cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.qycm67
title: Occurrence Download

description: A dataset listing the 3469 species recorded in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "PublishingCountry is Colombia",
 {
 "and" : [
 "Country is Colombia",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 }
 ]
 },
 {
 "and" : [
 "TaxonKey is one of (Plantae [GBIF Backbone Taxonomy])",
 "GadmGid is one of (COL.16_2)",
 "StateProvince is one of (Guainía)"
 ]
 }
 ]
}

 The dataset's 3469 records were derived from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046078-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14947844
title: Assessing CO2 fluxes during enhanced weathering from soils through a mesocosm lens

description: It is becoming increasingly accepted that annual gigatonne-scale CO2 removal, in conjunction with rapid decarbonization, is necessary to meet international climate goals and limit global warming below 2°C. This is going to require the development and rapid scaling of new forms of carbon management. When developing new CDR techniques, it is essential to ensure that there is complete accounting of how the process affects greenhouse gas fluxes. Enhanced weathering (EW), the spreading of finely ground weatherable, cation-rich crushed rocks to soils, has the potential to sequester significant amounts of CO2 while improving soil health. However, the effect of EW affiliated increases in soil pH on soil organic carbon (SOC) decomposition and CO2 efflux from soils remain debated. It has been proposed that increasing soil pH can lead to enhanced SOC remineralization. To move forward this debate, we present CO2 flux and soil carbon pool data from a greenhouse study in large mesocosms. We focused on mildly acidic soil in which, on short time scales, cations from weathering quantitively move into the exchangeable fraction in soils. Therefore, gas fluxes changes should be largely linked to changes in SOC stores. We find no significant correlation between CO2 fluxes and soil pH and no significant correlation between CO2 fluxes and rock application. Although this does not rule out a link between soil pH and SOC remineralization rates, the effect is small relative to other factors, like temperature and soil moisture. Although minor increases in total inorganic carbon were observed in basalt-amended soils, these increases did not support a direct link between soil pH and increased CO2 emissions. We observed a small increase in soil total organic carbon stocks in basalt amended mesocosms, but this change was also not significant enough to drive a shift in observed soil CO2 fluxes.
DOI: 10.5281/zenodo.16814380
title: Assessing CO2 fluxes during enhanced weathering from soils through a mesocosm lens

description: It is becoming increasingly accepted that annual gigatonne-scale CO2 removal, in conjunction with rapid decarbonization, is necessary to meet international climate goals and limit global warming below 2°C. This is going to require the development and rapid scaling of new forms of carbon management. When developing new CDR techniques, it is essential to ensure that there is complete accounting of how the process affects greenhouse gas fluxes. Enhanced weathering (EW), the spreading of finely ground weatherable, cation-rich crushed rocks to soils, has the potential to sequester significant amounts of CO2 while improving soil health. However, the effect of EW affiliated increases in soil pH on soil organic carbon (SOC) decomposition and CO2 efflux from soils remain debated. It has been proposed that increasing soil pH can lead to enhanced SOC remineralization. To move forward this debate, we present CO2 flux and soil carbon pool data from a greenhouse study in large mesocosms. We focused on mildly acidic soil in which, on short time scales, cations from weathering quantitively move into the exchangeable fraction in soils. Therefore, gas fluxes changes should be largely linked to changes in SOC stores. We find no significant correlation between CO2 fluxes and soil pH and no significant correlation between CO2 fluxes and rock application. Although this does not rule out a link between soil pH and SOC remineralization rates, the effect is small relative to other factors, like temperature and soil moisture. Although minor increases in total inorganic carbon were observed in basalt-amended soils, these increases did not support a direct link between soil pH and increased CO2 emissions. We observed a small increase in soil total organic carbon stocks in basalt amended mesocosms, but this change was also not significant enough to drive a shift in observed soil CO2 fluxes.
DOI: 10.5281/zenodo.17087330
title: Dataset and codes for: Multi-scale environmental drivers of aquatic insect communities in Cerrado streams

