cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25345/c5qz22v6c
title: MassIVE MSV000096289 - A tethering mechanism underlies Pin-1 catalyzed proline cis-trans isomerization at a noncanonical site
title: The prolyl isomerase Pin1 catalyzes the cis-trans isomerization of proline peptide bonds, a non-covalent post-translational modification that influences cellular and molecular processes, including protein-protein interactions. Pin1 is a two-domain enzyme containing a WW domain that recognizes phosphorylated serine/threonine-proline (pS/pT-P) canonical motifs and an enzymatic PPIase domain that catalyzes proline cis-trans isomerization of pS/pT-P motifs. Here, we show that Pin1 uses a tethering mechanism to bind and catalyze proline cis-trans isomerization of a noncanonical motif in the disordered N-terminal activation function-1 (AF-1) domain of the human nuclear receptor PPARgamma. NMR reveals multiple Pin1 binding regions within the PPARgamma AF-1, including a canonical motif that when phosphorylated by the kinase ERK2 (pS112-P113) binds the Pin1 WW domain with high affinity. NMR methods reveal that Pin1 also binds and accelerates cis-trans isomerization of a noncanonical motif containing a tryptophan-proline motif (W39-P40) previously shown to be involved in an interdomain interaction with the C-terminal ligand-binding domain (LBD). Cellular transcription studies combined with mutagenesis and Pin1 inhibitor treatment reveal a functional role for Pin1-mediated acceleration of cis-trans isomerization of the W39-P40 motif. Our data inform a refined model of the Pin1 catalytic mechanism where the WW domain binds a canonical pS/T-P motif and tethers Pin1 to the target, which enables the PPIase domain to exert catalytic cis-trans isomerization at a distal noncanonical site.
DOI: 10.15468/dl.5n7yw6
title: Occurrence Download

description: A dataset containing 1565 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pteronura Gray, 1837"
 ]
}

 The dataset includes 1565 records from 83 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021604-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25505/fiz.icsd.cc2fv5bt
title: CSD 2259476: Experimental Crystal Structure Determination

description: Related Article: Yu Zhang, Xia Liu, Qian-Yan Liu, Jian-Hua Wang, Ting Hu, Yan-Mei Lin, Jian-Han Zhang|2023|Dalton Trans.|52|10918|doi:10.1039/D3DT01321A
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.27607101
title: <b>N-acetyl-tryptophan in acute kidney injury after cardiac surgery</b>

description: <b>Abstract</b><b>Background</b>: Cardiac surgery-associated acute kidney injury is a common serious complication after cardiac surgery. Currently, there are no specific pharmacological therapies. Our understanding of its pathophysiology remains preliminary.<b>Methods: </b>A total of<b> </b>2504 patients with and without acute kidney injury (AKI) following cardiac surgery were enrolled. High-performance liquid chromatography coupled with mass spectrometry was used for untargeted analysis of metabolites in plasma, identifying significant differential metabolites. Subsequently, a tandem liquid chromatography-mass spectrometry–based approach using isotope-labeled standard addition was performed for targeted analysis of the metabolic marker N-acetyl-tryptophan. The function of N-acetyl-tryptophan was determined using different renal injury mouse models and epithelial cellular models. The transcriptome sequencing, surface plasmon resonance and protein mutation were employed to explore the mechanism of N-acetyl-tryptophan on the kidney.<b>Results: </b>We identified a total of 32 differential metabolites related to AKI occurrence based on a cohort of 1042 patients. Among them, N-acetyl-tryptophan was elevated in plasma of cardiac surgery-associated acute kidney injury patients compared with those who do not develop AKI after cardiac surgery. The increased level of N-acetyl-tryptophan in plasma was confirmed by accurate targeted quantification. N-acetyl-tryptophan exhibited renal protective effects in I/R-, cisplatin-, and UUO-induced renal injury mouse models. Mechanistically, N-acetyl-tryptophan exerted renal protective effects by interacting with KEAP1 at 483 and 508 sites, resulting in Nrf2 nuclear translocation and the transcription of proteasome genes.<b>Conclusion:</b> N-acetyl-tryptophan plays a key role in kidney protection and provides a potential therapeutic strategy for the treatment of cardiac surgery-associated acute kidney injury.
DOI: 10.25505/fiz.icsd.cc2gplg7
title: CSD 2284869: Experimental Crystal Structure Determination

