cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22249174
title: Role of riboflavin biosynthesis gene duplication and transporter in <i>Aeromonas salmonicida</i> virulence in marine teleost fish

description: Active flavins derived from riboflavin (vitamin B<sub>2</sub>) are essential for life. Bacteria biosynthesize riboflavin or scavenge it through uptake systems, and both mechanisms may be present. Because of riboflavin’s critical importance, the redundancy of riboflavin biosynthetic pathway (RBP) genes might be present. <i>Aeromonas salmonicida</i>, the aetiological agent of furunculosis, is a pathogen of freshwater and marine fish, and its riboflavin pathways have not been studied. This study characterized the <i>A. salmonicida</i> riboflavin provision pathways. Homology search and transcriptional orchestration analysis showed that <i>A. salmonicida</i> has a main riboflavin biosynthetic operon that includes <i>ribD</i>, <i>ribE1</i>, <i>ribBA</i>, and <i>ribH</i> genes. Outside the main operon, putative duplicated genes <i>ribA</i>, <i>ribB</i> and <i>ribE</i>, and a <i>ribN</i> riboflavin importer encoding gene, were found. Monocistronic mRNA <i>ribA</i>, <i>ribB</i> and <i>ribE2</i> encode for their corresponding functional riboflavin biosynthetic enzyme. While the product of <i>ribBA</i> conserved the RibB function, it lacked the RibA function. Likewise, <i>ribN</i> encodes a functional riboflavin importer. Transcriptomics analysis indicated that external riboflavin affected the expression of a relatively small number of genes, including a few involved in iron metabolism. <i>ribB</i> was downregulated in response to external riboflavin, suggesting negative feedback. Deletion of <i>ribA</i>, <i>ribB</i> and <i>ribE1</i> showed that these genes are required for <i>A. salmonicida</i> riboflavin biosynthesis and virulence in Atlantic lumpfish (<i>Cyclopterus lumpus</i>). <i>A. salmonicida</i> riboflavin auxotrophic attenuated mutants conferred low protection to lumpfish against virulent <i>A. salmonicida</i>. Overall, <i>A. salmonicida</i> has multiple riboflavin endowment forms, and duplicated riboflavin provision genes are critical for <i>A. salmonicida</i> infection.
DOI: 10.6084/m9.figshare.22249174.v1
title: Role of riboflavin biosynthesis gene duplication and transporter in <i>Aeromonas salmonicida</i> virulence in marine teleost fish

description: Active flavins derived from riboflavin (vitamin B<sub>2</sub>) are essential for life. Bacteria biosynthesize riboflavin or scavenge it through uptake systems, and both mechanisms may be present. Because of riboflavin’s critical importance, the redundancy of riboflavin biosynthetic pathway (RBP) genes might be present. <i>Aeromonas salmonicida</i>, the aetiological agent of furunculosis, is a pathogen of freshwater and marine fish, and its riboflavin pathways have not been studied. This study characterized the <i>A. salmonicida</i> riboflavin provision pathways. Homology search and transcriptional orchestration analysis showed that <i>A. salmonicida</i> has a main riboflavin biosynthetic operon that includes <i>ribD</i>, <i>ribE1</i>, <i>ribBA</i>, and <i>ribH</i> genes. Outside the main operon, putative duplicated genes <i>ribA</i>, <i>ribB</i> and <i>ribE</i>, and a <i>ribN</i> riboflavin importer encoding gene, were found. Monocistronic mRNA <i>ribA</i>, <i>ribB</i> and <i>ribE2</i> encode for their corresponding functional riboflavin biosynthetic enzyme. While the product of <i>ribBA</i> conserved the RibB function, it lacked the RibA function. Likewise, <i>ribN</i> encodes a functional riboflavin importer. Transcriptomics analysis indicated that external riboflavin affected the expression of a relatively small number of genes, including a few involved in iron metabolism. <i>ribB</i> was downregulated in response to external riboflavin, suggesting negative feedback. Deletion of <i>ribA</i>, <i>ribB</i> and <i>ribE1</i> showed that these genes are required for <i>A. salmonicida</i> riboflavin biosynthesis and virulence in Atlantic lumpfish (<i>Cyclopterus lumpus</i>). <i>A. salmonicida</i> riboflavin auxotrophic attenuated mutants conferred low protection to lumpfish against virulent <i>A. salmonicida</i>. Overall, <i>A. salmonicida</i> has multiple riboflavin endowment forms, and duplicated riboflavin provision genes are critical for <i>A. salmonicida</i> infection.
DOI: 10.6084/m9.figshare.24031790
title: A novel aquaporin Aagp contributes to <i>Streptococcus suis</i> H<sub>2</sub>O<sub>2</sub> efflux and virulence

