cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/p5ymhcbb72.1
title: Unveiling the Role of Shp2 in Follicular Development and Fertility Through Targeted Ptpn11 Deletion in Mouse Granulosa Cells

description: Follicle development relies heavily on granulosa cells for growth factors and cytokine-induced signals mediated by various receptors. Previously, we found that Src homology 2 domain-containing protein tyrosine phosphatase 2 (SHP2) is critical for follicle-stimulating hormone receptor (FSHR) signal transduction in bovine granulosa cells near premature oocytes. To further investigate the role of SHP2 in ovarian follicular development, we generated granulosa cell-specific SHP2 knockout mice and cultured SHP2 knockout granulosa cells and female gonads. Deletion of SHP2 in primary granulosa cells diminished ERK phosphorylation and CREB nuclear localization, notwithstanding FSH and LH treatment. In vitro culture of SHP2-deficient gonads (E12.5) resulted in arrested follicular growth at the primary stage. Female SHP2fl/fl; Cyp19a1-Cre mice exhibited subfertility with small ovaries, reduced ovulation, and absent corpus lutea compared to controls. RNA-Seq analysis revealed a significant downregulation of genes associated with the steroidogenic pathway (e.g Cyp19a1, Hsd17b2, and StAR). Furthermore, SHP2 deletion significantly reduced the expression of ovulation-related genes such as Ptgfr, Ptgs2, Edn2, Ptx3, and Lipg.
Additionally, the expression of important markers for granulosa cell proliferation, such as Procr, Fhl2, and Wnt2, was significantly reduced. These findings indicate that SHP2 regulates folliculogenesis via the activation of the ERK1/2/CEBPα/β signaling pathway. Given its critical role in steroidogenesis and ovulation, SHP2 represents a potential therapeutic target for ovarian dysfunction and infertility.
DOI: 10.17632/7tswkzn4wd
title: Dataset for: “From Biological to Structural Controls: Explainable Machine Learning Reveals a Fundamental Shift in Soil Carbon Drivers Across Depth in Subtropical Plantations”

description: This dataset supports the findings of the manuscript entitled “From Biological to Structural Controls: Explainable Machine Learning Reveals a Fundamental Shift in Soil Carbon Drivers Across Depth in Subtropical Plantations,” submitted to the journal “Catena”.
Study Overview:
The study aimed to quantitatively uncover the depth-dependent drivers of soil organic carbon (SOC) and microbial biomass (MBC, MBN) in subtropical plantations using explainable machine learning (Random Forest and XGBoost coupled with SHAP analysis). Data was collected from 13-year-old monoculture and intercropping plantations of three species (Ligustrum lucidum, Osmanthus fragrans, and Cinnamomum camphora) in the Shihe River Basin, Henan Province, China.
Data Content:
The dataset comprises two main parts:
1. Stand Inventory Data: Tree species, planting pattern (monoculture/intercropping), mean diameter at breast height (DBH, cm), mean tree height (m), canopy density (%), and stand density (trees/ha).
2. Soil Property Data: Samples were collected from two depth intervals (0-10 cm and 30-50 cm). Analyzed properties include: Soil organic carbon (SOC, g/kg), Particulate organic carbon (POC, g/kg), Easily oxidized organic carbon (EOC, g/kg), Total nitrogen (TN, mg/kg), Ammonium nitrogen (NH₄⁺-N, mg/kg), Microbial biomass carbon (MBC, mg/kg), Microbial biomass nitrogen (MBN, mg/kg).
Data Availability and Usage:
This dataset is embargoed until December 31, 2026 to allow for the publication of the associated manuscript. Upon expiration of the embargo, the data will be fully accessible under a CC-BY 4.0 license. Researchers are encouraged to cite this dataset if used in their work.
DOI: 10.17632/7tswkzn4wd.1
title: Dataset for: “From Biological to Structural Controls: Explainable Machine Learning Reveals a Fundamental Shift in Soil Carbon Drivers Across Depth in Subtropical Plantations”

