Find research datasets worth reusing

opennotspecifiedAug 2024View details →

Plant forms, habitat and distribution: plant forms, habitat and distribution

Aggregated from various literature and online sources, see record level metadata for details.Aggregated from literature and online database sources.

opennotspecifiedAug 2024View details →

West African Plants

This interactive photographic guide shall help you to identify higher plants from West African ecosystems. It contains images of ferns and seed plants taken in the field. You can browse through a taxonomic hierarchy and / or search according to selected characters you observe on your plant. Please cite this site as follows: Brunken, U., Schmidt, M., Dressler, S., Janssen, T., Thiombiano, A. & Zizka, G. 2008. West African plants - A Photo Guide. www.westafricanplants.senckenberg.de. - Forschungsinstitut Senckenberg, Frankfurt/Main, Germany. We welcome your contribution of instructive, well-determined plant images from that region. Please contact us! (westafricanplants AT senckenberg.de).

opennotspecifiedAug 2024View details →

North American Flora: North American Flora (Plants)

Species descriptions and attribute records extracted from: North American flora. New York Botanical Garden. "It was planned to complete the Flora in 34 volumes. Some 94 parts of 24 volumes were published at irregular intervals between 1905 and 1949." https://www.biodiversitylibrary.org/bibliography/889

Covsel output summary of 141 native - non-native plant species pairs in Switzerland

The covariates as selected by the covsel R package (Adde et al. 2023) for 141 native - non-native congeneric plant species pairs in Switzerland. Publication of covsel R package: Adde, A., Rey, P.-L., Fopp, F., Petitpierre, B., Schweiger, A. K., Broennimann, O., Lehmann, A., Zimmermann, N. E., Altermatt, F., Pellissier, L., & Guisan, A. (2023). Too many candidates: Embedded covariate selection procedure for species distribution modelling with the covsel R package. Ecological Informatics, 75, 102080. https://doi.org/10.1016/j.ecoinf.2023.102080

Data and code for "Loss of pollinator diversity consistently reduces reproductive success for wild and cultivated plants"

Data and code for "Loss of pollinator diversity consistently reduces reproductive success for wild and cultivated plants"

Bivariate GWA mapping reveals associations between aliphatic glucosinolates and plant responses to thrips and heat stress

Supplemental data on bivariate GWA mapping of stress phenotypes and metabolomes of Arabidopsis.

Data from de Vega et al_Flora "Host-driven phenotypic and phenological differentiation in sympatric races of a parasitic plant" [Dataset]

Data from de Vega et al_Flora "Host-driven phenotypic and phenological differentiation in sympatric races of a parasitic plant"

opencc-by-4.0Nov 2022View details →

Figure 1 in A new interaction in an invasive plant in Brazil: Horismenus abnormicaulis (Hymenoptera, Eulophidae) parasitizing Acanthoscelides macrophthalmus (Coleoptera, Chrysomelidae, Bruchinae) in seeds pods of Leucaena leucocephala (Fabaceae)

Figure 1. Horismenus abnormicaulis, female: A) head and mesosoma lateral; B) habitus.

Delivering metribuzin from biodegradable nanocarriers: Assessing herbicidal effects for soybean plant protection and weed control

The data presents the indicators of soybean and soil health after metribuzin biodegradable nanocarriers and conventional metribuzin. Besides, the uptake and distribution of metribuzin in soil and weed plants (Amaranthus retroflexus) were associated with weed control evaluations.

Dataset for plant species richness estimation in a wet grassland field using UAV data features

This dataset supports the estimation of plant species richness in a wet grassland field using features extracted from UAV (Unmanned Aerial Vehicle) data. It includes field and plot shapefiles, pre-processed input data, model performance metrics, spatial predictions (RASTER files).The dataset also contains geospatial imagery in the form of input and scaled GeoTIFF images, as well as two additional CSV files: <code>date.csv</code>, which records the cutting dates relevant to the study, and <code>merged_obs.csv</code>, which consolidates all the features with canopy height information extracted from Digital Elevation Model (DEM) data with field observed plant species richness. <ul> <li> Summary: <ul> <li>BIomass_Samples_Shapefiles: Contains shapefiles for field and plot-level data.</li> <li>Results: <ul> <li>ALLDATA: Pre-processed input data for RF and PLS models.</li> <li>MODELPERF: Performance metrics and variable importance for RF and PLS models.</li> <li>RASTER: Spatially-explicit predictions (maps) for plant species richness estimation.</li> <li>GLCM: Pre-processed Gray Level Co-occurrence Matrix (texture features).</li> <li>VI: Pre-processed Vegetation Indices.</li> </ul> </li> <li>TIF: Input and scaled geotiff images. <ul> <li>rescaled: Rescaled geotiff images.</li> <li>resampled: Resampled geotiff images.</li> </ul> </li> <li>date.csv: Contains cutting dates for the field.</li> <li>merged_obs.csv: Contains DEM and species richness data (number of species).</li> </ul> </li> </ul> This work was supported by the German Federal Ministry of Education and Research (BMBF) through the Digital Agriculture Knowledge and Information System (DAKIS) Project [Grant number 031B0729E].

