Nicholas A. Bokulich

51.2k total citations · 10 hit papers
85 papers, 15.9k citations indexed

About

Nicholas A. Bokulich is a scholar working on Molecular Biology, Food Science and Plant Science. According to data from OpenAlex, Nicholas A. Bokulich has authored 85 papers receiving a total of 15.9k indexed citations (citations by other indexed papers that have themselves been cited), including 51 papers in Molecular Biology, 34 papers in Food Science and 14 papers in Plant Science. Recurrent topics in Nicholas A. Bokulich's work include Gut microbiota and health (37 papers), Fermentation and Sensory Analysis (27 papers) and Probiotics and Fermented Foods (16 papers). Nicholas A. Bokulich is often cited by papers focused on Gut microbiota and health (37 papers), Fermentation and Sensory Analysis (27 papers) and Probiotics and Fermented Foods (16 papers). Nicholas A. Bokulich collaborates with scholars based in United States, Switzerland and Australia. Nicholas A. Bokulich's co-authors include David A. Mills, J. Gregory Caporaso, Rob Knight, Matthew R. Dillon, Benjamin D. Kaehler, Evan Bolyen, Gavin Huttley, Jai Ram Rideout, Jeremiah J. Faith and Sathish Subramanian and has published in prestigious journals such as Proceedings of the National Academy of Sciences, Nucleic Acids Research and Nature Medicine.

In The Last Decade

Nicholas A. Bokulich

79 papers receiving 15.7k citations

Hit Papers

align trajectories sort by overperformance

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

2018 3.9k citations Nicholas A. Bokulich, Benjamin D. Kaehler et al. Microbiome profile →
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

2012 3.3k citations Nicholas A. Bokulich, Rob Knight et al. profile →
Antibiotics, birth mode, and diet shape microbiome maturation during early life

2016 999 citations Nicholas A. Bokulich, Thomas Battaglia et al. profile →
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate

2013 742 citations Nicholas A. Bokulich, J.H. Thorngate et al. Proceedings of the National Academy of Sciences profile →
The Soil Microbiome Influences Grapevine-Associated Microbiota

2015 704 citations Nicholas A. Bokulich, David A. Mills et al. profile →
Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer

2016 649 citations Maria Gloria Domínguez-Bello, Nicholas A. Bokulich et al. profile →
RESCRIPt: Reproducible sequence taxonomy reference database management

2021 540 citations Benjamin D. Kaehler, Michał Ziemski et al. profile →
Improved Selection of Internal Transcribed Spacer-Specific Primers Enables Quantitative, Ultra-High-Throughput Profiling of Fungal Communities

2013 418 citations Nicholas A. Bokulich, David A. Mills Applied and Environmental Microbiology profile →
Associations among Wine Grape Microbiome, Metabolome, and Fermentation Behavior Suggest Microbial Contribution to Regional Wine Characteristics

2016 331 citations Nicholas A. Bokulich, David A. Mills et al. profile →
QIIME 2 Enables Comprehensive End‐to‐End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data

2020 318 citations Nicholas A. Bokulich, Matthew R. Dillon et al. profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name	h						Papers	Cites
Nicholas A. Bokulich United States	41	7.3k	3.7k	3.6k	2.9k	1.3k	85	15.9k
Qiong Wang China	15	9.4k 1.3×	1.7k 0.5×	3.1k 0.9×	7.0k 2.4×	1.2k 0.9×	59	20.8k
Andrew Han United States	13	10.4k 1.4×	1.8k 0.5×	3.5k 1.0×	6.9k 2.4×	1.8k 1.4×	18	22.7k
Søren J. Sørensen Denmark	77	11.2k 1.5×	1.9k 0.5×	3.1k 0.9×	5.9k 2.0×	1.9k 1.4×	370	23.9k
Emily B. Hollister United States	33	9.7k 1.3×	1.6k 0.4×	3.1k 0.8×	7.4k 2.5×	1.7k 1.3×	62	21.6k
Lars Hestbjerg Hansen Denmark	64	9.1k 1.2×	1.6k 0.4×	1.6k 0.4×	3.8k 1.3×	1.6k 1.3×	331	16.9k
Lars Paulín Finland	60	6.5k 0.9×	1.7k 0.5×	2.3k 0.6×	2.0k 0.7×	1.3k 1.0×	240	13.9k
Todd Z. DeSantis United States	29	11.5k 1.6×	2.0k 0.6×	2.0k 0.5×	6.3k 2.2×	2.1k 1.6×	52	21.6k
Brian B. Oakley United States	32	9.1k 1.2×	2.0k 0.5×	3.2k 0.9×	9.3k 3.2×	901 0.7×	78	22.9k
Jan Gerken Germany	5	11.7k 1.6×	2.0k 0.5×	3.7k 1.0×	9.6k 3.3×	1.4k 1.1×	7	25.8k
Brandi L. Cantarel United States	29	11.4k 1.6×	1.9k 0.5×	2.3k 0.6×	1.4k 0.5×	3.0k 2.3×	42	16.5k

Countries citing papers authored by Nicholas A. Bokulich

Since Specialization

Citations

This map shows the geographic impact of Nicholas A. Bokulich's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Nicholas A. Bokulich with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Nicholas A. Bokulich more than expected).

Fields of papers citing papers by Nicholas A. Bokulich

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Nicholas A. Bokulich. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Nicholas A. Bokulich. The network helps show where Nicholas A. Bokulich may publish in the future.