description: Related Article: Reuter, Hans|2023|Crystals|13|1281|
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25505/fiz.icsd.cc2gpnsm
title: CSD 2284941: Experimental Crystal Structure Determination

description: Related Article: Reuter, Hans|2023|Crystals|13|1281|
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25505/fiz.icsd.cc2gplj9
title: CSD 2284871: Experimental Crystal Structure Determination

description: Related Article: Reuter, Hans|2023|Crystals|13|1281|
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5281/zenodo.14036990
title: Nutrient loading from a sustainably certified aquaculture operation dwarfs annual nutrient inputs from a large multi-use watershed, Lake Yojoa, Honduras (DATA)

description: Dataset for manuscript entitled: "Nutrient loading from a sustainably certified aquaculture operation dwarfs annual nutrient inputs from a large multi-use watershed, Lake Yojoa, Honduras"

Abstract: Net-pen aquaculture is a popular and increasingly prevalent method for producing large quantities of low-fat protein in freshwater ecosystems across the tropics. While there are numerable social and economic advantages associated with aquaculture, there are also challenges related to the environmental sustainability of aquaculture operations which supply pens with externally produced feed. For example, excessive nutrient loading which can drive rapid eutrophication in aquatic ecosystems is a major risk. In this study we compare the estimated annual nutrient loads from the six principal tributaries that contribute to Lake Yojoa to the estimated nutrient load of a large net-pen Tilapia operation located in the central region of the lake. The Tilapia farm was responsible for ~ 86% of the nitrogen (N) and ~95% of the phosphorus (P) contributions to Lake Yojoa for the year of our study. This disproportionate nutrient loading of both N and P suggests that this single aquaculture operation, more so than changes in nutrient inputs from the watershed, was responsible for the previously documented deterioration of Lake Yojoa. This study shows the potential for net-pen aquaculture to have disproportionately negative impacts on freshwater ecosystems, even when operations meet the current sustainability certifications standards. We suggest shifts in metrics that could improve the impact of the certification process so that best practices can reduce the impact of net-pen aquaculture on freshwater ecosystems and arrive at the intended goal of long-term environmental sustainability.

Data files: 



rating_curves_2018_2019: Rating cruves for tributaries Helado, Balas, Varsovia, and Raices

sensor_2018_2019: Pressure transducer data for Healdo, Balas, Varsovia, and Raices

Staff_TS_27MAY21: Manual stage measurements for Helado, Balas, Varsovia, and Raices

13OCT21_Rivers: In stream nutrient data for all tributaries

q_cacao_2019: Discharge for Cacao calculated using Manning's equation (methods provided in text)

q_yure_2019: Discharge for Yure calculated using Manning's equation (methods provided in text)

N_P_aqua: Nutrient contributions from aquaculture (calculations provided in Supplemental Text 4)

precip: Yojoa watershed precipitation
DOI: 10.5281/zenodo.14036991
title: Nutrient loading from a sustainably certified aquaculture operation dwarfs annual nutrient inputs from a large multi-use watershed, Lake Yojoa, Honduras (DATA)

description: Dataset for manuscript entitled: "Nutrient loading from a sustainably certified aquaculture operation dwarfs annual nutrient inputs from a large multi-use watershed, Lake Yojoa, Honduras"

