diff --git a/JSchnable.tex b/JSchnable.tex index 9ee24725dc40cf5aa86359f402f5113200a6102a..80a4058d28f3bd288063136da8ff2c77cf474755 100644 --- a/JSchnable.tex +++ b/JSchnable.tex @@ -126,11 +126,11 @@ \begin{itemize} \item University of Nebraska-Lincoln \\Professor, Department of Agronomy and Horticulture\hfill 2022-Present -\\Charles O. Gardner Professor of Maize Quantitative Genetics \hfill 2019-Present +%\\Charles O. Gardner Professor of Maize Quantitative Genetics \hfill 2019-Present \\Associate Professor, Department of Agronomy and Horticulture \hfill 2019-2022 \\Assistant Professor, Department of Agronomy and Horticulture \hfill 2014-2019 -\item Google[x]\\ -Acting Technical Lead \hfill 2022 +\item Alphabet, Google, X\\ +Interim Technology Lead \hfill 2022 \item Chinese Academy of Agricultural Sciences\\ NSF PGRP Fellowship Supported Visiting Scholar \hfill 2014 \item Donald Danforth Plant Science Center\\ @@ -146,6 +146,7 @@ NSF PGRP Fellowship Supported Postdoctoral Researcher \hfill 2013 \section*{Selected Honors and Awards} \begin{itemize} +\item Fellow\hfill2023\\Nebraska Center for Entrepenourship \item Fellow\hfill2022\\PhenoRob \item Outstanding Paper of the Year\hfill2020\\The Plant Phenome Journal \item Early Career Award \hfill2019\\American Society of Plant Biologists @@ -167,30 +168,32 @@ NSF PGRP Fellowship Supported Postdoctoral Researcher \hfill 2013 \subsection*{Federal (Current)} \begin{itemize} +\item DOE ``Phenotypic and Molecular Characterization of Nitrogen Responsive Genes in Sorghum.'' (co-PI) 2022-2025. \$2.7M \item DOE ``\href{https://news.unl.edu/newsrooms/today/article/nebraska-team-merges-machine-learning-plant-genetics-to-maximize-sorghum/}{TGCM: (T)rait, (G)ene, and (C)rop Growth (M)odel directed targeted gene characterization in sorghum}.'' (PI) 2019-2023. \$2.7M -\item NSF ``\href{https://www.nsf.gov/awardsearch/showAward?AWD_ID=1838307}{RoL: FELS: EAGER: Genetic constraints on the increase of organismal complexity over time.}'' (PI) 2018-2022. \$300k \item NSF ``\href{https://www.nsf.gov/awardsearch/showAward?AWD_ID=1844707}{BTT EAGER: A wearable plant sensor for real-time monitoring of sap flow and stem diameter to accelerate breeding for water use efficiency.}'' (PI) 2019-2023. \$300k \item USDA-NIFA ``\href{https://portal.nifa.usda.gov/web/crisprojectpages/1022298-high-intensity-phenotyping-sites.html}{High Intensity Phenotyping Sites: Transitioning To A Nationwide Plant Phenotyping Network.}'' (co-PI) 2020-2023. \$3M \item USDA-NIFA ``\href{https://portal.nifa.usda.gov/web/crisprojectpages/1022368-high-intensity-phenotyping-sitesa-multi-scale-multi-modal-sensing-and-sense-making-cyber-ecosystem-for-genomes-to-fields.html}{High Intensity Phenotyping Sites: A multi-scale, multi-modal sensing and sense-making cyber-ecosystem for Genomes to Fields.