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Draft Genome Sequence of Methicillin-Resistant Staphylococcus aureus Strain AW7, Isolated from a Patient with Bacteremia.

Cameron DR, Ramette A, Prazak J, Entenza J, Haenggi M, Que YA, Resch G.

Microbiol Resour Announc. 2019 Oct 3;8(40). pii: e00806-19. doi: 10.1128/MRA.00806-19.


Rapid and Cost-Efficient Enterovirus Genotyping from Clinical Samples Using Flongle Flow Cells.

Grädel C, Terrazos Miani MA, Barbani MT, Leib SL, Suter-Riniker F, Ramette A.

Genes (Basel). 2019 Aug 29;10(9). pii: E659. doi: 10.3390/genes10090659.


Viral Metagenomics in the Clinical Realm: Lessons Learned from a Swiss-Wide Ring Trial.

Junier T, Huber M, Schmutz S, Kufner V, Zagordi O, Neuenschwander S, Ramette A, Kubacki J, Bachofen C, Qi W, Laubscher F, Cordey S, Kaiser L, Beuret C, Barbié V, Fellay J, Lebrand A.

Genes (Basel). 2019 Aug 28;10(9). pii: E655. doi: 10.3390/genes10090655.


Nasal Resistome Development in Infants With Cystic Fibrosis in the First Year of Life.

Allemann A, Kraemer JG, Korten I, Ramsey K, Casaulta C; SCILD Study Group, Wüthrich D, Ramette A, Endimiani A, Latzin P, Hilty M.

Front Microbiol. 2019 Feb 26;10:212. doi: 10.3389/fmicb.2019.00212. eCollection 2019.


CO2 leakage can cause loss of benthic biodiversity in submarine sands.

Molari M, Guilini K, Lins L, Ramette A, Vanreusel A.

Mar Environ Res. 2019 Feb;144:213-229. doi: 10.1016/j.marenvres.2019.01.006. Epub 2019 Jan 23.


Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform.

Egli A, Blanc DS, Greub G, Keller PM, Lazarevic V, Lebrand A, Leib S, Neher RA, Perreten V, Ramette A, Schrenzel J, Stephan R, Wagner K, Wuethrich D, Xenarios I.

Swiss Med Wkly. 2018 Dec 15;148:w14693. doi: 10.4414/smw.2018.14693. eCollection 2018 Dec 3.


Whole-Genome Sequence of the First Extended-Spectrum β-Lactamase-Producing Strain of Salmonella enterica subsp. enterica Serovar Napoli.

Clément M, Ramette A, Bernasconi OJ, Principe L, Luzzaro F, Endimiani A.

Microbiol Resour Announc. 2018 Sep 13;7(10). pii: e00973-18. doi: 10.1128/MRA.00973-18. eCollection 2018 Sep.


Host switching pathogens, infectious outbreaks and zoonosis: A Marie Skłodowska-Curie innovative training network (HONOURs).

van der Hoek L, Verschoor E, Beer M, Höper D, Wernike K, Van Ranst M, Matthijnssens J, Maes P, Sastre P, Rueda P, Drexler JF, Barr J, Edwards T, Millner P, Vermeij P, de Groof A, Thiel V, Dijkman R, Suter-Riniker F, Leib S, Koller R, Ramette A, Engler O, Beuret C.

Virus Res. 2018 Sep 15;257:120-124. doi: 10.1016/j.virusres.2018.09.002.


The Simple 10-Item Predicting Asthma Risk in Children Tool to Predict Childhood Asthma-An External Validation.

Pedersen ESL, Spycher BD, de Jong CCM, Halbeisen F, Ramette A, Gaillard EA, Granell R, Henderson AJ, Kuehni CE.

J Allergy Clin Immunol Pract. 2019 Mar;7(3):943-953.e4. doi: 10.1016/j.jaip.2018.09.032. Epub 2018 Oct 9.


In situ development of a methanotrophic microbiome in deep-sea sediments.

Ruff SE, Felden J, Gruber-Vodicka HR, Marcon Y, Knittel K, Ramette A, Boetius A.

ISME J. 2019 Jan;13(1):197-213. doi: 10.1038/s41396-018-0263-1. Epub 2018 Aug 28.


Prevalence of carbapenem-resistant Acinetobacter baumannii from 2005 to 2016 in Switzerland.

Ramette A, Kronenberg A; the Swiss Centre for Antibiotic Resistance (ANRESIS).