description: Dataset of aquatic insects (Ephemeroptera, Plecoptera, and Tichoptera) sampled on streams in Cerrado.
DOI: 10.5281/zenodo.17087331
title: Dataset and codes for: Multi-scale environmental drivers of aquatic insect communities in Cerrado streams

description: Dataset of aquatic insects (Ephemeroptera, Plecoptera, and Tichoptera) sampled on streams in Cerrado.
DOI: 10.6084/m9.figshare.28124040
title: <i>Penicillium psychrofluorescens</i> sp. nov., a naturally autofluorescent Antarctic fungus

description: A new fungal species, <i>Penicillium psychrofluorescens</i> sp. nov. is described as a member of section <i>Torulomyces</i>. The new species is sister to <i>P. catalonicum</i>, and was isolated from soil collected from Robinson Ridge, East Antarctica, following enrichment cultivation under oligotrophic conditions supplemented with excess hydrogen gas. <i>Penicillium psychrofluorescens</i> is named for its intense autofluorescence derived from a combination of compounds that may include NADPH, porphyrins, and secondary metabolites, such as polyketides. Comparative genomics with both Antarctic and mesophilic <i>Penicillium</i> spp. shows that <i>Penicillium psychrofluorescens</i> has a wide repertoire of glycoside hydrolases, but almost no polysaccharide lyases, has comparably large effector proteins, lacks the machinery to use nitrate as an N-source, but has the genes for the assimilation of phosphorus from phosphonates via oxidative pathway. The strain was found to have 30 biosynthetic gene clusters (BGCs), the majority of which were unrelated to known compound BGCs. Given the remarkable diversity of natural products already characterised from <i>Penicillium</i> spp. and the presence of &gt;30 BGCs with low similarity to known genes, there is biotechnological potential within this novel species that is yet to be explored.
DOI: 10.6084/m9.figshare.28124040.v2
title: <i>Penicillium psychrofluorescens</i> sp. nov., a naturally autofluorescent Antarctic fungus

description: A new fungal species, <i>Penicillium psychrofluorescens</i> sp. nov. is described as a member of section <i>Torulomyces</i>. The new species is sister to <i>P. catalonicum</i>, and was isolated from soil collected from Robinson Ridge, East Antarctica, following enrichment cultivation under oligotrophic conditions supplemented with excess hydrogen gas. <i>Penicillium psychrofluorescens</i> is named for its intense autofluorescence derived from a combination of compounds that may include NADPH, porphyrins, and secondary metabolites, such as polyketides. Comparative genomics with both Antarctic and mesophilic <i>Penicillium</i> spp. shows that <i>Penicillium psychrofluorescens</i> has a wide repertoire of glycoside hydrolases, but almost no polysaccharide lyases, has comparably large effector proteins, lacks the machinery to use nitrate as an N-source, but has the genes for the assimilation of phosphorus from phosphonates via oxidative pathway. The strain was found to have 30 biosynthetic gene clusters (BGCs), the majority of which were unrelated to known compound BGCs. Given the remarkable diversity of natural products already characterised from <i>Penicillium</i> spp. and the presence of &gt;30 BGCs with low similarity to known genes, there is biotechnological potential within this novel species that is yet to be explored.
DOI: 10.6084/m9.figshare.28124040.v1
title: <i>Penicillium psychrofluorescens</i> sp. nov., a naturally autofluorescent Antarctic fungus

description: A new fungal species, <i>Penicillium psychrofluorescens</i> sp. nov. is described as a member of section <i>Torulomyces</i>. The new species is sister to <i>P. catalonicum</i>, and was isolated from soil collected from Robinson Ridge, East Antarctica, following enrichment cultivation under oligotrophic conditions supplemented with excess hydrogen gas. <i>Penicillium psychrofluorescens</i> is named for its intense autofluorescence derived from a combination of compounds that may include NADPH, porphyrins, and secondary metabolites, such as polyketides. Comparative genomics with both Antarctic and mesophilic <i>Penicillium</i> spp. shows that <i>Penicillium psychrofluorescens</i> has a wide repertoire of glycoside hydrolases, but almost no polysaccharide lyases, has comparably large effector proteins, lacks the machinery to use nitrate as an N-source, but has the genes for the assimilation of phosphorus from phosphonates via oxidative pathway. The strain was found to have 30 biosynthetic gene clusters (BGCs), the majority of which were unrelated to known compound BGCs. Given the remarkable diversity of natural products already characterised from <i>Penicillium</i> spp. and the presence of &gt;30 BGCs with low similarity to known genes, there is biotechnological potential within this novel species that is yet to be explored.
DOI: 10.6084/m9.figshare.28441558
title: Prevalence, drug resistance and genetic diversity of <i>Candida glabrata</i> in the reproductive tract of pregnant women in Hainan and comparison with global multilocus sequence data

description: This study investigates the prevalence, drug resistance, and genetic diversity of <i>Candida glabrata</i>, a significant non-albicans <i>Candida</i> species, among pregnant women in Hainan, China. We collected 3,806 reproductive tract secretion samples from women with vaginal discomfort and isolated 594 <i>Candida</i> strains, including <i>C. albicans</i> (45.1%), <i>C. glabrata</i> (36.2%), <i>C. dubliniensis</i> (12.2%), <i>C. parapsilosis</i> (2.7%), <i>C. tropicalis</i> (2.7%), and <i>C. krusei</i> (1.2%). Antifungal susceptibility testing showed that 64.5% of the isolates were intermediate or resistant to at least one of four antifungal agents: fluconazole, itraconazole, voriconazole, and amphotericin B. Among 215 <i>C. glabrata</i> isolates, 81.4% were intermediate or resistant to at least one antifungal, with 10% showing resistance to multiple agents. Multilocus sequence typing (MLST) of 52 <i>C. glabrata</i> strains from the reproductive tract, 53 from oral cavities, and 17 from environmental sources revealed 14 sequence types (STs), with six STs shared among these niches, indicating a highly clonal population structure. Comparisons with the global MLST database showed both shared and distinct characteristics among <i>C. glabrata</i> populations in Hainan and other regions, highlighting significant differentiation. We discuss the implications of these findings to the epidemiology and evolution of this pathogen.
DOI: 10.6084/m9.figshare.28441558.v1
title: Prevalence, drug resistance and genetic diversity of <i>Candida glabrata</i> in the reproductive tract of pregnant women in Hainan and comparison with global multilocus sequence data

description: This study investigates the prevalence, drug resistance, and genetic diversity of <i>Candida glabrata</i>, a significant non-albicans <i>Candida</i> species, among pregnant women in Hainan, China. We collected 3,806 reproductive tract secretion samples from women with vaginal discomfort and isolated 594 <i>Candida</i> strains, including <i>C. albicans</i> (45.1%), <i>C. glabrata</i> (36.2%), <i>C. dubliniensis</i> (12.2%), <i>C. parapsilosis</i> (2.7%), <i>C. tropicalis</i> (2.7%), and <i>C. krusei</i> (1.2%). Antifungal susceptibility testing showed that 64.5% of the isolates were intermediate or resistant to at least one of four antifungal agents: fluconazole, itraconazole, voriconazole, and amphotericin B. Among 215 <i>C. glabrata</i> isolates, 81.4% were intermediate or resistant to at least one antifungal, with 10% showing resistance to multiple agents. Multilocus sequence typing (MLST) of 52 <i>C. glabrata</i> strains from the reproductive tract, 53 from oral cavities, and 17 from environmental sources revealed 14 sequence types (STs), with six STs shared among these niches, indicating a highly clonal population structure. Comparisons with the global MLST database showed both shared and distinct characteristics among <i>C. glabrata</i> populations in Hainan and other regions, highlighting significant differentiation. We discuss the implications of these findings to the epidemiology and evolution of this pathogen.
DOI: 10.6084/m9.figshare.30069154
title: Supplementary material

