cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.eak5ek
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Urophyllum glomeratum Valeton"
 ]
}

 The dataset includes 9 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0130719-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.56aypa
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-73.29489359048688 -39.855354703087656,-73.17836598372395 -39.855354703087656,-73.17836598372395 -39.73882709632474,-73.29489359048688 -39.73882709632474,-73.29489359048688 -39.855354703087656))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Cheirodon kiliani Campos, 1982"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0062231-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ap6nx2
title: Occurrence Download

description: A dataset containing 1853 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Rhinoclemmys punctularia (Daudin, 1801), Kinosternon scorpioides (Linnaeus, 1766), Chelonoidis carbonarius (Spix, 1824), Chelonoidis denticulatus (Linnaeus, 1766), Chelus fimbriata (Schneider, 1783), Mesoclemmys gibba (Schweigger, 1812), Mesoclemmys nasuta (Schweigger, 1812), Mesoclemmys raniceps (Gray, 1856), Phrynops geoffroanus (Schweigger, 1812), Phrynops tuberosus (Peters, 1870), Platemys platycephala (Schneider, 1792), Rhinemys rufipes (Spix, 1824), Peltocephalus dumerilianus (Schweigger, 1812), Podocnemis erythrocephala Spix, 1824, Podocnemis expansa (Schweigger, 1812), Podocnemis sextuberculata Cornalia, 1849, Podocnemis unifilis Troschel, 1848)"
 ]
}

 The dataset includes 1853 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0130720-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.funkmn
title: Occurrence Download

description: A dataset containing 39042 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cardellina rubrifrons (Giraud Jr, 1841)",
 "Year 2002-2024"
 ]
}

 The dataset includes 39042 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038643-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qs63nu
title: Occurrence Download

description: A dataset containing 532 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Inventory of Bonou and Itchèdè forests in south east of Benin"
 ]
}

 The dataset includes 532 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0123726-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3snzyq
title: Occurrence Download

description: A dataset containing 3245 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Papilio bianor Cramer, 1777"
 ]
}

 The dataset includes 3245 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008496-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.facs4q
title: Occurrence Download

description: A dataset containing 65 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Ovophis tonkinensis (Bourret, 1934)"
 ]
}

 The dataset includes 65 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038667-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7284/166270
title: INS (Inertial Navigation System) data collected during research cruise BH25-02 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166268
title: Meteorological Station data collected during research cruise BH25-02 using a RMYoung 26700 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166266
title: pCO2 (Partial Pressure of Carbon Dioxide) data collected during research cruise BH25-02 using a SUNBURST SuperCO2 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166269
title: Singlebeam Echosounder data collected during research cruise BH25-02 using a Knudsen 1602 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166264
title: TSG (Thermosalinograph) data collected during research cruise BH25-02 using a SeaBird SBE-21 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166429
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise BH25-13 using a Hawaii UHDAS instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166452
title: GNSS (Global Navigation Satellite System) data collected during research cruise BH25-13 using a Furuno GP-170 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166451
title: INS (Inertial Navigation System) data collected during research cruise BH25-13 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.5281/zenodo.15094710
title: Adaptation and resistance of prokaryotic communities in soils under old-growth forest and pasture to drought intensification

description: Overview

This upload contains data and code supporting the manuscript "Adaptation and resistance of soil prokaryotic communities to drought intensification in old-growth forests and pastures of southwestern Amazonia".  

https://doi.org/10.3389/fpls.2025.1684321

Files Included

A. Incubation experiment data

1.1 ASV.xlsx : Amplicon Sequence Variant (ASV) abundance matrix

1.2 Meta.xlsx : Sample information (time, treatment, repetition).

1.3 Tax_proteo_others.xlsx  and 1.4 Taxonomy_phylum_S2.xlsx : taxonomic affiliation of the sequences (Silva Version 138.1)

2.1 Top5_Families.xlsx : Relative abundance of the 5 most abundant families

2.2 Top10_Families.xlsx : Relative abundance of the 10 most abundant families

3.1 BrayCurtis_between_group_df_240910.xlsx : dissimilarity within a treatment and biodiv level

3.2 pairwise_df_no_zero.xlsx : dissimilarity within and between initial soil (t0) prokaryotic communities (primary forest and pasture soils)

4. Physico_chem_t0.xlsx: physicochemical parameters of the initial forest and pasture soils (t0)

5. Flux_all__Inc22.xlsx : CO2 emissions along the incubation experiment

6. Day_69_H2O.xlsx : cumulative C-CO2 emitted at the end of the incubation experiment in+H2O treatments

7. Day_69_Re.xlsx : cumulative C-CO2 emitted at the end of the incubation experiment in +RE treatments

8. C_mass_balance_TableS6_inc_22.xlsx : Carbon balance of each incubation unit including initial and final values of SOC and cumulative C-CO2 emissions at the end of the      incubation experiment

