cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7937003
title: Genomic analysis of oral <i>Campylobacter concisus</i> strains identified a potential bacterial molecular marker associated with active Crohn’s disease

description: <i>Campylobacter concisus</i> is an oral bacterium that is associated with inflammatory bowel disease (IBD) including Crohn’s disease (CD) and ulcerative colitis (UC). <i>C. concisus</i> consists of two genomospecies (GS) and diverse strains. This study aimed to identify molecular markers to differentiate commensal and IBD-associated <i>C. concisus</i> strains. The genomes of 63 oral <i>C. concisus</i> strains isolated from patients with IBD and healthy controls were examined, of which 38 genomes were sequenced in this study. We identified a novel secreted enterotoxin B homologue, Csep1. The <i>csep1</i> gene was found in 56% of GS2 <i>C. concisus</i> strains, presented in the plasmid pICON or the chromosome. A six-nucleotide insertion at the position 654–659 bp in <i>csep1</i> (<i>csep1</i>-<i>6bpi</i>) was found. The presence of <i>csep1</i>-<i>6bpi</i> in oral <i>C. concisus</i> strains isolated from patients with active CD (47%, 7/15) was significantly higher than that in strains from healthy controls (0/29, <i>P</i> = 0.0002), and the prevalence of <i>csep1</i>-<i>6bpi</i> positive <i>C. concisus</i> strains was significantly higher in patients with active CD (67%, 4/6) as compared to healthy controls (0/23, <i>P</i> = 0.0006). Proteomics analysis detected the Csep1 protein. A <i>csep1</i> gene hot spot in the chromosome of different <i>C. concisus</i> strains was found. The pICON plasmid was only found in GS2 strains isolated from the two relapsed CD patients with small bowel complications. This study reports a <i>C. concisus</i> molecular marker (<i>csep1</i>-<i>6bpi</i>) that is associated with active CD.
DOI: 10.6084/m9.figshare.7937003.v2
title: Genomic analysis of oral <i>Campylobacter concisus</i> strains identified a potential bacterial molecular marker associated with active Crohn’s disease

description: <i>Campylobacter concisus</i> is an oral bacterium that is associated with inflammatory bowel disease (IBD) including Crohn’s disease (CD) and ulcerative colitis (UC). <i>C. concisus</i> consists of two genomospecies (GS) and diverse strains. This study aimed to identify molecular markers to differentiate commensal and IBD-associated <i>C. concisus</i> strains. The genomes of 63 oral <i>C. concisus</i> strains isolated from patients with IBD and healthy controls were examined, of which 38 genomes were sequenced in this study. We identified a novel secreted enterotoxin B homologue, Csep1. The <i>csep1</i> gene was found in 56% of GS2 <i>C. concisus</i> strains, presented in the plasmid pICON or the chromosome. A six-nucleotide insertion at the position 654–659 bp in <i>csep1</i> (<i>csep1</i>-<i>6bpi</i>) was found. The presence of <i>csep1</i>-<i>6bpi</i> in oral <i>C. concisus</i> strains isolated from patients with active CD (47%, 7/15) was significantly higher than that in strains from healthy controls (0/29, <i>P</i> = 0.0002), and the prevalence of <i>csep1</i>-<i>6bpi</i> positive <i>C. concisus</i> strains was significantly higher in patients with active CD (67%, 4/6) as compared to healthy controls (0/23, <i>P</i> = 0.0006). Proteomics analysis detected the Csep1 protein. A <i>csep1</i> gene hot spot in the chromosome of different <i>C. concisus</i> strains was found. The pICON plasmid was only found in GS2 strains isolated from the two relapsed CD patients with small bowel complications. This study reports a <i>C. concisus</i> molecular marker (<i>csep1</i>-<i>6bpi</i>) that is associated with active CD.
DOI: 10.6084/m9.figshare.7937063
title: Neurotropism and behavioral changes associated with Zika infection in the vector <i>Aedes aegypti</i>

