cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30231580
title: Research advances and public health strategies in China on WHO priority fungal pathogens

description: Fungal pathogens pose significant and increasing threats to public health. Each year, over a billion people are infected by fungal pathogens, directly contributing to millions of deaths. To overcome the challenge of fungal threat, in 2022, World Health Organization (WHO) issued a Fungal Priority Pathogens List (FPPL) aimed at strengthening international response, promoting research, and enhancing policy intervention development. Over the past four decades, China has made tremendous progress in advancing our knowledge of fungal infections. Here, we review research trends and recent progress in China on fungal pathogens on the WHO FPPL, with an emphasis on four critical pathogens: <i>Cryptococcus neoformans</i>, <i>Candidozyma auris</i>, <i>Aspergillus fumigatus</i>, and <i>Candida albicans</i> since 2022. In addition, we describe national policies and strategic measures aimed at large-scale prevention and control of fungal infections. Our bibliometric analyses of articles published by Chinese researchers from 1983 to 2024 in the Web of Science Core Collection (WOSCC, English-language) and China National Knowledge Infrastructure (CNKI, Chinese-language) revealed increasing number of peer-reviewed publications on human fungal pathogens in both databases up to 2008 when the number in the CKNI database dropped and remained relatively flat since while that in the WOSCC database continued to increase, reflecting the strategic emphasis by Chinese institutions and funding agencies on achieving greater international visibility, academic impact, and integration within the global scientific community. In both databases, the four critical priority pathogens accounted for &gt; 45% of the studies and the progresses made by Chinese researchers since 2022 on them are described here. A shared challenge for treating all fungal infections is the emergence and spread of antifungal resistance. We highlight antifungal resistance, tolerance, and persistence, and describe recent developments in antifungal drug pipelines, including those in China. Beyond scientific breakthroughs, China has been making coordinated prevention efforts and robust policy measures. However, significant challenges remain in understanding pathogen population dynamics and host-pathogen interactions; in developing and deploying rapid, sensitive, specific, and cost-effective diagnosis; in designing geographic region-specific and personalized prevention and treatments; and in alleviating the growing burden of antifungal resistance.
DOI: 10.6084/m9.figshare.28473896
title: The transcription factor PoMbp1 promotes the growth and development of <i>Pleurotus ostreatus</i> by regulating polysaccharide utilisation

description: The transcription factor Mbp1 was reported to regulate cell growth and proliferation in some fungi; however, its role in <i>Pleurotus ostreatus</i> remains largely unexplored. Here, we cloned the <i>PoMbp1</i> gene, which encodes a protein contains an APSES domain and is localised in the nucleus. The expression pattern analysis showed that <i>PoMbp1</i> was expressed more in the caps of the fruiting body than in other stages. The growth rates of the <i>PoMbp1</i> overexpression strains OE-<i>PoMbp1</i> were similar to those of wild-type, while that in the interference strains RNAi-<i>PoMbp1</i> were markedly reduced, indicating that <i>PoMbp1</i> positively regulates <i>P. ostreatus</i> development. Transcriptome sequencing showed that the DEGs between <i>PoMbp1</i> transformants and wild-type mainly enriched in carbohydrate metabolism, cell growth and death, etc. The DEGs in polysaccharide catabolic were highly expressed in the OE-<i>PoMbp1</i> strains. Treat <i>PoMbp1</i> transformants with different monosaccharides and polysaccharides, the OE-<i>PoMbp1</i> strains grew faster than wild-type on medium containing polysaccharide, whereas no differences were observed with monosaccharides. The RNAi-<i>PoMbp1</i> strains showed an opposite trend. These results indicated that PoMbp1 plays a positive role in fruit body development by enhancing the expression of genes related to polysaccharide utilisation. This study provides a theoretical reference for research on the mechanism of fruiting body development of <i>P. ostreatus</i>.
DOI: 10.6084/m9.figshare.28473896.v1
title: The transcription factor PoMbp1 promotes the growth and development of <i>Pleurotus ostreatus</i> by regulating polysaccharide utilisation