}'' (co-PI) 2020-2023. \$2.7M \item USDA-NIFA ``\href{https://portal.nifa.usda.gov/web/crisprojectpages/1022122-cps-medium-collaborative-research-field-scale-single-plant-resolution-agricultural-management-using-coupled-molecular-and-macro-sensing-and-multi-scale-data-fusion-and-modeling.html}{CPS: Medium: Field-scale, single plant-resolution agricultural management using coupled molecular and macro sensing and multi-scale data fusion and modeling}'' (co-PI) (2020-2023) \$1.05M \item ARPA-E ``\href{https://arpa-e.energy.gov/?q=news-item/arpa-e-announces-165-million-technologies-supporting-biofuels-supply-chain}{Soil Organic Carbon Networked Measurement System (SOCNET)}'' (co-PI) 2020-2023 \$1.9M -\item ARPA-E ``CORN- Crop Optimization Realized through Neuralnets'' (co-PI) 2020-2022 \$620k -\item NSF ``\href{https://www.nsf.gov/awardsearch/showAward?AWD_ID=1826781}{RII Track-2 FEC: Functional analysis of nitrogen responsive networks in Sorghum.}'' (co-PI) 2018-2022. \$4M -\item ARPA-E ``\href{https://unews.utah.edu/protecting-the-field-of-dreams/}{Low cost wireless chemical sensor networks.}'' (co-PI) 2019-2022. \$2.2M +\item NSF ``\href{https://www.nsf.gov/awardsearch/showAward?AWD_ID=1826781}{RII Track-2 FEC: Functional analysis of nitrogen responsive networks in Sorghum.}'' (co-PI) 2018-2023. \$4M \item FFAR ``\href{http://www.ncsa.illinois.edu/news/story/crops_in_silico_project_awarded_5_million}{Crops in silico: Increasing crop production by connecting models from the microscale to the macroscale.}'' (co-PI) 2019-2023. \$5M \item NSF ``AI Institute for Resilient Agriculture'' (Investigator) 2021-2026 \$20M -\item NSF ``\href{https://nsf.gov/awardsearch/showAward?AWD_ID=1557417}{Center for Root and Rhizobiome Innovation.}'' (Investigator \& Management Team Member) 2016-2021. \$20M %\item DOE-JGI Community Sequencing Program ``Expanding grass genome comparators.'' \end{itemize} \subsection*{Non-Federal (Current)} \begin{itemize} -\item ICRISAT ``Identifying Novel Loci Controlling Priority Traits in Pearl Millet and Sorghum using Supervised Classification Algorithms.'' (PI) 2020-2021 \$50k -\item Nebraska Corn Board ``Genomes to Fields (G2F) - Predicting Final Yield Performance in Variable Environments.'' (PI) 2016-2022. \$300k \textit{(to date)} -\item Wheat Innovation Foundation ``A Low-Cost, High-Throughput Cold Stress Perception Assay for Sorghum Breeding.'' (co-PI) 2019-2021. \$205k +\item University of Nebraska ``SPACE2: Space, Policy, Agriculture, Climate, and Extreme Environment.'' (co-PI) 2022-2024 \$150k. +\item Nebraska Corn Board ``Genomes to Fields (G2F) - Predicting Final Yield Performance in Variable Environments.'' (PI) 2016-2023. \$300k \textit{(to date)} +\item Wheat Innovation Foundation ``A Low-Cost, High-Throughput Cold Stress Perception Assay for Sorghum Breeding.'' (co-PI) 2019-2023. \$205k \end{itemize} \subsection*{Completed Projects} \begin{itemize} +\item ICRISAT ``Identifying Novel Loci Controlling Priority Traits in Pearl Millet and Sorghum using Supervised Classification Algorithms.'' (PI) 2020-2021 \$50k +\item ARPA-E ``CORN- Crop Optimization Realized through Neuralnets'' (co-PI) 2020-2022 \$620k +\item ARPA-E ``\href{https://unews.utah.edu/protecting-the-field-of-dreams/}{Low cost wireless chemical sensor networks.}'' (co-PI) 2019-2022. \$2.2M +\item NSF ``\href{https://nsf.gov/awardsearch/showAward?AWD_ID=1557417}{Center for Root and Rhizobiome Innovation.