Importance of non-consumptive effects of Nabis americoferus in biological control strategies including trap crops against the Tarnished plant bug, Lygus lineolaris

Dataset on polyphagous tarnished plant bug (TPB), Lygus lineolaris (Palisot de Beauvois) (Hemiptera: Miridae)  host preferences and reproductive behaviors under various integrated pest management approaches.

opencc-by-4.0Apr 2024View details →

Data for: Synergistic mechanisms of plant phosphorus (P) resorption and microbial P-limitation affecting soil P during grassland vegetation succession

Data for: Synergistic mechanisms of plant phosphorus (P) resorption and microbial P-limitation affecting soil P during grassland vegetation succession

opencc-by-4.0Nov 2023View details →

Data associated with the manuscript "Complex epistatic interactions between ELF3, PRR9, and PRR7 regulates the circadian clock and plant physiology"

Datasets associated with the figures in the paper entilted: "Complex epistatic interactions between ELF3, PRR9, and PRR7 regulates the circadian clock and plant physiology"

Phenological divergence between plant and animal under climate change

This repository records the preprocessed climatic data and output data for carryover and climatic effects in the following paper:   "Phenological divergence between plants and animals under climate change" (Nature Ecology & Evolution).

Leaf radiocarbon data from two plant species in Saint Paul, Minnesota, USA 2020

<div> <div>Over half of Earth’s human population lives in urban areas, where pollution from carbon-based fossil fuel combustion threatens air quality and public health, and contributes significantly to the rapid increase of greenhouse gases. The isotopic composition of plant tissues can be used as a tool to estimate local variation in fossil fuel-derived carbon dioxide and thus contributions of fossil fuel combustion to the local atmosphere in urban anthromes. We present a case study that examines this variation in leaf modern radiocarbon content against a backdrop of historic discriminatory policies (here, ‘redlining’), within Saint Paul, Minnesota, USA. Radiocarbon values from leaves suggest varied distribution of atmospheric fossil fuel derived carbon emissions across Saint Paul greenspaces, with evidence of higher exposure near areas of high-volume traffic. Similar studies rarely measure plant material from both perennial and annual plants: here we report carbon values from leaves from a deciduous tree and an annual forb to compare function differences in carbon age. Isotopic carbon signatures in plant material capture evidence of emissions that may reveal unequal pollution exposure. </div> <div> </div> <div>Leaf samples were collected in August 2020 in Saint Paul, Minnesota, USA. Radiocarbon samples were run at UC-Irvine Keck AMS in Fall 2020. </div> <div> </div> <div>Accompanying article Heskel, Hrycyna et al. (2024) is published in Plants, People, Planet (specific information on the paper to be shared when available).</div> <div> </div> <div>Plant Genus Fraxinus; Taraxacum </div> <div>HOLC: Identifying letter and color according to the sampling location based on historical Home Owner's Loan Corporation maps.</div> <div>Site: Code for public park location. More specific details available in article. </div> <div>Latitude: Sampling latitude </div> <div>Longitude: Sampling longitude</div> <div>Distance to major roadway (m): Distance from the sampling site to either a highway or major road (4 lanes or greater) in Saint Paul, in meters</div> <div>Δ14C value: Measured value of leaf Δ14C</div> <div>Δ14C SD: Measured standard deviation of leaf Δ14C</div> <div>CO2-FF: amount of CO2 that is derived from fossil fuel combustion for each leaf sample. Details on this calculation is in the article. </div> <div> <table> <tbody> <tr> <td> </td> </tr> </tbody> </table> </div> <div> </div> </div>

opencc-by-4.0May 2024View details →

Resources for studying the aesthetic and diversity values of plants and pets in shaping biodiversity loss belief among urban residents

Considering the issues of data transparency and the cost of reproduction, all data and code snippets of the study titled "From beauty to belief: The aesthetic and diversity values of plants and pets in shaping biodiversity loss belief among urban residents" are deposited here.

