CJ, Beszteri B, Bidle KD, Cameron CT, Campbell L, Caron DA, Cattolico RA, Collier JL, Coyne K, Davy SK, Deschamps P, Dyhrman ST, Edvardsen B, Gates RD, Gobler CJ, Greenwood SJ, Guida SM, Jacobi JL, Jakobsen KS, James ER, Jenkins B, John U, Johnson MD, Juhl AR, Kamp A, Katz LA, Kiene R, Kudryavtsev A, Leander BS, Lin S, Lovejoy C, Lynn D, Marchetti A, McManus G, Nedelcu AM, Menden-Deuer S, Miceli C, Mock T, Montresor M, Moran MA, Murray S, Nadathur G, Nagai S, Ngam PB, Palenik B, Pawlowski J, Petroni G, Piganeau G, Posewitz MC, Rengefors K, Romano G, Rumpho ME, Rynearson T, Schilling KB, Schroeder DC, Simpson AG, Slamovits CH, Smith DR, Smith GJ, Smith SR, Sosik HM, Stief P, Theriot E, Twary SN, Umale PE, Vaulot D, Wawrik B, Wheeler GL, Wilson WH, Xu Y, Zingone A, Worden AZ.

PLoS Biol. 2014 Jun 24;12(6):e1001889. doi: 10.1371/journal.pbio.1001889. eCollection 2014 Jun. No abstract available.

14.

Microalgal assemblages in a poikilohaline pond.

Wang S, Lambert W, Giang S, Goericke R, Palenik B.

J Phycol. 2014 Apr;50(2):303-9. doi: 10.1111/jpy.12158. Epub 2014 Feb 12.

PMID:
26988187
15.

Exposure to bloom-like concentrations of two marine Synechococcus cyanobacteria (strains CC9311 and CC9902) differentially alters fish behaviour.

Hamilton TJ, Paz-Yepes J, Morrison RA, Palenik B, Tresguerres M.

Conserv Physiol. 2014 Jun 5;2(1):cou020. doi: 10.1093/conphys/cou020. eCollection 2014.

16.

Impact of DNA damaging agents on genome-wide transcriptional profiles in two marine Synechococcus species.

Tetu SG, Johnson DA, Varkey D, Phillippy K, Stuart RK, Dupont CL, Hassan KA, Palenik B, Paulsen IT.

Front Microbiol. 2013 Aug 16;4:232. doi: 10.3389/fmicb.2013.00232. eCollection 2013.

17.

Role of a microcin-C-like biosynthetic gene cluster in allelopathic interactions in marine Synechococcus.

Paz-Yepes J, Brahamsha B, Palenik B.

Proc Natl Acad Sci U S A. 2013 Jul 16;110(29):12030-5. doi: 10.1073/pnas.1306260110. Epub 2013 Jul 1.

18.

Bringing the ocean into the laboratory to probe the chemical complexity of sea spray aerosol.

Prather KA, Bertram TH, Grassian VH, Deane GB, Stokes MD, Demott PJ, Aluwihare LI, Palenik BP, Azam F, Seinfeld JH, Moffet RC, Molina MJ, Cappa CD, Geiger FM, Roberts GC, Russell LM, Ault AP, Baltrusaitis J, Collins DB, Corrigan CE, Cuadra-Rodriguez LA, Ebben CJ, Forestieri SD, Guasco TL, Hersey SP, Kim MJ, Lambert WF, Modini RL, Mui W, Pedler BE, Ruppel MJ, Ryder OS, Schoepp NG, Sullivan RC, Zhao D.

Proc Natl Acad Sci U S A. 2013 May 7;110(19):7550-5. doi: 10.1073/pnas.1300262110. Epub 2013 Apr 25.

19.

Genomic island genes in a coastal marine Synechococcus strain confer enhanced tolerance to copper and oxidative stress.

Stuart RK, Brahamsha B, Busby K, Palenik B.

ISME J. 2013 Jun;7(6):1139-49. doi: 10.1038/ismej.2012.175. Epub 2013 Jan 24.

20.

Genetic identification of a high-affinity Ni transporter and the transcriptional response to Ni deprivation in Synechococcus sp. strain WH8102.

Dupont CL, Johnson DA, Phillippy K, Paulsen IT, Brahamsha B, Palenik B.

Appl Environ Microbiol. 2012 Nov;78(22):7822-32. doi: 10.1128/AEM.01739-12. Epub 2012 Aug 17.

21.

Analysis of two marine metagenomes reveals the diversity of plasmids in oceanic environments.

Ma Y, Paulsen IT, Palenik B.

Environ Microbiol. 2012 Feb;14(2):453-66. doi: 10.1111/j.1462-2920.2011.02633.x. Epub 2011 Nov 8.

PMID:
22059529
22.

Learning to read the oceans genomics of marine phytoplankton.

Rynearson TA, Palenik B.

Adv Mar Biol. 2011;60:1-39. doi: 10.1016/B978-0-12-385529-9.00001-9. Review.

PMID:
21962749
23.

Selection in coastal Synechococcus (cyanobacteria) populations evaluated from environmental metagenomes.

