Publications

Journal articles

1. Predicting spring phenology in deciduous broadleaf forests: NEON phenology forecasting community challenge Kathryn I Wheeler, Michael C Dietze, David LeBauer, Jody A Peters, Andrew D Richardson, Arun A Ross, R Quinn Thomas, Kai Zhu, Uttam Bhat, Stephan Munch, Others (2024) Agricultural and Forest Meteorology doi:10.1016/j.agrformet.2023.109810
2. Adoption of unoccupied aerial systems in agricultural research Jennifer Lachowiec, Max J. Feldman, Filipe Inacio Matias, David LeBauer, Alexander Gregory (2024) Plant Phenome Journal doi:10.1002/ppj2.20098
3. Increasing racial diversity in the north american plant phenotyping network through conference participation support David LeBauer, Alexander Bucksch, Jennifer Clarke, Jesse Potts, Sonali Roy (2023) Plant Phenome Journal doi:10.1002/ppj2.20075
4. Early detection of drought stress in durum wheat using hyperspectral imaging and photosystem sensing Bishal Roy, Vasit Sagan, Alifu Haireti, Maria Newcomb, Roberto Tuberosa, David LeBauer, Nadia Shakoor (2023) Remote Sensing doi:10.3390/rs14010155
5. Automating methods for estimating metabolite volatility Laura K Meredith, S Marshall Ledford, Kristina Riemer, Parker Geffre, Kelsey Graves, Linnea K Honeker, David LeBauer, Malak M Tfaily, Jordan Krechmer (2023) Frontiers in Microbiology doi:10.3389/fmicb.2023.1267234
6. Review and synthesis: the promise of big soil data, moving current practices towards future potential Katherine Todd-Brown, Rose Z Abramoff, Jeffrey Beem-Miller, Hava K Blair, Stevan Earl, Kristen J Frederick, Daniel R Fuka, Mario Guevara Santamaria, Jennifer W Harden, Katherine A Heckman, Lillian Joan Heran, James R Holmquist, Alison M Hoyt, David H Klinges, David S LeBauer, Avni Malhotra, Shelby C McClelland, Lucas E Nave, Katherine S Rocci, Sean Michael Schaeffer, Shane Stoner, Sophie F von Fromm Natasja van Gestel, Marisa Loren Younger (2022) Biogeosciences Discussions doi:10.5194/bg-2021-323
7. Data-driven artificial intelligence for calibration of hyperspectral big data Vasit Sagan, Maitiniyazi Maimaitijiang, Sidike Paheding, Sourav Bhadra, Nichole Gosselin, Max Burnette, Jeffrey Demieville, Sean Hartling, David LeBauer, Maria Newcomb, Duke Pauli, Kyle T. Peterson, Nadia Shakoor, Abby Stylianou, Charles S. Zender, Todd C. Mockler (2022) IEEE Transactions on Geoscience and Remote Sensing doi:10.1109/TGRS.2021.3091409
8. Bison-fly: an open-source UAV pipeline for plant breeding data collection Filipe Inácio Matias, Andrew Green, Jennifer A Lachowiec, David LeBauer, Max Feldman (2022) Plant Phenome Journal doi:10.1002/ppj2.20048
9. Ten simple rules to cultivate transdisciplinary collaboration in data science Faryad Sahneh, Meghan A. Balk, Marina Kisley, Chi-kwan Chan, Mercury Fox, Brian Nord, Eric Lyons, Tyson Swetnam, Daniela Huppenkothen, Will Sutherland, Ramona L. Walls, Daven P. Quinn, Tonantzin Tarin, David LeBauer, David Ribes, III, Dunbar P. Birnie, Carol Lushbough, Eric Carr, Grey Nearing, Jeremy Fischer, Kevin Tyle, Luis Carrasco, Meagan Lang, Peter W. Rose, Richard R. Rushforth, Samapriya Roy, Thomas Matheson, Tina Lee, C. Titus Brown, Tracy K. Teal, Monica Papeș, Stephen Kobourov, Nirav Merchant (2021) PLOS Computational Biology doi:10.1371/journal.pcbi.1008879
10. On-farm land management strategies and production challenges in United States organic agricultural systems Isaac Kwadwo Mpanga, Russell Tronstad, Jessica Guo, David Shaner LeBauer, Omololu John Idowu (2021) Current Research in Environmental Sustainability doi:10.1016/j.crsust.2021.100097
