cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.21113994
title: Additional file 11 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 11: Supplementary Table S9. Core and accessory genes encoding the enzymatic portfolio related to protein/peptide degradation in the eight spontaneous sourdoughs as estimated by metagenomic analyses.
DOI: 10.6084/m9.figshare.21113994.v1
title: Additional file 11 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 11: Supplementary Table S9. Core and accessory genes encoding the enzymatic portfolio related to protein/peptide degradation in the eight spontaneous sourdoughs as estimated by metagenomic analyses.
DOI: 10.6084/m9.figshare.21113997
title: Additional file 12 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 12: Supplementary Table S10. Distribution of genes encoding the catabolism of branched chain amino acids (BCAAs), aromatic amino acids (ArAAs) and free amino acids. The expressed genes, evaluated through metatranscriptomic analyses, are marked by asterisks.
DOI: 10.6084/m9.figshare.21113997.v1
title: Additional file 12 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 12: Supplementary Table S10. Distribution of genes encoding the catabolism of branched chain amino acids (BCAAs), aromatic amino acids (ArAAs) and free amino acids. The expressed genes, evaluated through metatranscriptomic analyses, are marked by asterisks.
DOI: 10.6084/m9.figshare.21114000
title: Additional file 13 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 13: Supplementary Table S11. Statistically significant VOCs in SDGlobal and SMC-SD43. VOC standardized abundance whole matrices were used to compute a Welch corrected test (Benjamini–Hochberg). Mean rel. freq. = mean relative frequency; std.dev. = standard deviation; CI = confidence interval.
DOI: 10.6084/m9.figshare.21114000.v1
title: Additional file 13 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 13: Supplementary Table S11. Statistically significant VOCs in SDGlobal and SMC-SD43. VOC standardized abundance whole matrices were used to compute a Welch corrected test (Benjamini–Hochberg). Mean rel. freq. = mean relative frequency; std.dev. = standard deviation; CI = confidence interval.
DOI: 10.6084/m9.figshare.21114009
title: Additional file 3 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 3: Supplementary Table S3. Total number of genera and species of bacteria detected in the eight spontaneous sourdoughs by shotgun metagenomics.
DOI: 10.6084/m9.figshare.21114009.v1
title: Additional file 3 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 3: Supplementary Table S3. Total number of genera and species of bacteria detected in the eight spontaneous sourdoughs by shotgun metagenomics.
DOI: 10.6084/m9.figshare.21114012
title: Additional file 4 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 4: Supplementary Table S4. Total number of genera and species of yeasts detected in the eight spontaneous sourdoughs by shotgun metagenome analysis.
DOI: 10.6084/m9.figshare.21114012.v1
title: Additional file 4 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 4: Supplementary Table S4. Total number of genera and species of yeasts detected in the eight spontaneous sourdoughs by shotgun metagenome analysis.
DOI: 10.6084/m9.figshare.21114021
title: Additional file 6 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 6: Supplementary Table S5. Total number of mapped reads in the eight spontaneous sourdoughs by metatranscriptomics analysis.
DOI: 10.6084/m9.figshare.21114021.v1
title: Additional file 6 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 6: Supplementary Table S5. Total number of mapped reads in the eight spontaneous sourdoughs by metatranscriptomics analysis.
DOI: 10.6084/m9.figshare.21114027
title: Additional file 8 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 8: Supplementary Table S7. Shared and unique KEGG genes from metagenomes in the eight spontaneous sourdoughs.
DOI: 10.6084/m9.figshare.21114030
title: Additional file 9 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 9: Supplementary Table S8. List of KEGG ID, gene name, function, transcript level (transcripts per million = TPM), copy number, total bases and coverage of each gene found in sourdough metagenomes.
DOI: 10.6084/m9.figshare.21114030.v1
title: Additional file 9 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 9: Supplementary Table S8. List of KEGG ID, gene name, function, transcript level (transcripts per million = TPM), copy number, total bases and coverage of each gene found in sourdough metagenomes.
DOI: 10.6084/m9.figshare.21114027.v1
title: Additional file 8 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance

description: Additional file 8: Supplementary Table S7. Shared and unique KEGG genes from metagenomes in the eight spontaneous sourdoughs.
DOI: 10.6084/m9.figshare.21114040
title: data set.docx

description: The data set is used in the manuscript "Consignment policy for an integrated inventory model with stock- and price-dependent demand under buyer's space limitation and preservation technology investment". The data set is associated with an inventory modelling. The parameter values related to production and demand rates, deterioration rates, various costs, and space limitation are provided in this data set.
DOI: 10.6084/m9.figshare.21114040.v1
title: data set.docx