description: <i>Streptococcus suis</i> is a bacterium that can cause infections in pigs and humans. Although oxidative stress is common occurrence during bacterial growth and infection, the regulation networks of <i>S. suis</i> under oxidative stress remain poorly understood. To address this, we utilized RNA-Seq to reveal the transcriptional landscape of <i>S. suis</i> in response to H<sub>2</sub>O<sub>2</sub> stress. We identified novel genes responsible for <i>S. suis</i> resistance to oxidative stress, including those involved in DNA repair or protection, and essential for the biosynthesis of amino acids and nucleic acids. In addition, we found that a novel aquaporin, Aagp, belonging to atypical aquaglyceroporins and widely distributed in diverse <i>S. suis</i> serotypes, plays a crucial role during H<sub>2</sub>O<sub>2</sub> stress. By performing oxidative stress assays and measuring the intracellular H<sub>2</sub>O<sub>2</sub> concentrations of the wild-type strain and <i>Aagp</i> mutants during H<sub>2</sub>O<sub>2</sub> stress, we found that Aagp facilitated H<sub>2</sub>O<sub>2</sub> efflux. Additionally, we found that Aagp might be involved in glycerol transport, as shown by the growth inhibition and H<sub>2</sub>O<sub>2</sub> production in the presence of glycerol. Mice infection experiments indicated that Aagp contributed to <i>S. suis</i> virulence. This study contributes to understanding the mechanism of <i>S. suis</i> oxidative stress response, <i>S. suis</i> pathogenesis, and the function of aquaporins in prokaryotes.
DOI: 10.6084/m9.figshare.24031790.v1
title: A novel aquaporin Aagp contributes to <i>Streptococcus suis</i> H<sub>2</sub>O<sub>2</sub> efflux and virulence

description: <i>Streptococcus suis</i> is a bacterium that can cause infections in pigs and humans. Although oxidative stress is common occurrence during bacterial growth and infection, the regulation networks of <i>S. suis</i> under oxidative stress remain poorly understood. To address this, we utilized RNA-Seq to reveal the transcriptional landscape of <i>S. suis</i> in response to H<sub>2</sub>O<sub>2</sub> stress. We identified novel genes responsible for <i>S. suis</i> resistance to oxidative stress, including those involved in DNA repair or protection, and essential for the biosynthesis of amino acids and nucleic acids. In addition, we found that a novel aquaporin, Aagp, belonging to atypical aquaglyceroporins and widely distributed in diverse <i>S. suis</i> serotypes, plays a crucial role during H<sub>2</sub>O<sub>2</sub> stress. By performing oxidative stress assays and measuring the intracellular H<sub>2</sub>O<sub>2</sub> concentrations of the wild-type strain and <i>Aagp</i> mutants during H<sub>2</sub>O<sub>2</sub> stress, we found that Aagp facilitated H<sub>2</sub>O<sub>2</sub> efflux. Additionally, we found that Aagp might be involved in glycerol transport, as shown by the growth inhibition and H<sub>2</sub>O<sub>2</sub> production in the presence of glycerol. Mice infection experiments indicated that Aagp contributed to <i>S. suis</i> virulence. This study contributes to understanding the mechanism of <i>S. suis</i> oxidative stress response, <i>S. suis</i> pathogenesis, and the function of aquaporins in prokaryotes.
DOI: 10.6084/m9.figshare.24287400
title: A novel <i>Galleria mellonella</i> experimental model for zoonotic pathogen <i>Brucella</i>

description: Brucellosis is a major threat to public health and animal husbandry. Several <i>in vivo</i> vertebrate models, such as mice, guinea pigs, and nonhuman primates, have been used to study <i>Brucella</i> pathogenesis, bacteria-host interactions, and vaccine efficacy. However, these models have limitations whereas the invertebrate <i>Galleria mellonella</i> model is a cost-effective and ethical alternative. The aim of the present study was to examine the invertebrate <i>G. mellonella</i> as an in vivo infection model for <i>Brucella</i>. Infection assays were employed to validate the fitness of the larval model for <i>Brucella</i> infection and virulence evaluation. The protective efficacy of immune sera was evaluated by pre-incubated with a lethal dose of bacteria before infection. The consistency between the mouse model and the larval model was confirmed by assessing the protective efficacy of two <i>Brucella</i> vaccine strains. The results show that <i>G. mellonella</i> could be infected by <i>Brucella</i> strains, in a dose- and temperature-dependent way. Moreover, this larval model can effectively evaluate the virulence of <i>Brucella</i> strains in a manner consistent with that of mammalian infection models. Importantly, this model can assess the protective efficacy of vaccine immune sera within a day. Further investigation implied that haemolymph played a crucial role in the protective efficacy of immune sera. In conclusion, <i>G. mellonella</i> could serve as a quick, efficient, and reliable model for evaluating the virulence of <i>Brucella</i> strains and efficacy of immune sera in an ethical manner.
DOI: 10.6084/m9.figshare.24287400.v1
title: A novel <i>Galleria mellonella</i> experimental model for zoonotic pathogen <i>Brucella</i>