11. Global wheat head detection 2021: an improved dataset for benchmarking wheat head detection methods Etienne David, Mario Serouart, Daniel Smith, Simon Madec, Kaaviya Velumani, Shouyang Liu, Xu Wang, Francisco Pinto, Shahameh Shafiee, Izzat S.A. Tahir, Hisashi Tsujimoto, Shuhei Nasuda, Bangyou Zheng, Norbert Kirchgessner, Helge Aasen, Andreas Hund, Pouria Sadhegi-Tehran, Koichi Nagasawa, Goro Ishikawa, Sébastien Dandrifosse, Alexis Carlier, Benjamin Dumont, Benoit Mercatoris, Byron Evers, Ken Kuroki, Haozhou Wang, Masanori Ishii, Minhajul A. Badhon, Curtis Pozniak, David Shaner LeBauer, Morten Lillemo, Jesse Poland, Scott Chapman, Benoit De Solan, Frédéric Baret, Ian Stavness, Wei Guo (2021) Plant Phenomics doi:10.34133/2021/9846158
12. Expanded potential growing region and yield increase for agave americana with future climate Sarah C. Davis, John T. Abatzoglou, David S. LeBauer (2021) Agronomy doi:10.3390/agronomy11112109
13. A reporting format for leaf-level gas exchange data and metadata Kim S. Ely, Alistair Rogers, Deborah A. Agarwal, Elizabeth A. Ainsworth, Loren Albert, Ashehad Ali, Jeremiah Anderson, Michael J. Aspinwall, Chandra Bellasio, Carl Bernacchi, Steve Bonnage, Thomas N. Buckley, James Bunce, Angela C. Burnett, Florian A. Busch, Amanda Cavanagh, Lucas A. Cernusak, Robert Crystal-Ornelas, Joan Damerow, Kenneth J. Davidson, Martin G. De Kauwe, Michael C. Dietze, Tomas F. Domingues, Mirindi Eric Dusenge, David S. Ellsworth, John R. Evans, Paul P.G. Gauthier, Bruno O. Gimenez, Elizabeth P. Gordon, Christopher M. Gough, Aud H. Halbritter, David T. Hanson, Mary Heskel, J. Aaron Hogan, Jason R. Hupp, Kolby Jardine, Jens Kattge, Trevor Keenan, Johannes Kromdijk, Dushan P. Kumarathunge, Julien Lamour, Andrew D.B. Leakey, David S. LeBauer, Qianyu Li, Marjorie R. Lundgren, Nate McDowell, Katherine Meacham-Hensold, Belinda E. Medlyn, David J.P. Moore, Robinson Negrón-Juárez, Ülo Niinemets, Colin P. Osborne, Alexandria L. Pivovaroff, Hendrik Poorter, Sasha C. Reed, Youngryel Ryu, Alvaro Sanz-Saez, Stephanie C. Schmiege, Shawn P. Serbin, Thomas D. Sharkey, Martijn Slot, Nicholas G. Smith, Balasaheb V. Sonawane, Paul F. South, Daisy C. Souza, Joseph Ronald Stinziano, Ellen Stuart-Haëntjens, Samuel H. Taylor, Mauricio D. Tejera, Johan Uddling, Vigdis Vandvik, Charuleka Varadharajan, Anthony P. Walker, Berkley J. Walker, Jeffrey M. Warren, Danielle A. Way, Brett T. Wolfe, Jin Wu, Stan D. Wullschleger, Chonggang Xu, Zhengbing Yan, Dedi Yang (2021) Ecological Informatics doi:10.1016/j.ecoinf.2021.101232
14. UAV-based sorghum growth monitoring: a comparative analysis of LIDAR and photogrammetry M. Maimaitijiang, V. Sagan, H. Erkbol, J. Adrian, M. Newcomb, D.S. LeBauer, D. Pauli, N. Shakoor, T. C. Mockler (2020) ISPRS Annals of the Photogrammetry, Remote Sensing and Spatial Information Sciences doi:10.5194/isprs-annals-V-3-2020-489-2020
15. Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels John L. Field, Tom L. Richard, Erica A. H. Smithwick, Hao Cai, Mark S. Laser, David S. LeBauer, Stephen P. Long, Keith Paustian, Zhangcai Qin, John J. Sheehan, Pete Smith, Michael Q. Wang, Lee R. Lynd (2020) Proceedings of the National Academy of Sciences doi:10.1073/pnas.1920877117
