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Items: 1 to 50 of 62

1.

Stratification Modelling of Key Bacterial Taxa Driven by Metabolic Dynamics in Meromictic Lakes.

Zhu K, Lauro FM, Su H.

Sci Rep. 2018 Jun 22;8(1):9538. doi: 10.1038/s41598-018-27973-2.

2.

Metagenomics Reveals the Influence of Land Use and Rain on the Benthic Microbial Communities in a Tropical Urban Waterway.

Saxena G, Mitra S, Marzinelli EM, Xie C, Wei TJ, Steinberg PD, Williams RBH, Kjelleberg S, Lauro FM, Swarup S.

mSystems. 2018 Jun 5;3(3). pii: e00136-17. doi: 10.1128/mSystems.00136-17. eCollection 2018 May-Jun.

3.

Draft Genome Sequence of Enterobacter sp. Strain EA-1, an Electrochemically Active Microorganism Isolated from Tropical Sediment.

Doyle LE, Williams RBH, Rice SA, Marsili E, Lauro FM.

Genome Announc. 2018 Mar 1;6(9). pii: e00111-18. doi: 10.1128/genomeA.00111-18.

4.

MetaLIMS, a simple open-source laboratory information management system for small metagenomic labs.

Heinle CE, Gaultier NPE, Miller D, Purbojati RW, Lauro FM.

Gigascience. 2017 Jun 1;6(6):1-6. doi: 10.1093/gigascience/gix025.

5.

Erratum: Global transcriptomic responses of Escherichia coli K-12 to volatile organic compounds.

Yung PY, Lo Grasso L, Mohidin AF, Acerbi E, Hinks J, Seviour T, Marsili E, Lauro FM.

Sci Rep. 2017 Apr 6;7:33108. doi: 10.1038/srep33108. No abstract available.

6.

The Anti-Oxidant Defense System of the Marine Polar Ciliate Euplotes nobilii: Characterization of the MsrB Gene Family.

Ricci F, Lauro FM, Grzymski JJ, Read R, Bakiu R, Santovito G, Luporini P, Vallesi A.

Biology (Basel). 2017 Jan 18;6(1). pii: E4. doi: 10.3390/biology6010004.

7.

Ecological succession of the microbial communities of an air-conditioning cooling coil in the tropics.

Acerbi E, Chénard C, Miller D, Gaultier NE, Heinle CE, Chang VW, Uchida A, Drautz-Moses DI, Schuster SC, Lauro FM.

Indoor Air. 2017 Mar;27(2):345-353. doi: 10.1111/ina.12306. Epub 2016 May 24.

PMID:
27120709
8.

Sub-toxic concentrations of volatile organic compounds inhibit extracellular respiration of Escherichia coli cells grown in anodic bioelectrochemical systems.

Santoro C, Mohidin AF, Grasso LL, Seviour T, Palanisamy K, Hinks J, Lauro FM, Marsili E.

Bioelectrochemistry. 2016 Dec;112:173-7. doi: 10.1016/j.bioelechem.2016.02.003. Epub 2016 Feb 21.

PMID:
26947021
9.

Global transcriptomic responses of Escherichia coli K-12 to volatile organic compounds.

Yung PY, Grasso LL, Mohidin AF, Acerbi E, Hinks J, Seviour T, Marsili E, Lauro FM.

Sci Rep. 2016 Jan 28;6:19899. doi: 10.1038/srep19899. Erratum in: Sci Rep. 2017 Apr 06;7:33108.

10.

Spatially extensive microbial biogeography of the Indian Ocean provides insights into the unique community structure of a pristine coral atoll.

Jeffries TC, Ostrowski M, Williams RB, Xie C, Jensen RM, Grzymski JJ, Senstius SJ, Givskov M, Hoeke R, Philip GK, Neches RY, Drautz-Moses DI, Chénard C, Paulsen IT, Lauro FM.

Sci Rep. 2015 Oct 20;5:15383. doi: 10.1038/srep15383.

11.

Marine Microbial Secondary Metabolites: Pathways, Evolution and Physiological Roles.

Giordano D, Coppola D, Russo R, Denaro R, Giuliano L, Lauro FM, di Prisco G, Verde C.

Adv Microb Physiol. 2015;66:357-428. doi: 10.1016/bs.ampbs.2015.04.001. Epub 2015 May 30. Review.

PMID:
26210108
12.

The ocean sampling day consortium.