opencc-by-4.0Oct 2024View details →

The golden threat: Solidago invasion alters native plant-pollinator interactions through vegetative structures

This folder includes all files that were used for the article entitled "The golden threat: Solidago invasion alters native plant-pollinator interactions through vegetative structures". It includes: a README file, the input data for the two research question (Q1 and Q2), the RData of the respective fitted models, the PDF of the main text and sup. mat. figues, and the Rscript to reproduce them.

opencc-by-4.0Oct 2024View details →

Monitoring of plant cover for the experiment RESTAURSOL (Lil'O, Ile Saint Denis, France)

The data set includes 6240 horizontal high resoltion photographies of plant cover (2292*2292, 72 ppp) for the 6 treatments of RESTAURSOL experiment. This experimentent compares different soil engineering techniques using urban wastes or topsoil extracted in rural aeras that may be implemented for the reclamation of urban soils degraded by past industrial use. It is located in Lil'O site (Ile Saint-Denis, France) : The following reclamation techniques are compared to a control plot with untreated degraded soil  : 1- Decompaction, 2- Decomp. + compost, 3- Decomp. + excavated materials, 4 - Decomp. + excavated materials + compost, 5 - Decomp. + topsoil The 6 treatments are replicated over 4 blocks, giving a total of 24 experimental plots. A detailled presentation of the experiment and of some results (published during the 12e SUITMA conference) are given in the [RESTAUR'SOL presenttion.pdf] file attached to the data base.  The photographies were taken for each plots over 4 squares 1*1 m2 sub-divided in 4 squares 0.5*0.5 m2, For each date of the monitoring. there are 24*4 = 96 (1 *1 m2) and 24*4*4 = 384 (0.5*0.5 m2) hence a total of  480 photos  The indexation of the photos is detailed in the [Indexation photos plant cover RESTAURSOL.xls] file The field surveys were carried out for the 13 following dates : 01/10/2021; 10/11/2021; 09/12/2021; 08/02/2022; 11/03/2022; 06/04/2022; 13/05/2022; 07/06/2022; 14/02/2023; 14/03/2023; 12/04/2023; 16/05/2023; 14/06/2023

opencc-by-4.0Apr 2021View details →

Table 1 in Review of the plant bug tribe Eccritotarsini (Hemiptera: Heteroptera: Miridae) of India and Sri Lanka with description of two new genera and six new species