16. Beyond ecosystem modeling: a roadmap to community cyberinfrastructure for ecological data-model integration Istem Fer, Anthony K. Gardella, Alexey N. Shiklomanov, Eleanor E. Campbell, Elizabeth M. Cowdery, Martin G. De Kauwe, Ankur Desai, Matthew J. Duveneck, Joshua B. Fisher, Katherine D. Haynes, Forrest M. Hoffman, Miriam R. Johnston, Rob Kooper, David S. LeBauer, Joshua Mantooth, William J. Parton, Benjamin Poulter, Tristan Quaife, Ann Raiho, Kevin Schaefer, Shawn P. Serbin, James Simkins, Kevin R. Wilcox, Toni Viskari, Michael C. Dietze (2020) Global Change Biology doi:10.1111/gcb.15409
17. BrAPI—an application programming interface for plant breeding applications Peter Selby, Rafael Abbeloos, Jan Erik Backlund, Martin Basterrechea Salido, Guillaume Bauchet, Omar E Benites-Alfaro, Clay Birkett, Viana C Calaminos, Pierre Carceller, Guillaume Cornut, Bruno Vasques Costa, Jeremy D Edwards, Richard Finkers, Star Yanxin Gao, Mehmood Ghaffar, Philip Glaser, Valentin Guignon, Puthick Hok, Andrzej Kilian, Patrick König, Jack Elendil B Lagare, Matthias Lange, Marie-Angélique Laporte, Pierre Larmande, David S LeBauer, David A Lyon, David S Marshall, Dave Matthews, Iain Milne, Naymesh Mistry, Nicolas Morales, Lukas A Mueller, Pascal Neveu, Evangelia Papoutsoglou, Brian Pearce, Ivan Perez-Masias, Cyril Pommier, Ricardo H Ramírez-González, Abhishek Rathore, Angel Manica Raquel, Sebastian Raubach, Trevor Rife, Kelly Robbins, Mathieu Rouard, Chaitanya Sarma, Uwe Scholz, Guilhem Sempéré, Paul D Shaw, Reinhard Simon, Nahuel Soldevilla, Gordon Stephen, Qi Sun, Clarysabel Tovar, Grzegorz Uszynski, Maikel Verouden, The BrAPI consortium (2019) Bioinformatics doi:10.1093/bioinformatics/btz190
18. A new optical remote sensing technique for high-resolution mapping of soil moisture Ebrahim Babaeian, Paheding Sidike, Maria S. Newcomb, Maitiniyazi Maimaitijiang, Scott A. White, Jeffrey Demieville, Richard W. Ward, Morteza Sadeghi, David S. LeBauer, Scott B. Jones, Vasit Sagan, Markus Tuller (2019) Frontiers in Big Data doi:10.3389/fdata.2019.00037
19. BETYdb: a yield, trait, and ecosystem service database applied to second‐generation bioenergy feedstock production David LeBauer, Rob Kooper, Patrick Mulrooney, Scott Rohde, Dan Wang, Stephen P. Long, Michael C. Dietze (2018) GCB Bioenergy doi:10.1111/gcbb.12420
20. Brazilian sugarcane ethanol as an expandable green alternative to crude oil use Deepak Jaiswal, Amanda P. De Souza, Søren Larsen, David S. LeBauer, Fernando E. Miguez, Gerd Sparovek, Germán Bollero, Marcos S. Buckeridge, Stephen P. Long (2017) Nature Climate Change doi:10.1038/nclimate3410
21. Root volume distribution of maturing perennial grasses revealed by correcting for minirhizotron surface effects Christopher K. Black, Michael D. Masters, David S. LeBauer, Kristina J. Anderson-Teixeira, Evan H. DeLucia (2017) Plant and Soil doi:10.1007/s11104-017-3333-7
22. Plants in silico : why, why now and what?—an integrative platform for plant systems biology research Xin‐Guang Zhu, Jonathan P. Lynch, David S. LeBauer, Andrew J. Millar, Mark Stitt, Stephen P. Long (2016) Plant, Cell and Environment doi:10.1111/pce.12673
23. Carbon dynamics of mature and regrowth tropical forests derived from a pantropical database (TropForC-db) Kristina J. Anderson‐Teixeira, Maria M. H. Wang, Jennifer C. McGarvey, David S. LeBauer (2016) Global Change Biology doi:10.1111/gcb.13226
24. Ten simple rules for digital data storage Edmund Hart, Pauline Barmby, David S LeBauer, Francois Michonneau, Sarah Mount, Patrick Mulrooney, Timothee Poisot, Kara H Woo, Naupaka Zimmerman, Jeffrey W Hollister (2016) PLOS Computational Biology doi:10.1371/journal.pcbi.1005097
