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Items: 1 to 50 of 120

1.

Reply to: Sources of C30 steroid biomarkers in Neoproterozoic-Cambrian rocks and oils.

Hallmann C, Nettersheim BJ, Brocks JJ, Schwelm A, Hope JM, Not F, Lomas M, Schmidt C, Schiebel R, Nowack ECM, De Deckker P, Pawlowski J, Bowser SS, Bobrovskiy I, Zonneveld K, Kucera M, Stuhr M.

Nat Ecol Evol. 2019 Nov 25. doi: 10.1038/s41559-019-1049-1. [Epub ahead of print] No abstract available.

PMID:
31768020
2.

Properties of Omp2a-Based Supported Lipid Bilayers: Comparison with Polymeric Bioinspired Membranes.

Puiggalí-Jou A, Pawlowski J, Del Valle LJ, Michaux C, Perpète EA, Sek S, Alemán C.

ACS Omega. 2018 Aug 13;3(8):9003-9019. doi: 10.1021/acsomega.8b00913. eCollection 2018 Aug 31.

3.

DNA metabarcoding-Need for robust experimental designs to draw sound ecological conclusions.

Zinger L, Bonin A, Alsos IG, Bálint M, Bik H, Boyer F, Chariton AA, Creer S, Coissac E, Deagle BE, De Barba M, Dickie IA, Dumbrell AJ, Ficetola GF, Fierer N, Fumagalli L, Gilbert MTP, Jarman S, Jumpponen A, Kauserud H, Orlando L, Pansu J, Pawlowski J, Tedersoo L, Thomsen PF, Willerslev E, Taberlet P.

Mol Ecol. 2019 Apr;28(8):1857-1862. doi: 10.1111/mec.15060. Epub 2019 Apr 29. No abstract available.

4.

Multi-marker eDNA metabarcoding survey to assess the environmental impact of three offshore gas platforms in the North Adriatic Sea (Italy).

Cordier T, Frontalini F, Cermakova K, Apothéloz-Perret-Gentil L, Treglia M, Scantamburlo E, Bonamin V, Pawlowski J.

Mar Environ Res. 2019 Apr;146:24-34. doi: 10.1016/j.marenvres.2018.12.009. Epub 2019 Mar 13.

PMID:
30890270
5.

Putative sponge biomarkers in unicellular Rhizaria question an early rise of animals.

Nettersheim BJ, Brocks JJ, Schwelm A, Hope JM, Not F, Lomas M, Schmidt C, Schiebel R, Nowack ECM, De Deckker P, Pawlowski J, Bowser SS, Bobrovskiy I, Zonneveld K, Kucera M, Stuhr M, Hallmann C.

Nat Ecol Evol. 2019 Apr;3(4):577-581. doi: 10.1038/s41559-019-0806-5. Epub 2019 Mar 4.

PMID:
30833757
6.

SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data.

Dufresne Y, Lejzerowicz F, Perret-Gentil LA, Pawlowski J, Cordier T.

BMC Bioinformatics. 2019 Feb 19;20(1):88. doi: 10.1186/s12859-019-2663-2.

7.

Responses of foraminifera communities to aquaculture-derived organic enrichment as revealed by environmental DNA metabarcoding.

He X, Sutherland TF, Pawlowski J, Abbott CL.

Mol Ecol. 2019 Mar;28(5):1138-1153. doi: 10.1111/mec.15007.

PMID:
30614581
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.

Embracing Environmental Genomics and Machine Learning for Routine Biomonitoring.

Cordier T, Lanzén A, Apothéloz-Perret-Gentil L, Stoeck T, Pawlowski J.

Trends Microbiol. 2019 May;27(5):387-397. doi: 10.1016/j.tim.2018.10.012. Epub 2018 Dec 13. Review.

PMID:
30554770
10.

Xenophyophores (Rhizaria, Foraminifera) from the Eastern Clarion-Clipperton Zone (equatorial Pacific): the Genus Psammina.

