cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.7sqv9s4vn
title: Afforestation can lower microbial diversity and functionality in deep soil layers in a semiarid region

description: Afforestation is an effective approach to rehabilitate degraded
 ecosystems, but often depletes deep soil moisture. Presently, it is not
 known how an afforestation-induced decrease in moisture affects soil
 microbial community and functionality, hindering our ability to understand
 the sustainability of the rehabilitated ecosystems. To address this issue,
 we examined the impacts of 20 years of afforestation on soil bacterial
 community, co-occurrence pattern and functionalities along vertical
 profile (0-500 cm depth) in a semiarid region of China’s Loess Plateau. We
 showed that the effects of afforestation with a deep-rooted legume tree on
 cropland were greater in deep than that of in top layers, resulting in
 decreased bacterial beta diversity, more responsive bacterial taxa and
 functional groups, increased homogeneous selection, and decreased network
 robustness in deep soils (120-500 cm). Organic carbon and nitrogen
 decomposition rates and multifunctionality also significantly decreased by
 afforestation, and microbial carbon limitation significantly increased in
 deep soils. Moreover, changes in microbial community and functionality in
 deep layer was largely related to changes in soil moisture. Such negative
 impacts on deep soils should be fully considered for assessing
 afforestation’s eco-environment effects and for the sustainability of
 ecosystems because deep soils have important influence on forest
 ecosystems in semiarid and arid climates.
DOI: 10.5061/dryad.fbg79cnxp
title: Data from: Plant-litter-soil feedbacks in common grass species are slightly negative and only marginally modified by litter exposed to insect herbivory

description: Purpose Insect herbivory affects plant growth, nutrient and secondary
 metabolite concentrations and litter quality. Changes to litter
 quality due to insect herbivory can alter decomposition, with
 knock on effects for plant growth mediated through the
 plantlitter- soil feedback pathway.  Methods Using a
 multi-phase glasshouse experiment, we tested how changes in
 shoot and root litter quality of fast- and slow-growing grass
 caused by insect herbivores affect the performance of response
 plants in the soil in which the litter decomposed.  Results We
 found that insect herbivory resulted in marginal changes to litter quality
 and did not affect growth when plants were grown with fast-
 versus slow-growing litter. Overall, presence of litter resulted
 in reduced root and shoot growth and this effect was significantly more
 negative in shoots versus roots. However, this effect was
 minimal, with a loss of c. 1.4% and 3.1% dry weight biomass in
 roots versus shoots, respectively. Further, shoot litter exposed to insect
 herbivory interacted with response plant identity to affect root
 growth. Conclusions Our results suggest that whether litter originates
 from plant tissues exposed to insect herbivory or not and its interaction
 with fast- versus slow-growing grasses is of little importance, but
 species-specific responses to herbivory-conditioned litter can occur.
 Taken collectively, the overall role of the plant-litter-soil
 feedbackpathway, as well as its interaction with insect herbivory, is
 unlikely to affect broader ecosystem processes in this system.
description: De Long JR, Heinen R, Hannula E, Jongen R, Steinauer K, Bezemer M
 (2022) Plant-litter-soil feedbacks  in common grass
 species are slightly negative and only marginally modified by litter
 exposed  to insect herbivory. Plant and Soil.
 https://doi.org/10.21203/rs.3.rs-1403298/v1. Litter and
 response species: fast (Arrhenatherum elatius, Holcus lanatus, Lolium
 perenne) and slow  (Agrostis capillaris, Deschampsia
 flexuosa, Festuca ovina) Exposed to aboveground
 herbivores (M. brassicae), belowground herbivores (Agriotes spp.), both
 or  none (control) Litter was then
 used in the second litter feedback phase of the experiment
 Data here are carbon, nitrogen, total polyphenols obtained from
 dried, ground root and shoot litter  and micronutrients
 from dried, ground root litter Response plant species
 measurements: grams dry weight biomass of roots and shoots
 Quality control was performed to ensure all values were
 reasonable
DOI: 10.5061/dryad.vdncjsxxz
title: Data from: Bumblebees can be exposed to the herbicide glyphosate whilst foraging

