cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3563760
title: Supplement 1. Trophic position data set and a complete reference list for the set.

description: File List Carscallen_ES11-00224R1_Supp1.csv -- (MD5: 40758880f531c01b1800c23a93d3d2f8) references.htm -- (MD5: 6378b9fdc00f21b8e38675e2334488f2) Description The file Carscallen_ES11-00224R1_Supp1.csv is a complete list of all species in all eight food webs used in the analyses and species specific information Column definitions: Web name Habitat type Detailed taxa group Common name Species name Prey-averaged trophic position (PATP) Short-weighted trophic position (SWTP) Shortest chain length Taxa group Baseline species (yes or no) δ15N value Baseline corrected trophic position (BCTP) Weighted estimate of trophic position (TROPH) Abbreviated references (Full references in Supplement S2) Missing Values are represented as “-99999”.
DOI: 10.6084/m9.figshare.3563757
title: Supplement 1. Population projection matrices used in stochastic life table response experiment (SLTRE) analysis of the impacts of defoliation and shading on two and three populations of Cypripedium calceolus and Cephalanthera longifolia, respectively.

description: File List RawMatrices.csv -- (MD5: 4aacec375c600ff3fe151dccb83049a9) Description The data included in RawMatrices.csv consists of the raw matrices used in SLTRE analysis. The first 36 matrices comprise the <i>Cephalanthera</i> matrices, and the following 30 matrices comprise the <i>Cypripedium</i> matrices. Treatment, population, and year are given in comments at the head of each matrix.
DOI: 10.6084/m9.figshare.3563754
title: Supplement 1. Annotated R code used for analyses of abrupt transitions.

description: File List EDA_for_state-change_detection.txt -- (MD5: 49c7fb6259c190db527a011a239a7a9a) Description Annotated R code used for analyses of abrupt transitions.
DOI: 10.6084/m9.figshare.3563754.v1
title: Supplement 1. Annotated R code used for analyses of abrupt transitions.

description: File List EDA_for_state-change_detection.txt -- (MD5: 49c7fb6259c190db527a011a239a7a9a) Description Annotated R code used for analyses of abrupt transitions.
DOI: 10.6084/m9.figshare.3563751
title: Supplement 1. The raw data on pollen morphology and climate variables of the collection sites used in the analysis.

description: File List data.txt -- (MD5: a82e69f2e3cab98107c9ae2557ce613f) Description The data.txt is a tab-separated file. It contains the raw data on pollen morphology (polar axis, equatorial axis, surface area, and volume) and climate variables (Temperature, PET, and altitude) of the collection sites. Column definitions are given in the file. Missing values are represented as “-9999”. Checksum values are: Column 3 (Collection site – Latitude): SUM = 3786.63; 16 missing values (rows with data: 74) Column 4 (Collection site – Longitude): SUM = 1410.62; 16 missing values (rows with data: 74) Column 5 (Altitude provided by collector [m]): SUM = 16531.00; 74 missing values (rows with data: 16) Column 6 (Altitude SRTM 250x250m [m]): SUM = 16931.00; 16 missing values (rows with data: 74) Column 7 (Temperature May [deg.C]): SUM = 429.20; 56 missing values (rows with data: 34) Column 8 (Temperature June [deg.C]): SUM = 989.70; 29 missing values (rows with data: 61) Column 9 (Temperature July [deg.C]): SUM = 635.40; 55 missing values (rows with data: 35) Column 10 (Mean temperature in flowering period [deg.C]): SUM = 9867.12; 16 missing values (rows with data: 74) Column 11 (PET May [mm]): SUM = 3766.00; 56 missing values (rows with data: 34) Column 12 (PET June [mm]): SUM = 7920.00; 29 missing values (rows with data: 61) Column 13 (PET July [mm]): SUM = 4826.00; 55 missing values (rows with data: 35) Column 14 (Mean PET in flowering period [mm]): SUM = 9354.58; 16 missing values (rows with data: 74) Column 15 (Polar axis [um]): SUM = 2862.63; 0 missing values (rows with data: 90) Column 16 (Equatorial axis [um]): SUM = 2501.41; 0 missing values (rows with data: 90) Column 17 (Volume of an ellipsoid for a given P and E [um^3]): SUM = 1284905.60; 0 missing values (rows with data: 90) Column 18 (Surface of an elipsoid for a given P and E [um^2]): SUM = 247975.40; 0 missing values (rows with data: 90)
DOI: 10.6084/m9.figshare.3563748
title: Supplement 2. The Matlab source code containing the optimization algorithm of pollen morphology used in this paper, and a short description of the program.