}'' (Investigator \& Management Team Member) 2016-2021. \$20M +\item NSF ``\href{https://www.nsf.gov/awardsearch/showAward?AWD_ID=1838307}{RoL: FELS: EAGER: Genetic constraints on the increase of organismal complexity over time.}'' (PI) 2018-2022. \$300k \item USDA-NIFA ``\href{https://portal.nifa.usda.gov/web/crisprojectpages/1008702-identifying-mechanisms-conferring-low-temperature-tolerance-in-maize-sorghum-and-frost-tolerant-relatives.html}{Identifying mechanisms conferring low temperature tolerance in maize, sorghum, and frost tolerant relatives.}'' (PI) 2015-2020. \$455k \item ARPA-E ``\href{https://arpa-e.energy.gov/?q=slick-sheet-project/soil-sensors-nitrogen-use-efficiency}{In-plant and in-soil microsensors enabled high-throughput phenotyping of root nitrogen uptake and nitrogen use efficiency.}'' (co-PI) 2017-2019. \$1.1M \item USDA/NSF Joint Program ``PAPM EAGER: Transitioning to the next generation plant phenotyping robots.'' (co-PI) 2016-2018. \$285k @@ -221,13 +224,15 @@ NSF PGRP Fellowship Supported Postdoctoral Researcher \hfill 2013 \subsection*{Entrepreneurship-Related Funding} \begin{itemize} -\item NSF (to EnGeniousAg) ``SBIR Phase I: Low-cost in-planta nitrate sensor'' 2019-2020 \$225k -\item USDA (to EnGeniousAg) ``SBIR Phase I: Low-cost field-deployable sensors to monitor nitrate in soil and water.'' 2019-2020 \$100k +\item NSF (to EnGeniousAg) ``SBIR Phase II: Low-cost in-planta nitrate sensor'' 2023-2025 \$1M +\item NSF (to EnGeniousAg) ``SBIR Phase I: Low-cost in-planta nitrate sensor'' 2019-2022 \$225k +\item USDA (to EnGeniousAg) ``SBIR Phase I: Low-cost field-deployable sensors to monitor nitrate in soil and water.'' 2019-2021 \$100k \end{itemize} \subsection*{Industry Cooperation} \begin{itemize} \item Scientific Advisory Council, GeneSeek, Inc\hfill2017-Present +\item Advisory Board, Afflo Sensors\hfill2023-Present \item External Advisor to the Scientific Advisory Board, Indigo Agriculture\hfill2017 \item External Advisor to the Scientific Advisory Board, Syngenta AG\hfill2016 \end{itemize} @@ -238,23 +243,25 @@ NSF PGRP Fellowship Supported Postdoctoral Researcher \hfill 2013 Hongyu Jin (PhD, Complex Biosystems), Michael Tross (PhD, Complex Biosystems), Nikee Shrestha (PhD, Complex Biosystems), +Waqar Ali (PhD, Complex Biosystems), +Ramesh Kanna Mathivanan (PhD, Agronomy and Horticulture), Nate Korth (co-advised, PhD, Food Science), Fangyi Li (co-advised, PhD, Complex Biosystems), %Kahheetah Barnoskie (co-advised MS, Agronomy \& Horticulture), Kyle Linders (co-advised MS, Agronomy \& Horticulture) \item \textbf{Thesis Committees:} %Abbas Atefi (PhD, Biological Systems Engineering), -Yen Ning Chai (PhD, Agronomy \& Horticulture), +%Yen Ning Chai (PhD, Agronomy \& Horticulture), %Waseen Huassain (PhD, Agronomy \& Horticulture), %Ying Ren (PhD, Agronomy \& Horticulture), %Mallory Suhr (PhD, Food Science), -Qinnan Yang (PhD, Food Science), +%Qinnan Yang (PhD, Food Science), %Ronghao Wang (PhD, Statistics), %Piyush Pandey (MS, Biological Systems Engineering), %Thao Yu (MS, Statistics), -J. Preston Hurst (PhD, Agronomy \& Horticulture), +%J. Preston Hurst (PhD, Agronomy \& Horticulture), %Leandra Parsons (PhD, Agronomy \& Horticulture), -Rituaj