cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3334/cdiac/otg.ndp052
title: Dissolved inorganic carbon, total alkalinity, water temperature, salinity and other variables collected from discrete sample and profile observations during NOAA Ship Malcolm Baldrige cruise CGC_90 (EXPOCODE 33MW19900222) in the Pacific and Southern Oceans from 1990-02-22 to 1990-04-16 (NCEI Accession 0000183)

description: This dataset includes dissolved inorganic carbon, total alkalinity, water temperature, salinity, chlorofluorocarbons (CFCs), carbon-13 and other variables collected from discrete sample and profile observations during NOAA Ship Malcolm Baldrige cruise CGC_90 (EXPOCODE 33MW19900222) in the Pacific and Southern Oceans from 1990-02-22 to 1990-04-16. The instruments used to collect these data include CTD, Coulometer for DIC measurement and bottle. These data were collected by David P. Wisegarver, Marilyn F. Lamb, and Richard A. Feely of NOAA Pacific Marine Environmental Laboratory (PMEL) as part of the CARINA_CGC_90 and CGC-90_32MW19900222 dataset. CDIAC associated the following cruise ID(s) with this dataset: 3175CG90_1 and CGC_90. The World Ocean Circulation Experiment (WOCE) was a major component of the World Climate Research Program with the overall goal of better understanding the ocean's role in climate and climatic changes resulting from both natural and anthropogenic causes. The CO2 survey took advantage of the sampling opportunities provided by the WOCE Hydrographic Program (WHP) cruises during this period between 1990 and 1998. The final collection covers approximately 23,000 stations from 94 WOCE cruises.
DOI: 10.3334/cdiac/otg.omp_pco2_1993_1996
title: Partial pressure (or fugacity) of carbon dioxide, salinity and other variables collected from Surface underway observations using Carbon dioxide (CO2) gas analyzer, Shower head chamber equilibrator for autonomous carbon dioxide (CO2) measurement and other instruments from COLUMBUS ISELIN, ENDEAVOR and others in the Coastal Waters of Florida, North Atlantic Ocean and South Atlantic Ocean from 1993-05-11 to 1996-10-17 (NCEI Accession 0051984)

description: This dataset includes Surface underway, chemical and physical data collected from COLUMBUS ISELIN, ENDEAVOR, GYRE, OCEANUS and SEWARD JOHNSON in the Coastal Waters of Florida, North Atlantic Ocean and South Atlantic Ocean from 1993-05-11 to 1996-10-17. These data include Partial pressure (or fugacity) of carbon dioxide - atmosphere, Partial pressure (or fugacity) of carbon dioxide - water, SALINITY and SEA SURFACE TEMPERATURE. The instruments used to collect these data include Carbon dioxide (CO2) gas analyzer and Shower head chamber equilibrator for autonomous carbon dioxide (CO2) measurement.

These data were collected by Taro Takahashi of Lamont-Doherty Earth Observatory (LDEO) as part of the Ocean Margins Program Expeditions LDEO Leg No: 5, Ocean Margins Program Expeditions: LDEO Leg No 3, Ocean Margins Program Expeditions: LDEO Leg No. 2, Ocean Margins Program Expeditions: LDEO Leg No. 7, Ocean Margins Program Expeditions: LDEO Leg No. 8, Ocean Margins Program Expeditions: LDEO Leg No. 9, Ocean Margins Program Expeditions: LDEO Leg No: 4, Ocean Margins Program Expeditions: LDEO Leg No: 1 and Ocean Margins Program LDEO Leg No: 6 dataset. CDIAC associated the following cruise ID(s) with this dataset: LDEO Leg No: 2, LDEO Leg No: 4, LDEO Leg No: 5, LDEO Leg No: 6, LDEO Leg No: 7, LDEO Leg No: 8, LDEO Leg No: 9, LDEO Leg No: 1 and LDEO Leg No: 3
DOI: 10.6084/m9.figshare.28472501
title: Inducing autophagy