description: File List pollen_optimization.m -- (MD5: d24091e4790ac8d987991bf27ee743fb) num_int_ell.m -- (MD5: 60c749bee5938bb138447ecabce826ed) newnumint2.m -- (MD5: c77139938b0734a8cbb0e8e59e1ba2df) grule2dgen.m -- (MD5: 5beca3e5899d4fd3db3eced617ea4ba9) grule.m -- (MD5: 690023ef7e1549a8f2820cc056ca5e9c) gquad2dgen.m -- (MD5: 1e951611314354c760d7c1130e677a4b) gquad.m -- (MD5: b9e62facef85dedf2041c5854c938a88) dehydration.m -- (MD5: 433c4f74bd906abdc633521cbb2f5c2e) Description The code included in pollen_optimization.m allows one to calculate fitness landscape on the polar-equatorial axis plane according to formula 13 given in the model description. To run the program place file pollen_optimization.m with functions: num_int_ell.m, newnumint2.m, grule2dgen.m, grule.m, gquad2dgen.m, gquad.m, dehydration.m in one folder and run pollen_optimization.m under MATLAB with Statistic and Symbolic Math Toolbox. All variables used in the program were described in pollen_optimization.m.
DOI: 10.6084/m9.figshare.3563748.v1
title: Supplement 2. The Matlab source code containing the optimization algorithm of pollen morphology used in this paper, and a short description of the program.

description: File List pollen_optimization.m -- (MD5: d24091e4790ac8d987991bf27ee743fb) num_int_ell.m -- (MD5: 60c749bee5938bb138447ecabce826ed) newnumint2.m -- (MD5: c77139938b0734a8cbb0e8e59e1ba2df) grule2dgen.m -- (MD5: 5beca3e5899d4fd3db3eced617ea4ba9) grule.m -- (MD5: 690023ef7e1549a8f2820cc056ca5e9c) gquad2dgen.m -- (MD5: 1e951611314354c760d7c1130e677a4b) gquad.m -- (MD5: b9e62facef85dedf2041c5854c938a88) dehydration.m -- (MD5: 433c4f74bd906abdc633521cbb2f5c2e) Description The code included in pollen_optimization.m allows one to calculate fitness landscape on the polar-equatorial axis plane according to formula 13 given in the model description. To run the program place file pollen_optimization.m with functions: num_int_ell.m, newnumint2.m, grule2dgen.m, grule.m, gquad2dgen.m, gquad.m, dehydration.m in one folder and run pollen_optimization.m under MATLAB with Statistic and Symbolic Math Toolbox. All variables used in the program were described in pollen_optimization.m.
DOI: 10.6084/m9.figshare.3563745
title: Supplement 1. Data containing a list of studies used in the meta-analysis, including type of CO2 treatment, dominant vegetation, and values for mean ambient and mean elevated activity for the various enzyme groups.