 

B. Scripts

- B1. Phyloseq_plots_stats_Inc22.R : Scripts for statitistical tests and visualizations of Figure 6a and 6b, Tables 3-5 and Table S.7

- B2. Phyloseq_plots_stats_Inc22_part2.R : Scripts for statitistical tests and visualizations of Figure 4, 7 and 8, Tables S.3 and S.4 and Figure S.3

- B3. Phyloseq_plots_stats_Inc22_part3.R : Scripts for statitistical tests and visualizations of Figure S.2

- B4. Stats_pasture_forest_t0.R : Scripts for statitistical tests of Table 2 and Fig 3.B

- B5. Venn_t0_Inc_22.R : Scripts for visualization of Figure 3.A

- B6. GC_fig5a.R : Scripts for visualizations of Figure 5.a

- B7. GC_fig5b.R : Scripts for statitistical tests and visualizations of Figure 5.b

 

Instructions

1. README.text : See "README.txt" for file relationships and execution steps.

* Required R packages and detailed use instructions are provided in the header comments and first lines of each script. 

 

License

This work is licensed under the Creative Commons Attribution 4.0 International License. This material may be freely shared and adapted for new analyses, if you use our databases: (1) cite our original publication and (2) reference our Zenodo repository in any derived works. Thanks a lot!
DOI: 10.5281/zenodo.15094711
title: Adaptation and resistance of prokaryotic communities in soils under old-growth forest and pasture to drought intensification

description: Overview

This upload contains data and code supporting the manuscript "Adaptation and resistance of soil prokaryotic communities to drought intensification in old-growth forests and pastures of southwestern Amazonia".  

https://doi.org/10.3389/fpls.2025.1684321

Files Included

A. Incubation experiment data

1.1 ASV.xlsx : Amplicon Sequence Variant (ASV) abundance matrix

1.2 Meta.xlsx : Sample information (time, treatment, repetition).

1.3 Tax_proteo_others.xlsx  and 1.4 Taxonomy_phylum_S2.xlsx : taxonomic affiliation of the sequences (Silva Version 138.1)

2.1 Top5_Families.xlsx : Relative abundance of the 5 most abundant families

2.2 Top10_Families.xlsx : Relative abundance of the 10 most abundant families

3.1 BrayCurtis_between_group_df_240910.xlsx : dissimilarity within a treatment and biodiv level

3.2 pairwise_df_no_zero.xlsx : dissimilarity within and between initial soil (t0) prokaryotic communities (primary forest and pasture soils)

4. Physico_chem_t0.xlsx: physicochemical parameters of the initial forest and pasture soils (t0)

5. Flux_all__Inc22.xlsx : CO2 emissions along the incubation experiment

6. Day_69_H2O.xlsx : cumulative C-CO2 emitted at the end of the incubation experiment in+H2O treatments

7. Day_69_Re.xlsx : cumulative C-CO2 emitted at the end of the incubation experiment in +RE treatments

8. C_mass_balance_TableS6_inc_22.xlsx : Carbon balance of each incubation unit including initial and final values of SOC and cumulative C-CO2 emissions at the end of the      incubation experiment

 

B. Scripts

- B1. Phyloseq_plots_stats_Inc22.R : Scripts for statitistical tests and visualizations of Figure 6a and 6b, Tables 3-5 and Table S.7

- B2. Phyloseq_plots_stats_Inc22_part2.R : Scripts for statitistical tests and visualizations of Figure 4, 7 and 8, Tables S.3 and S.4 and Figure S.3

- B3. Phyloseq_plots_stats_Inc22_part3.R : Scripts for statitistical tests and visualizations of Figure S.2

- B4. Stats_pasture_forest_t0.R : Scripts for statitistical tests of Table 2 and Fig 3.B

- B5. Venn_t0_Inc_22.R : Scripts for visualization of Figure 3.A

- B6. GC_fig5a.R : Scripts for visualizations of Figure 5.a

- B7. GC_fig5b.R : Scripts for statitistical tests and visualizations of Figure 5.b

 

Instructions

1. README.text : See "README.txt" for file relationships and execution steps.

* Required R packages and detailed use instructions are provided in the header comments and first lines of each script. 