Table 1 (continued on next page). Measurements (mm) of eccritotarsine specimens examined for this study. Abbreviations: Clyp/Cun = distance between apex of clypeus and apex of cuneus in dorsal view; InterOcDi = width of vertex between inner margins of eyes in dorsal view.<table><thead><tr><th></th><th></th><th colspan="11">Length</th><th colspan="5">Width</th></tr></thead><tbody><tr><th colspan="2">Specimens</th><td>Body</td><td>Clyp/ Cun.</td><td>Head</td><td>Pron.</td><td colspan="2">Scut. Cun.</td><td colspan="4">Antennal segments I II III IV</td><td>Labium</td><td>Head</td><td>Pron.</td><td colspan="2">Scut. InterOcDi</td><td>Body</td></tr><tr><th></th><td colspan="17">Dioclerus bengalicus Stonedahl, 1988</td></tr><tr><th>&female;, N=1</th><td></td><td>3.46</td><td>2.55</td><td>0.25</td><td>0.66</td><td>0.38</td><td>0.41</td><td>0.56</td><td>1.11</td><td>0.47</td><td>0.44</td><td>0.80</td><td>0.80</td><td>1.15</td><td>0.52</td><td>0.38</td><td>1.48</td></tr><tr><th></th><td colspan="17">Dioclerus lutheri Poppius, 1912</td></tr><tr><th>&male;, N=1</th><td></td><td>3.42</td><td>2.63</td><td>0.25</td><td>0.74</td><td>0.40</td><td>0.39</td><td>0.62</td><td>1.09</td><td>0.45</td><td>0.63</td><td>0.91</td><td>0.88</td><td>1.19</td><td>0.60</td><td>0.44</td><td>1.42</td></tr><tr><th></th><td colspan="17">Ernestinus ramkeshariae Yasunaga & Ishikawa, 2016</td></tr><tr><th rowspan="4">&male;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.25</td><td>2.28</td><td>0.19</td><td>0.80</td><td>0.34</td><td>0.54</td><td>0.36</td><td>0.63</td><td>0.64</td><td>0.64</td><td>0.78</td><td>0.59</td><td>1.23</td><td>0.43</td><td>0.34</td><td>1.26</td></tr><tr><td>3.10</td><td>2.14</td><td>0.17</td><td>0.74</td><td>0.28</td><td>0.52</td><td>0.35</td><td>0.56</td><td>0.59</td><td>0.56</td><td>0.74</td><td>0.56</td><td>1.01</td><td>0.37</td><td>0.31</td><td>1.14</td></tr><tr><td>3.17</td><td>2.21</td><td>0.18</td><td>0.78</td><td>0.31</td><td>0.53</td><td>0.35</td><td>0.60</td><td>0.00</td><td>0.00</td><td>0.76</td><td>0.57</td><td>1.11</td><td>0.40</td><td>0.33</td><td>1.18</td></tr><tr><td>0.06</td><td>0.05</td><td>0.01</td><td>0.02</td><td>0.02</td><td>0.01</td><td>0.00</td><td>0.03</td><td>0.00</td><td>0.00</td><td>0.02</td><td>0.01</td><td>0.10</td><td>0.02</td><td>0.01</td><td>0.05</td></tr><tr><th rowspan="4">&female;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.55</td><td>2.43</td><td>0.15</td><td>0.82</td><td>0.29</td><td>0.56</td><td>0.33</td><td>0.56</td><td>0.57</td><td>0.66</td><td>1.00</td><td>0.58</td><td>1.10</td><td>0.46</td><td>0.34</td><td>1.38</td></tr><tr><td>3.40</td><td>2.34</td><td>0.14</td><td>0.78</td><td>0.27</td><td>0.50</td><td>0.32</td><td>0.55</td><td>0.52</td><td>0.61</td><td>0.79</td><td>0.55</td><td>1.00</td><td>0.41</td><td>0.30</td><td>1.20</td></tr><tr><td>3.47</td><td>2.39</td><td>0.15</td><td>0.79</td><td>0.28</td><td>0.52</td><td>0.32</td><td>0.55</td><td>0.56</td><td>0.63</td><td>0.90</td><td>0.56</td><td>1.03</td><td>0.43</td><td>0.32</td><td>1.29</td></tr><tr><td>0.06</td><td>0.04</td><td>0.00</td><td>0.02</td><td>0.01</td><td>0.03</td><td>0.01</td><td>0.00</td><td>0.02</td><td>0.02</td><td>0.08</td><td>0.01</td><td>0.05</td><td>0.02</td><td>0.02</td><td>0.07</td></tr><tr><th></th><td colspan="17">Ernestinus mimicus Distant, 1911</td></tr><tr><th rowspan="4">&male;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.11</td><td>2.06</td><td>0.18</td><td>0.70</td><td>0.26</td><td>0.50</td><td>0.35</td><td>0.78</td><td>0.59</td><td>0.44</td><td>1.00</td><td>0.60</td><td>0.97</td><td>0.42</td><td>0.35</td><td>1.12</td></tr><tr><td>2.74</td><td>1.96</td><td>0.13</td><td>0.62</td><td>0.24</td><td>0.48</td><td>0.32</td><td>0.77</td><td>0.55</td><td>0.43</td><td>0.90</td><td>0.58</td><td>0.97</td><td>0.40</td><td>0.34</td><td>1.01</td></tr><tr><td>2.87</td><td>2.00</td><td>0.15</td><td>0.66</td><td>0.25</td><td>0.49</td><td>0.33</td><td>0.77</td><td>0.57</td><td>0.44</td><td>0.96</td><td>0.59</td><td>0.97</td><td>0.40</td><td>0.35</td><td>1.06</td></tr><tr><td>0.14</td><td>0.04</td><td>0.02</td><td>0.04</td><td>0.01</td><td>0.01</td><td>0.01</td><td>0.00</td><td>0.01</td><td>0.01</td><td>0.04</td><td>0.01</td><td>0.00</td><td>0.01</td><td>0.00</td><td>0.05</td></tr><tr><th