description: File List data.txt -- (MD5: f6ba0153fbb3db8e543a20ee1f948437) Description The data.txt file is a tab-delimited file. It contains a list of studies used in the meta-analysis, including type of CO<sub>2</sub> treatment, dominant vegetation, and values for mean ambient and mean elevated activity for the various enzyme groups. Column definitions 1. Study citation 2. Type of CO<sub>2</sub> treatment 3. Length of CO<sub>2</sub> treatment 4. Dominant Vegetation 5. Treatment (Elevated or Ambient) 6. Simple Sugar Degradation 7. Starch Degradation 8. b-glucan Degradation 9. Cellulose Degradation 10. Xylan/Hemicellulose Degradation 11. Lignin Degradation 12. Chitin Degradation 13. Protein Degradation 14. Organic P Degradation 15. Organic S Degradation Missing values are represented as “-9999”. Checksum values are (calculations do not include “-9999” for missing values): Column 6 (Simple Sugar Degradation): SUM= 35031.1; 126 missing values (rows with data: 32) Column 8 (b-glucan Degradation): SUM= 24891.97; 102 missing values (rows with data: 56) Column 11 (Lignin Degradation): SUM= 29411.038; 120 missing values (rows with data: 38) Column 15 (Organic S Degradation): SUM= 1053.8; 130 missing values (rows with data: 28)
DOI: 10.6084/m9.figshare.3563742
title: Supplement 1. Raw mosquito abundance data for ground and elevated traps in 2005.

description: File List data.txt -- (MD5: 5ac25e029ad9fce2071e7cd54642d474) Description The file data.txt is a tab-separated file. It contains mosquito species abundance raw data from 2005, when traps where located both at ground and elevated. There are no missing values. Column Definitions: Elevated or ground traps Sampled sites, abbreviations explained in main article Total number of trap-nights <i>Culex restuans</i> abundance <i>Culex pipiens</i> abundance <i>Aedes vexans</i> abundance <i>Culiseta inornata </i>abundance <i>Anopheles punctipennis </i>abundance <i>Anopheles walkeri</i> abundance <i>Anopheles quadrimaculatus</i>abundance <i>Aedes (Ochlerotatus) triseriatus</i> abundance <i>Aedes (Ochlerotatus) trivittatus</i> abundance <i>Coquilletidia perturbans</i> abundance <i>Anopheles perplexens</i> abundance <i>Culex tarsalis</i> abundance <i>Uranotaenia sapphirina</i> abundance Checksum values are: 6697 for colums 4–16 422 for column 3 357 for column 6
DOI: 10.6084/m9.figshare.3563742.v1
title: Supplement 1. Raw mosquito abundance data for ground and elevated traps in 2005.

description: File List data.txt -- (MD5: 5ac25e029ad9fce2071e7cd54642d474) Description The file data.txt is a tab-separated file. It contains mosquito species abundance raw data from 2005, when traps where located both at ground and elevated. There are no missing values. Column Definitions: Elevated or ground traps Sampled sites, abbreviations explained in main article Total number of trap-nights <i>Culex restuans</i> abundance <i>Culex pipiens</i> abundance <i>Aedes vexans</i> abundance <i>Culiseta inornata </i>abundance <i>Anopheles punctipennis </i>abundance <i>Anopheles walkeri</i> abundance <i>Anopheles quadrimaculatus</i>abundance <i>Aedes (Ochlerotatus) triseriatus</i> abundance <i>Aedes (Ochlerotatus) trivittatus</i> abundance <i>Coquilletidia perturbans</i> abundance <i>Anopheles perplexens</i> abundance <i>Culex tarsalis</i> abundance <i>Uranotaenia sapphirina</i> abundance Checksum values are: 6697 for colums 4–16 422 for column 3 357 for column 6
DOI: 10.6084/m9.figshare.3563739
title: Supplement 1. WinBUGS code for fitting the multi-species hierarchical community model which does not include detection.

description: File List WinBUGS_NODET.txt -- (MD5: 1ec428b4176bc2c5e067531b7685d523) Description WinBUGS model code and specifications for the multi-species hierarchical community model which does not include detection, based on survey-specific detection/non-detection records combined across three sampling occasions for five years.
DOI: 10.6084/m9.figshare.3563739.v1
title: Supplement 1. WinBUGS code for fitting the multi-species hierarchical community model which does not include detection.