description: Autophagy is a lysosomal-mediated catabolic process, which through degradation of different cytoplasmic components aids in maintaining cellular homeostasis and survival during exposure to extra- or intracellular stresses. Ammonia is a potential toxic and stress-inducing byproduct of glutamine catabolism, which has recently been found to induce autophagy in an MTOR independent way and support cancer cell survival. In this study, quantitative phosphoproteomics was applied to investigate the initial signaling events linking ammonia to the induction of autophagy. The MTOR inhibitor rapamycin was used as a reference treatment to emphasize the differences between an MTOR-dependent and -independent autophagy-induction. By this means 5901 phosphosites were identified of which 626 were treatment-specific regulated and 175 were coregulated. Investigation of the ammonia-specific regulated sites supported that MTOR activity was not affected, but indicated increased MAPK3 activity, regulation of proteins involved in Rho signal transduction, and a novel phosphorylation motif, serine-proline-threonine (SPT), which could be linked to cytoskeleton-associated proteins. MAPK3 could not be identified as the primary driver of ammonia-induced autophagy but instead the data suggested an upregulation of AMPK and the unfolded protein response (UPR), which might link ammonia to autophagy induction. Support of UPR induction was further obtained from the finding of increased protein levels of the ER stress markers DDIT3/CHOP and HSPA5 during ammonia treatment. The large-scale data set presented here comprises extensive high-quality quantitative information on phosphoprotein regulation in response to 2 very different autophagy inducers and should therefore be considered a general resource for the community.
DOI: 10.6084/m9.figshare.28472501.v1
title: Inducing autophagy

description: Autophagy is a lysosomal-mediated catabolic process, which through degradation of different cytoplasmic components aids in maintaining cellular homeostasis and survival during exposure to extra- or intracellular stresses. Ammonia is a potential toxic and stress-inducing byproduct of glutamine catabolism, which has recently been found to induce autophagy in an MTOR independent way and support cancer cell survival. In this study, quantitative phosphoproteomics was applied to investigate the initial signaling events linking ammonia to the induction of autophagy. The MTOR inhibitor rapamycin was used as a reference treatment to emphasize the differences between an MTOR-dependent and -independent autophagy-induction. By this means 5901 phosphosites were identified of which 626 were treatment-specific regulated and 175 were coregulated. Investigation of the ammonia-specific regulated sites supported that MTOR activity was not affected, but indicated increased MAPK3 activity, regulation of proteins involved in Rho signal transduction, and a novel phosphorylation motif, serine-proline-threonine (SPT), which could be linked to cytoskeleton-associated proteins. MAPK3 could not be identified as the primary driver of ammonia-induced autophagy but instead the data suggested an upregulation of AMPK and the unfolded protein response (UPR), which might link ammonia to autophagy induction. Support of UPR induction was further obtained from the finding of increased protein levels of the ER stress markers DDIT3/CHOP and HSPA5 during ammonia treatment. The large-scale data set presented here comprises extensive high-quality quantitative information on phosphoprotein regulation in response to 2 very different autophagy inducers and should therefore be considered a general resource for the community.
DOI: 10.6084/m9.figshare.28472507
title: Interorganelle interactions and inheritance patterns of nuclei and vacuoles in budding yeast meiosis