description: The data set is used in the manuscript "Consignment policy for an integrated inventory model with stock- and price-dependent demand under buyer's space limitation and preservation technology investment". The data set is associated with an inventory modelling. The parameter values related to production and demand rates, deterioration rates, various costs, and space limitation are provided in this data set.
DOI: 10.34740/kaggle/dsv/4206037
title: Russian Invasion of Ukraine
DOI: 10.25921/xt3d-aq32
title: ES60 Water Column Sonar Data Collected During EBS09AR
DOI: 10.6084/m9.figshare.21114082
title: Marbled Cat Project Data

description: Southeast Asia supports the greatest diversity of felids globally, but this felid diversity is likely to be threatened by the severe forest loss and degradation occurring in the region. The response of felids to disturbances appears to differ depending on their ecology. For example, the largely terrestrial and nocturnal leopard cat (<em>Prionailurus bengalensis</em>) thrives near forest edges and in oil palm plantations where it hunts rodents (Muridae) at night, thereby avoiding human activity peaks. Conversely, we hypothesized that the sympatric and similar-sized marbled cat (<em>Pardofelis marmorata</em>) would respond negatively to edges and relatively open oil palm plantations as they are more arboreal than leopard cats, rely on tree connectivity for hunting, and are diurnal so have less potential to temporally avoid humans. We used new and previously published camera-trapping studies from Southeast Asia to test habitat associations at multiple spatial scales using zero-inflated Poisson GLMMs and hierarchical occupancy modelling. We found that marbled cats were positively associated with large intact forests and, in contrast to leopard cats, negatively associated with oil palm plantations. Furthermore, we found preliminary evidence suggesting marbled cats may adapt their diel activity to become more crepuscular in degraded forests, likely shifting their activity to avoid humans. These findings suggest that the marbled cat's IUCN Red List conservation status should potentially be upgraded from Near Threatened to Vulnerable, matching other forest-dependent felids in the region. We posit our findings may be generalizable such that semi-arboreal and diurnal felids could face greater threats from habitat degradation than their terrestrial and nocturnal relatives.
DOI: 10.6084/m9.figshare.21114082.v1
title: Marbled Cat Project Data

description: Southeast Asia supports the greatest diversity of felids globally, but this felid diversity is likely to be threatened by the severe forest loss and degradation occurring in the region. The response of felids to disturbances appears to differ depending on their ecology. For example, the largely terrestrial and nocturnal leopard cat (<em>Prionailurus bengalensis</em>) thrives near forest edges and in oil palm plantations where it hunts rodents (Muridae) at night, thereby avoiding human activity peaks. Conversely, we hypothesized that the sympatric and similar-sized marbled cat (<em>Pardofelis marmorata</em>) would respond negatively to edges and relatively open oil palm plantations as they are more arboreal than leopard cats, rely on tree connectivity for hunting, and are diurnal so have less potential to temporally avoid humans. We used new and previously published camera-trapping studies from Southeast Asia to test habitat associations at multiple spatial scales using zero-inflated Poisson GLMMs and hierarchical occupancy modelling. We found that marbled cats were positively associated with large intact forests and, in contrast to leopard cats, negatively associated with oil palm plantations. Furthermore, we found preliminary evidence suggesting marbled cats may adapt their diel activity to become more crepuscular in degraded forests, likely shifting their activity to avoid humans. These findings suggest that the marbled cat's IUCN Red List conservation status should potentially be upgraded from Near Threatened to Vulnerable, matching other forest-dependent felids in the region. We posit our findings may be generalizable such that semi-arboreal and diurnal felids could face greater threats from habitat degradation than their terrestrial and nocturnal relatives.
DOI: 10.6084/m9.figshare.21114244
title: PeerJ row-data and code.zip

description: This ZIP file contains the followings: 1- A Python script that collects the Ethereum block information from the real network. 2- A dataset that contains the details of 500,000 collected Ethereum blocks (collected using our Python script) 3- The extended BlockSim simulator to conduct our study. The collected data is fed into the simulator 4- The simulation results reported in the paper.
DOI: 10.6084/m9.figshare.21114244.v1
title: PeerJ row-data and code.zip