description: Understanding Zika virus infection dynamics is essential, as its recent emergence revealed possible devastating neuropathologies in humans, thus causing a major threat to public health worldwide. Recent research allowed breakthrough in our understanding of the virus and host pathogenesis; however, little is known on its impact on its main vector, <i>Aedes aegypti</i>. Here we show how Zika virus targets <i>Aedes aegypti</i>’s neurons and induces changes in its behavior. Results are compared to dengue virus, another flavivirus, which triggers a different pattern of behavioral changes. We used microelectrode array technology to record electrical spiking activity of mosquito primary neurons post infections and discovered that only Zika virus causes an increase in spiking activity of the neuronal network. Confocal microscopy also revealed an increase in synapse connections for Zika virus-infected neuronal networks. Interestingly, the results also showed that mosquito responds to infection by overexpressing glutamate regulatory genes while maintaining virus levels. This neuro-excitation, possibly via glutamate, could contribute to the observed behavioral changes in Zika virus-infected <i>Aedes aegypti</i> females. This study reveals the importance of virus-vector interaction in arbovirus neurotropism, in humans and vector. However, it appears that the consequences differ in the two hosts, with neuropathology in human host, while behavioral changes in the mosquito vector that may be advantageous to the virus.
DOI: 10.6084/m9.figshare.7937063.v1
title: Neurotropism and behavioral changes associated with Zika infection in the vector <i>Aedes aegypti</i>

description: Understanding Zika virus infection dynamics is essential, as its recent emergence revealed possible devastating neuropathologies in humans, thus causing a major threat to public health worldwide. Recent research allowed breakthrough in our understanding of the virus and host pathogenesis; however, little is known on its impact on its main vector, <i>Aedes aegypti</i>. Here we show how Zika virus targets <i>Aedes aegypti</i>’s neurons and induces changes in its behavior. Results are compared to dengue virus, another flavivirus, which triggers a different pattern of behavioral changes. We used microelectrode array technology to record electrical spiking activity of mosquito primary neurons post infections and discovered that only Zika virus causes an increase in spiking activity of the neuronal network. Confocal microscopy also revealed an increase in synapse connections for Zika virus-infected neuronal networks. Interestingly, the results also showed that mosquito responds to infection by overexpressing glutamate regulatory genes while maintaining virus levels. This neuro-excitation, possibly via glutamate, could contribute to the observed behavioral changes in Zika virus-infected <i>Aedes aegypti</i> females. This study reveals the importance of virus-vector interaction in arbovirus neurotropism, in humans and vector. However, it appears that the consequences differ in the two hosts, with neuropathology in human host, while behavioral changes in the mosquito vector that may be advantageous to the virus.
DOI: 10.6084/m9.figshare.7937063.v2
title: Neurotropism and behavioral changes associated with Zika infection in the vector <i>Aedes aegypti</i>

description: Understanding Zika virus infection dynamics is essential, as its recent emergence revealed possible devastating neuropathologies in humans, thus causing a major threat to public health worldwide. Recent research allowed breakthrough in our understanding of the virus and host pathogenesis; however, little is known on its impact on its main vector, <i>Aedes aegypti</i>. Here we show how Zika virus targets <i>Aedes aegypti</i>’s neurons and induces changes in its behavior. Results are compared to dengue virus, another flavivirus, which triggers a different pattern of behavioral changes. We used microelectrode array technology to record electrical spiking activity of mosquito primary neurons post infections and discovered that only Zika virus causes an increase in spiking activity of the neuronal network. Confocal microscopy also revealed an increase in synapse connections for Zika virus-infected neuronal networks. Interestingly, the results also showed that mosquito responds to infection by overexpressing glutamate regulatory genes while maintaining virus levels. This neuro-excitation, possibly via glutamate, could contribute to the observed behavioral changes in Zika virus-infected <i>Aedes aegypti</i> females. This study reveals the importance of virus-vector interaction in arbovirus neurotropism, in humans and vector. However, it appears that the consequences differ in the two hosts, with neuropathology in human host, while behavioral changes in the mosquito vector that may be advantageous to the virus.
DOI: 10.25549/pcra-c14-66112
title: Redemption tidings, vol. 46, nos. 1-53, 1 Jan. - 31 Dec. 1970

description: [description english/roman)] Issued weekly.
DOI: 10.6084/m9.figshare.7936910
title: <i>Propionibacterium acnes</i> induces intervertebral disc degeneration by promoting nucleus pulposus cell apoptosis via the TLR2/JNK/mitochondrial-mediated pathway

