Want to hire this expert for a project? Request a quote for free.
Profile Details
Create Project
USD 40 /hr
Hire Nejc S.
Slovenia
USD 40 /hr
Microbiome researcher | Genomics | Bioinformatics | Data analytics & visualization
Profile Summary
Subject Matter Expertise
Services
Writing
Technical Writing,
Newswriting
Research
Market Research,
User Research,
Fact Checking,
Gap Analysis,
Systematic Literature Review
Consulting
Scientific and Technical Consulting
Data & AI
Predictive Modeling,
Statistical Analysis,
Data Visualization,
Big Data Analytics,
Data Mining,
Data Cleaning,
Data Processing,
Data Insights
Product Development
Formulation,
Product Validation
Work Experience
Senior Scientist
National Laboratory of Health, Environment and Food
March 2022 - Present 
Postdoctoral Scholar
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, Eliana Guedes Stehling, João Pedro Rueda Furlan, Ralf Lopes, John Chodkowski, Eduardo Angelino Savazzi, Ashley Shade (2024). The relationship between water quality and the microbial virulome and resistome in urban streams in Brazil . Environmental Pollution.
Nejc Stopnisek, Stalin Sarango Flores, Viviane Cordovez, Ben Oyserman, Jos M. Raaijmakers, Pieter van ‘t Hof (2024). The Tomato's Tale: Exploring Taxonomy, Biogeography, Domestication, and Microbiome for Enhanced Resilience . Phytobiomes Journal.
Nejc Stopnisek, Ritam Sinha, Rhiannon M. LeVeque, Sean M. Callahan, shramana chatterjee, Matti Kuipel, Jeremiah G. Johnson, Victor DiRita (2024). Gut metabolite L-lactate supports Campylobacter jejuni population expansion during acute infection . Proceedings of the National Academy of Sciences.
Nejc Stopnisek, Adina Howe, Shane K. Dooley, Fan Yang, Keara L. Grady, Ashley Shade (2023). Seasonal activities of the phyllosphere microbiome of perennial crops . Nature Communications.
Nejc Stopnisek, Ben Oyserman, Stalin Sarango Flores, Thom Griffioen, Xinya Pan, Elmar van der Wijk, Lotte J. U. Pronk, Wouter Lokhorst, Azkia Nurfikari, Joseph N Paulson, et al. (2022). Disentangling the genetic basis of rhizosphere microbiome assembly in tomato . Nature Communications.
A. F. Bintarti, A. Sulesky-Grieb, N. Stopnisek, A. Shade(2022). Endophytic Microbiome Variation Among Single Plant Seeds . Phytobiomes Journal. Scientific Societies
Nejc Stopnisek, Ashley Shade (2021). Persistent microbiome members in the common bean rhizosphere: an integrated analysis of space, time, and plant genotype . The ISME Journal.
Ari Fina Bintarti and Abby Sulesky-Grieb and Nejc Stopni{\v{s}}ek and Ashley Shade(2021). Endophytic microbiome variation among single plant seeds . Phytobiomes Journal. Scientific Societies
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.
Kristopher A. Hunt and Jonathan Forbes and Fred Taub and Nicholas Elliott and Jessica Hardwicke and Robert Petersen and Nejc Stopnisek and David A.C. Beck and David A. Stahl(2021). An automated multiplexed turbidometric and data collection system for measuring growth kinetics of anaerobes dependent on gaseous substrates . Journal of Microbiological Methods. p. 106294. Elsevier {BV}
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}
(2019). Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops . Nature Communications.
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.
(2019). Abundance-occupancy distributions to prioritize plant core microbiome membership . Current Opinion in Microbiology.
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.
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).
Shade, A., Stopnisek, N.(2019). Abundance-occupancy distributions to prioritize plant core microbiome membership . Current Opinion in Microbiology. 49. p. 50-58.
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 Zühlke, Aurélien Carlier, Albert Barberán, Noah Fierer, Dörte 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
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, 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}
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
Kost, T., Stopnisek, N., Agnoli, K., Eberl, L., Weisskopf, L.(2013). Oxalotrophy, a widespread trait of plant-associated Burkholderia species, is involved in successful root colonization of lupin and maize by Burkholderia phytofirmans . Frontiers in Microbiology. 4. (JAN).
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., Höfferle, 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.
PREPRINT
Nejc Stopnisek, Ben O Oyserman, Stalin Sarango Flores, Thom Griffioen, Xinya Pan, Elmar van der Wijk, Lotte Pronk, Wouter Lokhorst, Azkia Nurfikari, Anne Kupczok, et al. (2021). Disentangling the genetic basis of rhizosphere microbiome assembly in tomato .
Nejc Stopnisek, Adina C. Howe, Shane K. Dooley, Fan Yang, Keara L. Grady, Ashley Shade (2021). Life on the leaf: Seasonal activities of the phyllosphere microbiome of perennial crops .
Ratings and Comments
Total Projects Awarded:
Comments:
