cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.18014530
title: The composition of motor recovery revealed by syllable-level behavioral analysis after spinal cord injury

description: Raw data and scripts used in manuscript.
DOI: 10.5281/zenodo.18014529
title: The composition of motor recovery revealed by syllable-level behavioral analysis after spinal cord injury

description: Raw data and scripts used in manuscript.
DOI: 10.5281/zenodo.18120723
title: Linked collectors and determiners for: Revision of Alaptus (Hymenoptera: Mymaridae) in the Holarctic region, with taxonomic notes on some extralimital species.

description: Natural history specimen data linked to collectors and determiners held within, "Revision of Alaptus (Hymenoptera: Mymaridae) in the Holarctic region, with taxonomic notes on some extralimital species". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bd2c96f3-38a4-4d90-85d6-9b90db5936fe using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bd2c96f3-38a4-4d90-85d6-9b90db5936fe. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120724
title: Linked collectors and determiners for: CAREC Amphibians.

description: Natural history specimen data linked to collectors and determiners held within, "CAREC Amphibians". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bd702991-e1e7-4770-b8ba-aecd8bdf9e63 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bd702991-e1e7-4770-b8ba-aecd8bdf9e63. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120731
title: Linked collectors and determiners for: PACA-Bryophytes - Herbarium Anchieta - Aloysio Sehnem.

description: Natural history specimen data linked to collectors and determiners held within, "PACA-Bryophytes - Herbarium Anchieta - Aloysio Sehnem". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bd87f432-1b92-4494-894b-e3f0b1eca64d using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bd87f432-1b92-4494-894b-e3f0b1eca64d. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120734
title: Linked collectors and determiners for: Caracterización biológica en la Serranía de San Lucas 2015.

description: Natural history specimen data linked to collectors and determiners held within, "Caracterización biológica en la Serranía de San Lucas 2015". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bdb3951b-1b8a-446d-8820-22ce0a2ea380 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bdb3951b-1b8a-446d-8820-22ce0a2ea380. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120742
title: Linked collectors and determiners for: A revision of the genus Mesoconius Enderlein (Diptera, Micropezidae, Taeniapterinae).

description: Natural history specimen data linked to collectors and determiners held within, "A revision of the genus Mesoconius Enderlein (Diptera, Micropezidae, Taeniapterinae)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bdc12bce-f24c-4713-8026-a1aee4193ef5 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bdc12bce-f24c-4713-8026-a1aee4193ef5. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120375
title: Global Catalog of SARS-CoV-2 Receptor-Binding Domain (RBD) Haplotypes (Spike 319 - 541), 2020 - 2025

description: This dataset presents a comprehensive, population-scale analysis of the SARS-CoV-2 spike protein’s Receptor-Binding Domain (RBD), defined as residues 319 - 541 (Wuhan-Hu-1 reference, GenBank YP_009724389.1). Built from 9.4 million global viral genomes (2020 - 2025), it provides a real-time map of natural variation across the RBD, a region of critical importance for ACE2 binding, immune recognition, and therapeutic targeting.

To stress-test the resilience of this domain we:

Extracted all naturally occurring RBD haplotypes (n = 435,723),Quantified yearly frequencies of escape-associated substitutions at 16 key positions,Tracked erosion of reference residues over time,Profiled codon usage dynamics as a proxy for host-driven selection,Mapped the observed vs. theoretical escape landscape across functionally critical sites.

Our analysis reveals that the RBD has undergone rapid, convergent evolution, with a small set of high-fitness haplotypes dominating global circulation by 2023. Notably, residues previously implicated in high-affinity binding to human receptors and neutralizing antibodies show near-complete replacement in contemporary lineages suggesting that the functional integrity of certain epitope architectures may no longer reflect the in vitro reference.

This resource is intended for:

Viral evolutionary biologists,Therapeutic developers assessing epitope durability,Public health agencies monitoring variant risk,Computational researchers modeling immune escape.

All data is provided in open, machine-readable formats (FASTA, TSV, CSV), with full reproducibility. Analyses were conducted independently by Tahir HB using command-line bioinformatics infrastructure and population-genomic principles.

No external funding or institutional affiliation was involved.

 
description: It is striking that SARS-CoV-2 achieves near-complete escape from certain therapeutic pressures while exploring less than 0.0000003% of its theoretically possible mutational space in the RBD. This is not a sign of randomness, but of extreme evolutionary constraint: the virus repeatedly converges on the same high-fitness haplotypes across continents and time.

Under a null model of neutral drift where each observed amino acid at 16 key RBD positions is sampled uniformly at random, the most frequent haplotype (seen in 27.7% of all sequences) would be expected to occur essentially never (probability < 10⁻²⁰).

In reality, it appears over 2.6 million times in this dataset alone, enriched by more than 10¹⁹-fold over expectation.

This overwhelming statistical signal confirms that RBD evolution is non-random, deterministic, and fitness-driven. Therapeutic vulnerability, therefore, does not arise from the virus "trying everything." Instead, it emerges because evolution funnels the virus through a narrow corridor of optimal escape routes many of which are already fixed in global circulation.

This dataset captures that corridor in full resolution.
DOI: 10.5281/zenodo.18120374
title: Global Catalog of SARS-CoV-2 Receptor-Binding Domain (RBD) Haplotypes (Spike 319 - 541), 2020 - 2025

description: This dataset presents a comprehensive, population-scale analysis of the SARS-CoV-2 spike protein’s Receptor-Binding Domain (RBD), defined as residues 319 - 541 (Wuhan-Hu-1 reference, GenBank YP_009724389.1). Built from 9.4 million global viral genomes (2020 - 2025), it provides a real-time map of natural variation across the RBD, a region of critical importance for ACE2 binding, immune recognition, and therapeutic targeting.

To stress-test the resilience of this domain we:

Extracted all naturally occurring RBD haplotypes (n = 435,723),Quantified yearly frequencies of escape-associated substitutions at 16 key positions,Tracked erosion of reference residues over time,Profiled codon usage dynamics as a proxy for host-driven selection,Mapped the observed vs. theoretical escape landscape across functionally critical sites.

Our analysis reveals that the RBD has undergone rapid, convergent evolution, with a small set of high-fitness haplotypes dominating global circulation by 2023. Notably, residues previously implicated in high-affinity binding to human receptors and neutralizing antibodies show near-complete replacement in contemporary lineages suggesting that the functional integrity of certain epitope architectures may no longer reflect the in vitro reference.

This resource is intended for:

Viral evolutionary biologists,Therapeutic developers assessing epitope durability,Public health agencies monitoring variant risk,Computational researchers modeling immune escape.

All data is provided in open, machine-readable formats (FASTA, TSV, CSV), with full reproducibility. Analyses were conducted independently by Tahir HB using command-line bioinformatics infrastructure and population-genomic principles.

No external funding or institutional affiliation was involved.

 
description: It is striking that SARS-CoV-2 achieves near-complete escape from certain therapeutic pressures while exploring less than 0.0000003% of its theoretically possible mutational space in the RBD. This is not a sign of randomness, but of extreme evolutionary constraint: the virus repeatedly converges on the same high-fitness haplotypes across continents and time.

Under a null model of neutral drift where each observed amino acid at 16 key RBD positions is sampled uniformly at random, the most frequent haplotype (seen in 27.7% of all sequences) would be expected to occur essentially never (probability < 10⁻²⁰).

In reality, it appears over 2.6 million times in this dataset alone, enriched by more than 10¹⁹-fold over expectation.

This overwhelming statistical signal confirms that RBD evolution is non-random, deterministic, and fitness-driven. Therapeutic vulnerability, therefore, does not arise from the virus "trying everything." Instead, it emerges because evolution funnels the virus through a narrow corridor of optimal escape routes many of which are already fixed in global circulation.

This dataset captures that corridor in full resolution.
DOI: 10.5281/zenodo.18120743
title: Linked collectors and determiners for: Colección del Herbario PSO de la Universidad de Nariño.

description: Natural history specimen data linked to collectors and determiners held within, "Colección del Herbario PSO de la Universidad de Nariño". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bdd4a614-fb1f-4f0a-a559-478f022baafb using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bdd4a614-fb1f-4f0a-a559-478f022baafb. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120744
title: Linked collectors and determiners for: WNMU Bird Collection (Arctos).

description: Natural history specimen data linked to collectors and determiners held within, "WNMU Bird Collection (Arctos)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bdce0b4b-9ec3-481b-9f44-683ac1844d1d using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bdce0b4b-9ec3-481b-9f44-683ac1844d1d. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120747
title: Linked collectors and determiners for: Actualización de la base de datos sobre la flora de la Reserva de la Biósfera Sierra de Manantlán, Jalisco-Colima, México.

description: Natural history specimen data linked to collectors and determiners held within, "Actualización de la base de datos sobre la flora de la Reserva de la Biósfera Sierra de Manantlán, Jalisco-Colima, México". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bddca4a4-60b5-4db5-95fa-be0cce979d3a using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bddca4a4-60b5-4db5-95fa-be0cce979d3a. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120750
title: Linked collectors and determiners for: Specimen references on the Sapotaceae family held by the TAN Herbarium.

description: Natural history specimen data linked to collectors and determiners held within, "Specimen references on the Sapotaceae family held by the TAN Herbarium". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/bddfce7e-8a19-4ee3-825c-b3d6e9e2220d using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/bddfce7e-8a19-4ee3-825c-b3d6e9e2220d. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120751
title: Linked collectors and determiners for: Invertebrates of the Gothenburg Natural History Museum (GNM).

description: Natural history specimen data linked to collectors and determiners held within, "Invertebrates of the Gothenburg Natural History Museum (GNM)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/be07e8c1-0d79-4e39-9697-2a9ec687f8f8 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/be07e8c1-0d79-4e39-9697-2a9ec687f8f8. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120752
title: Linked collectors and determiners for: University of Michigan Museum of Zoology, Division of Birds.

description: Natural history specimen data linked to collectors and determiners held within, "University of Michigan Museum of Zoology, Division of Birds". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/be5507b9-7abf-4b69-afe1-5ca2b7561734 using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/be5507b9-7abf-4b69-afe1-5ca2b7561734. Formatted as a Frictionless Data package.
DOI: 10.5281/zenodo.18120753
title: Linked collectors and determiners for: A new spider species, Heser stoevi sp. nov., from Turkmenistan (Araneae: Gnaphosidae).

description: Natural history specimen data linked to collectors and determiners held within, "A new spider species, Heser stoevi sp. nov., from Turkmenistan (Araneae: Gnaphosidae)". Claims or attributions were made on Bionomia by volunteer Scribes, https://bionomia.net/dataset/be62e2f5-e871-407c-8e58-3e2200bf3d2b using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, https://gbif.org/dataset/be62e2f5-e871-407c-8e58-3e2200bf3d2b. Formatted as a Frictionless Data package.
DOI: 10.15468/dl.d48j9h
title: Occurrence Download

description: A dataset containing 48979 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Anaphalis margaritacea",
 "HasCoordinate is true"
 ]
}

 The dataset includes 48979 records from 415 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0070582-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wvecrx
title: Occurrence Download

description: A dataset containing 45126 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Non-vertebrate Paleontology, Jackson School Museum of Earth History, University of Texas at Austin",
 "Issue is Taxon match none"
 ]
}

 The dataset includes 45126 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076591-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.htvjy7
title: Occurrence Download

description: A dataset containing 7476333 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA.30_1",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 7476333 records from 656 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076530-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eb6qu2
title: Occurrence Download

description: A dataset containing 247173 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Turdus fuscater Orbigny & Lafresnaye, 1837"
 ]
}

 The dataset includes 247173 records from 262 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076473-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13351785
title: plastid:v24.8.1

description: kraken2 DB for plastids built with masking option. Contains 15240 accession numbers corresponding to 15223 unique taxons.
DOI: 10.5281/zenodo.13351786
title: plastid:v24.8.1

description: kraken2 DB for plastids built with masking option. Contains 15240 accession numbers corresponding to 15223 unique taxons.
DOI: 10.26207/zvsy-yd62
title: Dataset: Response of carbon cycling to climatic and anthropogenic perturbations in two North American subtropical estuaries (NASA contract number NNX17AH03G)
DOI: 10.15468/dl.5asgph
title: Occurrence Download

description: A dataset containing 3880 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "HasCoordinate is true",
 "Geometry POLYGON Z ((-117.0852 36.91202 0, -116.9778 36.83071 0, -116.9063 36.77715 0, -116.8767 36.75596 0, -116.8511 36.73539 0, -116.8394 36.72604 0, -116.8269 36.71918 0, -116.7842 36.68613 0, -116.7515 36.6593 0, -116.6807 36.71045 0, -116.6457 36.73993 0, -116.6008 36.79179 0, -116.5537 36.824 0, -116.5541 36.84195 0, -116.5531 36.91567 0, -116.5536 36.99232 0, -116.5534 37.01625 0, -116.5718 37.0316 0, -116.5897 37.04632 0, -116.6143 37.06629 0, -116.6321 37.08517 0, -116.638 37.09853 0, -116.6538 37.10876 0, -116.6735 37.11976 0, -116.6981 37.12605 0, -116.7903 37.16966 0, -116.9165 37.24033 0, -116.9401 37.25289 0, -116.9766 37.28035 0, -116.9954 37.29525 0, -117.0235 37.308 0, -117.0391 37.30777 0, -117.0532 37.30297 0, -117.1054 37.26445 0, -117.1199 37.23943 0, -117.1272 37.22211 0, -117.1583 37.1573 0, -117.2376 37.09404 0, -117.2765 37.07232 0, -117.2866 37.06115 0, -117.2205 37.01396 0, -117.1587 36.96865 0, -117.0852 36.91202 0))"
 ]
}

 The dataset includes 3880 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076592-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pxd4u9
title: Occurrence Download

description: A dataset containing 12124172 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Ecuador"
 ]
}

 The dataset includes 12124172 records from 2247 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0076554-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yqhxmk
title: Occurrence Download

description: A dataset containing 29 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ghana",
 "TaxonKey is Sphenostylis stenocarpa (Hochst. ex A.Rich.) Harms"
 ]
}

 The dataset includes 29 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0107322-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d28aj8
title: Occurrence Download

description: A dataset containing 40381 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "PublishingOrg is 28eb1a3f-1c15-4a95-931a-4af90ecb574d",
 "TaxonKey is Vulpes vulpes (Linnaeus, 1758)"
 ]
}

 The dataset includes 40381 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0074509-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3bgexu
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendrochiton semiliratus S.S.Berry, 1927"
 ]
}

 The dataset includes 11 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075897-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f8czat
title: Occurrence Download

description: A dataset containing 208 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Philodendron wullschlaegelii Schott"
 ]
}

 The dataset includes 208 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0074514-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fzbnwh
title: Occurrence Download

description: A dataset containing 83 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Argentina",
 "TaxonKey is Lythrum maritimum Kunth"
 ]
}

 The dataset includes 83 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0107335-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fbzbrr
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhodospatha forgetii N.E.Br."
 ]
}

 The dataset includes 6 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102858-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.53pk22
title: Occurrence Download

description: A dataset containing 4279 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Modiolula phaseolina (R.A.Philippi, 1844)"
 ]
}

 The dataset includes 4279 records from 93 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0107359-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.836mqh
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Crataegus anomala Sarg.",
 {
 "not" : {
 "Country" : [
 "is United States of America"
 ]
 }
 },
 {
 "not" : {
 "Country" : [
 "is unknown or invalid"
 ]
 }
 },
 {
 "not" : {
 "Country" : [
 "is United States"
 ]
 }
 },
 {
 "not" : {
 "Country" : [
 "is United States of America"
 ]
 }
 },
 {
 "not" : {
 "Country" : [
 "is Canada"
 ]
 }
 },
 {
 "not" : {
 "Country" : [
 "is Canada"
 ]
 }
 },
 {
 "not" : {
 "Continent" : [
 "is North America"
 ]
 }
 }
 ]
}

 The dataset includes 155 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045670-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9crpeq
title: Occurrence Download

description: A dataset containing 505 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Terebra anilis (Röding, 1798)"
 ]
}

 The dataset includes 505 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0099983-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.