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Profile Details
Contact
★★★★★
☆☆☆☆☆
Hire Nejc Stopnisek
Netherlands

Microbiome researcher | Genomics | Bioinformatics | Data analytics & visualization

Profile Summary
Subject Matter Expertise
Services
Scientific consulting Technical consulting, Idea discussion, Data analytics
Product development Formulation & development, Product feedback
Scientific writing White paper, Review article, News article, Educational content
Data science & analysis Complex data analysis, Statistical analysis, Predictive modelling, Data visualization, Data processing, Statistical review of research data
Academic research Qualitative research, Review article, Evidence-based answers, Literature search
Work Experience

NIOO-KNAW

January 2021 - Present

Postdoctoral Scholar

Michigan State University

April 2017 - December 2020

Postdoc

University of Washington

November 2014 - March 2017

Research assistent

University of Ljubljana

2009 - 2010

Education

Ph.D. (Institute of plant biology)

University of Zurich

2010 - 2014

Diploma thesis (Biotechnical faculty)

University of Ljubljana

2004 - 2009

Certifications
  • Certification details not provided.
Publications
JOURNAL ARTICLE
Nejc Stopnisek, Muhammad Syamsu Rizaludin, Jos M. Raaijmakers, Paolina Garbeva(2021). The Chemistry of Stress: Understanding the ‘Cry for Help’ of Plant Roots . Metabolites. 11. (6). p. 357. {MDPI} {AG}
Nejc Stopnisek, Serdar Turkarslan, Anne W. Thompson, Christina E. Arens, Jacob J. Valenzuela, James Wilson, Kristopher A. Hunt, Jessica Hardwicke, Adrián López García de Lomana, Sujung Lim, et al. (2021). Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions . The ISME Journal.
Nejc Stopnisek, Keara L. Grady, Jackson W. Sorensen, John Guittar, Ashley Shade(2019). Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops . Nature Communications. 10. (1). Springer Science and Business Media {LLC}
Bell, T.H., Hockett, K.L., Alcalá-Briseño, R.I., Barbercheck, M., Beattie, G.A., Bruns, M.A., Carlson, J.E., Chung, T., Collins, A., Emmett, B., et al.(2019). Manipulating wild and tamed phytobiomes: Challenges and opportunities . Phytobiomes Journal. 3. (1). p. 3-21.
Shade, A., Stopnisek, N.(2019). Abundance-occupancy distributions to prioritize plant core microbiome membership . Current Opinion in Microbiology. 49. p. 50-58.
Grady, K.L., Sorensen, J.W., Stopnisek, N., Guittar, J., Shade, A.(2019). Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops . Nature Communications. 10. (1).
Nejc Stopnisek, Kelley A. Meinhardt, Manmeet W. Pannu, Stuart E. Strand, Steven C. Fransen, Karen L. Casciotti, David A. Stahl(2018). Ammonia-oxidizing bacteria are the primary N2O producers in an ammonia-oxidizing archaea dominated alkaline agricultural soil . Environmental Microbiology. Wiley
Meinhardt, K.A., Stopnisek, N., Pannu, M.W., Strand, S.E., Fransen, S.C., Casciotti, K.L., Stahl, D.A.(2018). Ammonia-oxidizing bacteria are the primary N<inf>2</inf>O producers in an ammonia-oxidizing archaea dominated alkaline agricultural soil . Environmental Microbiology. 20. (6). p. 2195-2206.
Stopnisek, N., Zuhlke, D., Carlier, A., Barberan, A., Fierer, N., Becher, D., Riedel, K., Eberl, L., Weisskopf, L.(2016). Molecular mechanisms underlying the close association between soil Burkholderia and fungi . ISME Journal. 10. (1). p. 253-264.
Nejc Stopnisek, Daniela Z&#252;hlke, Aur&#233;lien Carlier, Albert Barber&#225;n, Noah Fierer, D&#246;rte Becher, Katharina Riedel, Leo Eberl, Laure Weisskopf(2015). Molecular mechanisms underlying the close association between soil Burkholderia and fungi . ISME J. 10. (1). p. 253--264. Nature Publishing Group
Nejc Stopnisek, Thomas Kost, Kirsty Agnoli, Leo Eberl, Laure Weisskopf(2014). Oxalotrophy, a widespread trait of plant-associated Burkholderia species, is involved in successful root colonization of lupin and maize by Burkholderia phytofirmans . Front. Microbiol. 4. Frontiers Media {SA}
Stopnisek, N., Bodenhausen, N., Frey, B., Fierer, N., Eberl, L., Weisskopf, L.(2014). Genus-wide acid tolerance accounts for the biogeographical distribution of soil Burkholderia populations . Environmental microbiology. 16. (6). p. 1503-1512.
Nejc Stopnisek, Natacha Bodenhausen, Beat Frey, Noah Fierer, Leo Eberl, Laure Weisskopf(2013). Genus-wide acid tolerance accounts for the biogeographical distribution of soil Burkholderia populations . Environ Microbiol. 16. (6). p. 1503--1512. Wiley-Blackwell
N. Stopnisek, C. Gubry-Rangin, S. Hofferle, G. W. Nicol, I. Mandic-Mulec, J. I. Prosser(2010). Thaumarchaeal Ammonia Oxidation in an Acidic Forest Peat Soil Is Not Influenced by Ammonium Amendment . Applied and Environmental Microbiology. 76. (22). p. 7626--7634. American Society for Microbiology
Stopnišek, N., Gubry-Rangin, C., H&#246;fferle, S., Nicol, G.W., Mandič-Mulec, I., Prosser, J.I.(2010). Thaumarchaeal ammonia oxidation in an acidic forest peat soil is not influenced by ammonium amendment . Applied and Environmental Microbiology. 76. (22). p. 7626-7634.
OTHER
AF Bintarti, A Sulesky-Grieb, N Stopnisek, A Shade(2021). Endophytic microbiome variation at the level of a single plant seed . Cold Spring Harbor Laboratory
Nejc Stopnisek, Adina Howe, Shane K. Dooley, Fan M. Yang, Keara L. Grady, Ashley Shade(2021). Genome-centric analyses of seasonal phyllosphere microbiome activities in perennial crops . Cold Spring Harbor Laboratory