Browsing by Author "Yan, Zhengbing"
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Item Global photosynthetic capacity jointly determined by enzyme kinetics and eco-evo-environmental drivers(2024) Yan, Zhengbing; Detto, Matteo; Guo, Zhengfei; Smith, Nicholas G. (TTU); Wang, Han; Albert, Loren P.; Xu, Xiangtao; Lin, Ziyu; Liu, Shuwen; Zhao, Yingyi; Chen, Shuli; Bonebrake, Timothy C.; Wu, JinAccurate understanding of global photosynthetic capacity (i.e. maximum RuBisCO carboxylation rate, Vc, max) variability is critical for improved simulations of terrestrial ecosystem photosynthesis metabolisms and carbon cycles with climate change, but a holistic understanding and assessment remains lacking. Here we hypothesized that Vc, max was dictated by both factors of temperature-associated enzyme kinetics (capturing instantaneous ecophysiological responses) and the amount of activated RuBisCO (indexed by Vc, max standardized at 25 ℃, Vc, max25), and compiled a comprehensive global dataset (n = 7339 observations from 428 sites) for hypothesis testing. The photosynthesis data were derived from leaf gas exchange measurements using portable gas exchange systems. We found that a semi-empirical statistical model considering both factors explained 78% of global Vc, max variability, followed by 55% explained by enzyme kinetics alone. This statistical model outperformed the current theoretical optimality model for predicting global Vc, max variability (67%), primarily due to its poor characterization on global Vc, max25 variability (3%). Further, we demonstrated that, in addition to climatic variables, belowground resource constraint on photosynthetic machinery built-up that directly structures the biogeography of Vc, max25 was a key missing mechanism for improving the theoretical modelling of global Vc, max variability. These findings improve the mechanistic understanding of global Vc, max variability and provide an important basis to benchmark process-based models of terrestrial photosynthesis and carbon cycling under climate change.Item A reporting format for leaf-level gas exchange data and metadata(Elsevier, 2021) Ely, Kim S.; Rogers, Alistair; Agarwal, Deborah A.; Ainsworth, Elizabeth A.; Albert, Loren P.; Ali, Ashehad; Anderson, Jeremiah; Aspinwall, Michael J.; Bellasio, Chandra; Bernacchi, Carl; Bonnage, Steve; Buckley, Thomas N.; Bunce, James; Burnett, Angela C.; Busch, Florian A.; Cavanagh, Amanda; Cernusak, Lucas A.; Crystal-Ornelas, Robert; Damerow, Joan; Davidson, Kenneth J.; De Kauwe, Martin G.; Dietze, Michael C.; Domingues, Tomas F.; Dusenge, Mirindi Eric; Ellsworth, David S.; Evans, John R.; Gauthier, Paul P.G.; Gimenez, Bruno O.; Gordon, Elizabeth P.; Gough, Christopher M.; Halbritter, Aud H.; Hanson, David T.; Heskel, Mary; Hogan, J. Aaron; Hupp, Jason R.; Jardine, Kolby; Kattge, Jens; Keenan, Trevor; Kromdijk, Johannes; Kumarathunge, Dushan P.; Lamour, Julien; Leakey, Andrew D.B.; LeBauer, David S.; Li, Qianyu; Lundgren, Marjorie R.; McDowell, Nate; Meacham-Hensold, Katherine; Medlyn, Belinda E.; Moore, David J.P.; Negrón-Juárez, Robinson; Niinemets, Ülo; Osborne, Colin P.; Pivovaroff, Alexandria L.; Poorter, Hendrik; Reed, Sasha C.; Ryu, Youngryel; Sanz-Saez, Alvaro; Schmiege, Stephanie C.; Serbin, Shawn P.; Sharkey, Thomas D.; Slot, Martijn; Smith, Nicholas G.; Sonawane, Balasaheb V.; South, Paul F.; Souza, Daisy C.; Stinziano, Joseph Ronald; Stuart-Haëntjens, Ellen; Taylor, Samuel H.; Tejera, Mauricio D.; Uddling, Johan; Vandvik, Vigdis; Varadharajan, Charuleka; Walker, Anthony P.; Walker, Berkley J.; Warren, Jeffrey M.; Way, Danielle A.; Wolfe, Brett T.; Wu, Jin; Wullschleger, Stan D.; Xu, Chonggang; Yan, Zhengbing; Yang, DediLeaf-level gas exchange data support the mechanistic understanding of plant fluxes of carbon and water. These fluxes inform our understanding of ecosystem function, are an important constraint on parameterization of terrestrial biosphere models, are necessary to understand the response of plants to global environmental change, and are integral to efforts to improve crop production. Collection of these data using gas analyzers can be both technically challenging and time consuming, and individual studies generally focus on a small range of species, restricted time periods, or limited geographic regions. The high value of these data is exemplified by the many publications that reuse and synthesize gas exchange data, however the lack of metadata and data reporting conventions make full and efficient use of these data difficult. Here we propose a reporting format for leaf-level gas exchange data and metadata to provide guidance to data contributors on how to store data in repositories to maximize their discoverability, facilitate their efficient reuse, and add value to individual datasets. For data users, the reporting format will better allow data repositories to optimize data search and extraction, and more readily integrate similar data into harmonized synthesis products. The reporting format specifies data table variable naming and unit conventions, as well as metadata characterizing experimental conditions and protocols. For common data types that were the focus of this initial version of the reporting format, i.e., survey measurements, dark respiration, carbon dioxide and light response curves, and parameters derived from those measurements, we took a further step of defining required additional data and metadata that would maximize the potential reuse of those data types. To aid data contributors and the development of data ingest tools by data repositories we provided a translation table comparing the outputs of common gas exchange instruments. Extensive consultation with data collectors, data users, instrument manufacturers, and data scientists was undertaken in order to ensure that the reporting format met community needs. The reporting format presented here is intended to form a foundation for future development that will incorporate additional data types and variables as gas exchange systems and measurement approaches advance in the future. The reporting format is published in the U.S. Department of Energy's ESS-DIVE data repository, with documentation and future development efforts being maintained in a version control system.