Khound (PhD, Agronomy \& Horticulture), +%Rituaj Khound (PhD, Agronomy \& Horticulture), %Sergio Manuel Gabriel Peralta (PhD, Plant Pathology), %Shimin Chen (PhD, Food Science), Zachery Shomo (PhD, Biochemistry), @@ -262,7 +269,7 @@ Jared Haupt (PhD, Biochemistry), %Sairam Behera (PhD, Computer Science), Sarah Johnson (PhD, Agronomy \& Horticulture), %Michael Meier (PhD, Agronomy \& Horticulture), -Semra Palali (PhD, Agronomy \& Horticulture) +%Semra Palali (PhD, Agronomy \& Horticulture) \item \textbf{Graduated Advisees:} Daniel Carvalho (PhD, Agronomy \& Horticulture), Zhikai Liang (PhD, Agronomy \& Horticulture), @@ -285,7 +292,7 @@ Srinidhi Bashyam (co-advised, MS, Computer Science \& Engineering) \section*{Publications} \begin{center} -\textbf{H-Index:} \textbf{\href{https://scholar.google.com/citations?user=cik4JVYAAAAJ}{37}} \\ +\textbf{H-Index:} \textbf{\href{https://scholar.google.com/citations?user=cik4JVYAAAAJ}{40}} \\ Lab members in \textbf{bold}, $^*$authors contributed equally, $^\ddagger$undergraduate author, $^\S$corresponding author \end{center} @@ -294,11 +301,7 @@ Lab members in \textbf{bold}, $^*$authors contributed equally, $^\ddagger$underg \addtolength{\leftskip}{9mm} \subsection*{Preprints} -\noindent Kick D, Wallace J, \textbf{Schnable JC}, Kolkman JM, Alaca B, Beissinger TM, Ertl D, Flint-Garcia S, Gage JL, Hirsch CN, Knoll JE, de Leon N, Lima DC, Moreta D, Singh MP, Weldekidan T, Washburn JD$^\S$ Yield prediction through integration of genetic, environment, and management data through deep learning. \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.07.29.502051}{10.1101/2022.07.29.502051} - -\noindent \textbf{Sun G}, Wase N, Shu S, Jenkins J, Zhou B, Chen C, Sandor L, Plott C, Yoshinga Y, Daum C, Qi P, Barry K, Lipzen A, Berry L, Gottilla T, \textbf{Foltz A}, Yu H, O'Malley R, Zhang C, Devos KM, \textbf{Sigmon B}, Yu B, Obata T, Schmutz J$^\S$, \textbf{Schnable JC}$^\S$ Genome sequence of \textit{Paspalum vaginatum} indicates trehalose may act as a conserved trigger for increased nitrogen use efficiency in grasses. \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2021.08.18.456832}{10.1101/2021.08.18.456832} \\ - -\noindent Yang Q, Van Haute M, \textbf{Korth N}, Sattler S, Toy J, Rose D, \textbf{Schnable JC}, Benson A$^\S$ Complex trait analysis of human gut microbiome-active traits in \textit{Sorghum bicolor}: a new category of human health traits in food crops. \textsc{Research Square} doi: \href{https://doi.org/10.21203/rs.3.rs-1490527/v1}{10.21203/rs.3.rs-1490527/v1} +\noindent Kick D, Wallace J, \textbf{Schnable JC}, Kolkman JM, Alaca B, Beissinger TM, Ertl D, Flint-Garcia S, Gage JL, Hirsch CN, Knoll JE, de Leon N, Lima DC, Moreta D, Singh MP, Weldekidan T, Washburn JD$^\S$ Yield prediction through integration of genetic, environment, and management data through deep learning. \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.07.29.502051}{10.1101/2022.07.29.502051}\\ \noindent Xu G, Lyu J, Obata T, Liu S, Ge Y, \textbf{Schnable JC}, Yang J$^\S$ A historically balanced locus under recent directional selection in responding to changed nitrogen conditions during modern