description: Evidence suggests that intervertebral disc degeneration (IVDD) can be induced by <i>Propionibacterium acnes</i> (<i>P. acnes</i>), although the underlying mechanisms are unclear. In this study, we analyzed the pathological changes in degenerated human intervertebral discs (IVDs) infected with <i>P. acnes</i>. Compared with <i>P. acnes</i>-negative samples, <i>P. acnes</i>-positive IVDs showed increased apoptosis of nucleus pulposus cells (NPCs) concomitant with severe IVDD. Then, a <i>P. acnes</i>-inoculated IVD animal model was established, and severe IVDD was induced by <i>P. acnes</i> infection by promoting NPC apoptosis. The results suggested that <i>P.</i><i>acnes</i>-induced apoptosis of NPCs via the Toll-like receptor 2 (TLR2)/c-Jun N-terminal kinase (JNK) pathway and mitochondrial-mediated cell death. In addition, <i>P. acnes</i> was found to activate autophagy, which likely plays a role in apoptosis of NPCs. Overall, these findings further validated the involvement of <i>P. acnes</i> in the pathology of IVDD and provided evidence that <i>P. acnes</i>-induced apoptosis of NPCs via the TLR2/JNK pathway is likely responsible for the pathology of IVDD.
DOI: 10.6084/m9.figshare.7936910.v1
title: <i>Propionibacterium acnes</i> induces intervertebral disc degeneration by promoting nucleus pulposus cell apoptosis via the TLR2/JNK/mitochondrial-mediated pathway

description: Evidence suggests that intervertebral disc degeneration (IVDD) can be induced by <i>Propionibacterium acnes</i> (<i>P. acnes</i>), although the underlying mechanisms are unclear. In this study, we analyzed the pathological changes in degenerated human intervertebral discs (IVDs) infected with <i>P. acnes</i>. Compared with <i>P. acnes</i>-negative samples, <i>P. acnes</i>-positive IVDs showed increased apoptosis of nucleus pulposus cells (NPCs) concomitant with severe IVDD. Then, a <i>P. acnes</i>-inoculated IVD animal model was established, and severe IVDD was induced by <i>P. acnes</i> infection by promoting NPC apoptosis. The results suggested that <i>P.</i><i>acnes</i>-induced apoptosis of NPCs via the Toll-like receptor 2 (TLR2)/c-Jun N-terminal kinase (JNK) pathway and mitochondrial-mediated cell death. In addition, <i>P. acnes</i> was found to activate autophagy, which likely plays a role in apoptosis of NPCs. Overall, these findings further validated the involvement of <i>P. acnes</i> in the pathology of IVDD and provided evidence that <i>P. acnes</i>-induced apoptosis of NPCs via the TLR2/JNK pathway is likely responsible for the pathology of IVDD.
DOI: 10.6084/m9.figshare.7937003.v1
title: Genomic analysis of oral <i>Campylobacter concisus</i> strains identified a potential bacterial molecular marker associated with active Crohn’s disease

description: <i>Campylobacter concisus</i> is an oral bacterium that is associated with inflammatory bowel disease (IBD) including Crohn’s disease (CD) and ulcerative colitis (UC). <i>C. concisus</i> consists of two genomospecies (GS) and diverse strains. This study aimed to identify molecular markers to differentiate commensal and IBD-associated <i>C. concisus</i> strains. The genomes of 63 oral <i>C. concisus</i> strains isolated from patients with IBD and healthy controls were examined, of which 38 genomes were sequenced in this study. We identified a novel secreted enterotoxin B homologue, Csep1. The <i>csep1</i> gene was found in 56% of GS2 <i>C. concisus</i> strains, presented in the plasmid pICON or the chromosome. A six-nucleotide insertion at the position 654–659 bp in <i>csep1</i> (<i>csep1</i>-<i>6bpi</i>) was found. The presence of <i>csep1</i>-<i>6bpi</i> in oral <i>C. concisus</i> strains isolated from patients with active CD (47%, 7/15) was significantly higher than that in strains from healthy controls (0/29, <i>P</i> = 0.0002), and the prevalence of <i>csep1</i>-<i>6bpi</i> positive <i>C. concisus</i> strains was significantly higher in patients with active CD (67%, 4/6) as compared to healthy controls (0/23, <i>P</i> = 0.0006). Proteomics analysis detected the Csep1 protein. A <i>csep1</i> gene hot spot in the chromosome of different <i>C. concisus</i> strains was found. The pICON plasmid was only found in GS2 strains isolated from the two relapsed CD patients with small bowel complications. This study reports a <i>C. concisus</i> molecular marker (<i>csep1</i>-<i>6bpi</i>) that is associated with active CD.
DOI: 10.15468/dl.gypa5f
title: Occurrence Download