Abstract: Net-pen aquaculture is a popular and increasingly prevalent method for producing large quantities of low-fat protein in freshwater ecosystems across the tropics. While there are numerable social and economic advantages associated with aquaculture, there are also challenges related to the environmental sustainability of aquaculture operations which supply pens with externally produced feed. For example, excessive nutrient loading which can drive rapid eutrophication in aquatic ecosystems is a major risk. In this study we compare the estimated annual nutrient loads from the six principal tributaries that contribute to Lake Yojoa to the estimated nutrient load of a large net-pen Tilapia operation located in the central region of the lake. The Tilapia farm was responsible for ~ 86% of the nitrogen (N) and ~95% of the phosphorus (P) contributions to Lake Yojoa for the year of our study. This disproportionate nutrient loading of both N and P suggests that this single aquaculture operation, more so than changes in nutrient inputs from the watershed, was responsible for the previously documented deterioration of Lake Yojoa. This study shows the potential for net-pen aquaculture to have disproportionately negative impacts on freshwater ecosystems, even when operations meet the current sustainability certifications standards. We suggest shifts in metrics that could improve the impact of the certification process so that best practices can reduce the impact of net-pen aquaculture on freshwater ecosystems and arrive at the intended goal of long-term environmental sustainability.

Data files: 



rating_curves_2018_2019: Rating cruves for tributaries Helado, Balas, Varsovia, and Raices

sensor_2018_2019: Pressure transducer data for Healdo, Balas, Varsovia, and Raices

Staff_TS_27MAY21: Manual stage measurements for Helado, Balas, Varsovia, and Raices

13OCT21_Rivers: In stream nutrient data for all tributaries

q_cacao_2019: Discharge for Cacao calculated using Manning's equation (methods provided in text)

q_yure_2019: Discharge for Yure calculated using Manning's equation (methods provided in text)

N_P_aqua: Nutrient contributions from aquaculture (calculations provided in Supplemental Text 4)

precip: Yojoa watershed precipitation
DOI: 10.15468/dl.yvkcr7
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Turnera cipoensis Arbo"
 ]
}

 The dataset includes 20 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021605-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jkt7y7
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-84.93107 0.03379,-55.06893 0.03379,-55.06893 11.96621,-84.93107 11.96621,-84.93107 0.03379))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Crocodylus intermedius (Graves, 1819)"
 ]
}

 The dataset includes 62 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021607-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cvwhjb
title: Occurrence Download

description: A dataset containing 84 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Stanhopea tigrina Bateman ex Lindl."
 ]
}

 The dataset includes 84 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021606-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6q99m8
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "GadmGid is ECU.4_1",
 "TaxonKey is Pristimantis crucifer (Boulenger, 1899)"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021608-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14036962
title: xrcc1 crispant zebrafish structural brain imaging

description: Triple transgenic (vGlut2a:GFP, gad1b:RFP, tuba:mCar) 6 dpf larval zebrafish heads, scanned on confocal microscopy at 2x2x2 micron resolution. Files ending -01.nii.gz are vGlut2a:GFP channel, -02.nii.gz are tuba:mCar channel and -03.nii.gz are gad1b:RFP channel. 

xrcc1-t12.zip: xrcc1 tracr injected controls (ctr) and gRNA t1/2 crispants (inj)

xrcc1-t56.zip: xrcc1 tracr injected controls (ctr) and gRNA t5/6 crispants (inj)

xrcc1-parp1.zip: contains vGlut2a:GFP only. tracr injected controls (ctr), gRNA t1/2 xrcc1 crispants (xrc) and double gRNA t1/2 xrcc1 + gRNA t6/8 parp1 crispants (dbl).
DOI: 10.5281/zenodo.14036963
title: xrcc1 crispant zebrafish structural brain imaging

description: Triple transgenic (vGlut2a:GFP, gad1b:RFP, tuba:mCar) 6 dpf larval zebrafish heads, scanned on confocal microscopy at 2x2x2 micron resolution. Files ending -01.nii.gz are vGlut2a:GFP channel, -02.nii.gz are tuba:mCar channel and -03.nii.gz are gad1b:RFP channel. 