Gooday AJ, Holzmann M, Goineau A, Kamenskaya O, Melnik VF, Pearce RB, Weber AA, Pawlowski J.

Protist. 2018 Dec;169(6):926-957. doi: 10.1016/j.protis.2018.09.003. Epub 2018 Oct 5.

11.

Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes.

Adl SM, Bass D, Lane CE, Lukeš J, Schoch CL, Smirnov A, Agatha S, Berney C, Brown MW, Burki F, Cárdenas P, Čepička I, Chistyakova L, Del Campo J, Dunthorn M, Edvardsen B, Eglit Y, Guillou L, Hampl V, Heiss AA, Hoppenrath M, James TY, Karnkowska A, Karpov S, Kim E, Kolisko M, Kudryavtsev A, Lahr DJG, Lara E, Le Gall L, Lynn DH, Mann DG, Massana R, Mitchell EAD, Morrow C, Park JS, Pawlowski JW, Powell MJ, Richter DJ, Rueckert S, Shadwick L, Shimano S, Spiegel FW, Torruella G, Youssef N, Zlatogursky V, Zhang Q.

J Eukaryot Microbiol. 2019 Jan;66(1):4-119. doi: 10.1111/jeu.12691.

12.

More amoebae from the deep-sea: Two new marine species of Vexillifera (Amoebozoa, Dactylopodida) with notes on taxonomy of the genus.

Kudryavtsev A, Pawlowski J, Smirnov A.

Eur J Protistol. 2018 Oct;66:9-25. doi: 10.1016/j.ejop.2018.07.001. Epub 2018 Jul 11.

PMID:
30086474
13.

A Comparison of Different Ciliate Metabarcode Genes as Bioindicators for Environmental Impact Assessments of Salmon Aquaculture.

Forster D, Filker S, Kochems R, Breiner HW, Cordier T, Pawlowski J, Stoeck T.

J Eukaryot Microbiol. 2019 Mar;66(2):294-308. doi: 10.1111/jeu.12670. Epub 2018 Aug 12.

PMID:
30028566
14.

Supervised machine learning outperforms taxonomy-based environmental DNA metabarcoding applied to biomonitoring.

Cordier T, Forster D, Dufresne Y, Martins CIM, Stoeck T, Pawlowski J.

Mol Ecol Resour. 2018 Nov;18(6):1381-1391. doi: 10.1111/1755-0998.12926. Epub 2018 Aug 3.

PMID:
30014577
15.

The future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystems.

Pawlowski J, Kelly-Quinn M, Altermatt F, Apothéloz-Perret-Gentil L, Beja P, Boggero A, Borja A, Bouchez A, Cordier T, Domaizon I, Feio MJ, Filipe AF, Fornaroli R, Graf W, Herder J, van der Hoorn B, Iwan Jones J, Sagova-Mareckova M, Moritz C, Barquín J, Piggott JJ, Pinna M, Rimet F, Rinkevich B, Sousa-Santos C, Specchia V, Trobajo R, Vasselon V, Vitecek S, Zimmerman J, Weigand A, Leese F, Kahlert M.

Sci Total Environ. 2018 Oct 1;637-638:1295-1310. doi: 10.1016/j.scitotenv.2018.05.002. Epub 2018 May 22. Review.

16.

Development and implementation of eco-genomic tools for aquatic ecosystem biomonitoring: the SYNAQUA French-Swiss program.

Lefrançois E, Apothéloz-Perret-Gentil L, Blancher P, Botreau S, Chardon C, Crepin L, Cordier T, Cordonier A, Domaizon I, Ferrari BJD, Guéguen J, Hustache JC, Jacas L, Jacquet S, Lacroix S, Mazenq AL, Pawlowska A, Perney P, Pawlowski J, Rimet F, Rubin JF, Trevisan D, Vivien R, Bouchez A.

Environ Sci Pollut Res Int. 2018 Dec;25(34):33858-33866. doi: 10.1007/s11356-018-2172-2. Epub 2018 May 7.