description: Bee declines are attributed to multiple factors, one of which is the use
 of pesticides. However, there is very little research surround the effects
 of non-insecticidal pesticides on bees. Herbicides are one of the most
 applied pesticide groups globally, with glyphosate being one of the most
 applied pesticides in the world. When herbicides are applied to plants,
 the plant typically dies a few days later. In the period between herbicide
 application and plant death it is unknown if bumblebees would choose to
 forage on the herbicide treated plants, especially if there is
 uncontaminated healthy forage available. This dataset shows the frequency
 and duration of bumblebee interactions with glyphosate treated and control
 plants in a choice test, observing how individual foragers interacted with
 plants. In a second experiment, data was collected on the availability of
 nectar and pollen in glyphosate treated plants over a 5-6 day period, to
 help determine if resources remain available for bees to collect whilst
 the plant was dying. We observed that bees chose to forage on both
 glyphosate treated and control plants indiscriminately. We also observed
 that bees spent significantly less time collecting nectar from each
 individual flower indicating a potential deterrent effect. We also found
 that over time, plants had a lower standing crop of nectar after treatment
 with glyphosate. These results suggest that bees could be exposed to
 herbicide whilst foraging in the environment.
DOI: 10.5061/dryad.x95x69pmt
title: Generation time in stage-structured populations under fluctuating environments (Simulations)

description: The study is about the computation of the generation time when individuals
 are classified based on their stage and the environment stochastically
 fluctuates with time. This folder contains simulation code in R to plot
 Figure 2 of the manuscript.
DOI: 10.5061/dryad.v6wwpzgzw
title: Data from: Integrating effects of neighbor interactions for pollination

description: Animal-pollinated plants interact with neighbors for both abiotic
 resources and pollination, with consequences for reproduction and yield.
 Yet few studies have compared the relative magnitude of these effects,
 particularly in agroecosystems. In vertically stratified communities, such
 as agroforests, neighbor effects may be stratum-dependent. Understanding
 the net effects of neighbors on crop yield is important for managing
 multifunctional agroecosystems to simultaneously support production and
 biodiversity. This study evaluated the effects of neighboring plants on
 pollen deposition, fertilization, and yield in Coffea arabica in a shaded
 organic coffee farm with high non-crop plant abundance and diversity in
 Chiapas, Mexico. We assessed the impact of 1) floral resources at three
 vertical strata (herbs, coffee bushes, and canopy trees) on stigma pollen
 load (a measure of interaction for pollination), and 2) floral density and
 canopy cover (proxies for competition for abiotic resources) on yield
 (final fruit set and per-fruit weight), using structural equation modeling
 to evaluate the relative effect of each interaction type. Coffee competed
 for pollination with neighbors (conspecifics and heterospecifics) across
 strata. Pollen load influenced final fruit set, but the effect of neighbor
 competition for pollination was weaker than effects mediated by
 interaction for abiotic resources. Effects of interactions for abiotic
 resources were heterogeneous across strata, with negligible effects of
 herb-layer or coffee flower density but net positive effects of canopy
 trees on final fruit set. Overall effects of neighbors on coffee yield
 were weak, suggesting that coffee agroecosystems can be managed to
 maintain high plant density and diversity without sacrificing yield.
description: Dataset was collected through surveys, collection, and
 experimental manipulation of coffee plants in a shaded organic coffee farm
 during and after flowering.
DOI: 10.5061/dryad.k98sf7m8h
title: Population genetic structure and demographic history of Rhodeus atremius suigensis, an endangered bitterling in Japan

description: Demographic events can shape genetic diversity through genetic drift,
 often leaving a persistent signal in the genetic characteristics of
 species. Rhodeus atremius suigensis is an endangered bitterling
 fish endemic to the Okayama Plain, Japan. In this study, we inferred its
 demographic history and genetic structure using a comprehensive analysis
 of the mtDNA ND1 gene, microsatellite
 markers (MS) and MHC class IIB gene. Based on
 mtDNA, R. a. suigensis included two sublineages; A and
 B. While the former was widely distributed, the latter was
 restricted to eastern populations that were monomorphic in MHC.
 Phylogenetic analysis revealed that R. a. suigensis, together
 with R. a. atremius, experienced a substantial bottleneck in the
 middle Pleistocene. In MS and MHC, genetic diversity was low in all
 populations; ranked as the lowest among bitterling species. Bayesian
 clustering suggested that two clusters of MS had been widely introgressed
 in the centre of its distribution. These clusters seem to have been formed
 by the disruption of the distribution in the last Pleistocene, and later
 admixed by a large-scale reclamation in the Okayama Plain since the 16th
 century, which triggered a decline in effective population size (Ne) in
 many populations. Based on coalescence analysis, all populations reached
 their lowest Ne around the middle of the 20th century.
 Accordingly, R. a. suigensis seems to
 have experienced two large bottlenecks in the past. While the first
 bottleneck was probably due to climatic changes in the middle Pleistocene,
 the second is due to anthropogenic degradation and fragmentation of
 habitats in recent years.
description: See Kawamura K, Miyake T, and Carl Smith (2022) Population genetic structure and demographic
 history of <em>Rhodeus atremius suigensis</em>, an endangered
 bitterling in Japan. Conservation
 Genetics.<strong><br></strong>
description: Multilocus genotypes of microsatellites are provided as a simple
 text file in Genepop format.<br>Populations are in order of names in
 heading line, and correspond to the abbreviations given in the manuscript.
 <br><br>MHC genotypes are provided in Excel
 format.<br><br>
DOI: 10.5518/1494
title: Dataset for 'Robust heteroclinic cycles in pluridimensions'