BMC Infect Dis. 2018 Apr 3;18(1):159. doi: 10.1186/s12879-018-3061-5.


Longitudinal Associations Between Respiratory Infections and Asthma in Young Children.

Ramette A, Spycher BD, Wang J, Goutaki M, Beardsmore CS, Kuehni CE.

Am J Epidemiol. 2018 Aug 1;187(8):1714-1720. doi: 10.1093/aje/kwy053.


CO2 leakage alters biogeochemical and ecological functions of submarine sands.

Molari M, Guilini K, Lott C, Weber M, de Beer D, Meyer S, Ramette A, Wegener G, Wenzhöfer F, Martin D, Cibic T, De Vittor C, Vanreusel A, Boetius A.

Sci Adv. 2018 Feb 7;4(2):eaao2040. doi: 10.1126/sciadv.aao2040. eCollection 2018 Feb.


Influence of Pig Farming on the Human Nasal Microbiota: Key Role of Airborne Microbial Communities

Kraemer JG, Ramette A, Aebi S, Oppliger A, Hilty M.

Appl Environ Microbiol. 2018 Mar 1;84(6). pii: e02470-17. doi: 10.1128/AEM.02470-17.


Association between breastfeeding and eczema during childhood and adolescence: A cohort study.

Wang J, Ramette A, Jurca M, Goutaki M, Beardsmore CS, Kuehni CE.

PLoS One. 2017 Sep 25;12(9):e0185066. doi: 10.1371/journal.pone.0185066. eCollection 2017.


Heterogeneous Genetic Location of mcr-1 in Colistin-Resistant Escherichia coli Isolates from Humans and Retail Chicken Meat in Switzerland: Emergence of mcr-1-Carrying IncK2 Plasmids.

Donà V, Bernasconi OJ, Pires J, Collaud A, Overesch G, Ramette A, Perreten V, Endimiani A.

Antimicrob Agents Chemother. 2017 Oct 24;61(11). pii: e01245-17. doi: 10.1128/AAC.01245-17. Print 2017 Nov.


Breastfeeding and respiratory tract infections during the first 2 years of life.

Wang J, Ramette A, Jurca M, Goutaki M, Beardsmore CS, Kuehni CE.

ERJ Open Res. 2017 Jun 2;3(2). pii: 00143-2016. doi: 10.1183/23120541.00143-2016. eCollection 2017 Apr.


Prevalence of cough throughout childhood: A cohort study.

Jurca M, Ramette A, Dogaru CM, Goutaki M, Spycher BD, Latzin P, Gaillard EA, Kuehni CE.

PLoS One. 2017 May 24;12(5):e0177485. doi: 10.1371/journal.pone.0177485. eCollection 2017.


Hypoxia causes preservation of labile organic matter and changes seafloor microbial community composition (Black Sea).

Jessen GL, Lichtschlag A, Ramette A, Pantoja S, Rossel PE, Schubert CJ, Struck U, Boetius A.

Sci Adv. 2017 Feb 10;3(2):e1601897. doi: 10.1126/sciadv.1601897. eCollection 2017 Feb.


Methane Seep in Shallow-Water Permeable Sediment Harbors High Diversity of Anaerobic Methanotrophic Communities, Elba, Italy.

Ruff SE, Kuhfuss H, Wegener G, Lott C, Ramette A, Wiedling J, Knittel K, Weber M.

Front Microbiol. 2016 Mar 31;7:374. doi: 10.3389/fmicb.2016.00374. eCollection 2016.


Quantification of the effects of ocean acidification on sediment microbial communities in the environment: the importance of ecosystem approaches.

Hassenrück C, Fink A, Lichtschlag A, Tegetmeyer HE, de Beer D, Ramette A.

FEMS Microbiol Ecol. 2016 May;92(5):fiw027. doi: 10.1093/femsec/fiw027. Epub 2016 Feb 16.


Diversity and Biogeography of Bathyal and Abyssal Seafloor Bacteria.

Bienhold C, Zinger L, Boetius A, Ramette A.

PLoS One. 2016 Jan 27;11(1):e0148016. doi: 10.1371/journal.pone.0148016. eCollection 2016.


Global dispersion and local diversification of the methane seep microbiome.

Ruff SE, Biddle JF, Teske AP, Knittel K, Boetius A, Ramette A.

Proc Natl Acad Sci U S A. 2015 Mar 31;112(13):4015-20. doi: 10.1073/pnas.1421865112. Epub 2015 Mar 16.