description: File List WinBUGS_NODET.txt -- (MD5: 1ec428b4176bc2c5e067531b7685d523) Description WinBUGS model code and specifications for the multi-species hierarchical community model which does not include detection, based on survey-specific detection/non-detection records combined across three sampling occasions for five years.
DOI: 10.6084/m9.figshare.3563736
title: Supplement 1. Tab-delimited text file for the Excel database that was used to create Table 1 described in the main text.

description: File List Herrera-et-al-supplemental-information-data-set-used-in-analyses.txt -- (MD5: d99808cfe4ebc5bff6c4c8b75fdfaf56) Description Database used for statistical and graphical analysis described in the main text. It includes all the computational data for Fisher’s alpha, Shannon diversity, Morisita-Horn, and Sorensen’s (both qualitative and quantitative) similarity. Column definitions: 1. Taxonomic order of OTU 2. Genus and species epithet of OTU 3. OTU number 4, 6, 8, 10, 12. Identity of plant in 5 mm plots. (SSc = Sevilleta Sporobolus cryptandrus) # = plot number 5, 7, 9,11, 13. Proportion sequences of that OTU in that plant (column) in July. 14. Total number of sequences of that fungal OTU in the 5 mm plots in July 15. Contig number in sequencher. 1 = presence of OTU in a contig 16. Singletons. 1 = only one sequence of this OTU obtained 17. Proportion of sequences of row OTU in all plants in 5 mm plots in July 18. Total number of sequences of that OTU in 5 mm plots squared in July 19. Proportion of sequences of row OTU in all plants in 5 mm plots 20. Proportion multiplied by log of that same proportion). 21–37. repeat information from columns 3–20 except the information describes plants and OTUs sampled from 20 mm plots. 38–50. repeat information from columns 3–20 except the information describes plants and OTUs sampled from 0 mm (control) plots. 51. July summary of information of total number of sequences of that fungal OTU in all three plots (0, 5, 20 mm) 52. July summary of information from all three plots regarding whether that fungal OTU is present in a contig. 53. July summary of information from all three plots regarding whether that fungal OTU is present as a singleton. 54. July summary of information of total number of sequences of that fungal OTU in all three plots (0, 5, 20 mm) squared 55. July summary of the proportion of sequences of row OTU in all plants in all three plots (0, 5, 20 mm). 56. Proportion from column 55 multiplied by log of that same proportion. 57–109. Repeats information except values now represent data obtained in August 110–115. Repeats information except values now represent summary data obtained for both July and August. 116. Blank column 117–131. Multiplied squared values from pair-wise columns and rows used to calculate similarity indices. J = June, A = August, 0,5,20 correspond to mm of water added to each plot. For example, J5/J20 (column 117) corresponds to the product of the squared values for that OTU (row) obtained from plants in June from the 5mm and 20mm plots. 132–133. Blank columns 134–141. Matrix of Morisita-Horn and Sorensen’s (qualitative and quantitive) and similarity indices comparing pair-wise communities of fungi obtained from different plants: 0,5,20 mm plots obtained in July and August. Checksum values are: Columns 5, 7, and 17 = 1 All proportions of sequences from all OTUs in two plants (columns 5 and 7) and overall for July (17).
DOI: 10.6084/m9.figshare.3563736.v1
title: Supplement 1. Tab-delimited text file for the Excel database that was used to create Table 1 described in the main text.