description: The dataset was generated by solving the ordinary differential equations using the Python SciPy library solve_ivp: solve_ivp(dxdt, [0,tmax], initial_condition, method='RK45', rtol=1e-12, atol=1e-12, max_step=1.0)
DOI: 10.5061/dryad.0rxwdbs3m
title: Data from: Convergence and constraint in the cranial evolution of mosasaurid reptiles and early cetaceans

description: The repeated return of tetrapods to aquatic life provides some of the
 best-known examples of convergent evolution. One comparison which has
 received relatively little focus is that of mosasaurids (a group of Late
 Cretaceous squamates) and archaic cetaceans (the ancestors of modern
 whales and dolphins), both of which show high levels of craniodental
 disparity, similar initial trends in locomotory evolution, and global
 distributions. Here we investigate convergence in skull ecomorphology
 during the initial aquatic radiations of these groups. A series of
 functionally informative ratios were calculated from 38 species, with
 ordination techniques used to reconstruct patterns of functional
 ecomorphospace occupation. The earliest fully aquatic members of each
 clade occupied different regions of ecomorphospace, with basilosaurids and
 early russellosaurines exhibiting marked differences in cranial functional
 morphology. Subsequent ecomorphological trajectories notably diverge:
 mosasaurids radiated across ecomorphospace with no clear pattern and
 numerous reversals, whereas cetaceans notably evolved towards shallower,
 more elongated snouts, perhaps as an adaptation for capturing smaller
 prey. Incomplete convergence between the two groups is present among
 megapredatory and longirostrine forms, suggesting stronger selection on
 cranial function in these two ecomorphologies. Our study highlights both
 the similarities and divergences in craniodental evolutionary trajectories
 between archaic cetaceans and mosasaurids, with convergences transcending
 their deeply divergent phylogenetic affinities.
DOI: 10.5517/ccdc.csd.cc2fvlqm
title: CCDC 2259891: Experimental Crystal Structure Determination

description: Related Article: Hongliang Dai, Shihai You, Huang Ye, Tingting Zhu, Junhua Luo|2023|Small|19|2304332|doi:10.1002/smll.202304332
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.cc2fvlrn
title: CCDC 2259892: Experimental Crystal Structure Determination

description: Related Article: Hongliang Dai, Shihai You, Huang Ye, Tingting Zhu, Zeng-Kui Zhu, Junhua Luo|2024|ACS Applied Materials and Interfaces|16|42372|doi:10.1021/acsami.4c04615
description: Related Article: Hongliang Dai, Shihai You, Huang Ye, Tingting Zhu, Junhua Luo|2023|Small|19|2304332|doi:10.1002/smll.202304332
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.cc2fwvx3
title: CCDC 2261106: Experimental Crystal Structure Determination

description: Related Article: Xin‐Zhao Chen, Xin‐Ping Tian, Liu‐Can Chen, Mo‐Nan Cui, Qiang‐Sheng Zhang, Yan Feng, Chun‐Man Jia|2025|Adv.Funct.Mater.|36|e17762|doi:10.1002/adfm.202517762
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.cc2mbd7m
title: CCDC 2423060: Experimental Crystal Structure Determination

description: Related Article: Xin‐Zhao Chen, Xin‐Ping Tian, Liu‐Can Chen, Mo‐Nan Cui, Qiang‐Sheng Zhang, Yan Feng, Chun‐Man Jia|2025|Adv.Funct.Mater.|36|e17762|doi:10.1002/adfm.202517762
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.cc2mbd8n
title: CCDC 2423061: Experimental Crystal Structure Determination

description: Related Article: Xin‐Zhao Chen, Xin‐Ping Tian, Liu‐Can Chen, Mo‐Nan Cui, Qiang‐Sheng Zhang, Yan Feng, Chun‐Man Jia|2025|Adv.Funct.Mater.|36|e17762|doi:10.1002/adfm.202517762
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.cc2pqgws
title: CCDC 2494256: Experimental Crystal Structure Determination