Seagrass biofilm communities at a naturally CO2 -rich vent.

Hassenrück C, Hofmann LC, Bischof K, Ramette A.

Environ Microbiol Rep. 2015 Jun;7(3):516-25. doi: 10.1111/1758-2229.12282. Epub 2015 Apr 8.


Bed-sharing and childhood asthma: from associations to causal modelling.

Ramette A, Kuehni CE.

Eur Respir J. 2015 Mar;45(3):596-600. doi: 10.1183/09031936.00234814. No abstract available.


Biogeographic patterns of bacterial microdiversity in Arctic deep-sea sediments (HAUSGARTEN, Fram Strait).

Buttigieg PL, Ramette A.

Front Microbiol. 2015 Jan 5;5:660. doi: 10.3389/fmicb.2014.00660. eCollection 2014.


Spatial scales of bacterial community diversity at cold seeps (Eastern Mediterranean Sea).

Pop Ristova P, Wenzhöfer F, Ramette A, Felden J, Boetius A.

ISME J. 2015 Jun;9(6):1306-18. doi: 10.1038/ismej.2014.217. Epub 2014 Dec 12.


Changes in microbial communities in coastal sediments along natural CO2 gradients at a volcanic vent in Papua New Guinea.

Raulf FF, Fabricius K, Uthicke S, de Beer D, Abed RM, Ramette A.

Environ Microbiol. 2015 Oct;17(10):3678-91. doi: 10.1111/1462-2920.12729. Epub 2015 Feb 3.


The R package otu2ot for implementing the entropy decomposition of nucleotide variation in sequence data.

Ramette A, Buttigieg PL.

Front Microbiol. 2014 Nov 14;5:601. doi: 10.3389/fmicb.2014.00601. eCollection 2014.


A guide to statistical analysis in microbial ecology: a community-focused, living review of multivariate data analyses.

Buttigieg PL, Ramette A.

FEMS Microbiol Ecol. 2014 Dec;90(3):543-50. doi: 10.1111/1574-6941.12437. Epub 2014 Nov 5. Review.


Spatial patterns and links between microbial community composition and function in cyanobacterial mats.

Al-Najjar MA, Ramette A, Kühl M, Hamza W, Klatt JM, Polerecky L.

Front Microbiol. 2014 Aug 6;5:406. doi: 10.3389/fmicb.2014.00406. eCollection 2014.


Dual symbiosis with co-occurring sulfur-oxidizing symbionts in vestimentiferan tubeworms from a Mediterranean hydrothermal vent.

Zimmermann J, Lott C, Weber M, Ramette A, Bright M, Dubilier N, Petersen JM.

Environ Microbiol. 2014 Dec;16(12):3638-56. doi: 10.1111/1462-2920.12427. Epub 2014 Apr 2.


Bacterial taxa-area and distance-decay relationships in marine environments.

Zinger L, Boetius A, Ramette A.

Mol Ecol. 2014 Feb;23(4):954-64. doi: 10.1111/mec.12640. Epub 2014 Jan 25.


Ecological coherence of diversity patterns derived from classical fingerprinting and Next Generation Sequencing techniques.

Gobet A, Boetius A, Ramette A.

Environ Microbiol. 2014 Sep;16(9):2672-81. doi: 10.1111/1462-2920.12308. Epub 2013 Nov 14.


Microbial communities of deep-sea methane seeps at Hikurangi continental margin (New Zealand).

Ruff SE, Arnds J, Knittel K, Amann R, Wegener G, Ramette A, Boetius A.

PLoS One. 2013 Sep 30;8(9):e72627. doi: 10.1371/journal.pone.0072627. eCollection 2013.


Biogeography of Deep-sea benthic bacteria at regional scale (LTER HAUSGARTEN, Fram Strait, Arctic).

Jacob M, Soltwedel T, Boetius A, Ramette A.

PLoS One. 2013 Sep 2;8(9):e72779. doi: 10.1371/journal.pone.0072779. eCollection 2013.


Microbial habitat connectivity across spatial scales and hydrothermal temperature gradients at Guaymas Basin.

Meyer S, Wegener G, Lloyd KG, Teske A, Boetius A, Ramette A.

Front Microbiol. 2013 Jul 25;4:207. doi: 10.3389/fmicb.2013.00207. eCollection 2013.


Relationships between host phylogeny, host type and bacterial community diversity in cold-water coral reef sponges.

Schöttner S, Hoffmann F, Cárdenas P, Rapp HT, Boetius A, Ramette A.