description: The transcription factor Mbp1 was reported to regulate cell growth and proliferation in some fungi; however, its role in <i>Pleurotus ostreatus</i> remains largely unexplored. Here, we cloned the <i>PoMbp1</i> gene, which encodes a protein contains an APSES domain and is localised in the nucleus. The expression pattern analysis showed that <i>PoMbp1</i> was expressed more in the caps of the fruiting body than in other stages. The growth rates of the <i>PoMbp1</i> overexpression strains OE-<i>PoMbp1</i> were similar to those of wild-type, while that in the interference strains RNAi-<i>PoMbp1</i> were markedly reduced, indicating that <i>PoMbp1</i> positively regulates <i>P. ostreatus</i> development. Transcriptome sequencing showed that the DEGs between <i>PoMbp1</i> transformants and wild-type mainly enriched in carbohydrate metabolism, cell growth and death, etc. The DEGs in polysaccharide catabolic were highly expressed in the OE-<i>PoMbp1</i> strains. Treat <i>PoMbp1</i> transformants with different monosaccharides and polysaccharides, the OE-<i>PoMbp1</i> strains grew faster than wild-type on medium containing polysaccharide, whereas no differences were observed with monosaccharides. The RNAi-<i>PoMbp1</i> strains showed an opposite trend. These results indicated that PoMbp1 plays a positive role in fruit body development by enhancing the expression of genes related to polysaccharide utilisation. This study provides a theoretical reference for research on the mechanism of fruiting body development of <i>P. ostreatus</i>.
DOI: 10.6084/m9.figshare.29152039
title: <i>Trichoderma</i> species from typical forests system in China: Geographical distribution and comparative genome-wide evaluation of selected species related to biocontrol

description: In this study, we isolated 633 <i>Trichoderma</i> strains from 15 forest types across six climate zones. Our findings revealed that species diversity was highly underestimated, with 239 isolates identified as new species based on ITS, <i>rpb2</i>, and <i>tef1</i> sequences. In tropical and subtropical regions, the mean values for the haplotype Chao1 richness index and the Shannon-Weiner diversity index are 73 and 3, respectively, significantly higher than those in temperate regions. <i>Trichoderma</i> cf. <i>taiwanense</i> was the most widely distributed, followed by <i>T. asperellum</i>, rather than widely reported <i>T. harzianum</i>. The maximum entropy model was used to analyse the effects of climatic factors on distribution of <i>T</i>. cf. <i>taiwanense</i> and <i>T. asperellum</i>, and showed that precipitation in the warmest quarter was the most important factor influencing their distribution. <i>T</i>. cf. <i>taiwanense</i> zj625y demonstrated significantly higher antagonistic ability, outperforming the other tested <i>Trichoderma</i> species. The genomic characteristics of <i>T</i>. cf. <i>taiwanense</i> were firstly revealed with 36.49 Mbp in size and contained 17 genes of β-1,3-glucanase and 24 genes of chitinase genes. Additionally, the activities of endochitinase, endo-1,3(4)-β-glucanase, and metallopeptidase were highly expressed in culture. Metabolomic analysis further identified specific substances produced by <i>T</i>. cf. <i>taiwanense</i> zj625y, such as ergothioneine, (3-carboxypropyl) trimethylammonium cation, NG-dimethyl-L-arginine (ADMA), N-acetyl-D-glucosamine, stearic acid, tyramine, citrate, L-leucine, and acetylcarnitine, which contribute to its potential antagonism and environmental adaptability.
DOI: 10.6084/m9.figshare.29152039.v1
title: <i>Trichoderma</i> species from typical forests system in China: Geographical distribution and comparative genome-wide evaluation of selected species related to biocontrol