rowspan="4">&female;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.43</td><td>2.96</td><td>0.18</td><td>0.72</td><td>0.31</td><td>0.54</td><td>0.36</td><td>0.72</td><td>0.51</td><td>0.49</td><td>1.05</td><td>0.64</td><td>1.07</td><td>0.49</td><td>0.38</td><td>1.30</td></tr><tr><td>3.28</td><td>2.31</td><td>0.17</td><td>0.69</td><td>0.30</td><td>0.50</td><td>0.32</td><td>0.67</td><td>0.47</td><td>0.43</td><td>1.00</td><td>0.60</td><td>1.01</td><td>0.45</td><td>0.36</td><td>1.16</td></tr><tr><td>3.34</td><td>2.49</td><td>0.17</td><td>0.71</td><td>0.30</td><td>0.52</td><td>0.35</td><td>0.69</td><td>0.49</td><td>0.46</td><td>1.02</td><td>0.61</td><td>1.04</td><td>0.47</td><td>0.36</td><td>1.23</td></tr><tr><td>0.06</td><td>0.26</td><td>0.00</td><td>0.01</td><td>0.01</td><td>0.02</td><td>0.02</td><td>0.02</td><td>0.01</td><td>0.02</td><td>0.02</td><td>0.01</td><td>0.02</td><td>0.01</td><td>0.01</td><td>0.05</td></tr><tr><th></th><td colspan="17">Harpedona sanguinipes Distant, 1909</td></tr><tr><th rowspan="4">&male;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.82</td><td>2.75</td><td>0.41</td><td>0.71</td><td>0.47</td><td>0.58</td><td>0.37</td><td>0.85</td><td>0.43</td><td>0.39</td><td>1.40</td><td>0.77</td><td>1.09</td><td>0.59</td><td>0.74</td><td>1.10</td></tr><tr><td>3.56</td><td>2.52</td><td>0.35</td><td>0.62</td><td>0.44</td><td>0.53</td><td>0.32</td><td>0.75</td><td>0.42</td><td>0.32</td><td>1.20</td><td>0.72</td><td>1.00</td><td>0.49</td><td>0.47</td><td>1.03</td></tr><tr><td>3.67</td><td>2.64</td><td>0.39</td><td>0.68</td><td>0.45</td><td>0.55</td><td>0.35</td><td>0.81</td><td>0.00</td><td>0.00</td><td>1.30</td><td>0.75</td><td>1.06</td><td>0.53</td><td>0.56</td><td>1.06</td></tr><tr><td>0.13</td><td>0.12</td><td>0.03</td><td>0.05</td><td>0.02</td><td>0.02</td><td>0.02</td><td>0.05</td><td>0.00</td><td>0.00</td><td>0.10</td><td>0.03</td><td>0.05</td><td>0.05</td><td>0.15</td><td>0.04</td></tr><tr><th rowspan="4">&female;, N=3</th><td rowspan="4">Max Min Mean SD</td><td>3.80</td><td>2.76</td><td>0.42</td><td>0.74</td><td>0.56</td><td>0.60</td><td>0.34</td><td>0.74</td><td>0.55</td><td>0.60</td><td>1.60</td><td>0.80</td><td>1.20</td><td>0.68</td><td>0.51</td><td>1.10</td></tr><tr><td>3.43</td><td>2.69</td><td>0.32</td><td>0.66</td><td>0.48</td><td>0.51</td><td>0.32</td><td>0.71</td><td>0.51</td><td>0.54</td><td>1.50</td><td>0.66</td><td>1.10</td><td>0.61</td><td>0.47</td><td>1.02</td></tr><tr><td>3.63</td><td>2.73</td><td>0.38</td><td>0.70</td><td>0.52</td><td>0.55</td><td>0.33</td><td>0.72</td><td>0.00</td><td>0.00</td><td>1.53</td><td>0.75</td><td>1.14</td><td>0.64</td><td>0.49</td><td>1.06</td></tr><tr><td>0.19</td><td>0.04</td><td>0.05</td><td>0.04</td><td>0.04</td><td>0.05</td><td>0.01</td><td>0.02</td><td>0.00</td><td>0.00</td><td>0.06</td><td>0.08</td><td>0.05</td><td>0.04</td><td>0.02</td><td>0.04</td></tr><tr><th></th><td colspan="17">Harpedona vittlaensis sp. nov.</td></tr><tr><th>&male;, N=1</th><td></td><td>3.12</td><td>2.28</td><td>0.26</td><td>0.65</td><td>0.39</td><td>0.46</td><td>0.37</td><td>0.89</td><td></td><td></td><td>1.40</td><td>0.77</td><td>1.07</td><td>0.61</td><td>0.42</td><td>1.10</td></tr><tr><th>&female;, N=1</th><td></td><td>3.21</td><td>2.28</td><td>0.25</td><td>0.62</td><td>0.35</td><td>0.45</td><td>0.34</td><td>0.68</td><td>0.46</td><td>0.39</td><td>1.23</td><td>0.74</td><td>1.10</td><td>0.50</td><td>0.40</td><td>1.11</td></tr><tr><th></th><td colspan="12">Length</td><td colspan="5">Width</td></tr><tr><th>Specimens</th><td></td><td>Body</td><td>Clyp./ Cun.