description: Brucellosis is a major threat to public health and animal husbandry. Several <i>in vivo</i> vertebrate models, such as mice, guinea pigs, and nonhuman primates, have been used to study <i>Brucella</i> pathogenesis, bacteria-host interactions, and vaccine efficacy. However, these models have limitations whereas the invertebrate <i>Galleria mellonella</i> model is a cost-effective and ethical alternative. The aim of the present study was to examine the invertebrate <i>G. mellonella</i> as an in vivo infection model for <i>Brucella</i>. Infection assays were employed to validate the fitness of the larval model for <i>Brucella</i> infection and virulence evaluation. The protective efficacy of immune sera was evaluated by pre-incubated with a lethal dose of bacteria before infection. The consistency between the mouse model and the larval model was confirmed by assessing the protective efficacy of two <i>Brucella</i> vaccine strains. The results show that <i>G. mellonella</i> could be infected by <i>Brucella</i> strains, in a dose- and temperature-dependent way. Moreover, this larval model can effectively evaluate the virulence of <i>Brucella</i> strains in a manner consistent with that of mammalian infection models. Importantly, this model can assess the protective efficacy of vaccine immune sera within a day. Further investigation implied that haemolymph played a crucial role in the protective efficacy of immune sera. In conclusion, <i>G. mellonella</i> could serve as a quick, efficient, and reliable model for evaluating the virulence of <i>Brucella</i> strains and efficacy of immune sera in an ethical manner.
DOI: 10.6084/m9.figshare.22067048
title: The defective gut colonization of <i>Candida albicans hog1</i> MAPK mutants is restored by overexpressing the transcriptional regulator of the white opaque transition <i>WOR1</i>

description: The transcriptional master regulator of the white opaque transition of <i>Candida albicans WOR1</i> is important for the adaptation to the commensal lifestyle in the mammalian gut, a major source of invasive candidiasis. We have generated cells that overproduce Wor1 in mutants defective in the Hog1 MAP kinase, defective in several stress responses and unable to colonize the mice gut. <i>WOR1</i> overexpression allows <i>hog1</i> to be established as a commensal in the murine gut in a commensalism model and even compete with wild-type <i>C. albicans</i> cells for establishment. This increased fitness correlates with an enhanced ability to adhere to biotic surfaces as well as increased proteinase and phospholipase production and a decrease in filamentation in vitro. We also show that <i>hog1</i> WOR1<sup>OE</sup> are avirulent in a systemic candidiasis model in mice.
DOI: 10.6084/m9.figshare.22067048.v1
title: The defective gut colonization of <i>Candida albicans hog1</i> MAPK mutants is restored by overexpressing the transcriptional regulator of the white opaque transition <i>WOR1</i>

description: The transcriptional master regulator of the white opaque transition of <i>Candida albicans WOR1</i> is important for the adaptation to the commensal lifestyle in the mammalian gut, a major source of invasive candidiasis. We have generated cells that overproduce Wor1 in mutants defective in the Hog1 MAP kinase, defective in several stress responses and unable to colonize the mice gut. <i>WOR1</i> overexpression allows <i>hog1</i> to be established as a commensal in the murine gut in a commensalism model and even compete with wild-type <i>C. albicans</i> cells for establishment. This increased fitness correlates with an enhanced ability to adhere to biotic surfaces as well as increased proteinase and phospholipase production and a decrease in filamentation in vitro. We also show that <i>hog1</i> WOR1<sup>OE</sup> are avirulent in a systemic candidiasis model in mice.
DOI: 10.15468/dl.3cfczg
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sisymbrium officinale (L.) Scop.",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 32 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079536-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.panqkn
title: Occurrence Download

description: A dataset containing 70 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sisymbrium officinale (L.) Scop.",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 70 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079535-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.unvh4v
title: Occurrence Download

description: A dataset containing 580 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sisymbrium officinale (L.) Scop.",
 "Country is Canada",
 "HasCoordinate is true"
 ]
}