description: In this study, we isolated 633 <i>Trichoderma</i> strains from 15 forest types across six climate zones. Our findings revealed that species diversity was highly underestimated, with 239 isolates identified as new species based on ITS, <i>rpb2</i>, and <i>tef1</i> sequences. In tropical and subtropical regions, the mean values for the haplotype Chao1 richness index and the Shannon-Weiner diversity index are 73 and 3, respectively, significantly higher than those in temperate regions. <i>Trichoderma</i> cf. <i>taiwanense</i> was the most widely distributed, followed by <i>T. asperellum</i>, rather than widely reported <i>T. harzianum</i>. The maximum entropy model was used to analyse the effects of climatic factors on distribution of <i>T</i>. cf. <i>taiwanense</i> and <i>T. asperellum</i>, and showed that precipitation in the warmest quarter was the most important factor influencing their distribution. <i>T</i>. cf. <i>taiwanense</i> zj625y demonstrated significantly higher antagonistic ability, outperforming the other tested <i>Trichoderma</i> species. The genomic characteristics of <i>T</i>. cf. <i>taiwanense</i> were firstly revealed with 36.49 Mbp in size and contained 17 genes of β-1,3-glucanase and 24 genes of chitinase genes. Additionally, the activities of endochitinase, endo-1,3(4)-β-glucanase, and metallopeptidase were highly expressed in culture. Metabolomic analysis further identified specific substances produced by <i>T</i>. cf. <i>taiwanense</i> zj625y, such as ergothioneine, (3-carboxypropyl) trimethylammonium cation, NG-dimethyl-L-arginine (ADMA), N-acetyl-D-glucosamine, stearic acid, tyramine, citrate, L-leucine, and acetylcarnitine, which contribute to its potential antagonism and environmental adaptability.
DOI: 10.6084/m9.figshare.29683906.v1
title: What is <i>Fusarium</i> forma specialis?

description: The forma specialis concept has been a cornerstone in <i>Fusarium</i> phytopathology for 85 years, classifying pathogens based on host specificity. However, its validity as a natural and practical framework has been increasingly questioned. In this study, we critically re-evaluate the forma specialis concept through an extensive survey of Fusarium wilt diseases across 37 crop hosts from 23 provinces of China. Through multi-locus phylogenetic analyses, morphological assessments, and pathogenicity tests on 659 strains isolated from 171 diseased samples, we identified 46 <i>Fusarium</i> species, including seven newly described taxa, and uncovered extensive cross-host pathogenicity, with up to 21 species associated with the same wilt disease. In addition, 57% of samples exhibited multiple species co-infections, revealing significant inconsistencies with the forma specialis framework. These findings challenge the long-standing paradigm of host specificity in <i>Fusarium</i> pathogens and advocate for a shift of perspective to a “pathobiome” framework, where disease dynamics are largely driven by community-level interactions rather than single-pathogen relationships. Applying these conceptual advances to Fusarium wilt research could fundamentally transform our comprehension of host-pathogen relationships and facilitate the development of more ecologically sustainable disease management approaches.
DOI: 10.6084/m9.figshare.29086688
title: Vacuolar protein sorting-associated protein Vps17 regulates sexual reproduction and virulence of <i>Cryptococcus neoformans</i>

description: <i>Cryptococcus neoformans</i>, an opportunistic fungal pathogen, poses significant health risks by causing severe meningitis in both immunocompromised and immunocompetent individuals. In this study, we identified the vacuolar protein sorting-associated protein Vps17, a crucial Retromer complex component, in <i>C. neoformans</i>. Sequence analysis revealed that <i>Cryptococcus</i> Vps17 contains a PX and a BAR domain, classifying it within a conserved family of SNX proteins interacting with inositol phosphate. Expression pattern analysis indicated that the <i>VPS17</i> gene is active throughout all developmental stages of <i>C. neoformans</i>, with Vps17 localised on vesicles and unaffected by external stressors. Deletion of the <i>VPS17</i> gene resulted in reduced fungal capsule size and increased sensitivity to various stressors like SDS, NaCl, and KCl, highlighting its role in maintaining cell membrane integrity. Significantly, the absence of Vps17 hindered sexual reproduction, preventing basidiospore formation and meiosis following nuclear fusion. In a murine systemic infection model, the virulence of the <i>vps17</i>Δ mutant was significantly reduced. Our findings suggest that Vps17 plays a vital role in regulating sexual reproduction and pathogenicity in <i>C. neoformans</i> by influencing the expression of numerous related genes.
DOI: 10.6084/m9.figshare.29086688.v1
title: Vacuolar protein sorting-associated protein Vps17 regulates sexual reproduction and virulence of <i>Cryptococcus neoformans</i>