description: File List Herrera-et-al-supplemental-information-data-set-used-in-analyses.txt -- (MD5: d99808cfe4ebc5bff6c4c8b75fdfaf56) Description Database used for statistical and graphical analysis described in the main text. It includes all the computational data for Fisher’s alpha, Shannon diversity, Morisita-Horn, and Sorensen’s (both qualitative and quantitative) similarity. Column definitions: 1. Taxonomic order of OTU 2. Genus and species epithet of OTU 3. OTU number 4, 6, 8, 10, 12. Identity of plant in 5 mm plots. (SSc = Sevilleta Sporobolus cryptandrus) # = plot number 5, 7, 9,11, 13. Proportion sequences of that OTU in that plant (column) in July. 14. Total number of sequences of that fungal OTU in the 5 mm plots in July 15. Contig number in sequencher. 1 = presence of OTU in a contig 16. Singletons. 1 = only one sequence of this OTU obtained 17. Proportion of sequences of row OTU in all plants in 5 mm plots in July 18. Total number of sequences of that OTU in 5 mm plots squared in July 19. Proportion of sequences of row OTU in all plants in 5 mm plots 20. Proportion multiplied by log of that same proportion). 21–37. repeat information from columns 3–20 except the information describes plants and OTUs sampled from 20 mm plots. 38–50. repeat information from columns 3–20 except the information describes plants and OTUs sampled from 0 mm (control) plots. 51. July summary of information of total number of sequences of that fungal OTU in all three plots (0, 5, 20 mm) 52. July summary of information from all three plots regarding whether that fungal OTU is present in a contig. 53. July summary of information from all three plots regarding whether that fungal OTU is present as a singleton. 54. July summary of information of total number of sequences of that fungal OTU in all three plots (0, 5, 20 mm) squared 55. July summary of the proportion of sequences of row OTU in all plants in all three plots (0, 5, 20 mm). 56. Proportion from column 55 multiplied by log of that same proportion. 57–109. Repeats information except values now represent data obtained in August 110–115. Repeats information except values now represent summary data obtained for both July and August. 116. Blank column 117–131. Multiplied squared values from pair-wise columns and rows used to calculate similarity indices. J = June, A = August, 0,5,20 correspond to mm of water added to each plot. For example, J5/J20 (column 117) corresponds to the product of the squared values for that OTU (row) obtained from plants in June from the 5mm and 20mm plots. 132–133. Blank columns 134–141. Matrix of Morisita-Horn and Sorensen’s (qualitative and quantitive) and similarity indices comparing pair-wise communities of fungi obtained from different plants: 0,5,20 mm plots obtained in July and August. Checksum values are: Columns 5, 7, and 17 = 1 All proportions of sequences from all OTUs in two plants (columns 5 and 7) and overall for July (17).
DOI: 10.6084/m9.figshare.3563733
title: Supplement 1. Monthly data for the 13 years of our study is summarized in the Results section of the main text.

description: File List 25692_2_data_set_270203_lfqr22.csv -- (MD5: 172a372a325f89b9fc2f54e5222996ee) Description Data was created in an Excel file, and saved as a comma-delimited ASCII file, 25692_2_data_set_270203_lfqr22.cvs. The first two rows are the headings. The next 156 rows are the monthly data, inclusive from January 1994 through December 2006. The last row contains checksum values for download verification. Blank values are denoted by “99999”. The column headings contain variables under the five main variables of Date, Lake, Brine Shrimp, Phytoplankton, and Other Biota. The column variables are described below for each main variable. Date includes 2 columns: Month, Year Lake includes 10 columns: Lake Elevation (m), Lake Volume (m^3), Salinity (%), Temperature (C), Dissolved Oxygen (% saturation), Nitrogen (at 1-4m)(mg/L), Nitrogen (at 4+m)(mg/L), Phosphorus (at 1-4m)(mg/L), Phosphorus (at 4+m)(mg/L), Secchi Depth (m) Phytoplankton includes 5 columns: Chlorophyll<sub>a</sub> (ug/L), Chlorophytes (ug/L), Bacillariophytes (ug/L), Cyanophytes (ug/L), Maximum Chlorophyll<sub>a</sub> (ug/L) Brine Shrimp includes 9 columns: Cysts (#/l), Nauplii (#/l), Juveniles (#/l), Males (#/l), Barren Females (#/l), Females w/ Eggs (#/l), Females w Cysts (#/l), Biomass (Adult Equivalent), Cyst Harvest (metric tons) Other Biota includes 6 columns: Corixids (#/m^3), Grebes (total #), Protozoans (#/mL), Dinoflagellates (#/mL), Copepods (#/m^3), Brine Flies (#/m^3) CHECKSUM: Month = none, just the label “CHECKSUM”; Year = 312,000; Lake Elevation = 199,662.90; Lake Volume = 1.70318E+12; Salinity = 1749.78; Temperature = 1894.38; DO = 2726.42; N shallow = 26.5058; N deep = 136.5385; Phosphorus shallow = 11.5075; Phosphorus deep = 18.9285; Secchi Depth = 240.15; Chlorophyll<sub>a</sub> = 3720.928; Chlorophytes = 456.9437018; Bacillariophytes = 970.5399242; Cyanophytes = 794.072427; Max Chl<sub>a</sub> = 8768.07; Cysts = 5563.054425; Nauplii = 623.6800176; Juveniles = 189.6569998; Males = 76.53309394; Barren Females = 61.05721909; Females w/ Eggs = 4.4904062; Females w/ Cysts = 8.699123133; Biomass = 349.5981; Cyst Harvest = 63,822.92; Corixids = 36.8290032; Grebes = 118,887,480; Protozoans = 30,379.52; Dinoflagellates = 38,740.21; Copepods = 2309.11; Brine Flies = 361.400003
DOI: 10.6084/m9.figshare.3563733.v1
title: Supplement 1. Monthly data for the 13 years of our study is summarized in the Results section of the main text.