description: This ZIP file contains the followings: 1- A Python script that collects the Ethereum block information from the real network. 2- A dataset that contains the details of 500,000 collected Ethereum blocks (collected using our Python script) 3- The extended BlockSim simulator to conduct our study. The collected data is fed into the simulator 4- The simulation results reported in the paper.
DOI: 10.6084/m9.figshare.21114379
title: Master Table of SCR 2015

description: This was a population-based cross-sectional study conducted in 2015 in Jakarta. Former participants of Rapid Assessment of Avoidable Blindness (RAAB) survey who had history of cataract surgery and met either of the following criteria: (1) wore spectacles with presenting visual acuity (PVA) 6/12; or (2) had PVA less than 6/12 regardless of spectacle use but could achieve best visual acuity (BVA) 6/12 with pinhole correction<em>.</em>
DOI: 10.6084/m9.figshare.21114379.v1
title: Master Table of SCR 2015

description: This was a population-based cross-sectional study conducted in 2015 in Jakarta. Former participants of Rapid Assessment of Avoidable Blindness (RAAB) survey who had history of cataract surgery and met either of the following criteria: (1) wore spectacles with presenting visual acuity (PVA) 6/12; or (2) had PVA less than 6/12 regardless of spectacle use but could achieve best visual acuity (BVA) 6/12 with pinhole correction<em>.</em>
DOI: 10.6084/m9.figshare.21114715
title: Data from Native species exhibit physiological habituation to invaders: a reason for hope

description: Dataset
DOI: 10.6084/m9.figshare.21114715.v1
title: Data from Native species exhibit physiological habituation to invaders: a reason for hope

description: Dataset
DOI: 10.6084/m9.figshare.21114718
title: Code from Native species exhibit physiological habituation to invaders: a reason for hope

description: R code used for analyses and figures production
DOI: 10.6084/m9.figshare.21114718.v1
title: Code from Native species exhibit physiological habituation to invaders: a reason for hope

description: R code used for analyses and figures production
DOI: 10.5517/ccdc.csd.cc28f372
title: CCDC 2097963: Experimental Crystal Structure Determination

description: Related Article: Anton A. Ivanov, Mohamed Haouas, Darya V. Evtushok, Tatiana N. Pozmogova, Tatiana S. Golubeva, Yann Molard, Stéphane Cordier, Clément Falaise, Emmanuel Cadot, Michael A. Shestopalov|2022|Inorg.Chem.|61|14462|doi:10.1021/acs.inorgchem.2c02468
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc28f383
title: CCDC 2097964: Experimental Crystal Structure Determination

description: Related Article: Anton A. Ivanov, Mohamed Haouas, Darya V. Evtushok, Tatiana N. Pozmogova, Tatiana S. Golubeva, Yann Molard, Stéphane Cordier, Clément Falaise, Emmanuel Cadot, Michael A. Shestopalov|2022|Inorg.Chem.|61|14462|doi:10.1021/acs.inorgchem.2c02468
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.21115033
title: TableS2_trait.values.xlsx from Evolution of competitive traits changes species diversity in a natural field

description: Studying the interaction between evolutionary and ecological processes (i.e. eco-evolutionary dynamics) has great potential to improve our understanding of biological processes such as species interactions, community assembly and ecosystem functions. However, most experimental studies have been conducted under controlled laboratory or mesocosm conditions, and the importance of these interactions in natural field communities has not been evaluated. In this study, we focused on the contemporary divergence of a competitive trait (the height–width ratio) of an annual grass <i>Eleusine indica</i> between urban and farmland populations and investigated how trait evolution affects ecological processes by transplanting <i>E. indica</i> individuals from lineages with different trait values into semi-natural grassland. The competitive trait of the transplanted individuals not only affected their own growth and fitness, but also affected the vegetative growth of the competing species and the species diversity. These results indicate that the evolution of competitive traits, even in a single species, can influence the community species diversity through changes in interspecific interactions. Eco-evolutionary interactions therefore play a crucial role in natural field environments. Our results suggest that understanding intraspecific variation in competitive traits driven by rapid evolution is essential for understanding interspecific competitive interactions, community assembly and species diversity.
DOI: 10.6084/m9.figshare.21115033.v1
title: TableS2_trait.values.xlsx from Evolution of competitive traits changes species diversity in a natural field