description: Parasites can provide powerful insights into host evolution and biogeography. The bird <i>Sapayoa aenigma,</i><i> </i>the only Neotropical member of the otherwise Old World clade Eurylaimides,<i> </i>has long puzzled ornithologists due to its phylogenetic placement and uncertain biogeographic origin. To shed light on this puzzle, we investigated the evolutionary origin of a louse in the genus <i>Myrsidea</i> found on <i>Sapayoa</i>. Using genome-wide data from 92 <i>Myrsidea</i><i> </i>specimens sampled across oscine, suboscine, and non-passerine hosts, we reconstructed a global phylogeny to evaluate hypotheses about the origin of <i>Sapayoa</i> and its parasite. Phylogenomic, molecular dating, and cophylogenetic analyses support a scenario in which the <i>Myrside</i>a lineage on<i> </i><i>Sapayoa</i> originated outside the Neotropics and was acquired via host-switching from an Old World oscine. The parasite’s divergence time (24.4–17.9 Ma) postdates the estimated split between <i>Sapayoa</i>and other Eurylaimides, ruling out strict codivergence. Ancestral host reconstruction supports an oscine origin and Old World acquisition, while biogeographic reconstruction yielded nearly equal probabilities for Neotropical and Afrotropical origins, highlighting uncertainty in its ancestral range. Taken together, these findings support a co-dispersal scenario in which <i>Sapayoa</i> acquired its parasite in the Old World and brought it to the Neotropics during colonization. This parasite-based perspective provides novel support for the Old World origin (colonizer) hypothesis for <i>Sapayoa</i>. More broadly, our study highlights the value of permanent parasites as complementary tools for disentangling complex evolutionary and biogeographic histories.
DOI: 10.6084/m9.figshare.30069154.v1
title: Supplementary material

description: Parasites can provide powerful insights into host evolution and biogeography. The bird <i>Sapayoa aenigma,</i><i> </i>the only Neotropical member of the otherwise Old World clade Eurylaimides,<i> </i>has long puzzled ornithologists due to its phylogenetic placement and uncertain biogeographic origin. To shed light on this puzzle, we investigated the evolutionary origin of a louse in the genus <i>Myrsidea</i> found on <i>Sapayoa</i>. Using genome-wide data from 92 <i>Myrsidea</i><i> </i>specimens sampled across oscine, suboscine, and non-passerine hosts, we reconstructed a global phylogeny to evaluate hypotheses about the origin of <i>Sapayoa</i> and its parasite. Phylogenomic, molecular dating, and cophylogenetic analyses support a scenario in which the <i>Myrside</i>a lineage on<i> </i><i>Sapayoa</i> originated outside the Neotropics and was acquired via host-switching from an Old World oscine. The parasite’s divergence time (24.4–17.9 Ma) postdates the estimated split between <i>Sapayoa</i>and other Eurylaimides, ruling out strict codivergence. Ancestral host reconstruction supports an oscine origin and Old World acquisition, while biogeographic reconstruction yielded nearly equal probabilities for Neotropical and Afrotropical origins, highlighting uncertainty in its ancestral range. Taken together, these findings support a co-dispersal scenario in which <i>Sapayoa</i> acquired its parasite in the Old World and brought it to the Neotropics during colonization. This parasite-based perspective provides novel support for the Old World origin (colonizer) hypothesis for <i>Sapayoa</i>. More broadly, our study highlights the value of permanent parasites as complementary tools for disentangling complex evolutionary and biogeographic histories.
DOI: 10.6084/m9.figshare.28443959
title: Unraveling the mycobiota of Daqu at the species level using metabarcoding of full-length ITS sequences

description: Daqu, the starter used in Baijiu making process, is produced by spontaneous solid-state fermentation and contains numerous microbes and enzymes, significantly influencing the yield and flavour profile of Baijiu. In this study, we employed a full-length ITS metabarcoding approach using the PacBio sequencing technology to investigate the fungal diversity in 296 samples of low- (LTD), medium- (MTD) and high-temperature Daqu (HTD) collected from 10 provinces in China. In total, we identified 86 species or species groups in the fungal communities of Daqu. The fungal communities of the three types of Daqu were significantly different and the differences were also associated with their geographical origins. <i>Ascoideales</i> (relative abundance 21.04%), <i>Pichiales</i> (15.38%), <i>Mucorales</i> (39.54%) and <i>Eurotiales</i> (19.96%) totally accounted for 95.92% of the fungal community of the Daqu samples. The former two were significantly enriched in the LTD samples and the latter two in the MTD and HTD samples, respectively. We also identified the distinct fungal species that showed differential enrichment within each Daqu type as well as among samples of the same type originating from different regions. These findings offer a deeper insight into the fungal communities associated with various Daqu types and their geographical origins at the species level.
DOI: 10.6084/m9.figshare.28443959.v1
title: Unraveling the mycobiota of Daqu at the species level using metabarcoding of full-length ITS sequences