25. Toward systems-level analysis of agricultural production from crassulacean acid metabolism (CAM): scaling from cell to commercial production Sarah Davis, Ray Ming, David S LeBauer, Stephen Long (2015) New Phytologist doi:10.111/nph.13522
26. A physiological and biophysical model of coppice willow (salix spp.) production for the contiguous USA in current and future climate scenarios Dandan; Wang, Deepak; Jaiswal, David; LeBauer, Timothy; Wertin, German; Bollero, Andrew; Leakey, Steve Long (2015) Plant, Cell and Environment doi:10.1111/pce.12556
27. Light to liquid fuel: theoretical and realized energy conversion efficiency of plants using crassulacean acid metabolism (CAM) in arid conditions Sarah C. Davis, David S. LeBauer, Stephen P. Long (2014) Journal of Experimental Botany doi:10.1093/jxb/eru163
28. A quantitative assessment of a terrestrial biosphere model's data needs across north american biomes Michael C. Dietze, Shawn P. Serbin, Carl Davidson, Ankur R. Desai, Xiaohui Feng, Ryan Kelly, Rob Kooper, David LeBauer, Joshua Mantooth, Kenton McHenry, Dan Wang (2014) Journal of Geophysical Research: Biogeosciences doi:10.1002/2013JG002392
29. Ecophysiological screening of tree species for biomass production: trade‐off between production and water use Dan Wang, David LeBauer, Gary Kling, Thomas Voigt, Michael C. Dietze (2013) Ecosphere doi:10.1890/ES13-00156.1
30. On improving the communication between models and data Michael C Dietze, David S. LeBauer, Rob Kooper (2013) Plant, Cell and Environment doi:10.1111/pce.12043
31. Predicting yields of short‐rotation hybrid poplar (Populus spp.) for the United States through model–data synthesis Dan Wang, David LeBauer, Michael Dietze (2013) Ecological Applications doi:10.1890/12-0854.1
32. Facilitating feedbacks between field measurements and ecosystem models David S. LeBauer, Dan Wang, Katherine T. Richter, Carl C. Davidson, Michael C. Dietze (2013) Ecological Monographs doi:10.1890/12-0137.1
33. Translating probability density functions : from R to BUGS and back again David S LeBauer, Michael C Dietze, Benjamin M Bolker (2013) R Journal doi:10.32614/RJ-2013-020
34. Litter degradation rate and β-glucosidase activity increase with fungal diversity David S. LeBauer (2010) Canadian Journal of Forest Research doi:10.1139/X10-054
35. A quantitative review comparing the yield of switchgrass in monocultures and mixtures in relation to climate and management factors Dan Wang, David S. Lebauer, Michael C. Dietze (2010) GCB Bioenergy doi:10.1111/j.1757-1707.2010.01035.x
36. Low levels of nitrogen addition stimulate decomposition by boreal forest fungi Steven D. Allison, David S. LeBauer, M. Rosario Ofrecio, Randy Reyes, Anh-Minh Ta, Tri M. Tran (2009) Soil Biology & Biochemistry doi:10.1016/j.soilbio.2008.10.032
37. Nitrogen limitation of net primary productivity in terrestrial ecosystems is globally distributed David S LeBauer, Kathleen K Treseder (2008) Ecology doi:10.1890/06-2057.1
38. Application of real-time PCR to study effects of ammonium on population size of ammonia-oxidizing bacteria in soil Yutaka Okano, Krassimira R. Hristova, Christian M. Leutenegger, Louise E. Jackson, R. Ford Denison, Binyam Gebreyesus, David Lebauer, Kate M. Scow (2004) Applied and Environmental Microbiology doi:10.1128/AEM.70.2.1008-1016.2004