 

License

This work is licensed under the Creative Commons Attribution 4.0 International License. This material may be freely shared and adapted for new analyses, if you use our databases: (1) cite our original publication and (2) reference our Zenodo repository in any derived works. Thanks a lot!
DOI: 10.7284/166449
title: Meteorological Station data collected during research cruise BH25-13 using a RMYoung 26700 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166447
title: pCO2 (Partial Pressure of Carbon Dioxide) data collected during research cruise BH25-13 using a SUNBURST SuperCO2 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166450
title: Singlebeam Echosounder data collected during research cruise BH25-13 using a Knudsen 1602 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166426
title: TSG (Thermosalinograph) data collected during research cruise BH25-13 using a SeaBird SBE-21 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166331
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise BH25-17 using a Hawaii UHDAS instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166390
title: GNSS (Global Navigation Satellite System) data collected during research cruise BH25-17 using a Furuno GP-170 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166387
title: INS (Inertial Navigation System) data collected during research cruise BH25-17 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166380
title: Meteorological Station data collected during research cruise BH25-17 using a RMYoung 26700 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166372
title: pCO2 (Partial Pressure of Carbon Dioxide) data collected during research cruise BH25-17 using a SUNBURST SuperCO2 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166382
title: Singlebeam Echosounder data collected during research cruise BH25-17 using a Knudsen 1602 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166328
title: TSG (Thermosalinograph) data collected during research cruise BH25-17 using a SeaBird SBE-21 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166320
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise BH25-18 using a Hawaii UHDAS instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.17026/ar/mye5do
title: PAN-00177400 - catch plate or anchor plate (book mount)

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00177400&lt;/p&gt;
description: Modified: 2025-09-15T10:01:24+02:00
DOI: 10.7284/166376
title: GNSS (Global Navigation Satellite System) data collected during research cruise BH25-18 using a Furuno GP-170 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166373
title: INS (Inertial Navigation System) data collected during research cruise BH25-18 using a Applanix POS/MV-320 V5 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166370
title: Meteorological Station data collected during research cruise BH25-18 using a RMYoung 26700 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166368
title: pCO2 (Partial Pressure of Carbon Dioxide) data collected during research cruise BH25-18 using a SUNBURST SuperCO2 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166371
title: Singlebeam Echosounder data collected during research cruise BH25-18 using a Knudsen 1602 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/166319
title: TSG (Thermosalinograph) data collected during research cruise BH25-18 using a SeaBird SBE-21 instrument system onboard the platform RV Blue Heron

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.15468/dl.628eyw
title: Occurrence Download

description: A dataset containing 2836720759 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ameiva ameiva, Copeoglossum nigropunctatum, Gonatodes humeralis, Hemidactylus mabouia, Iguana iguana, Kentropyx calcarata, Micrablepharus maximiliani, Notomabuya frenata, Polychrus acutirostris, Salvator merianae, Tropidurus hispidus, Tupinambis teguixin, Animalia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Human Observation, Specimen, Machine Observation, Material sample, Fossil, Observation, Living Specimen, Material citation)"
 ]
}

 The dataset includes 2836720759 records from 54362 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022520-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6eddga
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chimantaea mirabilis Maguire, Steyerm. & Wurdack"
 ]
}

 The dataset includes 35 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0135899-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.95tfvz
title: Occurrence Download

description: A dataset listing the 150 species recorded in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Basidiomycota",
 "Country is one of (Israel)",
 "MediaType is Image"
 ]
}

 The dataset's 150 records were derived from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0421837-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.72j3dg
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Guinea",
 "TaxonKey is Ipomoea imperati (Vahl) Griseb."
 ]
}

 The dataset includes 6 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0135900-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.alejox
title: Occurrence Download

description: A dataset containing 367 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Morocco",
 "Country is Spain"
 ]
 },
 "TaxonKey is Testudo graeca Linnaeus, 1758"
 ]
}

 The dataset includes 367 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011356-200127171203522/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ap2ynx
title: Occurrence Download

description: A dataset containing 3120 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Saccorhiza polyschides (Lightf.) Batters",
 "Year 2000-2021"
 ]
}

 The dataset includes 3120 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011113-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cy286f
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chalcides ebneri Werner, 1931"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0275905-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8uhc96
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Polytoca massiei (Balansa) Schenck ex Henrard"
 ]
}

 The dataset includes 44 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0135921-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dwteln
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Rhachidelus brazili Boulenger, 1908",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 6 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001834-180412121330197/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hnawbe
title: Occurrence Download

description: A dataset containing 985 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "Geometry POLYGON((-87.68681 41.8447,-87.5806 41.8447,-87.5806 41.92513,-87.68681 41.92513,-87.68681 41.8447))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Sphyrapicus varius (Linnaeus, 1766)",
 "Year 2018-2021"
 ]
}

 The dataset includes 985 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0278512-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7hpgk5
title: Occurrence Download

description: A dataset containing 484 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Marchantiopsida",
 "HasCoordinate is true",
 "Country is one of (Austria)",
 "HasGeospatialIssue is false",
 "Year is greater than 2009"
 ]
}

 The dataset includes 484 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0212474-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.