maize breeding. \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.02.09.479784}{10.1101/2022.02.09.479784}\\ @@ -323,13 +326,22 @@ Lab members in \textbf{bold}, $^*$authors contributed equally, $^\ddagger$underg \begin{etaremune} \subsection*{Faculty Publications} -\item Li D, Bai D, Tian Y, Li Y, Zhao C, Wang Q, Gou S, Gu Y, Luan X, Wang R, Yang J, Hawkesford MJ, \textbf{Schnable JC}, Jin X, Qiu L (2022) Time series canopy phenotyping enables the identification of genetic variants controlling dynamic phenotypes in soybean. \textsc{Journal of Integrative Plant Biology} \textit{(Accepted)} +\item Gaillard M, Benes B, \textbf{Tross MC}, \textbf{Schnable JC} (2023) Multi-view triangulation without correspondences. \textsc{Computers and Electronics in Agriculture} \textit{(Accepted)} + +\item \textbf{Grzybowski M}$^\S$, \textbf{Mural RV}, Xu G, \textbf{Turkus, J}, Yang Jinliang, \textbf{Schnable JC} (2023) A common resequencing-based genetic marker dataset for global maize diversity. \textsc{The Plant Journal} doi: \href{https://doi.org/10.1111/tpj.16123}{10.1111/tpj.16123} + +\item \textbf{Sun G}, Wase N, Shu S, Jenkins J, Zhou B, Chen C, Sandor L, Plott C, Yoshinga Y, Daum C, Qi P, Barry K, Lipzen A, Berry L, Gottilla T, \textbf{Foltz A}, Yu H, O'Malley R, Zhang C, Devos KM, \textbf{Sigmon B}, Yu B, Obata T, Schmutz J$^\S$, \textbf{Schnable JC}$^\S$ (2023) Genome of \textit{Paspalum vaginatum} and the role of trehalose mediated autophagy in increasing maize biomass. \textsc{Nature Communications} doi: \href{https://doi.org/10.1038/s41467-022-35507-8}{10.1038/s41467-022-35507-8} \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2021.08.18.456832}{10.1101/2021.08.18.456832}\\ +\textbf{\textit{"Research Highlight" in Nature Plants}} doi: \href{https://doi.org/10.1038/s41477-023-01343-x}{10.1038/s41477-023-01343-x} + +\item \textbf{Grzybowski M}$^\S$, \textbf{Zweiner M}, \textbf{Jin H}, Wijewardane NK, Atefi A, Naldrett MJ, Alverez S, Ge Y, \textbf{Schnable JC} (2022) Variation in morpho-physiological and metabolic responses to low nitrogen stress across the sorghum association panel. \textsc{BMC Plant Biology} doi: \href{https://doi.org/10.1186/s12870-022-03823-2}{10.1186/s12870-022-03823-2} \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.06.08.495271}{10.1101/2022.06.08.495271} + +\item Yang Q, Van Haute M, \textbf{Korth N}, Sattler S, Toy J, Rose D, \textbf{Schnable JC}, Benson A (2022) Genetic analysis of seed traits in Sorghum bicolor that affect the human gut microbiome. \textsc{Nature Communications} doi: \href{https://doi.org/10.1038/s41467-022-33419-1}{10.1038/s41467-022-33419-1} -\item \textbf{Grzybowski M}$^\S$, \textbf{Zweiner M}, \textbf{Jin H}, Wijewardane NK, Atefi A, Naldrett MJ, Alverez S, Ge Y, \textbf{Schnable JC} (2022) Variation in morpho-physiological and metabolic responses to low nitrogen stress across the sorghum association panel. \textsc{BMC Plant Biology} \textit{(Accepted)} \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.06.08.495271}{10.1101/2022.06.08.495271} +\item Li D, Bai D, Tian Y, Li Y, Zhao C, Wang Q, Gou S, Gu Y, Luan X, Wang R, Yang J, Hawkesford MJ, \textbf{Schnable