</td><td>Head</td><td>Pron.</td><td colspan="2">Scut. Cun.</td><td colspan="4">Antennal segments I II III IV</td><td>Labium</td><td>Head</td><td>Pron.</td><td colspan="2">Scut. InterOcDi</td><td>Body</td></tr><tr><th colspan="18">Harpedona vittlaensis sp. nov.</th></tr><tr><th>&male;, N=1</th><td></td><td>3.12</td><td>2.28</td><td>0.26</td><td>0.65</td><td>0.39</td><td>0.46</td><td>0.37</td><td>0.89</td><td></td><td></td><td>1.40</td><td>0.77</td><td>1.07</td><td>0.61</td><td>0.42</td><td>1.10</td></tr><tr><th>&female;, N=1</th><td></td><td>3.21</td><td>2.28</td><td>0.25</td><td>0.62</td><td>0.35</td><td>0.45</td><td>0.34</td><td>0.68</td><td>0.46</td><td>0.39</td><td>1.23</td><td>0.74</td><td>1.10</td><td>0.50</td><td>0.40</td><td>1.11</td></tr><tr><th colspan="18">Lopidolon dandeliensis sp. nov.</th></tr><tr><th rowspan="4">&male;, N=3</th><td>Max</td><td>5.28</td><td>3.88</td><td>0.49</td><td>1.04</td><td>0.90</td><td>0.96</td><td>0.58</td><td>1.39</td><td>0.58</td><td>0.24</td><td>2.27</td><td>1.16</td><td>1.83</td><td>1.43</td><td>0.55</td><td>2.32</td></tr><tr><td>Min</td><td>4.91</td><td>3.57</td><td>0.42</td><td>0.95</td><td>0.82</td><td>0.93</td><td>0.50</td><td>1.32</td><td>0.48</td><td>0.24</td><td>2.12</td><td>1.09</td><td>1.83</td><td>1.38</td><td>0.52</td><td>2.19</td></tr><tr><td>Mean</td><td>5.12</td><td>3.74</td><td>0.44</td><td>0.99</td><td>0.86</td><td>0.94</td><td>0.54</td><td>1.35</td><td>0.53</td><td>0.24</td><td>2.19</td><td>1.12</td><td>1.83</td><td>1.40</td><td>0.53</td><td>2.24</td></tr><tr><td>SD</td><td>0.19</td><td>0.16</td><td>0.04</td><td>0.05</td><td>0.04</td><td>0.01</td><td>0.04</td><td>0.03</td><td>0.07</td><td>0.00</td><td>0.07</td><td>0.03</td><td>0.00</td><td>0.03</td><td>0.02</td><td>0.07</td></tr><tr><th rowspan="4">&female;, N=2</th><td>Max</td><td>5.12</td><td>3.83</td><td>0.50</td><td>0.82</td><td>0.81</td><td>0.92</td><td>0.55</td><td>1.08</td><td>0.53</td><td>0.39</td><td>2.23</td><td>1.10</td><td>1.68</td><td>1.26</td><td>0.61</td><td>2.10</td></tr><tr><td>Min</td><td>5.00</td><td>3.72</td><td>0.48</td><td>0.77</td><td>0.80</td><td>0.91</td><td>0.51</td><td>1.05</td><td>0.53</td><td>0.34</td><td>2.19</td><td>1.06</td><td>1.54</td><td>1.23</td><td>0.60</td><td>2.02</td></tr><tr><td>Mean</td><td>5.06</td><td>3.78</td><td>0.49</td><td>0.79</td><td>0.81</td><td>0.92</td><td>0.53</td><td>1.06</td><td>0.00</td><td>0.00</td><td>2.21</td><td>1.08</td><td>1.61</td><td>1.25</td><td>0.60</td><td>2.06</td></tr><tr><td>SD</td><td>0.08</td><td>0.08</td><td>0.01</td><td>0.04</td><td>0.01</td><td>0.01</td><td>0.03</td><td>0.03</td><td>0.00</td><td>0.00</td><td>0.03</td><td>0.03</td><td>0.10</td><td>0.02</td><td>0.01</td><td>0.06</td></tr><tr><th colspan="18">Mertila rubrocephala sp nov.</th></tr><tr><th rowspan="4">&male;, N=3</th><td>Max</td><td>5.54</td><td>3.86</td><td>0.53</td><td>1.10</td><td>0.72</td><td>0.97</td><td>0.66</td><td>1.20</td><td>0.00</td><td>0.00</td><td>2.53</td><td>1.26</td><td>2.10</td><td>1.29</td><td>0.55</td><td>2.52</td></tr><tr><td>Min</td><td>5.28</td><td>3.76</td><td>0.49</td><td>0.98</td><td>0.67</td><td>0.95</td><td>0.55</td><td>1.08</td><td>0.00</td><td>0.00</td><td>2.43</td><td>1.24</td><td>2.04</td><td>1.19</td><td>0.50</td><td>2.50</td></tr><tr><td>Mean</td><td>5.39</td><td>3.80</td><td>0.51</td><td>1.04</td><td>0.69</td><td>0.96</td><td>0.63</td><td>1.13</td><td>0.00</td><td>0.00</td><td>2.47</td><td>1.25</td><td>2.08</td><td>1.26</td><td>0.53</td><td>2.51</td></tr><tr><td>SD</td><td>0.12</td><td>0.05</td><td>0.02</td><td>0.05</td><td>0.02</td><td>0.01</td><td>0.06</td><td>0.05</td><td>0.00</td><td>0.00</td><td>0.05</td><td>0.01</td><td>0.03</td><td>0.04</td><td>0.02</td><td>0.01</td></tr><tr><th colspan="18">Namyatovia castlerockensis sp. nov</th></tr><tr><th