xrcc1-t12.zip: xrcc1 tracr injected controls (ctr) and gRNA t1/2 crispants (inj)

xrcc1-t56.zip: xrcc1 tracr injected controls (ctr) and gRNA t5/6 crispants (inj)

xrcc1-parp1.zip: contains vGlut2a:GFP only. tracr injected controls (ctr), gRNA t1/2 xrcc1 crispants (xrc) and double gRNA t1/2 xrcc1 + gRNA t6/8 parp1 crispants (dbl).
DOI: 10.6084/m9.figshare.27609681
title: Dataset for O'Brien et al. (in prep) Accessibility restricts engagement with culturally important environmental resources

description: Coordinates of fishing access points for the Fish & Game regions of North Canterbury and Central South Island, shared with permission from regional offices.
DOI: 10.6084/m9.figshare.27609681.v1
title: Dataset for O'Brien et al. (in prep) Accessibility restricts engagement with culturally important environmental resources

description: Coordinates of fishing access points for the Fish & Game regions of North Canterbury and Central South Island, shared with permission from regional offices.
DOI: 10.15468/dl.y543h2
title: Occurrence Download

description: A dataset containing 23962 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Columba palumbus Linnaeus, 1758, Columbina inca (R.Lesson, 1847), Columbina passerina (Linnaeus, 1758), Contopus cooperi (Nuttall, 1831), Contopus sordidulus P.L.Sclater, 1859)",
 "Country is Canada",
 "OccurrenceStatus is Present",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON ((-84.76571 41.22334, -58.93394 41.22334, -58.93394 49.85477, -84.76571 49.85477, -84.76571 41.22334))",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 23962 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021609-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tma9rw
title: Occurrence Download

description: A dataset containing 249 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Vellozia albiflora Pohl"
 ]
}

 The dataset includes 249 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021610-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7r8xxw
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Encyclia enriquearcilae Carnevali & Cetzal"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021612-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.azf9ze
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-91.1432 42.35767,-87.72198 42.35767,-87.72198 43.15828,-91.1432 43.15828,-91.1432 42.35767))",
 "HasGeospatialIssue is false",
 "Month is one of (May, June, July, August)",
 "OccurrenceStatus is Present",
 "TaxonKey is Ammodramus henslowii (Audubon, 1829)"
 ]
}

 The dataset includes 11 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021614-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.83ghnx
title: Occurrence Download

description: A dataset containing 39067 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Diveboard - Scuba diving citizen science observations"
 ]
}

 The dataset includes 39067 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021611-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pxpnzb
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is ONCFS Réseau Ours brun - Ours 2016 présence Régulière Mailles 10km LAEA Réseau Ours brun ONCFS"
 ]
}

 The dataset includes 24 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021615-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/ds/5828914
title: Stock pledge defaults prediction
DOI: 10.15468/dl.2z886z
title: Occurrence Download

description: A dataset listing the 479 species recorded in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Drosera L."
 ]
}

 The dataset's 479 records were derived from 1700 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021600-241024112534372/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2hfkc3
title: Occurrence Download

description: A dataset containing 158881 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tringa ochropus Linnaeus, 1758",
 "DatasetKey is EOD – eBird Observation Dataset",
 "Country is one of (Germany, France, Spain, Portugal, Denmark, Austria, Italy, Switzerland, Greece, Poland, Hungary, Slovenia, Sweden, Norway, Slovakia, Montenegro, Croatia, North Macedonia, Serbia, Iceland, Ireland, United Kingdom of Great Britain and Northern Ireland, Albania, Bosnia and Herzegovina, Bulgaria, Belgium, Netherlands)"
 ]
}

 The dataset includes 158881 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0166888-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d4q56z
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eremitis aemula F.M.Ferreira & R.P.Oliveira"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0157174-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bpygt1
title: Occurrence Download

description: A dataset containing 17714 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Carollia perspicillata (Linnaeus, 1758)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 17714 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009843-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3xxe3k
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Drymaria perennis Gilli"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0157175-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nwjzux
title: Occurrence Download

description: A dataset containing 115 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Réseau Loup - Lynx ONCFS - Répartition Régulière Lynx 2020"
 ]
}

 The dataset includes 115 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0067865-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.