Conference proceedings

1. What does TERRA-REF’s high resolution, multi sensor plant sensing public domain data offer the computer vision community? David LeBauer, Max Burnette, Noah Fahlgren, Rob Kooper, Kenton McHenry, Abby Stylianou (2021) Proceedings of the IEEE/CVF International Conference on Computer Vision doi:10.1109/ICCVW54120.2021.00162
2. Exosphere - bringing the cloud closer J. Pistorius, C. Martin, S. Sudarshan, D. S. LeBauer (2020) 2020 IEEE/ACM International Workshop on Interoperability of Supercomputing and Cloud Technologies (supercompcloud) doi:10.1109/SuperCompCloud51944.2020.00006
3. An open, scalable, and flexible framework for automated aerial measurement of field experiments Christophe Schnaufer, Julian L Pistorius, David S LeBauer (2020) Proceedings of SPIE doi:10.1117/12.2560008
4. TERRA-REF data processing infrastructure Maxwell Burnette, Rob Kooper, Jd Maloney, Gareth S Rohde, Jeffrey A Terstriep, Craig Willis, Noah Fahlgren, Todd Mockler, Maria Newcomb, Vasit Sagan, Others (2018) Proceedings of the Practice and Experience on Advanced Research Computing doi:10.1145/3219104.3219152
5. A holistic workflow development for agricultural supply chain analysis: integration of meteorological forecasting, crop simulation, and supply chain optimization models Tao Lin, David S LeBauer, Luis Rodriguez, Shaowen Wang (2015) 1st Climate Change Symposium - Adaptation and Mitigation
6. Ecological cyberinfrastructure and HPC towards more accurately predicting future levels of greenhouse gases Rob Kooper, Kenton McHenry, Michael C Dietze, David S LeBauer, Shawn Serbin, Ankur Desai (2013) Xsede13

Data

1. Data and code from: Unoccupied aerial systems adoption in agricultural research Jennifer Lachowiec, David LeBauer, Filipe Matias, Max Feldman (2024) doi:10.5281/ZENODO.10573428
2. ESS-DIVE unoccupied aerial systems (UAS) reporting format v1 Kim S. Ely, Dedi Yang, Shawn P. Serbin, Christian G. Andresen, Yose Angel, Adam Collins, Joan Damerow, Brett Feddersen, Sean Freeman, Peng Fu, Brian Greene, Wouter Hanston, Mark J. Lara, David LeBauer, Trina Merrick, Emily Robles, Alexey Shiklomanov, Matthias Siewert, Charaluka Varadharajan, Jin Wu (2023) doi:10.15485/2204420
3. Data from: expanded potential growing region and yield increase for agave americana with future climate David Shaner LeBauer, Sarah Davis, John Abatzoglou (2022) doi:10.25422/AZU.DATA.16828279.V1
4. Data and code from: on-farm land management strategies and production challenges in United States organic agricultural systems David LeBauer, Jessica Guo (2021) Zenodo doi:10.5281/ZENODO.5565519
5. TERRA-REF, an open reference data set from high resolution genomics, phenomics, and imaging sensors. Dryad digital repository David LeBauer, Maxwell A. Burnette, Jeffrey Demieville, Noah Fahlgren, Andrew N. French, Roman Garnett, Zhenbin Hu, Kimberly Huynh, Rob Kooper, Zongyang Li, Maitiniyazi Maimaitijiang, Jerome Mao, Todd C. Mockler, Geoffrey Morris, Maria Newcomb, Michael J Ottman, Philip Ozersky, Sidike Paheding, Duke Pauli, Robert Pless, Wei Qin, Kristina Riemer, Gareth Scott Rohde, William L. Rooney, Vasit Sagan, Nadia Shakoor, Abby Stylianou, Kelly Thorp, Richard Ward, Jeffrey W White, Craig Willis, Charles S Zender (2020) Dryad Digital Repository doi:10.5061/dryad.4b8gtht99
6. ForC: a global database of forest carbon stocks and fluxes Kristina Anderson-Teixeira, Maria Wang, Jennifer McGarvey, Valentie Herrmann, Alan Tepley, Ben Bond-Lamberty, David LeBauer (2018) Ecology doi:10.1002/ecy.2229
7. Data and code from "nitrogen limitation of net primary productivity in terrestrial ecosystems is globally distributed" David S. LeBauer, Kathleen K. Treseder (2016) Wiley doi:10.6084/m9.figshare.c.3300164.v1
8. Biofuel ecophysiological traits and yields database (betydb) D LeBauer, M Dietze, R Kooper, S Long, P Mulrooney, Gs Rohde, D Wang (2010) URL