Kopf A, Bicak M, Kottmann R, Schnetzer J, Kostadinov I, Lehmann K, Fernandez-Guerra A, Jeanthon C, Rahav E, Ullrich M, Wichels A, Gerdts G, Polymenakou P, Kotoulas G, Siam R, Abdallah RZ, Sonnenschein EC, Cariou T, O'Gara F, Jackson S, Orlic S, Steinke M, Busch J, Duarte B, Caçador I, Canning-Clode J, Bobrova O, Marteinsson V, Reynisson E, Loureiro CM, Luna GM, Quero GM, Löscher CR, Kremp A, DeLorenzo ME, Øvreås L, Tolman J, LaRoche J, Penna A, Frischer M, Davis T, Katherine B, Meyer CP, Ramos S, Magalhães C, Jude-Lemeilleur F, Aguirre-Macedo ML, Wang S, Poulton N, Jones S, Collin R, Fuhrman JA, Conan P, Alonso C, Stambler N, Goodwin K, Yakimov MM, Baltar F, Bodrossy L, Van De Kamp J, Frampton DM, Ostrowski M, Van Ruth P, Malthouse P, Claus S, Deneudt K, Mortelmans J, Pitois S, Wallom D, Salter I, Costa R, Schroeder DC, Kandil MM, Amaral V, Biancalana F, Santana R, Pedrotti ML, Yoshida T, Ogata H, Ingleton T, Munnik K, Rodriguez-Ezpeleta N, Berteaux-Lecellier V, Wecker P, Cancio I, Vaulot D, Bienhold C, Ghazal H, Chaouni B, Essayeh S, Ettamimi S, Zaid el H, Boukhatem N, Bouali A, Chahboune R, Barrijal S, Timinouni M, El Otmani F, Bennani M, Mea M, Todorova N, Karamfilov V, Ten Hoopen P, Cochrane G, L'Haridon S, Bizsel KC, Vezzi A, Lauro FM, Martin P, Jensen RM, Hinks J, Gebbels S, Rosselli R, De Pascale F, Schiavon R, Dos Santos A, Villar E, Pesant S, Cataletto B, Malfatti F, Edirisinghe R, Silveira JA, Barbier M, Turk V, Tinta T, Fuller WJ, Salihoglu I, Serakinci N, Ergoren MC, Bresnan E, Iriberri J, Nyhus PA, Bente E, Karlsen HE, Golyshin PN, Gasol JM, Moncheva S, Dzhembekova N, Johnson Z, Sinigalliano CD, Gidley ML, Zingone A, Danovaro R, Tsiamis G, Clark MS, Costa AC, El Bour M, Martins AM, Collins RE, Ducluzeau AL, Martinez J, Costello MJ, Amaral-Zettler LA, Gilbert JA, Davies N, Field D, Glöckner FO.

Gigascience. 2015 Jun 19;4:27. doi: 10.1186/s13742-015-0066-5. eCollection 2015.

13.

Complete Genome Sequence and Transcriptomic Analysis of the Novel Pathogen Elizabethkingia anophelis in Response to Oxidative Stress.

Li Y, Liu Y, Chew SC, Tay M, Salido MM, Teo J, Lauro FM, Givskov M, Yang L.

Genome Biol Evol. 2015 May 26;7(6):1676-85. doi: 10.1093/gbe/evv101.

14.

The common oceanographer: crowdsourcing the collection of oceanographic data.

Lauro FM, Senstius SJ, Cullen J, Neches R, Jensen RM, Brown MV, Darling AE, Givskov M, McDougald D, Hoeke R, Ostrowski M, Philip GK, Paulsen IT, Grzymski JJ.

PLoS Biol. 2014 Sep 9;12(9):e1001947. doi: 10.1371/journal.pbio.1001947. eCollection 2014 Sep. No abstract available.

15.

Population dynamics of an Acinetobacter baumannii clonal complex during colonization of patients.

Wen H, Wang K, Liu Y, Tay M, Lauro FM, Huang H, Wu H, Liang H, Ding Y, Givskov M, Chen Y, Yang L.

J Clin Microbiol. 2014 Sep;52(9):3200-8. doi: 10.1128/JCM.00921-14. Epub 2014 Jun 20.

16.

Ecotype diversity and conversion in Photobacterium profundum strains.

Lauro FM, Eloe-Fadrosh EA, Richter TK, Vitulo N, Ferriera S, Johnson JH, Bartlett DH.