description: A dataset containing 3925 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-119.03861 34.02595,-118.81851 33.93402,-118.42575 33.88733,-118.4182 33.92029,-118.43468 33.96011,-118.44154 33.99307,-118.50368 34.03084,-118.49339 34.0686,-118.47279 34.08096,-118.41099 34.0844,-118.36224 34.09813,-118.32516 34.11255,-118.27297 34.12354,-118.27778 34.15237,-118.35125 34.14619,-118.42678 34.14963,-118.46661 34.14619,-118.50368 34.14757,-118.52291 34.15855,-118.55999 34.16061,-118.60909 34.18259,-118.61629 34.2382,-118.71929 34.23683,-118.74332 34.24095,-118.71504 34.16256,-118.66445 34.18533,-118.65852 34.16748,-118.68201 34.15939,-118.6784 34.13924,-118.72378 34.12542,-118.73281 34.12594,-118.73272 34.12113,-118.74105 34.12045,-118.7416 34.12416,-118.7459 34.12388,-118.7459 34.12388,-118.75326 34.1295,-118.75581 34.12774,-118.76744 34.13126,-118.77748 34.13074,-118.82495 34.12405,-118.82804 34.1328,-118.84761 34.13761,-118.86512 34.13795,-118.8646 34.13057,-118.87044 34.13658,-118.87834 34.12508,-118.89464 34.12817,-118.87799 34.14173,-118.87713 34.15976,-118.88967 34.17744,-118.92623 34.17589,-118.93988 34.15443,-118.95773 34.15924,-118.97009 34.15718,-118.97524 34.15615,-118.97558 34.13967,-119.02296 34.13967,-119.0536 34.11512,-119.07849 34.10894,-119.08549 34.11607,-119.08746 34.11615,-119.09291 34.11306,-119.09506 34.10637,-119.09463 34.09813,-119.03861 34.02595))",
 "TaxonKey is Accipiter cooperii (Bonaparte, 1828)"
 ]
}

 The dataset includes 3925 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004891-200613084148143/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.7936958
title: An update on the human and animal enteric pathogen <i>Clostridium perfringens</i>

description: <i>Clostridium perfringens</i>, a rapid-growing pathogen known to secrete an arsenal of &gt;20 virulent toxins, has been associated with intestinal diseases in both animals and humans throughout the past century. Recent advances in genomic analysis and experimental systems make it timely to re-visit this clinically and veterinary important pathogen. This Review will summarise our understanding of the genomics and virulence-linked factors, including antimicrobial potentials and secreted toxins of this gut pathogen, and then its up-to-date clinical epidemiology and biological role in the pathogenesis of several important human and animal-associated intestinal diseases, including pre-term necrotising enterocolitis. Finally, we highlight some of the important unresolved questions in relation to <i>C. perfringens</i>-mediated infections, and implications for future research directions.
DOI: 10.6084/m9.figshare.7936958.v2
title: An update on the human and animal enteric pathogen <i>Clostridium perfringens</i>

description: <i>Clostridium perfringens</i>, a rapid-growing pathogen known to secrete an arsenal of &gt;20 virulent toxins, has been associated with intestinal diseases in both animals and humans throughout the past century. Recent advances in genomic analysis and experimental systems make it timely to re-visit this clinically and veterinary important pathogen. This Review will summarise our understanding of the genomics and virulence-linked factors, including antimicrobial potentials and secreted toxins of this gut pathogen, and then its up-to-date clinical epidemiology and biological role in the pathogenesis of several important human and animal-associated intestinal diseases, including pre-term necrotising enterocolitis. Finally, we highlight some of the important unresolved questions in relation to <i>C. perfringens</i>-mediated infections, and implications for future research directions.
DOI: 10.15468/dl.evzxar
title: Occurrence Download

description: A dataset containing 66248 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Atlantic and Gulf Rapid Reef Assessment -Benthic (OBIS Australia)"
 ]
}

 The dataset includes 66248 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004953-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sbg3ne
title: Occurrence Download