Letters

1. Reply to: brazilian ethanol expansion subject to limitations Deepak Jaiswal, Amanda P De Souza, Søren Larsen, David S LeBauer, Fernando E Miguez, Gerd Sparovek, Germán Bollero, Marcos S Buckeridge, Stephen P Long (2019) Nature Climate Change doi:10.1038/s41558-019-0423-y

Software

1. TERRA reference phenotyping platform database and computing pipeline (terraref.org) David LeBauer, Max Burnette, Craig Willis, Zongyang Li, Robert Pless, Solmaz Hajmohammadi, Scott Rohde, Terra Ref Contributors (2017) URL
2. Predictive ecosystem analyzer (PEcAn, pecanproject.org) David LeBauer, Michael Dietze, Rob Kooper, Alexey Shiklomanov, Betsy Cowdery, Istem Fer, Anthony Gardella, Ben Bond-Lamberty, Shawn P. Serbin, Ann Raiho, Anne Thomas, Chris Black, James Simkins, Ankur Desai, Josh Mantooth, Aman Kumar, Liam Burke, Afshin Pourmokhtarian, Christy Rollinson, Shubham Agarwal, Brady Hardiman, Martin De Kauwe, Tess McCabe, Tony Cohen, Tony Viskari, Yan Zhao, Jing Xia (2017) doi:10.5281/zenodo.1003756
3. Biofuel ecophysiological traits and yields database (betydb, betydb.org) Scott Rohde, Patrick Mulroony, Rob Kooper, Carl Crott, Andrew Shirk, David S LeBauer (2017) doi:10.5281/zenodo.832983
4. Ecosystem climate regulation services calculator Kristina Anderson-Teixeira, Evan DeLucia, Carl Crott, David S LeBauer, Scott Rohde, Nicholas Potter, Jay Dorsey (2015) URL
5. BioCro crop productivity and ecosystem service simulation model Fernando E Miguez, Deepak Jaiswal, David S LeBauer, Dan Wang, Justin McGrath (2015) doi:10.5281/zenodo.15859

Book chapters

1. Growing Pleurotus tuberregium O.S. Isikhuemhen, D.S. LeBauer (2004) Oyster Mushroom Cultivation

Books

1. Water in the energy industry: an introduction E.D. Williams, J.E. Simmons, Bp (2013)

Theses

1. Carbon balance of ecosystems under nitrogen enrichment David Shaner LeBauer (2008)

Miscellaneous

1. CCT data science group procedures Kristina Riemer, Kimberly. M. Huynh, Christophe Schnaufer, Julian Pistorius, Jorge. E. Barrios, Emily. J. Cain, Jessica Guo, Eric R. Scott, Renata Diaz, David S. LeBauer (2024) doi:10.5281/zenodo.10783692
2. Transforming ANOVA and regression statistics for meta-analysis David LeBauer (2020) Authorea, Inc. doi:10.22541/au.158359749.96662550
3. Shiitake cultivation on logs David LeBauer (2015)
4. Data entry workflow for the biofuel ecophysiological traits and yields database Andy Tu, David LeBauer (2011)
5. Consider Shiitake Cultivation! David S LeBauer (2004) Stewardship News