PLoS One. 2014 May 13;9(5):e96953. doi: 10.1371/journal.pone.0096953. eCollection 2014.

17.

A trait based perspective on the biogeography of common and abundant marine bacterioplankton clades.

Brown MV, Ostrowski M, Grzymski JJ, Lauro FM.

Mar Genomics. 2014 Jun;15:17-28. doi: 10.1016/j.margen.2014.03.002. Epub 2014 Mar 21. Review.

18.

High level of intergenera gene exchange shapes the evolution of haloarchaea in an isolated Antarctic lake.

DeMaere MZ, Williams TJ, Allen MA, Brown MV, Gibson JA, Rich J, Lauro FM, Dyall-Smith M, Davenport KW, Woyke T, Kyrpides NC, Tringe SG, Cavicchioli R.

Proc Natl Acad Sci U S A. 2013 Oct 15;110(42):16939-44. doi: 10.1073/pnas.1307090110. Epub 2013 Sep 30.

19.

Advection shapes Southern Ocean microbial assemblages independent of distance and environment effects.

Wilkins D, van Sebille E, Rintoul SR, Lauro FM, Cavicchioli R.

Nat Commun. 2013;4:2457. doi: 10.1038/ncomms3457.

PMID:
24036630
20.

Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae.

Lagkouvardos I, Weinmaier T, Lauro FM, Cavicchioli R, Rattei T, Horn M.

ISME J. 2014 Jan;8(1):115-25. doi: 10.1038/ismej.2013.142. Epub 2013 Aug 15.

21.

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.

22.

Complete Genome Sequence of the Deep-Sea Bacterium Psychromonas Strain CNPT3.

Lauro FM, Stratton TK, Chastain RA, Ferriera S, Johnson J, Goldberg SM, Yayanos AA, Bartlett DH.

Genome Announc. 2013 May 30;1(3). pii: e00304-13. doi: 10.1128/genomeA.00304-13.

23.

Draft Genome Sequence of the Deep-Sea Bacterium Shewanella benthica Strain KT99.

Lauro FM, Chastain RA, Ferriera S, Johnson J, Yayanos AA, Bartlett DH.

Genome Announc. 2013 May 30;1(3). pii: e00210-13. doi: 10.1128/genomeA.00210-13.

24.

Metagenomic insights into strategies of carbon conservation and unusual sulfur biogeochemistry in a hypersaline Antarctic lake.

Yau S, Lauro FM, Williams TJ, Demaere MZ, Brown MV, Rich J, Gibson JA, Cavicchioli R.

ISME J. 2013 Oct;7(10):1944-61. doi: 10.1038/ismej.2013.69. Epub 2013 Apr 25.

25.

Biogeographic partitioning of Southern Ocean microorganisms revealed by metagenomics.

Wilkins D, Lauro FM, Williams TJ, Demaere MZ, Brown MV, Hoffman JM, Andrews-Pfannkoch C, McQuaid JB, Riddle MJ, Rintoul SR, Cavicchioli R.

Environ Microbiol. 2013 May;15(5):1318-33. doi: 10.1111/1462-2920.12035. Epub 2012 Nov 30.

PMID:
23199136
26.

Key microbial drivers in Antarctic aquatic environments.

Wilkins D, Yau S, Williams TJ, Allen MA, Brown MV, DeMaere MZ, Lauro FM, Cavicchioli R.

FEMS Microbiol Rev. 2013 May;37(3):303-35. doi: 10.1111/1574-6976.12007. Epub 2012 Nov 20. Review.

27.

Global biogeography of SAR11 marine bacteria.

Brown MV, Lauro FM, DeMaere MZ, Muir L, Wilkins D, Thomas T, Riddle MJ, Fuhrman JA, Andrews-Pfannkoch C, Hoffman JM, McQuaid JB, Allen A, Rintoul SR, Cavicchioli R.

Mol Syst Biol. 2012 Jul 17;8:595. doi: 10.1038/msb.2012.28.

28.

A metaproteomic assessment of winter and summer bacterioplankton from Antarctic Peninsula coastal surface waters.

Williams TJ, Long E, Evans F, Demaere MZ, Lauro FM, Raftery MJ, Ducklow H, Grzymski JJ, Murray AE, Cavicchioli R.

ISME J. 2012 Oct;6(10):1883-900. doi: 10.1038/ismej.2012.28. Epub 2012 Apr 26.

29.

Simple high-throughput annotation pipeline (SHAP).