Tai V, Poon AF, Paulsen IT, Palenik B.

PLoS One. 2011;6(9):e24249. doi: 10.1371/journal.pone.0024249. Epub 2011 Sep 9.

24.

CHARACTERIZATION OF A FUNCTIONAL VANADIUM-DEPENDENT BROMOPEROXIDASE IN THE MARINE CYANOBACTERIUM SYNECHOCOCCUS SP. CC9311(1).

Johnson TL, Palenik B, Brahamsha B.

J Phycol. 2011 Aug;47(4):792-801. doi: 10.1111/j.1529-8817.2011.01007.x. Epub 2011 Jun 15.

PMID:
27020015
25.

Variability in protist grazing and growth on different marine Synechococcus isolates.

Apple JK, Strom SL, Palenik B, Brahamsha B.

Appl Environ Microbiol. 2011 May;77(9):3074-84. doi: 10.1128/AEM.02241-10. Epub 2011 Mar 11.

26.

Computational prediction of the osmoregulation network in Synechococcus sp. WH8102.

Mao X, Olman V, Stuart R, Paulsen IT, Palenik B, Xu Y.

BMC Genomics. 2010 May 10;11:291. doi: 10.1186/1471-2164-11-291.

27.

PtrA is required for coordinate regulation of gene expression during phosphate stress in a marine Synechococcus.

Ostrowski M, Mazard S, Tetu SG, Phillippy K, Johnson A, Palenik B, Paulsen IT, Scanlan DJ.

ISME J. 2010 Jul;4(7):908-21. doi: 10.1038/ismej.2010.24. Epub 2010 Apr 8.

PMID:
20376102
28.

Dynamics of marine bacterial and phytoplankton populations using multiplex liquid bead array technology.

Mayali X, Palenik B, Burton RS.

Environ Microbiol. 2010 Apr;12(4):975-89. doi: 10.1111/j.1462-2920.2004.02142.x. Epub 2010 Jan 26.

PMID:
20105218
29.

Whole-genome microarray analyses of Synechococcus-Vibrio interactions.

Tai V, Paulsen IT, Phillippy K, Johnson DA, Palenik B.

Environ Microbiol. 2009 Oct;11(10):2698-709. doi: 10.1111/j.1462-2920.2009.01997.x. Epub 2009 Jul 30.

PMID:
19659554
30.

Structure of compositionally simple lipopolysaccharide from marine synechococcus.

Snyder DS, Brahamsha B, Azadi P, Palenik B.

J Bacteriol. 2009 Sep;191(17):5499-509. doi: 10.1128/JB.00121-09. Epub 2009 Jul 6.

31.

Coastal strains of marine Synechococcus species exhibit increased tolerance to copper shock and a distinctive transcriptional response relative to those of open-ocean strains.

Stuart RK, Dupont CL, Johnson DA, Paulsen IT, Palenik B.

Appl Environ Microbiol. 2009 Aug;75(15):5047-57. doi: 10.1128/AEM.00271-09. Epub 2009 Jun 5.

32.

MOLECULAR CHARACTERIZATION AND ANTIBODY DETECTION OF A NITROGEN-REGULATED CELL-SURFACE PROTEIN OF THE COCCOLITHOPHORE EMILIANIA HUXLEYI (PRYMNESIOPHYCEAE)(1).

Landry DM, Kristiansen S, Palenik BP.

J Phycol. 2009 Jun;45(3):650-9. doi: 10.1111/j.1529-8817.2009.00693.x. Epub 2009 Jun 1.

PMID:
27034042
33.

Statistical analysis of microarray data with replicated spots: a case study with synechococcus WH8102.

Thomas EV, Phillippy KH, Brahamsha B, Haaland DM, Timlin JA, Elbourne LD, Palenik B, Paulsen IT.

Comp Funct Genomics. 2009:950171. doi: 10.1155/2009/950171. Epub 2009 Apr 23.

34.

Temporal variation of Synechococcus clades at a coastal Pacific Ocean monitoring site.

Tai V, Palenik B.

ISME J. 2009 Aug;3(8):903-15. doi: 10.1038/ismej.2009.35. Epub 2009 Apr 9.

PMID:
19360028
35.

Microarray analysis of phosphate regulation in the marine cyanobacterium Synechococcus sp. WH8102.

Tetu SG, Brahamsha B, Johnson DA, Tai V, Phillippy K, Palenik B, Paulsen IT.

ISME J. 2009 Jul;3(7):835-49. doi: 10.1038/ismej.2009.31. Epub 2009 Apr 2.

PMID:
19340084
36.

Coastal Synechococcus metagenome reveals major roles for horizontal gene transfer and plasmids in population diversity.

Palenik B, Ren Q, Tai V, Paulsen IT.

Environ Microbiol. 2009 Feb;11(2):349-59. doi: 10.1111/j.1462-2920.2008.01772.x.

PMID:
19196269
37.

Unraveling the genomic mosaic of a ubiquitous genus of marine cyanobacteria.

Dufresne A, Ostrowski M, Scanlan DJ, Garczarek L, Mazard S, Palenik BP, Paulsen IT, de Marsac NT, Wincker P, Dossat C, Ferriera S, Johnson J, Post AF, Hess WR, Partensky F.