description: Related Article: Yunzhi Xie, Yongkang Hu, Shijie Liu, Jia Guan, Hao Tang, Kun Yin, Zijun Zhou|2026|Org.Lett.|||doi:10.1021/acs.orglett.5c04565
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.cc2pqgxt
title: CCDC 2494257: Experimental Crystal Structure Determination

description: Related Article: Xiu-Lian Zhang, Wei-Jie Wang, Hua-Wei Luan, Yong-Chao Zhao, Yong-Chao Ma, Tian-Hui Zhou, Mei-Qi Ye, Chuan-Zhou Tao|2026|Org.Lett.|||doi:10.1021/acs.orglett.5c04936
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.cc2lxdb8
title: CCDC 2410570: Experimental Crystal Structure Determination

description: Related Article: Boya Liu, Xueqi Zheng|2026|RSC Advances|16|3602|doi:10.1039/d5ra08205f
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.cc2prktv
title: CCDC 2495308: Experimental Crystal Structure Determination

description: Related Article: Yuanyuan Chen, Yue Zhang, Guoyi Wu, Ting Luo, Jialiang Jiang, Tengyue Wang, Xiaoya Guo, Kaka Zhang|2026|Chemical Science|||doi:10.1039/d5sc08966b
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.cc2q16vv
title: CCDC 2503617: Experimental Crystal Structure Determination

description: Related Article: Ruwandhi Jayasundara, Lakshani W. Kulathungage, Benjamin J. Baillie, Cassandra L. Ward, Richard L. Lord, Stanislav Groysman|2026|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c05470
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.cc2q16ww
title: CCDC 2503618: Experimental Crystal Structure Determination

description: Related Article: Ruwandhi Jayasundara, Lakshani W. Kulathungage, Benjamin J. Baillie, Cassandra L. Ward, Richard L. Lord, Stanislav Groysman|2026|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c05470
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: 10.5061/dryad.brv15dvcd
title: Feast or famine: How is global change affecting forage supply for Yellowstone’s ungulate herds?

description: The ecological integrity of US national parks and other protected areas
 are under threat in the Anthropocene. For Yellowstone National Park (YNP),
 the impacts that global change has already had on the park’s capacity to
 sustain its large migratory herds of wild ungulates is incompletely
 understood. Here we examine how two understudied components of global
 change, the historical increase in atmospheric CO2 and the spread of
 non-native, invasive plant species, may have altered the capacity of YNP
 to provide forage for ungulates over the last 200-plus years. We performed
 two experiments: (1) a growth chamber study that determined growth rates
 of important invasive and native YNP grasses that are forages for
 ungulates under pre-industrial (280 ppm) vs modern (410 ppm) CO2 levels,
 and (2) a field study that compared the effect of defoliation (clipping)
 on shoot growth of invasive and native mesic grassland plants under
 ambient CO2 conditions in 2019. The growth chamber experiment revealed
 that modern CO2 increased the growth rates of both invasive and native
 grasses, and invasive grasses grew faster regardless of CO2 conditions.
 The field results showed a continuum of positive to negative responses of
 shoot growth to defoliation, with a subgroup of invasive species
 responding most positively. Together the results indicated that the
 historical increase in CO2 and the spread of invasive species, some of
 which were planted to provide forage for ungulates in the early- and
 mid-1900s, have likely increased the capacity of forage production in YNP.
 However, rising CO2 has also resulted in regional warming and increased
 aridity in YNP, which will likely reduce grassland productivity. The
 challenge for global change biologists and park managers is to determine
 how competing components of global change have already and will
 increasingly affect forage dynamics and the sustainability of
 Yellowstone’s iconic ungulate herds in the Anthropocene.
description: There are two data sets. One data set is from a growth chamber
 experiment in which common native and invasive grasses of Yellowstone
 Nation National Park were grown under 270 ppm and 410 ppm CO2.  Shoot and
 root material were harvested separately, dried, and weighed.  Data are
 daily rates of growth of shoots, roots, and whole plants among species.
 The second data set is from a field experiment in which the growth
 responses of plant species in a mesic grassland to clipping events in June
 and July were measured.  Data are the effect of clipping, measured as the
 difference in daily growth of clipped minus unclipped controls, in June
 and July.
description: Excel
DOI: 10.5517/ccdc.csd.cc2q16xx
title: CCDC 2503619: Experimental Crystal Structure Determination

description: Related Article: Ruwandhi Jayasundara, Lakshani W. Kulathungage, Benjamin J. Baillie, Cassandra L. Ward, Richard L. Lord, Stanislav Groysman|2026|Inorg.Chem.|||doi:10.1021/acs.inorgchem.5c05470
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.