description: Many of the mechanisms by which organelles are inherited by spores during meiosis are not well understood. Dramatic chromosome motion and bouquet formation are evolutionarily conserved characteristics of meiotic chromosomes. The budding yeast bouquet genes (<i>NDJ1</i>, <i>MPS3</i>, <i>CSM4</i>) mediate these movements via telomere attachment to the nuclear envelope (NE). Here, we report that during meiosis the NE is in direct contact with vacuoles via nucleus-vacuole junctions (NVJs). We show that in meiosis NVJs are assembled through the interaction of the outer NE-protein Nvj1 and the vacuolar membrane protein Vac8. Notably, NVJs function as diffusion barriers that exclude the nuclear pore complexes, the bouquet protein Mps3 and NE-tethered telomeres from the outer nuclear membrane and nuclear ER, resulting in distorted NEs during early meiosis. An increase in NVJ area resulting from Nvj1-GFP overexpression produced a moderate bouquet mutant-like phenotype in wild-type cells. NVJs, as the vacuolar contact sites of the nucleus, were found to undergo scission alongside the NE during meiotic nuclear division. The zygotic NE and NVJs were partly segregated into 4 spores. Lastly, new NVJs were also revealed to be synthesized de novo to rejoin the zygotic NE with the newly synthesized vacuoles in the mature spores. In conclusion, our results revealed that budding yeast nuclei and vacuoles exhibit dynamic interorganelle interactions and different inheritance patterns in meiosis, and also suggested that <i>nvj1</i>Δ mutant cells may be useful to resolve the technical challenges pertaining to the isolation of intact nuclei for the biochemical study of meiotic nuclear proteins.
DOI: 10.6084/m9.figshare.28472507.v1
title: Interorganelle interactions and inheritance patterns of nuclei and vacuoles in budding yeast meiosis

description: Many of the mechanisms by which organelles are inherited by spores during meiosis are not well understood. Dramatic chromosome motion and bouquet formation are evolutionarily conserved characteristics of meiotic chromosomes. The budding yeast bouquet genes (<i>NDJ1</i>, <i>MPS3</i>, <i>CSM4</i>) mediate these movements via telomere attachment to the nuclear envelope (NE). Here, we report that during meiosis the NE is in direct contact with vacuoles via nucleus-vacuole junctions (NVJs). We show that in meiosis NVJs are assembled through the interaction of the outer NE-protein Nvj1 and the vacuolar membrane protein Vac8. Notably, NVJs function as diffusion barriers that exclude the nuclear pore complexes, the bouquet protein Mps3 and NE-tethered telomeres from the outer nuclear membrane and nuclear ER, resulting in distorted NEs during early meiosis. An increase in NVJ area resulting from Nvj1-GFP overexpression produced a moderate bouquet mutant-like phenotype in wild-type cells. NVJs, as the vacuolar contact sites of the nucleus, were found to undergo scission alongside the NE during meiotic nuclear division. The zygotic NE and NVJs were partly segregated into 4 spores. Lastly, new NVJs were also revealed to be synthesized de novo to rejoin the zygotic NE with the newly synthesized vacuoles in the mature spores. In conclusion, our results revealed that budding yeast nuclei and vacuoles exhibit dynamic interorganelle interactions and different inheritance patterns in meiosis, and also suggested that <i>nvj1</i>Δ mutant cells may be useful to resolve the technical challenges pertaining to the isolation of intact nuclei for the biochemical study of meiotic nuclear proteins.
DOI: 10.6084/m9.figshare.28472513
title: Autophagy and SQSTM1 on the RHOA(d) again

description: Degradation of signaling proteins is one of the most powerful tumor-suppressive mechanisms by which a cell can control its own growth, its survival, and its motility. Emerging evidence suggests that autophagy limits several signaling pathways by degrading kinases, downstream components, and transcription factors; however, this often occurs under stressful conditions. Our recent studies revealed that constitutive autophagy temporally and spatially controls the RHOA pathway. Specifically, inhibition of autophagosome degradation induces the accumulation of the GTP-bound form of RHOA. The active RHOA is sequestered via SQSTM1/p62 within autolysosomes, and accordingly fails to localize to the spindle midbody or to the cell surface, as we demonstrate herein. As a result, all RHOA-downstream responses are deregulated, thus driving cytokinesis failure, aneuploidy and motility, three processes that directly have an impact upon cancer progression. We therefore propose that autophagy acts as a degradative brake for RHOA signaling and thereby controls cell proliferation, migration, and genome stability.
DOI: 10.6084/m9.figshare.28472513.v1
title: Autophagy and SQSTM1 on the RHOA(d) again