rowspan="4">&male;, N=3</th><td>Max</td><td>3.63</td><td>2.60</td><td>0.29</td><td>0.57</td><td>0.37</td><td>1.01</td><td>0.47</td><td>0.70</td><td>0.49</td><td>0.56</td><td>1.09</td><td>0.75</td><td>1.07</td><td>0.66</td><td>0.37</td><td>1.31</td></tr><tr><td>Min</td><td>3.27</td><td>2.41</td><td>0.26</td><td>0.47</td><td>0.32</td><td>0.92</td><td>0.39</td><td>0.62</td><td>0.46</td><td>0.53</td><td>0.96</td><td>0.70</td><td>0.96</td><td>0.58</td><td>0.37</td><td>1.12</td></tr><tr><td>Mean</td><td>3.42</td><td>2.49</td><td>0.28</td><td>0.52</td><td>0.35</td><td>0.97</td><td>0.42</td><td>0.66</td><td>0.47</td><td>0.55</td><td>1.01</td><td>0.72</td><td>1.01</td><td>0.60</td><td>0.37</td><td>1.23</td></tr><tr><td>SD</td><td>0.19</td><td>0.10</td><td>0.01</td><td>0.05</td><td>0.03</td><td>0.05</td><td>0.05</td><td>0.04</td><td>0.01</td><td>0.02</td><td>0.07</td><td>0.03</td><td>0.06</td><td>0.05</td><td>0.00</td><td>0.10</td></tr><tr><th colspan="18">Namyatovia sirsiensis sp. nov</th></tr><tr><th rowspan="4">&male;, N=3</th><td>Max</td><td>3.63</td><td>2.60</td><td>0.29</td><td>0.57</td><td>0.37</td><td>1.01</td><td>0.47</td><td>0.70</td><td>0.49</td><td>0.56</td><td>1.09</td><td>0.75</td><td>1.07</td><td>0.66</td><td>0.37</td><td>1.31</td></tr><tr><td>Min</td><td>3.27</td><td>2.41</td><td>0.26</td><td>0.47</td><td>0.32</td><td>0.92</td><td>0.39</td><td>0.62</td><td>0.46</td><td>0.53</td><td>0.96</td><td>0.70</td><td>0.96</td><td>0.58</td><td>0.37</td><td>1.12</td></tr><tr><td>Mean</td><td>3.42</td><td>2.49</td><td>0.28</td><td>0.52</td><td>0.35</td><td>0.97</td><td>0.42</td><td>0.66</td><td>0.47</td><td>0.55</td><td>1.01</td><td>0.72</td><td>1.01</td><td>0.60</td><td>0.37</td><td>1.23</td></tr><tr><td>SD</td><td>0.19</td><td>0.10</td><td>0.01</td><td>0.05</td><td>0.03</td><td>0.05</td><td>0.05</td><td>0.04</td><td>0.01</td><td>0.02</td><td>0.07</td><td>0.03</td><td>0.06</td><td>0.05</td><td>0.00</td><td>0.10</td></tr><tr><th colspan="18">Stonedahlia mishmiensis sp. nov.</th></tr><tr><th rowspan="4">&male;, N=3</th><td>Max</td><td>4.62</td><td>2.96</td><td>0.31</td><td>0.77</td><td>0.38</td><td>1.10</td><td>0.61</td><td>1.21</td><td>1.10</td><td>0.56</td><td>1.20</td><td>0.64</td><td>1.20</td><td>0.60</td><td>0.45</td><td>1.50</td></tr><tr><td>Min</td><td>4.42</td><td>2.80</td><td>0.26</td><td>0.68</td><td>0.31</td><td>1.00</td><td>0.52</td><td>1.10</td><td>0.97</td><td>0.50</td><td>1.10</td><td>0.60</td><td>1.00</td><td>0.53</td><td>0.34</td><td>1.39</td></tr><tr><td>Mean</td><td>4.50</td><td>2.88</td><td>0.29</td><td>0.73</td><td>0.36</td><td>1.06</td><td>0.56</td><td>1.16</td><td>1.01</td><td>0.52</td><td>1.16</td><td>0.62</td><td>1.10</td><td>0.55</td><td>0.37</td><td>1.44</td></tr><tr><td>SD</td><td>0.07</td><td>0.07</td><td>0.02</td><td>0.04</td><td>0.03</td><td>0.04</td><td>0.04</td><td>0.05</td><td>0.05</td><td>0.03</td><td>0.04</td><td>0.02</td><td>0.08</td><td>0.03</td><td>0.05</td><td>0.04</td></tr><tr><th rowspan="4">&female;, N=33</th><td>Max</td><td>4.73</td><td>3.14</td><td>0.32</td><td>0.87</td><td>0.39</td><td>1.15</td><td>0.65</td><td>1.24</td><td>1.13</td><td>0.63</td><td>1.23</td><td>0.65</td><td>1.24</td><td>0.60</td><td>0.39</td><td>1.59</td></tr><tr><td>Min</td><td>4.43</td><td>3.00</td><td>0.29</td><td>0.78</td><td>0.35</td><td>1.00</td><td>0.60</td><td>1.16</td><td>0.95</td><td>0.50</td><td>1.12</td><td>0.60</td><td>1.16</td><td>0.45</td><td>0.36</td><td>1.51</td></tr><tr><td>Mean</td><td>4.54</td><td>3.07</td><td>0.30</td><td>0.83</td><td>0.37</td><td>1.08</td><td>0.63</td><td>1.20</td><td>1.03</td><td>0.57</td><td>1.18</td><td>0.63</td><td>1.20</td><td>0.52</td><td>0.37</td><td>1.54</td></tr><tr><td>SD</td><td>0.12</td><td>0.05</td><td>0.01</td><td>0.03</td><td>0.02</td><td>0.06</td><td>0.02</td><td>0.03</td><td>0.08</td><td>0.05</td><td>0.04</td><td>0.02</td><td>0.03</td><td>0.06</td><td>0.01</td><td>0.03</td></tr></tbody></table>