description: <i>Cryptococcus neoformans</i>, an opportunistic fungal pathogen, poses significant health risks by causing severe meningitis in both immunocompromised and immunocompetent individuals. In this study, we identified the vacuolar protein sorting-associated protein Vps17, a crucial Retromer complex component, in <i>C. neoformans</i>. Sequence analysis revealed that <i>Cryptococcus</i> Vps17 contains a PX and a BAR domain, classifying it within a conserved family of SNX proteins interacting with inositol phosphate. Expression pattern analysis indicated that the <i>VPS17</i> gene is active throughout all developmental stages of <i>C. neoformans</i>, with Vps17 localised on vesicles and unaffected by external stressors. Deletion of the <i>VPS17</i> gene resulted in reduced fungal capsule size and increased sensitivity to various stressors like SDS, NaCl, and KCl, highlighting its role in maintaining cell membrane integrity. Significantly, the absence of Vps17 hindered sexual reproduction, preventing basidiospore formation and meiosis following nuclear fusion. In a murine systemic infection model, the virulence of the <i>vps17</i>Δ mutant was significantly reduced. Our findings suggest that Vps17 plays a vital role in regulating sexual reproduction and pathogenicity in <i>C. neoformans</i> by influencing the expression of numerous related genes.
DOI: 10.12754/data-2024-0018
title: Nitrogen-fixing sulfate reducing bacteria in shallow coastal sediments under simulated resuspension

description: Nitrogen (N<sub>2</sub>) fixation by heterotrophic non-cyanobacterial diazotrophs is common in marine deep-sea sediments. However, in shallow coastal areas, where resuspension of sediments is extensive, the magnitude of sediment-associated N<sub>2</sub> fixation during resuspension is unknown. We examined nitrogen fixation in dark slurry incubations with sediments (0–5 cm and 0–10 cm depths) under simulated resuspension from five shallow stations (water depth <1 m) and an anoxic site in the Bay of Gdansk (109 m) in the Baltic Sea. Abiotic variables and the composition of nitrogen fixing organisms (diazotrophs) were measured at the study sites. To estimate the contribution of nitrogen fixing sulfate reducing bacteria to total nitrogen fixation, parallel incubations with sodium molybdate as inhibitor were performed. Our data show low but variable nitrogen fixation rates (n.d. - 23.7 nmol N g<sup>-1</sup> d<sup>-1</sup>), promoted in small-grained sediments associated with increased organic carbon content and high nutrient concentrations in pore waters. Highest nitrogen fixation at the shallow sites was encountered in the upper 0–5 cm of the sediments while rates were negligible below. Sulfate reducing bacteria (e.g. Desulfobacterales and Desulfovibrionales) were responsible for most of the heterotrophic nitrogen fixation and appear as key players for pelagic N<sub>2</sub> fixation during resuspension. Our study reveals an important sediment – water coupling, which may be accentuated by the increased storms and resuspension events predicted for the Baltic Sea region.
description: Scientific purpose: The study determined heterotrophic N<sub>2</sub> fixation mediated by sulfate reducing bacteria or other microbes and microbial community composition in surface sediments from the coastline of the southern Baltic Sea.
DOI: 10.15468/dl.e557a5
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Eritrea, Ethiopia)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Aloe elegans"
 ]
}