description: Degradation of signaling proteins is one of the most powerful tumor-suppressive mechanisms by which a cell can control its own growth, its survival, and its motility. Emerging evidence suggests that autophagy limits several signaling pathways by degrading kinases, downstream components, and transcription factors; however, this often occurs under stressful conditions. Our recent studies revealed that constitutive autophagy temporally and spatially controls the RHOA pathway. Specifically, inhibition of autophagosome degradation induces the accumulation of the GTP-bound form of RHOA. The active RHOA is sequestered via SQSTM1/p62 within autolysosomes, and accordingly fails to localize to the spindle midbody or to the cell surface, as we demonstrate herein. As a result, all RHOA-downstream responses are deregulated, thus driving cytokinesis failure, aneuploidy and motility, three processes that directly have an impact upon cancer progression. We therefore propose that autophagy acts as a degradative brake for RHOA signaling and thereby controls cell proliferation, migration, and genome stability.
DOI: 10.6084/m9.figshare.28472516
title: Characterization of early autophagy signaling by quantitative phosphoproteomics

description: Under conditions of nutrient shortage autophagy is the primary cellular mechanism ensuring availability of substrates for continuous biosynthesis. Subjecting cells to starvation or rapamycin efficiently induces autophagy by inhibiting the MTOR signaling pathway triggering increased autophagic flux. To elucidate the regulation of early signaling events upon autophagy induction, we applied quantitative phosphoproteomics characterizing the temporal phosphorylation dynamics after starvation and rapamycin treatment. We obtained a comprehensive atlas of phosphorylation kinetics within the first 30 min upon induction of autophagy with both treatments affecting widely different cellular processes. The identification of dynamic phosphorylation already after 2 min demonstrates that the earliest events in autophagy signaling occur rapidly after induction. The data was subjected to extensive bioinformatics analysis revealing regulated phosphorylation sites on proteins involved in a wide range of cellular processes and an impact of the treatments on the kinome. To approach the potential function of the identified phosphorylation sites we performed a screen for MAP1LC3-interacting proteins and identified a group of binding partners exhibiting dynamic phosphorylation patterns. The data presented here provide a valuable resource on phosphorylation events underlying early autophagy induction.
DOI: 10.6084/m9.figshare.28472516.v1
title: Characterization of early autophagy signaling by quantitative phosphoproteomics

description: Under conditions of nutrient shortage autophagy is the primary cellular mechanism ensuring availability of substrates for continuous biosynthesis. Subjecting cells to starvation or rapamycin efficiently induces autophagy by inhibiting the MTOR signaling pathway triggering increased autophagic flux. To elucidate the regulation of early signaling events upon autophagy induction, we applied quantitative phosphoproteomics characterizing the temporal phosphorylation dynamics after starvation and rapamycin treatment. We obtained a comprehensive atlas of phosphorylation kinetics within the first 30 min upon induction of autophagy with both treatments affecting widely different cellular processes. The identification of dynamic phosphorylation already after 2 min demonstrates that the earliest events in autophagy signaling occur rapidly after induction. The data was subjected to extensive bioinformatics analysis revealing regulated phosphorylation sites on proteins involved in a wide range of cellular processes and an impact of the treatments on the kinome. To approach the potential function of the identified phosphorylation sites we performed a screen for MAP1LC3-interacting proteins and identified a group of binding partners exhibiting dynamic phosphorylation patterns. The data presented here provide a valuable resource on phosphorylation events underlying early autophagy induction.
DOI: 10.15468/dl.vgwz2k
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Poterium lateriflorum Coss.",
 "Geometry POLYGON((-4.57907617500001 39.884719509, -4.57907617500001 41.165844755, -3.05298331400002 41.165844755, -3.05298331400002 39.884719509, -4.57907617500001 39.884719509))"
 ]
}