description: Daqu, the starter used in Baijiu making process, is produced by spontaneous solid-state fermentation and contains numerous microbes and enzymes, significantly influencing the yield and flavour profile of Baijiu. In this study, we employed a full-length ITS metabarcoding approach using the PacBio sequencing technology to investigate the fungal diversity in 296 samples of low- (LTD), medium- (MTD) and high-temperature Daqu (HTD) collected from 10 provinces in China. In total, we identified 86 species or species groups in the fungal communities of Daqu. The fungal communities of the three types of Daqu were significantly different and the differences were also associated with their geographical origins. <i>Ascoideales</i> (relative abundance 21.04%), <i>Pichiales</i> (15.38%), <i>Mucorales</i> (39.54%) and <i>Eurotiales</i> (19.96%) totally accounted for 95.92% of the fungal community of the Daqu samples. The former two were significantly enriched in the LTD samples and the latter two in the MTD and HTD samples, respectively. We also identified the distinct fungal species that showed differential enrichment within each Daqu type as well as among samples of the same type originating from different regions. These findings offer a deeper insight into the fungal communities associated with various Daqu types and their geographical origins at the species level.
DOI: 10.15468/dl.bxmwek
title: Occurrence Download

description: A dataset containing 492 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gelasia villosa",
 "Country is one of (Bosnia and Herzegovina, Croatia, Italy, Kosovo, Montenegro, Serbia, Slovenia)"
 ]
}

 The dataset includes 492 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046111-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.44r64a
title: Occurrence Download

description: A dataset containing 202 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Potentilla apennina",
 "Country is one of (Albania, Bosnia and Herzegovina, Greece, Italy, Kosovo, Montenegro, North Macedonia, Serbia)"
 ]
}

 The dataset includes 202 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046112-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.30069151
title: Data availability

description: Parasites can provide powerful insights into host evolution and biogeography. The bird <i>Sapayoa aenigma,</i><i> </i>the only Neotropical member of the otherwise Old World clade Eurylaimides,<i> </i>has long puzzled ornithologists due to its phylogenetic placement and uncertain biogeographic origin. To shed light on this puzzle, we investigated the evolutionary origin of a louse in the genus <i>Myrsidea</i> found on <i>Sapayoa</i>. Using genome-wide data from 92 <i>Myrsidea</i><i> </i>specimens sampled across oscine, suboscine, and non-passerine hosts, we reconstructed a global phylogeny to evaluate hypotheses about the origin of <i>Sapayoa</i> and its parasite. Phylogenomic, molecular dating, and cophylogenetic analyses support a scenario in which the <i>Myrside</i>a lineage on<i> </i><i>Sapayoa</i> originated outside the Neotropics and was acquired via host-switching from an Old World oscine. The parasite’s divergence time (24.4–17.9 Ma) postdates the estimated split between <i>Sapayoa</i>and other Eurylaimides, ruling out strict codivergence. Ancestral host reconstruction supports an oscine origin and Old World acquisition, while biogeographic reconstruction yielded nearly equal probabilities for Neotropical and Afrotropical origins, highlighting uncertainty in its ancestral range. Taken together, these findings support a co-dispersal scenario in which <i>Sapayoa</i> acquired its parasite in the Old World and brought it to the Neotropics during colonization. This parasite-based perspective provides novel support for the Old World origin (colonizer) hypothesis for <i>Sapayoa</i>. More broadly, our study highlights the value of permanent parasites as complementary tools for disentangling complex evolutionary and biogeographic histories.