PLoS One. 2013;8(2):e55505. doi: 10.1371/journal.pone.0055505. Epub 2013 Feb 5.


Repeatedly evolved host-specific ectosymbioses between sulfur-oxidizing bacteria and amphipods living in a cave ecosystem.

Bauermeister J, Ramette A, Dattagupta S.

PLoS One. 2012;7(11):e50254. doi: 10.1371/journal.pone.0050254. Epub 2012 Nov 29.


Distribution and in situ abundance of sulfate-reducing bacteria in diverse marine hydrocarbon seep sediments.

Kleindienst S, Ramette A, Amann R, Knittel K.

Environ Microbiol. 2012 Oct;14(10):2689-710. doi: 10.1111/j.1462-2920.2012.02832.x. Epub 2012 Aug 8.


Effects of eutrophication, seasonality and macrofouling on the diversity of bacterial biofilms in equatorial coral reefs.

Sawall Y, Richter C, Ramette A.

PLoS One. 2012;7(7):e39951. doi: 10.1371/journal.pone.0039951. Epub 2012 Jul 6.


Microbial and chemical characterization of underwater fresh water springs in the Dead Sea.

Ionescu D, Siebert C, Polerecky L, Munwes YY, Lott C, Häusler S, Bižić-Ionescu M, Quast C, Peplies J, Glöckner FO, Ramette A, Rödiger T, Dittmar T, Oren A, Geyer S, Stärk HJ, Sauter M, Licha T, Laronne JB, de Beer D.

PLoS One. 2012;7(6):e38319. doi: 10.1371/journal.pone.0038319. Epub 2012 Jun 5.


Spatial scales of bacterial diversity in cold-water coral reef ecosystems.

Schöttner S, Wild C, Hoffmann F, Boetius A, Ramette A.

PLoS One. 2012;7(3):e32093. doi: 10.1371/journal.pone.0032093. Epub 2012 Mar 5.


Microbial diversity of eolian dust sources from saline lake sediments and biological soil crusts in arid Southern Australia.

Abed RM, Ramette A, Hübner V, De Deckker P, de Beer D.

FEMS Microbiol Ecol. 2012 May;80(2):294-304. doi: 10.1111/j.1574-6941.2011.01289.x. Epub 2012 Jan 17.


The energy-diversity relationship of complex bacterial communities in Arctic deep-sea sediments.

Bienhold C, Boetius A, Ramette A.

ISME J. 2012 Apr;6(4):724-32. doi: 10.1038/ismej.2011.140. Epub 2011 Nov 10.


Diversity and dynamics of rare and of resident bacterial populations in coastal sands.

Gobet A, Böer SI, Huse SM, van Beusekom JE, Quince C, Sogin ML, Boetius A, Ramette A.

ISME J. 2012 Mar;6(3):542-53. doi: 10.1038/ismej.2011.132. Epub 2011 Oct 6.


Global patterns of bacterial beta-diversity in seafloor and seawater ecosystems.

Zinger L, Amaral-Zettler LA, Fuhrman JA, Horner-Devine MC, Huse SM, Welch DB, Martiny JB, Sogin M, Boetius A, Ramette A.

PLoS One. 2011;6(9):e24570. doi: 10.1371/journal.pone.0024570. Epub 2011 Sep 8.


Drivers of bacterial diversity dynamics in permeable carbonate and silicate coral reef sands from the Red Sea.

Schöttner S, Pfitzner B, Grünke S, Rasheed M, Wild C, Ramette A.

Environ Microbiol. 2011 Jul;13(7):1815-26. doi: 10.1111/j.1462-2920.2011.02494.x. Epub 2011 May 9.


Pseudomonas protegens sp. nov., widespread plant-protecting bacteria producing the biocontrol compounds 2,4-diacetylphloroglucinol and pyoluteorin.

Ramette A, Frapolli M, Fischer-Le Saux M, Gruffaz C, Meyer JM, Défago G, Sutra L, Moënne-Loccoz Y.

Syst Appl Microbiol. 2011 May;34(3):180-8. doi: 10.1016/j.syapm.2010.10.005. Epub 2011 Mar 9.


Quantifying the effect of environment stability on the transcription factor repertoire of marine microbes.

Kostadinov I, Kottmann R, Ramette A, Waldmann J, Buttigieg PL, Glöckner FO.

Microb Inform Exp. 2011 Sep 7;1(1):9. doi: 10.1186/2042-5783-1-9.

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