 The dataset includes 27 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002986-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8zxhbw
title: Occurrence Download

description: A dataset containing 498 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Taxus cuspidata Siebold & Zucc.",
 "Year 1975-2025"
 ]
}

 The dataset includes 498 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002991-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.arwrvg
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-7.13342 39.04816,-5.89778 39.04816,-5.89778 39.54241,-7.13342 39.54241,-7.13342 39.04816))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pilularia minuta Durieu"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002989-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3334/cdiac/otg.vos_xue_arctic_08
title: Partial pressure (or fugacity) of carbon dioxide, salinity and other variables collected from underway - surface observations using Carbon dioxide (CO2) gas analyzer, Shower head chamber equilibrator for autonomous carbon dioxide (CO2) measurement and other instruments from the XUE LONG in the Arctic Ocean, Bering Sea, and Chukchi Sea from 2008-07-30 to 2008-09-11 (NCEI Accession 0109932)

description: This dataset includes chemical, meteorological, physical and underway - surface data collected from XUE LONG in the Arctic Ocean, Bering Sea, and Chukchi Sea from 2008-07-30 to 2008-09-11 and retrieved during cruise 76XL20080730 (Xue_Arctic08). These data include BAROMETRIC PRESSURE, CARBON DIOXIDE - AIR, CARBON DIOXIDE - PARTIAL PRESSURE - DIFFERENCE, Partial pressure (or fugacity) of carbon dioxide, SALINITY and SEA SURFACE TEMPERATURE. The instruments used to collect these data include Carbon dioxide (CO2) gas analyzer and Shower head chamber equilibrator for autonomous carbon dioxide (CO2) measurement. These data were collected by Rik Wanninkhof of NOAA Atlantic Oceanographic and Meteorological Laboratory (AOML), Liqi Chen and Zhongyong Gao of State Oceanic Administration; Third Institute of Oceanography, and Wei-Jun Cai of University of Delaware as part of the VOS_Xue_Arctic_08 dataset.
DOI: 10.15468/dl.3ecssu
title: Occurrence Download

description: A dataset containing 37229 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Month is one of (January, February)",
 "OccurrenceStatus is Present",
 "TaxonKey is Ardea alba Linnaeus, 1758",
 "Year 2011-2011"
 ]
}

 The dataset includes 37229 records from 128 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002987-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rtxyfy
title: Occurrence Download

description: A dataset containing 1824 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Spain, Portugal)",
 "OccurrenceStatus is Present",
 "TaxonKey is Lynx pardinus (Temminck, 1827)"
 ]
}

 The dataset includes 1824 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002993-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sha4g7
title: Occurrence Download

description: A dataset containing 70268 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "Geometry POLYGON((-12.36756 50.37705,1.70096 50.37705,1.70096 56.00205,-12.36756 56.00205,-12.36756 50.37705))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Betula pendula Roth"
 ]
}

 The dataset includes 70268 records from 146 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002990-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.phycy8
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phelipanche portoilicitana (A.Pujadas & M.B.Crespo) Carlón, G.Gómez, M.Laínz, G.Moreno, Ó.Sánchez & Schneew.",
 "Geometry POLYGON((-4.57907617500001 39.884719509, -4.57907617500001 41.165844755, -3.05298331400002 41.165844755, -3.05298331400002 39.884719509, -4.57907617500001 39.884719509))"
 ]
}

 The dataset includes 22 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002994-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/10840368
title: Trending Youtube Video Statistics (113 Countries)
DOI: 10.15468/dl.s228ke
title: Occurrence Download

description: A dataset containing 634257 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Inventario Español de Especies Terrestres (MAGRAMA)"
 ]
}

 The dataset includes 634257 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002982-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4r5gn3
title: Occurrence Download

description: A dataset containing 867 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Quercus ilex L.)",
 "Country is one of (Spain)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 867 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002997-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qw2v8j
title: Occurrence Download

description: A dataset containing 867 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Quercus ilex L.)",
 "Country is one of (Spain)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 867 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002998-250221090833381/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.