Data for: A computational pipeline to observe the flexibility and dynamics of (plant) cytochrome P450 binding sites

Binding site flexibility and dynamics strongly affect the ability of proteins to accommodate substrates and inhibitors. The significance of these properties is particularly pronounced for proteins that are inherently flexible, such as cytochrome P450 enzymes (CYPs). While the research on human CYPs provides detailed knowledge on both structural and functional level, such analyses are still lacking for their plant counterparts. This study aims to bridge this gap. Firstly, we use molecular dynamics (MD) simulations to capture the full conformational ensemble for a certain plant CYP. Subsequently, we developed and applied a comprehensive methodology to analyse a number of binding site properties - size, flexibility, shape, hydrophobicity, and accessibility - using the fpocket and mdpocket packages on MD-generated trajectories. This led to a first categorization of 15 chosen plant CYPs based on their binding site's (dis)similarities. The workflow was tested and verified on human CYPs 1A2, 2A6, and 3A4 as their binding site characteristics are well known. In addition to confirming known binding site properties, we identified and named previously unseen binding site channels for CYPs 1A2 and 2A6. This study gives initial insights into the largely uncharted fields plant CYP substrate specificity and facilitates a more precise understanding of their largely unknown specific biological functions. It offers new insights into the structural and functional dynamics of plant CYPs, which may facilitate a more accurate understanding of the fate of agrochemicals or the biotechnological design and exploitation of enzymes with specific functions. Additionally, it serves as a reference for future structural-functional analyses of CYP enzymes across various biological kingdoms.