PMID:
29732510
17.

Eyes of the Deep-sea Floor: The Integrative Taxonomy of the Foraminiferal Genus Vanhoeffenella.

Voltski I, Gooday AJ, Pawlowski J.

Protist. 2018 Apr;169(2):235-267. doi: 10.1016/j.protis.2017.11.003. Epub 2017 Nov 26.

PMID:
29649777
18.

Environmental DNA metabarcoding of benthic bacterial communities indicates the benthic footprint of salmon aquaculture.

Stoeck T, Frühe L, Forster D, Cordier T, Martins CIM, Pawlowski J.

Mar Pollut Bull. 2018 Feb;127:139-149. doi: 10.1016/j.marpolbul.2017.11.065. Epub 2017 Dec 6.

PMID:
29475645
19.

Finite-temperature gluon spectral functions from N f = 2 + 1 + 1 lattice QCD.

Ilgenfritz EM, Pawlowski JM, Rothkopf A, Trunin A.

Eur Phys J C Part Fields. 2018;78(2):127. doi: 10.1140/epjc/s10052-018-5593-7. Epub 2018 Feb 14.

20.

Cytochrome c oxidase barcodes for aquatic oligochaete identification: development of a Swiss reference database.

Vivien R, Holzmann M, Werner I, Pawlowski J, Lafont M, Ferrari BJD.

PeerJ. 2017 Dec 6;5:e4122. doi: 10.7717/peerj.4122. eCollection 2017.

21.

Assessing the effect of mercury pollution on cultured benthic foraminifera community using morphological and eDNA metabarcoding approaches.

Frontalini F, Greco M, Di Bella L, Lejzerowicz F, Reo E, Caruso A, Cosentino C, Maccotta A, Scopelliti G, Nardelli MP, Losada MT, Armynot du Châtelet E, Coccioni R, Pawlowski J.

Mar Pollut Bull. 2018 Apr;129(2):512-524. doi: 10.1016/j.marpolbul.2017.10.022. Epub 2017 Oct 14.

PMID:
29033170
22.

Assessing SSU rDNA Barcodes in Foraminifera: A Case Study using Bolivina quadrata.

Borrelli C, Hou Y, Pawlowski JW, Holzmann M, Katz ME, Chandler GT, Bowser SS.

J Eukaryot Microbiol. 2018 Mar;65(2):220-235. doi: 10.1111/jeu.12471. Epub 2017 Oct 4.

PMID:
28865158
23.

Predicting the Ecological Quality Status of Marine Environments from eDNA Metabarcoding Data Using Supervised Machine Learning.

Cordier T, Esling P, Lejzerowicz F, Visco J, Ouadahi A, Martins C, Cedhagen T, Pawlowski J.

Environ Sci Technol. 2017 Aug 15;51(16):9118-9126. doi: 10.1021/acs.est.7b01518. Epub 2017 Jul 25.

PMID:
28665601
24.

Taxonomic revision of freshwater foraminifera with the description of two new agglutinated species and genera.

Siemensma F, Apothéloz-Perret-Gentil L, Holzmann M, Clauss S, Völcker E, Pawlowski J.

Eur J Protistol. 2017 Aug;60:28-44. doi: 10.1016/j.ejop.2017.05.006. Epub 2017 May 31.

PMID:
28609684
25.

Phylogeny and Systematics of Leptomyxid Amoebae (Amoebozoa, Tubulinea, Leptomyxida).

Smirnov A, Nassonova E, Geisen S, Bonkowski M, Kudryavtsev A, Berney C, Glotova A, Bondarenko N, Dyková I, Mrva M, Fahrni J, Pawlowski J.

Protist. 2017 Apr;168(2):220-252. doi: 10.1016/j.protis.2016.10.006. Epub 2016 Oct 26.

PMID:
28343121
26.

Taxonomy-free molecular diatom index for high-throughput eDNA biomonitoring.

Apothéloz-Perret-Gentil L, Cordonier A, Straub F, Iseli J, Esling P, Pawlowski J.