DeMaere MZ, Lauro FM, Thomas T, Yau S, Cavicchioli R.

Bioinformatics. 2011 Sep 1;27(17):2431-2. doi: 10.1093/bioinformatics/btr411. Epub 2011 Jul 19.

PMID:
21775307
30.

Virophage control of antarctic algal host-virus dynamics.

Yau S, Lauro FM, DeMaere MZ, Brown MV, Thomas T, Raftery MJ, Andrews-Pfannkoch C, Lewis M, Hoffman JM, Gibson JA, Cavicchioli R.

Proc Natl Acad Sci U S A. 2011 Apr 12;108(15):6163-8. doi: 10.1073/pnas.1018221108. Epub 2011 Mar 28.

31.

Defining the response of a microorganism to temperatures that span its complete growth temperature range (-2°C to 28°C) using multiplex quantitative proteomics.

Williams TJ, Lauro FM, Ertan H, Burg DW, Poljak A, Raftery MJ, Cavicchioli R.

Environ Microbiol. 2011 Aug;13(8):2186-203. doi: 10.1111/j.1462-2920.2011.02467.x. Epub 2011 Mar 28.

PMID:
21443741
32.

An integrative study of a meromictic lake ecosystem in Antarctica.

Lauro FM, DeMaere MZ, Yau S, Brown MV, Ng C, Wilkins D, Raftery MJ, Gibson JA, Andrews-Pfannkoch C, Lewis M, Hoffman JM, Thomas T, Cavicchioli R.

ISME J. 2011 May;5(5):879-95. doi: 10.1038/ismej.2010.185. Epub 2010 Dec 2.

33.

The RNA polymerase subunits E/F from the Antarctic archaeon Methanococcoides burtonii bind to specific species of mRNA.

De Francisci D, Campanaro S, Kornfeld G, Siddiqui KS, Williams TJ, Ertan H, Treu L, Pilak O, Lauro FM, Harrop SJ, Curmi PM, Cavicchioli R.

Environ Microbiol. 2011 Aug;13(8):2039-55. doi: 10.1111/j.1462-2920.2010.02385.x. Epub 2010 Nov 25.

PMID:
21108724
34.

Temperature-dependent global gene expression in the Antarctic archaeon Methanococcoides burtonii.

Campanaro S, Williams TJ, Burg DW, De Francisci D, Treu L, Lauro FM, Cavicchioli R.

Environ Microbiol. 2011 Aug;13(8):2018-38. doi: 10.1111/j.1462-2920.2010.02367.x. Epub 2010 Nov 8.

PMID:
21059163
35.

Cold adaptation in the marine bacterium, Sphingopyxis alaskensis, assessed using quantitative proteomics.

Ting L, Williams TJ, Cowley MJ, Lauro FM, Guilhaus M, Raftery MJ, Cavicchioli R.

Environ Microbiol. 2010 Oct;12(10):2658-76. doi: 10.1111/j.1462-2920.2010.02235.x.

PMID:
20482592
36.

Metaproteogenomic analysis of a dominant green sulfur bacterium from Ace Lake, Antarctica.

Ng C, DeMaere MZ, Williams TJ, Lauro FM, Raftery M, Gibson JA, Andrews-Pfannkoch C, Lewis M, Hoffman JM, Thomas T, Cavicchioli R.

ISME J. 2010 Aug;4(8):1002-19. doi: 10.1038/ismej.2010.28. Epub 2010 Mar 18.

PMID:
20237513
37.

Insights into piezophily from genetic studies on the deep-sea bacterium, Photobacterium profundum SS9.

El-Hajj ZW, Allcock D, Tryfona T, Lauro FM, Sawyer L, Bartlett DH, Ferguson GP.

Ann N Y Acad Sci. 2010 Feb;1189:143-8. doi: 10.1111/j.1749-6632.2009.05178.x. Review.

PMID:
20233381
38.

Analyzing the hydrophobic proteome of the antarctic archaeon Methanococcoides burtonii using differential solubility fractionation.

Burg DW, Lauro FM, Williams TJ, Raftery MJ, Guilhaus M, Cavicchioli R.

J Proteome Res. 2010 Feb 5;9(2):664-76. doi: 10.1021/pr9007865.

PMID:
19968327
39.

Mining cyanobacterial genomes for genes encoding complex biosynthetic pathways.

Kalaitzis JA, Lauro FM, Neilan BA.

Nat Prod Rep. 2009 Nov;26(11):1447-65. doi: 10.1039/b817074f. Epub 2009 Sep 14. Review. No abstract available.