description: File List 25692_2_data_set_270203_lfqr22.csv -- (MD5: 172a372a325f89b9fc2f54e5222996ee) Description Data was created in an Excel file, and saved as a comma-delimited ASCII file, 25692_2_data_set_270203_lfqr22.cvs. The first two rows are the headings. The next 156 rows are the monthly data, inclusive from January 1994 through December 2006. The last row contains checksum values for download verification. Blank values are denoted by “99999”. The column headings contain variables under the five main variables of Date, Lake, Brine Shrimp, Phytoplankton, and Other Biota. The column variables are described below for each main variable. Date includes 2 columns: Month, Year Lake includes 10 columns: Lake Elevation (m), Lake Volume (m^3), Salinity (%), Temperature (C), Dissolved Oxygen (% saturation), Nitrogen (at 1-4m)(mg/L), Nitrogen (at 4+m)(mg/L), Phosphorus (at 1-4m)(mg/L), Phosphorus (at 4+m)(mg/L), Secchi Depth (m) Phytoplankton includes 5 columns: Chlorophyll<sub>a</sub> (ug/L), Chlorophytes (ug/L), Bacillariophytes (ug/L), Cyanophytes (ug/L), Maximum Chlorophyll<sub>a</sub> (ug/L) Brine Shrimp includes 9 columns: Cysts (#/l), Nauplii (#/l), Juveniles (#/l), Males (#/l), Barren Females (#/l), Females w/ Eggs (#/l), Females w Cysts (#/l), Biomass (Adult Equivalent), Cyst Harvest (metric tons) Other Biota includes 6 columns: Corixids (#/m^3), Grebes (total #), Protozoans (#/mL), Dinoflagellates (#/mL), Copepods (#/m^3), Brine Flies (#/m^3) CHECKSUM: Month = none, just the label “CHECKSUM”; Year = 312,000; Lake Elevation = 199,662.90; Lake Volume = 1.70318E+12; Salinity = 1749.78; Temperature = 1894.38; DO = 2726.42; N shallow = 26.5058; N deep = 136.5385; Phosphorus shallow = 11.5075; Phosphorus deep = 18.9285; Secchi Depth = 240.15; Chlorophyll<sub>a</sub> = 3720.928; Chlorophytes = 456.9437018; Bacillariophytes = 970.5399242; Cyanophytes = 794.072427; Max Chl<sub>a</sub> = 8768.07; Cysts = 5563.054425; Nauplii = 623.6800176; Juveniles = 189.6569998; Males = 76.53309394; Barren Females = 61.05721909; Females w/ Eggs = 4.4904062; Females w/ Cysts = 8.699123133; Biomass = 349.5981; Cyst Harvest = 63,822.92; Corixids = 36.8290032; Grebes = 118,887,480; Protozoans = 30,379.52; Dinoflagellates = 38,740.21; Copepods = 2309.11; Brine Flies = 361.400003