Co-authorship network of co-authors of Nicholas A. Bokulich

This figure shows the co-authorship network connecting the top 25 collaborators of Nicholas A. Bokulich. A scholar is included among the top collaborators of Nicholas A. Bokulich based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Nicholas A. Bokulich. Nicholas A. Bokulich is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

Bokulich, Nicholas A., et al.. (2026). Shipped and shifted: modeling collection-induced bias in microbiome multi-omics using a tractable fermentation system. npj Biofilms and Microbiomes. 12(1). 43–43.

Bokulich, Nicholas A., et al.. (2026). Grape expectations: disentangling environmental drivers of microbiome establishment in winegrowing ecosystems. npj Biofilms and Microbiomes. 12(1). 49–49.

Zimmermann, Petra, Salomé Kurth, Stamatios Giannoukos, Martin Stocker, & Nicholas A. Bokulich. (2025). NapBiome trial: Targeting gut microbiota to improve sleep rhythm and developmental and behavioural outcomes in early childhood in a birth cohort in Switzerland – a study protocol. BMJ Open. 15(3). e092938–e092938.

Lin, Jerry, Mélanie Massonnet, Noé Cochetel, et al.. (2025). The genetic basis of microbiome recruitment in grapevine and its association with fermentative and pathogenic taxa. New Phytologist. 248(1). 178–192. 1 indexed citations

Mills, David A., et al.. (2025). A tale of two vineyards: parsing site-specific differences in bacterial and fungal communities of wine grapes from proximal vineyards and their changes during processing in a single winery. Applied and Environmental Microbiology. 91(6). e0052625–e0052625. 2 indexed citations

Lavrinienko, Anton, et al.. (2025). Impacts of food additive sweeteners and emulsifiers on the gut microbiome: research trends and future directions. Trends in Food Science & Technology. 166. 105370–105370.

Ziemski, Michał, et al.. (2025). ViromeXplore: integrative workflows for complete and reproducible virome characterization. Briefings in Bioinformatics. 26(6). 1 indexed citations

Bokulich, Nicholas A.. (2025). Integrating sequence composition information into microbial diversity analyses with k-mer frequency counting. mSystems. 10(3). e0155024–e0155024. 2 indexed citations

Bokulich, Nicholas A., et al.. (2024). Is the Juice Worth the Squeeze? Evaluating Peptide Nucleic Acid Blockers for Reducing Plant DNA Contamination in 16S rRNA Gene Sequencing. SHILAP Revista de lepidopterología. 5(1). 17–21. 4 indexed citations

10.

Shin, Hakdong, Keith A. Martinez, Nora Henderson, et al.. (2023). Partial convergence of the human vaginal and rectal maternal microbiota in late gestation and early post-partum. npj Biofilms and Microbiomes. 9(1). 37–37. 10 indexed citations

11.

Ziemski, Michał, et al.. (2022). Reproducible acquisition, management and meta-analysis of nucleotide sequence (meta)data using q2-fondue. Bioinformatics. 38(22). 5081–5091. 8 indexed citations

12.

Shulman, Robert J., Maciej Chichlowski, Cheryl L. Harris, et al.. (2022). Infant behavioral state and stool microbiome in infants receiving Lactocaseibacillus rhamnosus GG in formula: randomized controlled trial. BMC Pediatrics. 22(1). 580–580. 7 indexed citations

13.

Chichlowski, Maciej, Nicholas A. Bokulich, Cheryl L. Harris, et al.. (2021). Effect of Bovine Milk Fat Globule Membrane and Lactoferrin in Infant Formula on Gut Microbiome and Metabolome at 4 Months of Age. Current Developments in Nutrition. 5(5). nzab027–nzab027. 15 indexed citations

14.

Bokulich, Nicholas A., Benjamin D. Kaehler, Jai Ram Rideout, et al.. (2018). Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin. Microbiome. 6(1). 90–90. 3938 indexed citations breakdown →

15.

Alemán, José O., Nicholas A. Bokulich, Jonathan R. Swann, et al.. (2018). Fecal microbiota and bile acid interactions with systemic and adipose tissue metabolism in diet-induced weight loss of obese postmenopausal women. Journal of Translational Medicine. 16(1). 244–244. 84 indexed citations

16.

Bokulich, Nicholas A., Jordyn Bergsveinson, Barry Ziola, & David A. Mills. (2015). Mapping microbial ecosystems and spoilage-gene flow in breweries highlights patterns of contamination and resistance. eLife. 4. 63 indexed citations

17.

Bokulich, Nicholas A., J.H. Thorngate, Paul M. Richardson, & David A. Mills. (2013). Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate. Proceedings of the National Academy of Sciences. 111(1). E139–48. 742 indexed citations breakdown →

18.

Bokulich, Nicholas A., David A. Mills, & Mark A. Underwood. (2013). Surface Microbes in the Neonatal Intensive Care Unit: Changes with Routine Cleaning and over Time. Journal of Clinical Microbiology. 51(8). 2617–2624. 64 indexed citations

19.

Bokulich, Nicholas A. & Charles W. Bamforth. (2013). The Microbiology of Malting and Brewing. Microbiology and Molecular Biology Reviews. 77(2). 157–172. 226 indexed citations

20.

Bokulich, Nicholas A. & David A. Mills. (2012). Microbial Terroir of Wine: Deep Insight into Site-Specific Winery and Vineyard Microbial Communities. American Journal of Enology and Viticulture. 63(3). 4 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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