Mol Ecol Resour. 2017 Nov;17(6):1231-1242. doi: 10.1111/1755-0998.12668. Epub 2017 Apr 13.

PMID:
28296259
27.

Genetic structure of a morphological species within the amoeba genus Korotnevella (Amoebozoa: Discosea), revealed by the analysis of two genes.

Zlatogursky VV, Kudryavtsev A, Udalov IA, Bondarenko N, Pawlowski J, Smirnov A.

Eur J Protistol. 2016 Oct;56:102-111. doi: 10.1016/j.ejop.2016.08.001. Epub 2016 Aug 10.

PMID:
27597158
28.

First evaluation of foraminiferal metabarcoding for monitoring environmental impact from an offshore oil drilling site.

Laroche O, Wood SA, Tremblay LA, Ellis JI, Lejzerowicz F, Pawlowski J, Lear G, Atalah J, Pochon X.

Mar Environ Res. 2016 Sep;120:225-35. doi: 10.1016/j.marenvres.2016.08.009. Epub 2016 Aug 24.

PMID:
27595900
29.

DNA barcoding of formalin-fixed aquatic oligochaetes for biomonitoring.

Vivien R, Ferrari BJ, Pawlowski J.

BMC Res Notes. 2016 Jul 13;9:342. doi: 10.1186/s13104-016-2140-1.

30.

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
31.

Reducing long-branch effects in multi-protein data uncovers a close relationship between Alveolata and Rhizaria.

He D, Sierra R, Pawlowski J, Baldauf SL.

Mol Phylogenet Evol. 2016 Aug;101:1-7. doi: 10.1016/j.ympev.2016.04.033. Epub 2016 Apr 27.

PMID:
27132173
32.

Next-Generation Sequencing of Aquatic Oligochaetes: Comparison of Experimental Communities.

Vivien R, Lejzerowicz F, Pawlowski J.

PLoS One. 2016 Feb 11;11(2):e0148644. doi: 10.1371/journal.pone.0148644. eCollection 2016.

33.

Evolutionary Origins of Rhizarian Parasites.

Sierra R, Cañas-Duarte SJ, Burki F, Schwelm A, Fogelqvist J, Dixelius C, González-García LN, Gile GH, Slamovits CH, Klopp C, Restrepo S, Arzul I, Pawlowski J.

Mol Biol Evol. 2016 Apr;33(4):980-3. doi: 10.1093/molbev/msv340. Epub 2015 Dec 16.

PMID:
26681153
34.

Molecular Phylogeny and Ecology of Textularia agglutinans d'Orbigny from the Mediterranean Coast of Israel: A Case of a Successful New Incumbent.

Merkado G, Titelboim D, Hyams-Kaphzan O, Holzmann M, Pawlowski J, Almogi-Labin A, Abdu U, Herut B, Abramovich S.

PLoS One. 2015 Nov 5;10(11):e0142263. doi: 10.1371/journal.pone.0142263. eCollection 2015.

35.

Transport coefficients in Yang-Mills theory and QCD.

Christiansen N, Haas M, Pawlowski JM, Strodthoff N.

Phys Rev Lett. 2015 Sep 11;115(11):112002. doi: 10.1103/PhysRevLett.115.112002. Epub 2015 Sep 10.

PMID:
26406822
36.

High-throughput sequencing and morphology perform equally well for benthic monitoring of marine ecosystems.

Lejzerowicz F, Esling P, Pillet L, Wilding TA, Black KD, Pawlowski J.

Sci Rep. 2015 Sep 10;5:13932. doi: 10.1038/srep13932.

37.

Flexammina islandica gen. nov. sp. nov. and some new phylotypes of monothalamous foraminifera from the coast of Iceland.

Voltski I, Pawlowski J.

Zootaxa. 2015 Jun 2;3964(2):245-59. doi: 10.11646/zootaxa.3964.2.5.

PMID:
26249434
38.

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
39.