Genome Biol. 2008;9(5):R90. doi: 10.1186/gb-2008-9-5-r90. Epub 2008 May 28.

38.

Diversity, function and evolution of genes coding for putative Ni-containing superoxide dismutases.

Dupont CL, Neupane K, Shearer J, Palenik B.

Environ Microbiol. 2008 Jul;10(7):1831-43. doi: 10.1111/j.1462-2920.2008.01604.x. Epub 2008 Apr 10.

PMID:
18412551
39.
40.

Ni uptake and limitation in marine Synechococcus strains.

Dupont CL, Barbeau K, Palenik B.

Appl Environ Microbiol. 2008 Jan;74(1):23-31. Epub 2007 Oct 19.

41.

The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation.

Palenik B, Grimwood J, Aerts A, Rouzé P, Salamov A, Putnam N, Dupont C, Jorgensen R, Derelle E, Rombauts S, Zhou K, Otillar R, Merchant SS, Podell S, Gaasterland T, Napoli C, Gendler K, Manuell A, Tai V, Vallon O, Piganeau G, Jancek S, Heijde M, Jabbari K, Bowler C, Lohr M, Robbens S, Werner G, Dubchak I, Pazour GJ, Ren Q, Paulsen I, Delwiche C, Schmutz J, Rokhsar D, Van de Peer Y, Moreau H, Grigoriev IV.

Proc Natl Acad Sci U S A. 2007 May 1;104(18):7705-10. Epub 2007 Apr 25.

42.

Modern proteomes contain putative imprints of ancient shifts in trace metal geochemistry.

Dupont CL, Yang S, Palenik B, Bourne PE.

Proc Natl Acad Sci U S A. 2006 Nov 21;103(47):17822-7. Epub 2006 Nov 10.

43.

Genome sequence of Synechococcus CC9311: Insights into adaptation to a coastal environment.

Palenik B, Ren Q, Dupont CL, Myers GS, Heidelberg JF, Badger JH, Madupu R, Nelson WC, Brinkac LM, Dodson RJ, Durkin AS, Daugherty SC, Sullivan SA, Khouri H, Mohamoud Y, Halpin R, Paulsen IT.

Proc Natl Acad Sci U S A. 2006 Sep 5;103(36):13555-9. Epub 2006 Aug 25.

44.

Gene expression induced by copper stress in the diatom Thalassiosira pseudonana.

Davis AK, Hildebrand M, Palenik B.

Eukaryot Cell. 2006 Jul;5(7):1157-68.

45.

Computational inference and experimental validation of the nitrogen assimilation regulatory network in cyanobacterium Synechococcus sp. WH 8102.

Su Z, Mao F, Dam P, Wu H, Olman V, Paulsen IT, Palenik B, Xu Y.

Nucleic Acids Res. 2006 Feb 10;34(3):1050-65. Print 2006.

46.
47.

The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism.

Armbrust EV, Berges JA, Bowler C, Green BR, Martinez D, Putnam NH, Zhou S, Allen AE, Apt KE, Bechner M, Brzezinski MA, Chaal BK, Chiovitti A, Davis AK, Demarest MS, Detter JC, Glavina T, Goodstein D, Hadi MZ, Hellsten U, Hildebrand M, Jenkins BD, Jurka J, Kapitonov VV, Kröger N, Lau WW, Lane TW, Larimer FW, Lippmeier JC, Lucas S, Medina M, Montsant A, Obornik M, Parker MS, Palenik B, Pazour GJ, Richardson PM, Rynearson TA, Saito MA, Schwartz DC, Thamatrakoln K, Valentin K, Vardi A, Wilkerson FP, Rokhsar DS.

Science. 2004 Oct 1;306(5693):79-86.

48.

Operon prediction by comparative genomics: an application to the Synechococcus sp. WH8102 genome.

Chen X, Su Z, Dam P, Palenik B, Xu Y, Jiang T.

Nucleic Acids Res. 2004 Apr 19;32(7):2147-57. Print 2004.

49.

The genome of a motile marine Synechococcus.

Palenik B, Brahamsha B, Larimer FW, Land M, Hauser L, Chain P, Lamerdin J, Regala W, Allen EE, McCarren J, Paulsen I, Dufresne A, Partensky F, Webb EA, Waterbury J.

Nature. 2003 Aug 28;424(6952):1037-42. Epub 2003 Aug 13.

50.

Carbon sequestration in Synechococcus Sp.: from molecular machines to hierarchical modeling.

Heffelfinger GS, Martino A, Gorin A, Xu Y, Rintoul MD 3rd, Geist A, Al-Hashimi HM, Davidson GS, Faulon JL, Frink LJ, Haaland DM, Hart WE, Jakobsson E, Lane T, Li M, Locascio P, Olken F, Olman V, Palenik B, Plimpton SJ, Roe DC, Samatova NF, Shah M, Shoshoni A, Strauss CE, Thomas EV, Timlin JA, Xu D.

OMICS. 2002;6(4):305-30.

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