 The dataset includes 580 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079537-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34847/nkl.5bba9825
title: AGRINION - Stele funeraria di due individui
title: Agrinion 127

description: buono
description: numero di inventario
description: Source: Socal, Michela
description: Provenance: Dorsoduro 3484/D Venezia
description: Provenance: Italia
description: Provenance: Università Ca' Foscari
description: Provenance: Venezia
description: Provenance: primo piano
description: Provenance: 2.0
description: Provenance: 3.0
DOI: 10.5281/zenodo.15770884
title: Bioinformatics data
DOI: 10.5281/zenodo.15770883
title: Bioinformatics data
DOI: 10.15468/dl.cfxqmp
title: Occurrence Download

description: A dataset containing 66585 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cirsium vulgare (Savi) Ten.",
 "Country is Australia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 66585 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079523-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.awgaq2
title: Occurrence Download

description: A dataset containing 9347000 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Argiope bruennichi (Scopoli, 1772), Erithacus rubecula (Linnaeus, 1758))",
 {
 "or" : [
 "Year 1911-1956",
 "Year 1980-2025"
 ]
 }
 ]
}

 The dataset includes 9347000 records from 6561 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079444-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8yut1e
title: Occurrence Download

description: A dataset containing 301 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Tillandsia anceps G.Lodd."
 ]
}

 The dataset includes 301 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000151-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8x3ejw
title: Occurrence Download

description: A dataset containing 141 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lobocla bifasciatus (Bremer & Grey, 1853)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 141 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072548-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qtgat4
title: Occurrence Download

description: A dataset containing 753332 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Machine Observation"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "TaxonKey is Tectona grandis L.f.",
 "TaxonKey is Ostrya rehderiana Chun",
 "TaxonKey is Juglans nigra L.",
 "TaxonKey is Coffea canephora Pierre ex A.Froehner",
 "TaxonKey is Carica papaya L.",
 "TaxonKey is Sclerocarya birrea (A.Rich.) Hochst.",
 "TaxonKey is Musa acuminata Colla",
 "TaxonKey is Fagus sylvatica L.",
 "TaxonKey is Cocos nucifera L.",
 "TaxonKey is Camptotheca acuminata Decne.",
 "TaxonKey is Pterocarya stenoptera C.DC.",
 "TaxonKey is Moringa oleifera Lam.",
 "TaxonKey is Elaeis guineensis Jacq.",
 "TaxonKey is Citrus L.",
 "TaxonKey is Bombax ceiba L.",
 "TaxonKey is Piper nigrum L.",
 "TaxonKey is Liriodendron chinense (Hemsl.) Sarg.",
 "TaxonKey is Durio zibethinus Murray",
 "TaxonKey is Cercis canadensis L.",
 "TaxonKey is Amborella trichopoda Baill."
 ]
 }
 ]
}

 The dataset includes 753332 records from 835 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0125638-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z9zkux
title: Occurrence Download

description: A dataset containing 446 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Arundo plinii Turra",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 446 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072547-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.iwm9t9
title: Occurrence Download

description: A dataset containing 1038 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Stellera chamaejasme L."
 ]
}

 The dataset includes 1038 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026398-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.33zq25
title: Occurrence Download

description: A dataset containing 222 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Maytenus senegalensis (Lam.) Exell"
 ]
}

 The dataset includes 222 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0092937-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hkaj3u
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "TaxonKey is Hystrix hodgsoni"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043128-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gpgcq2
title: Occurrence Download

description: A dataset containing 122 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ctenolophon englerianus Mildbr."
 ]
}

 The dataset includes 122 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072563-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rqk2sh
title: Occurrence Download

description: A dataset containing 382 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Viet Nam",
 "DatasetKey is Hungarian Natural History Museum Asian Bat Database"
 ]
}

 The dataset includes 382 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0102624-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bz8bs9
title: Occurrence Download

description: A dataset containing 748 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Argentina leuconota (D.Don) Soják"
 ]
}

 The dataset includes 748 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013546-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hyu2gk
title: Occurrence Download

description: A dataset containing 687038 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Manorina melanocephala (Latham, 1801)"
 ]
}

 The dataset includes 687038 records from 98 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000824-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xkxpa4
title: Occurrence Download

description: A dataset containing 30556 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Asparagus asparagoides (L.) Druce",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 30556 records from 119 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072567-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.