Environmental Monitoring: Inferring the Diatom Index from Next-Generation Sequencing Data.

Visco JA, Apothéloz-Perret-Gentil L, Cordonier A, Esling P, Pillet L, Pawlowski J.

Environ Sci Technol. 2015 Jul 7;49(13):7597-605. doi: 10.1021/es506158m. Epub 2015 Jun 18.

PMID:
26052741
40.

Mechanism of Lipid Vesicles Spreading and Bilayer Formation on a Au(111) Surface.

Pawłowski J, Juhaniewicz J, Güzeloğlu A, Sęk S.

Langmuir. 2015 Oct 13;31(40):11012-9. doi: 10.1021/acs.langmuir.5b01331. Epub 2015 Jun 3.

PMID:
26010469
41.

Cunea n. g. (Amoebozoa, Dactylopodida) with two cryptic species isolated from different areas of the ocean.

Kudryavtsev A, Pawlowski J.

Eur J Protistol. 2015 Jun;51(3):197-209. doi: 10.1016/j.ejop.2015.04.002. Epub 2015 Apr 10.

PMID:
25950741
42.

Molecular barcoding of aquatic oligochaetes: implications for biomonitoring.

Vivien R, Wyler S, Lafont M, Pawlowski J.

PLoS One. 2015 Apr 9;10(4):e0125485. doi: 10.1371/journal.pone.0125485. eCollection 2015.

43.

Transcriptome analyses to investigate symbiotic relationships between marine protists.

Balzano S, Corre E, Decelle J, Sierra R, Wincker P, Da Silva C, Poulain J, Pawlowski J, Not F.

Front Microbiol. 2015 Mar 17;6:98. doi: 10.3389/fmicb.2015.00098. eCollection 2015.

44.

Accurate multiplexing and filtering for high-throughput amplicon-sequencing.

Esling P, Lejzerowicz F, Pawlowski J.

Nucleic Acids Res. 2015 Mar 11;43(5):2513-24. doi: 10.1093/nar/gkv107. Epub 2015 Feb 17.

45.

Molecular Phylogeny and Morphology of Leannia veloxifera n. gen. et sp. Unveils a New Lineage of Monothalamous Foraminifera.

Apothéloz-Perret-Gentil L, Pawlowski J.

J Eukaryot Microbiol. 2015 May-Jun;62(3):353-61. doi: 10.1111/jeu.12190. Epub 2014 Nov 27.

PMID:
25363489
46.

Dependence of interfacial film organization on lipid molecular structure.

Matyszewska D, Sek S, Jabłonowska E, Pałys B, Pawlowski J, Bilewicz R, Konrad F, Osornio YM, Landau EM.

Langmuir. 2014 Sep 30;30(38):11329-39. doi: 10.1021/la502092g. Epub 2014 Sep 17.

PMID:
25229461
47.

Wide occurrence of SSU rDNA intragenomic polymorphism in foraminifera and its implications for molecular species identification.

Weber AA, Pawlowski J.

Protist. 2014 Sep;165(5):645-61. doi: 10.1016/j.protis.2014.07.006. Epub 2014 Jul 24.

PMID:
25150612
48.

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.

49.

Environmental monitoring through protist next-generation sequencing metabarcoding: assessing the impact of fish farming on benthic foraminifera communities.

Pawlowski J, Esling P, Lejzerowicz F, Cedhagen T, Wilding TA.

Mol Ecol Resour. 2014 Nov;14(6):1129-40. doi: 10.1111/1755-0998.12261. Epub 2014 May 8.

PMID:
24734911
50.

A revision of the order Pellitida Smirnov et al., 2011 (Amoebozoa, Discosea) based on ultrastructural and molecular evidence, with description of Endostelium crystalliferum n. sp.

Kudryavtsev A, Brown MW, Tice A, Spiegel FW, Pawlowski J, Anderson OR.

Protist. 2014 Mar;165(2):208-29. doi: 10.1016/j.protis.2014.02.003. Epub 2014 Feb 28.

PMID:
24704663

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