PMID:
19844640
40.

The genomic basis of trophic strategy in marine bacteria.

Lauro FM, McDougald D, Thomas T, Williams TJ, Egan S, Rice S, DeMaere MZ, Ting L, Ertan H, Johnson J, Ferriera S, Lapidus A, Anderson I, Kyrpides N, Munk AC, Detter C, Han CS, Brown MV, Robb FT, Kjelleberg S, Cavicchioli R.

Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15527-33. doi: 10.1073/pnas.0903507106. Epub 2009 Sep 8.

41.

Importance of proteins controlling initiation of DNA replication in the growth of the high-pressure-loving bacterium Photobacterium profundum SS9.

El-Hajj ZW, Tryfona T, Allcock DJ, Hasan F, Lauro FM, Sawyer L, Bartlett DH, Ferguson GP.

J Bacteriol. 2009 Oct;191(20):6383-93. doi: 10.1128/JB.00576-09. Epub 2009 Aug 21.

42.

Microbial community structure in the North Pacific ocean.

Brown MV, Philip GK, Bunge JA, Smith MC, Bissett A, Lauro FM, Fuhrman JA, Donachie SP.

ISME J. 2009 Dec;3(12):1374-86. doi: 10.1038/ismej.2009.86. Epub 2009 Jul 23.

PMID:
19626056
43.

The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: the role of genome evolution in cold adaptation.

Allen MA, Lauro FM, Williams TJ, Burg D, Siddiqui KS, De Francisci D, Chong KW, Pilak O, Chew HH, De Maere MZ, Ting L, Katrib M, Ng C, Sowers KR, Galperin MY, Anderson IJ, Ivanova N, Dalin E, Martinez M, Lapidus A, Hauser L, Land M, Thomas T, Cavicchioli R.

ISME J. 2009 Sep;3(9):1012-35. doi: 10.1038/ismej.2009.45. Epub 2009 Apr 30.

PMID:
19404327
44.

The deep-sea bacterium Photobacterium profundum SS9 utilizes separate flagellar systems for swimming and swarming under high-pressure conditions.

Eloe EA, Lauro FM, Vogel RF, Bartlett DH.

Appl Environ Microbiol. 2008 Oct;74(20):6298-305. doi: 10.1128/AEM.01316-08. Epub 2008 Aug 22.

45.

An assessment of actinobacterial diversity in the marine environment.

Jensen PR, Lauro FM.

Antonie Van Leeuwenhoek. 2008 Jun;94(1):51-62. doi: 10.1007/s10482-008-9239-x. Epub 2008 May 24.

46.

Large-scale transposon mutagenesis of Photobacterium profundum SS9 reveals new genetic loci important for growth at low temperature and high pressure.

Lauro FM, Tran K, Vezzi A, Vitulo N, Valle G, Bartlett DH.

J Bacteriol. 2008 Mar;190(5):1699-709. Epub 2007 Dec 21.

47.

Prokaryotic lifestyles in deep sea habitats.

Lauro FM, Bartlett DH.

Extremophiles. 2008 Jan;12(1):15-25. Epub 2007 Jan 17. Review. Erratum in: Extremophiles. 2008 Jan;12(1):27.

PMID:
17225926
48.

The unique 16S rRNA genes of piezophiles reflect both phylogeny and adaptation.

Lauro FM, Chastain RA, Blankenship LE, Yayanos AA, Bartlett DH.

Appl Environ Microbiol. 2007 Feb;73(3):838-45. Epub 2006 Dec 8.

49.

A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes.

Goldberg SM, Johnson J, Busam D, Feldblyum T, Ferriera S, Friedman R, Halpern A, Khouri H, Kravitz SA, Lauro FM, Li K, Rogers YH, Strausberg R, Sutton G, Tallon L, Thomas T, Venter E, Frazier M, Venter JC.

Proc Natl Acad Sci U S A. 2006 Jul 25;103(30):11240-5. Epub 2006 Jul 13. Erratum in: Proc Natl Acad Sci U S A. 2006 Oct 24;103(43):16057.

50.

Piezophilic adaptation: a genomic point of view.

Simonato F, Campanaro S, Lauro FM, Vezzi A, D'Angelo M, Vitulo N, Valle G, Bartlett DH.

J Biotechnol. 2006 Oct 20;126(1):11-25. Epub 2006 Jun 14. Review.

PMID:
16780980

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