 The dataset includes 42 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014385-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rkctk7
title: Occurrence Download

description: A dataset containing 29230217 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Abies, Aesculus, Alnus, Amelanchier, Ampelopsis, Andromeda, Betula, Boehmeria, Brasenia, Buxus, Calluna, Calocedrus, Carpinus, Carya, Castanea, Cedrela, Cedrus, Celtis, Cephalotaxus, Cercidiphyllum, Cercis, Chamaecyparis, Chamaedaphne, Collinsonia, Comptonia, Corylopsis, Corylus, Cotinus, Cotoneaster, Crataegus, Cryptomeria, Cunninghamia, Cyclocarya, Cyrilla, Decodon, Diervilla, Dulichium, Elaeagnus, Empetrum, Epimedium, Eucommia, Eurya, Fagus, Fatsia, Ficus, Fraxinus, Gaylussacia, Ginkgo, Gleditsia, Glyptostrobus, Halesia, Hedera, Hibiscus, Ilex, Itea, Juglans, Leucothoe, Liquidambar, Liriodendron, Loranthus, Magnolia, Mahonia, Malus, Meliosma, Morus, Myrica, Nelumbo, Nyssa, Ostrya, Pachysandra, Paliurus, Parrotia, Parrotiopsis, Paulownia, Philadelphus, Physocarpus, Picea, Pinus, Pistacia, Platycarya, Populus, Proserpinaca, Pseudolarix, Pseudotsuga, Pterocarya, Pteroceltis, Pyracantha, Pyrus, Quercus, Rhamnus, Rhododendron, Rhus, Sambucus, Sassafras, Saururus, Sequoia, Smilax, Sorbus, Spiraea, Stewartia, Styrax, Symphoricarpos, Symplocos, Taxodium, Taxus, Tilia, Toona, Torreya, Trema, Trichosanthes, Tsuga, Ulmus, Urtica, Viscum, Vitis, Weigela, Zanthoxylon, Zelkova)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil)"
 ]
 }
 },
 "CoordinateUncertaintyInMeters is less than or equal to 10000",
 "DistanceFromCentroidInMeters is greater than or equal to 2000",
 "OccurrenceStatus is one of (Present)",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 }
 ]
}

 The dataset includes 29230217 records from 4930 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0014381-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b3b3zj
title: Occurrence Download

description: A dataset containing 273 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-19.52429 32.98718,10.52429 32.98718,10.52429 45.01282,-19.52429 45.01282,-19.52429 32.98718))",
 "HasCoordinate is true",
 "TaxonKey is Marsilea batardae Launert",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 273 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015336-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3a6abn
title: Occurrence Download

description: A dataset containing 63 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Acianthera cogniauxiana (Schltr.) Pridgeon & M.W.Chase"
 ]
}

 The dataset includes 63 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0137560-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kygppp
title: Occurrence Download

description: A dataset containing 895 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "TaxonKey is Eupeodes latifasciatus (Macquart, 1829)"
 ]
}

 The dataset includes 895 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0222838-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8f7j66
title: Occurrence Download

description: A dataset containing 50 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Castanopsis boisii Hickel & A.Camus"
 ]
}

 The dataset includes 50 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001260-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.npxq7w
title: Occurrence Download

description: A dataset containing 535870 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Phaethornis Swainson, 1827"
 ]
}

 The dataset includes 535870 records from 458 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0137533-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2ra7r2
title: Occurrence Download

description: A dataset containing 450 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Bactris guineensis (L.) H.E.Moore"
 ]
}

 The dataset includes 450 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0137562-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ugdfiv
title: Occurrence Download

description: A dataset containing 575 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is A global database for the distributions of crop wild relatives",
 "HasCoordinate is true",
 "TaxonKey is Phoenix L.",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 575 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015336-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mfhjwp
title: Occurrence Download

description: A dataset containing 237 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Trinidad and Tobago",
 "TaxonKey is Elasmobranchii"
 ]
}

 The dataset includes 237 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0323550-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.