description: This dataset supports the findings of the manuscript entitled “From Biological to Structural Controls: Explainable Machine Learning Reveals a Fundamental Shift in Soil Carbon Drivers Across Depth in Subtropical Plantations,” submitted to the journal “Catena”.
Study Overview:
The study aimed to quantitatively uncover the depth-dependent drivers of soil organic carbon (SOC) and microbial biomass (MBC, MBN) in subtropical plantations using explainable machine learning (Random Forest and XGBoost coupled with SHAP analysis). Data was collected from 13-year-old monoculture and intercropping plantations of three species (Ligustrum lucidum, Osmanthus fragrans, and Cinnamomum camphora) in the Shihe River Basin, Henan Province, China.
Data Content:
The dataset comprises two main parts:
1. Stand Inventory Data: Tree species, planting pattern (monoculture/intercropping), mean diameter at breast height (DBH, cm), mean tree height (m), canopy density (%), and stand density (trees/ha).
2. Soil Property Data: Samples were collected from two depth intervals (0-10 cm and 30-50 cm). Analyzed properties include: Soil organic carbon (SOC, g/kg), Particulate organic carbon (POC, g/kg), Easily oxidized organic carbon (EOC, g/kg), Total nitrogen (TN, mg/kg), Ammonium nitrogen (NH₄⁺-N, mg/kg), Microbial biomass carbon (MBC, mg/kg), Microbial biomass nitrogen (MBN, mg/kg).
Data Availability and Usage:
This dataset is embargoed until December 31, 2026 to allow for the publication of the associated manuscript. Upon expiration of the embargo, the data will be fully accessible under a CC-BY 4.0 license. Researchers are encouraged to cite this dataset if used in their work.
DOI: 10.17632/3ym3n6y5vd
title: PRAME Promotes LUAD Metastasis via K63-Linked Ubiquitination of METTL3

description: The support data values and unedited blot images of original journal 《PRAME Promotes LUAD Metastasis via K63-Linked Ubiquitination of METTL3》.
DOI: 10.15468/dl.ob3uqa
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000983-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p3y197
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001473-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t7bskc
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001477-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lhlaa5
title: Occurrence Download

description: A dataset containing 1243472044 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1243472044 records from 20474 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008001-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.54gpmu
title: Occurrence Download

description: A dataset containing 201 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Daphne petraea Leyb."
 ]
}

 The dataset includes 201 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0173560-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hp6jk7
title: Occurrence Download

description: A dataset containing 26 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudodraba hystrix (Hook.f. & Thomson) Al-Shehbaz, D.A.German & M.A.Koch"
 ]
}

 The dataset includes 26 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156708-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r35q3d
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ixodida",
 "Country is United Arab Emirates"
 ]
}

 The dataset includes 12 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050378-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6u3j6m
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Honduras",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Glaucomys volans (Linnaeus, 1758)"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0173579-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9bf38x
title: Occurrence Download

description: A dataset containing 6382120 species occurrences available in GBIF matching the query:
(Query is too complex. Can be viewed on the landing page)

 The dataset includes 6382120 records from 5412 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262490-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pd32qp
title: Occurrence Download

description: A dataset containing 545 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Carya floridana)",
 "StateProvince is one of (Florida)",
 "BasisOfRecord is Specimen"
 ]
}

 The dataset includes 545 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011372-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e355my
title: Occurrence Download

description: A dataset containing 2624713 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Corvus monedula Linnaeus, 1758"
 ]
}

 The dataset includes 2624713 records from 2922 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006845-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/rk2-azv-jpv
title: Dictyopteris J.V.F. Lamouroux, 1809

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/wx7-z0s-fn9
title: Plantae

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/hzj-211-yeg
title: Aldrovanda vesiculosa L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/9kn-y6g-581
title: Phagnalon sinaicum Bornm. & Kneuck.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/lwh-z8m-j2g
title: Triticum turgidum subsp. durum (Desf.) Husn.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/amv-rc5-shk
title: Phagnalon sinaicum Bornm. & Kneuck.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/eg9-5t7-h3r
title: Symphytum brachycalyx Boiss.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/a10-atb-wt5
title: Swietenia macrophylla G. King

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/z69-63d-mdb
title: Tradescantia serrana Hassemer & Funez

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/6qn-rjn-72x
title: Campanula trachyphylla Schott & Kotschy ex Boiss.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/2vl-ej7-5gf
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/flw-kz9-jxd
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/048-zde-qrz
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/zd8-9pt-t05
title: Stomatanthes africanus (Oliv. & Hiern) R. M. King & H. Rob.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/bv5-j41-x8e
title: Phagnalon phagnaloides (A. Rich.) Cufod.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/xma-ebs-1gz
title: Symphytum pseudobulbosum Azn.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/mcr-mgf-wa5
title: Plantago humboldtiana Hassemer