JC}, Jin X, Qiu L (2022) Time series canopy phenotyping enables the identification of genetic variants controlling dynamic phenotypes in soybean. \textsc{Journal of Integrative Plant Biology} doi: \href{https://doi.org/10.1111/jipb.13380}{10.1111/jipb.13380} -\item Khound R, \textbf{Sun G}, \textbf{Mural RV}, \textbf{Schnable JC}, Santra D$^\S$ (2022) SNP Discovery in Proso millet (\textit{Panicum miliaceum} L.) using low-pass genome sequencing. \textsc{Plant Direct} \textit{(Accepted)} +\item Khound R, \textbf{Sun G}, \textbf{Mural RV}, \textbf{Schnable JC}, Santra D$^\S$ (2022) SNP Discovery in Proso millet (\textit{Panicum miliaceum} L.) using low-pass genome sequencing. \textsc{Plant Direct} doi: \href{https://doi.org/10.1002/pld3.447}{10.1002/pld3.447} -\item Zhang K, Yang Y, Zhang X, Zhang L, Fu Y, Guo Z, Chen S, Wu J, \textbf{Schnable JC}, Yi K, Wang X, Cheng F$^\S$ (2022) The genome of *Orychophragmus violaceus* provides genomic insights into the evolution of Brassicaceae polyploidization and its distinct traits. \textsc{Plant Communications} \textit{(Accepted)} +\item Zhang K, Yang Y, Zhang X, Zhang L, Fu Y, Guo Z, Chen S, Wu J, \textbf{Schnable JC}, Yi K, Wang X, Cheng F$^\S$ (2022) The genome of *Orychophragmus violaceus* provides genomic insights into the evolution of Brassicaceae polyploidization and its distinct traits. \textsc{Plant Communications} doi: \href{https://doi.org/10.1016/j.xplc.2022.100431}{10.1016/j.xplc.2022.100431} \item \textbf{Mural RV}, \textbf{Sun G}, \textbf{Grzybowski M}, \textbf{Tross MC}, \textbf{Jin H}, \textbf{Smith C}, Newton L, Andorf CM, Woodhouse MR, Thompson AM, \textbf{Sigmon B}, \textbf{Schnable JC}$^\S$ (2022) Association mapping across a multitude of traits collected in diverse environments identifies pleiotropic loci in maize. \textsc{Gigascience} doi: \href{https://doi.org/10.1093/gigascience/giac080}{10.1093/gigascience/giac080} \textsc{bioRxiv} doi: \href{https://doi.org/10.1101/2022.02.25.480753}{10.1101/2022.02.25.480753} @@ -696,7 +708,9 @@ Science Advances % \item University of Massachusetts Amherst, Oxford, OH, USA\textit{\hfill(Sept. 2019)} %\end{itemize} \begin{itemize} -\item French Agricultural Research Centre for International Development (CIRAD), Montpellier, France \hfill 2022 +\item Carnegie Institution for Science, Stanford, CA, USA\hfill 2022 +\item Center for Sorghum Improvement, Manhattan, KS, USA \hfill 2022 \textit{(Remote)} +\item CIRAD, Montpellier, France \hfill 2022 \item California State East Bay, Hayward, CA, USA \hfill 2021 \textit{(Remote, COVID)} \item University of Missouri, Columbia, MO, USA\hfill2020 \textit{(Remote, COVID)} \item Rutgers University, New Brunswick, NJ, USA\hfill2020 \textit{(Remote, COVID)} @@ -779,6 +793,7 @@ Science Advances \end{itemize} \subsection*{Internal} \begin{itemize} +\item CROPS Entrepreneurship/Industry Career Panel (Student Organized), UNL\hfill2023 \item Complex Biosystems Seminar Series, UNL\hfill2021 \textit{(In Person, COVID)} \item Agronomy \& Horticulture Departmental Seminar Series, UNL\hfill2020 \textit{(Remote, COVID)} \item Nebraska Plant Science Symposium (Student Organized)\hfill2019