description: Studying the interaction between evolutionary and ecological processes (i.e. eco-evolutionary dynamics) has great potential to improve our understanding of biological processes such as species interactions, community assembly and ecosystem functions. However, most experimental studies have been conducted under controlled laboratory or mesocosm conditions, and the importance of these interactions in natural field communities has not been evaluated. In this study, we focused on the contemporary divergence of a competitive trait (the height–width ratio) of an annual grass <i>Eleusine indica</i> between urban and farmland populations and investigated how trait evolution affects ecological processes by transplanting <i>E. indica</i> individuals from lineages with different trait values into semi-natural grassland. The competitive trait of the transplanted individuals not only affected their own growth and fitness, but also affected the vegetative growth of the competing species and the species diversity. These results indicate that the evolution of competitive traits, even in a single species, can influence the community species diversity through changes in interspecific interactions. Eco-evolutionary interactions therefore play a crucial role in natural field environments. Our results suggest that understanding intraspecific variation in competitive traits driven by rapid evolution is essential for understanding interspecific competitive interactions, community assembly and species diversity.
DOI: 10.6084/m9.figshare.21115036
title: TableS1_species.list.xlsx from Evolution of competitive traits changes species diversity in a natural field

description: Studying the interaction between evolutionary and ecological processes (i.e. eco-evolutionary dynamics) has great potential to improve our understanding of biological processes such as species interactions, community assembly and ecosystem functions. However, most experimental studies have been conducted under controlled laboratory or mesocosm conditions, and the importance of these interactions in natural field communities has not been evaluated. In this study, we focused on the contemporary divergence of a competitive trait (the height–width ratio) of an annual grass <i>Eleusine indica</i> between urban and farmland populations and investigated how trait evolution affects ecological processes by transplanting <i>E. indica</i> individuals from lineages with different trait values into semi-natural grassland. The competitive trait of the transplanted individuals not only affected their own growth and fitness, but also affected the vegetative growth of the competing species and the species diversity. These results indicate that the evolution of competitive traits, even in a single species, can influence the community species diversity through changes in interspecific interactions. Eco-evolutionary interactions therefore play a crucial role in natural field environments. Our results suggest that understanding intraspecific variation in competitive traits driven by rapid evolution is essential for understanding interspecific competitive interactions, community assembly and species diversity.
DOI: 10.6084/m9.figshare.21115036.v1
title: TableS1_species.list.xlsx from Evolution of competitive traits changes species diversity in a natural field

description: Studying the interaction between evolutionary and ecological processes (i.e. eco-evolutionary dynamics) has great potential to improve our understanding of biological processes such as species interactions, community assembly and ecosystem functions. However, most experimental studies have been conducted under controlled laboratory or mesocosm conditions, and the importance of these interactions in natural field communities has not been evaluated. In this study, we focused on the contemporary divergence of a competitive trait (the height–width ratio) of an annual grass <i>Eleusine indica</i> between urban and farmland populations and investigated how trait evolution affects ecological processes by transplanting <i>E. indica</i> individuals from lineages with different trait values into semi-natural grassland. The competitive trait of the transplanted individuals not only affected their own growth and fitness, but also affected the vegetative growth of the competing species and the species diversity. These results indicate that the evolution of competitive traits, even in a single species, can influence the community species diversity through changes in interspecific interactions. Eco-evolutionary interactions therefore play a crucial role in natural field environments. Our results suggest that understanding intraspecific variation in competitive traits driven by rapid evolution is essential for understanding interspecific competitive interactions, community assembly and species diversity.
DOI: 10.6084/m9.figshare.21115039.v1
title: TableS3_statistical.results.xlsx from Evolution of competitive traits changes species diversity in a natural field

description: Studying the interaction between evolutionary and ecological processes (i.e. eco-evolutionary dynamics) has great potential to improve our understanding of biological processes such as species interactions, community assembly and ecosystem functions. However, most experimental studies have been conducted under controlled laboratory or mesocosm conditions, and the importance of these interactions in natural field communities has not been evaluated. In this study, we focused on the contemporary divergence of a competitive trait (the height–width ratio) of an annual grass <i>Eleusine indica</i> between urban and farmland populations and investigated how trait evolution affects ecological processes by transplanting <i>E. indica</i> individuals from lineages with different trait values into semi-natural grassland. The competitive trait of the transplanted individuals not only affected their own growth and fitness, but also affected the vegetative growth of the competing species and the species diversity. These results indicate that the evolution of competitive traits, even in a single species, can influence the community species diversity through changes in interspecific interactions. Eco-evolutionary interactions therefore play a crucial role in natural field environments. Our results suggest that understanding intraspecific variation in competitive traits driven by rapid evolution is essential for understanding interspecific competitive interactions, community assembly and species diversity.