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/rbm-4b8-4sd
title: Phagnalon sinaicum Bornm. & Kneuck.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/3p8-myp-7td
title: Symphytum ottomanum Friv.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/vgm-3sl-4yw
title: Lactuca inermis Forssk.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/6ss-clc-3hp
title: Abrodictyum flavofuscum (Bosch) Ebihara & K. Iwats.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/a61-flm-h27
title: Arenaria biflora L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/x0g-amz-004
title: Quintinia schlechteriana O. C. Schmidt

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/0nd-y1y-ytq
title: Ophryosporus paradoxus (Hook. & Arn.) Benth. & Hook. ex Hook. fil. & Jackson

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/mpc-bl9-qmf
title: Spergularia marina (L.) Besser

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/h5h-4kw-zla
title: Spergularia media (L.) C. Presl

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ksh-a0j-8ag
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ccf-5p1-2nb
title: Eremogone saxatilis (L.) Ikonn.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/j35-6zs-gf9
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/b0q-cfq-a89
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/152-yth-750
title: Pteris esquirolii Christ

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/p6a-ct7-3hc
title: Arenaria biflora L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/8ds-esm-2x1
title: Arenaria biflora L.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/jpr-q9j-p2f
title: Spergularia (Pers.) J. Presl & C. Presl

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/9d6-00k-4s6
title: Euphorbia acanthoclada Pahlevani

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/ema-cqx-pzy
title: Pilosella pavichii (Heuff.) Holub

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/xev-2r7-1cj
title: Eremogone saxatilis (L.) Ikonn.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/2xb-5r5-fyb
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/q77-lrt-e6p
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/bxw-k1k-ras
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/b8g-x8k-l1h
title: Pilosella bauhini subsp. magyarica (Peter) S. Bräut.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/lmj-ya7-tcn
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/47t-zl3-54j
title: Triticum aestivum subsp. aestivum

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/qqe-h7v-pm1
title: Meteorium polytrichum Dozy & Molk.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/x2d-btp-my1
title: Euphorbia boreobaluchestanica Pahlevani

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/67j-xlb-s72
title: Pilosella pavichii (Heuff.) Holub

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.3535/h7y-hnd-fz5
title: Schizaea elegans (Vahl) Sw.

description: Digital Specimen for the physical specimen hosted at Botanic Garden and Botanical Museum Berlin.
DOI: 10.15156/bio/sh0172849.10fu
title: SH0172849.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.5281/zenodo.17841092
title: Data & Script from: Paler in the city: carotenoid-based colouration covaries negatively with imperviousness in great tits (Parus major) across Europe

description: Urbanisation reshapes resource availability and exposes wildlife to novel stressors. Carotenoid-based colouration, reflects dietary carotenoid supply and potential allocation trade-offs with physiology. Although carotenoid coloration is widely reported to be paler in urban versus rural areas, phenotypic responses have not been tested along continuous, fine-scale gradients across multiple cities. We investigated great tits carotenoid-based colouration covariation with territory-scale habitat characterisation across Europe. Using sub-meter satellite imagery, we quantified impervious surfaces within 100m around nestboxes across six European cities and related this to feather carotenoid chroma. Chroma declined with imperviousness, with older birds and males more chromatic than yearlings and females. The slope was robust to bootstrap resampling and leave-one-city-out analyses. Paler birds breed in more impervious areas, which may reflect lifelong habitat choices. This is the first continent-scale evidence that carotenoid-based colouration declines along a continuous urbanisation gradient, highlighting this trait as a bio-indicator of imperviousness within cities.
DOI: 10.5281/zenodo.18198862
title: Data & Script from: Paler in the city: carotenoid-based colouration covaries negatively with imperviousness in great tits (Parus major) across Europe

description: Urbanisation reshapes resource availability and exposes wildlife to novel stressors. Carotenoid-based colouration, reflects dietary carotenoid supply and potential allocation trade-offs with physiology. Although carotenoid coloration is widely reported to be paler in urban versus rural areas, phenotypic responses have not been tested along continuous, fine-scale gradients across multiple cities. We investigated great tits carotenoid-based colouration covariation with territory-scale habitat characterisation across Europe. Using sub-meter satellite imagery, we quantified impervious surfaces within 100m around nestboxes across six European cities and related this to feather carotenoid chroma. Chroma declined with imperviousness, with older birds and males more chromatic than yearlings and females. The slope was robust to bootstrap resampling and leave-one-city-out analyses. Paler birds breed in more impervious areas, which may reflect lifelong habitat choices. This is the first continent-scale evidence that carotenoid-based colouration declines along a continuous urbanisation gradient, highlighting this trait as a bio-indicator of imperviousness within cities.