description: A dataset containing 4870 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-75.45426 7.74669,-75.46628 7.74023,-75.48114 7.74209,-75.49949 7.7191,-75.52008 7.7256,-75.53374 7.72302,-75.53793 7.71383,-75.53399 7.68884,-75.55103 7.6684,-75.54832 7.64549,-75.55812 7.6428,-75.55298 7.62734,-75.5709 7.62492,-75.6026 7.60109,-75.59468 7.57628,-75.57199 7.55809,-75.56779 7.52388,-75.5575 7.50062,-75.54162 7.49176,-75.54734 7.46565,-75.54261 7.44159,-75.55262 7.42455,-75.55209 7.40645,-75.56791 7.38004,-75.53959 7.3704,-75.51785 7.3797,-75.51414 7.37271,-75.50646 7.38577,-75.49943 7.3864,-75.46094 7.35979,-75.44436 7.36125,-75.42996 7.37182,-75.42588 7.36671,-75.40431 7.37483,-75.39508 7.36892,-75.367 7.38652,-75.35879 7.38111,-75.33205 7.38816,-75.32951 7.40716,-75.32164 7.41287,-75.3229 7.43247,-75.30602 7.43462,-75.30029 7.41971,-75.2823 7.4147,-75.28723 7.3938,-75.27481 7.38826,-75.27574 7.38163,-75.28917 7.37908,-75.2812 7.37052,-75.28694 7.36262,-75.27839 7.34228,-75.28553 7.29908,-75.27763 7.28752,-75.29942 7.27257,-75.30549 7.25734,-75.30082 7.23526,-75.2959 7.22956,-75.28917 7.24514,-75.27401 7.24626,-75.26469 7.23897,-75.25271 7.25094,-75.22565 7.25846,-75.20875 7.25157,-75.19068 7.27113,-75.18806 7.30813,-75.16525 7.34023,-75.16552 7.35606,-75.17577 7.35186,-75.17562 7.35865,-75.1861 7.36177,-75.18298 7.37149,-75.19425 7.38904,-75.21474 7.39565,-75.20611 7.42753,-75.21725 7.44703,-75.22526 7.44483,-75.22719 7.45048,-75.25035 7.45687,-75.24994 7.46794,-75.25981 7.47879,-75.25311 7.4948,-75.26337 7.50445,-75.25804 7.51669,-75.27414 7.53406,-75.33224 7.53611,-75.33575 7.54833,-75.36591 7.58364,-75.36601 7.61797,-75.37366 7.62102,-75.37586 7.63107,-75.38401 7.63067,-75.37938 7.63855,-75.38356 7.64407,-75.41456 7.64911,-75.42244 7.63521,-75.43465 7.63867,-75.43914 7.63398,-75.43885 7.66974,-75.4505 7.69565,-75.442 7.71378,-75.447 7.74044,-75.45426 7.74669))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Chordata"
 ]
}

 The dataset includes 4870 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156173-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uhnrt3
title: Occurrence Download

description: A dataset containing 1498 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-106.03455 26.85059,-106.45203 26.04858,-106.69373 25.57617,-107.02332 25.60913,-107.1991 25.35645,-107.04529 24.97192,-106.59485 24.47754,-106.24329 24.33472,-105.92468 23.90625,-105.86975 23.56567,-105.66101 23.28003,-105.41931 23.07129,-105.21057 22.93945,-104.97986 22.90649,-104.81506 22.62085,-104.47449 22.37915,-104.33167 22.40112,-104.12292 22.80762,-104.05701 23.48877,-103.77136 23.67554,-103.82629 24.07104,-103.56262 24.16992,-103.29895 24.42261,-102.8595 24.43359,-102.46399 24.45557,-102.62878 25.01587,-102.89246 24.76318,-103.35388 25.11475,-103.4198 25.47729,-103.29895 26.00464,-103.28796 26.33423,-103.37585 26.5979,-103.79333 26.79565,-104.25476 26.8396,-104.55139 26.36719,-104.83704 26.48804,-105.11169 26.45508,-105.44128 26.521,-105.66101 26.63086,-106.03455 26.85059))",
 {
 "or" : [
 "TaxonKey is Phrynosoma orbiculare (Linnaeus, 1758)",
 "TaxonKey is Uma paraphygas Williams, Chrapliwy & Smith, 1959"
 ]
 }
 ]
}

 The dataset includes 1498 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0179461-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.skhzot
title: Occurrence Download

description: A dataset containing 1106 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Biomphalaria Preston, 1910",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1106 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004953-170627171947987/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z6kekx
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "TaxonKey is Caiophora pterosperma (G.Don) Urb. & Gilg"
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0051628-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bukutm
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vincetoxicum lanceolatum (Grubov) Grubov"
 ]
}

 The dataset includes 9 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156179-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.doxuu3
title: Occurrence Download

description: A dataset containing 1212 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Debregeasia longifolia (Burm.fil.) Wedd."
 ]
}

 The dataset includes 1212 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004953-170714134226665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ghmab
title: Occurrence Download

description: A dataset containing 6983 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "TaxonKey is Staphylinidae"
 ]
}

 The dataset includes 6983 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0338522-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.