cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7492220.v1
title: Both live and dead <i>Enterococci</i> activate <i>Caenorhabditis elegans</i> host defense via immune and stress pathways

description: The innate immune response of the nematode <i>Caenorhabditis elegans</i> has been extensively studied and a variety of Toll-independent immune response pathways have been identified. Surprisingly little, however, is known about how pathogens activate the <i>C. elegans</i> immune response. <i>Enterococcus faecalis</i> and <i>Enterococcus faecium</i> are closely related enterococcal species that exhibit significantly different levels of virulence in <i>C. elegans</i> infection models. Previous work has shown that activation of the <i>C. elegans</i> immune response by <i>Pseudomonas aeruginosa</i> involves <i>P. aeruginosa-</i>mediated host damage. Through ultrastructural imaging, we report that infection with either <i>E. faecalis</i> or <i>E. faecium</i> causes the worm intestine to become distended with proliferating bacteria in the absence of extensive morphological changes and apparent physical damage. Genetic analysis, whole-genome transcriptional profiling, and multiplexed gene expression analysis demonstrate that both enterococcal species, whether live or dead, induce a rapid and similar transcriptional defense response dependent upon previously described immune signaling pathways. The host response to <i>E. faecium</i> shows a stricter dependence upon stress response signaling pathways than the response to <i>E. faecalis</i>. Unexpectedly, we find that <i>E. faecium</i> is a <i>C. elegans</i> pathogen and that an active wild-type host defense response is required to keep an <i>E. faecium</i> infection at bay. These results provide new insights into the mechanisms underlying the <i>C. elegans</i> immune response to pathogen infection.
DOI: 10.7284/106714
title: Meteorological Station data collected during research cruise KNOX04RR using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492202
title: Norms Expanded, Clark & Paivio (2004b)

description: Expanded Norms for 2,311 Items"<br>reference_to_cite: "Clark, J. M., & Paivio, A. (2004). Extensions of the Paivio, Yuille, and Madigan (1968) norms. Behavior Research Methods, Instruments, and Computers, xx, xx-xx."<br>url_information: "Authors' website ( http://io.uwinnipeg.ca/~clark/cog/norms/cp2004.html )"<br>public_note: "Note 1. Imagery values for 925 items (PYM&gt;0) obtained from Paivio, A. U., Yuille, J. C., & Madigan, S. A. (1968). Concreteness, imagery, and meaningfulness values for 925 nouns. Journal of Experimental Psychology, 76(1, PT. 2), 1-25. Reprinted with permission of Allan Paivio and American Psychological Association."<br>
DOI: 10.7284/106712
title: Multibeam Echosounder data collected during research cruise KNOX04RR using a Kongsberg EM120 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106710
title: Winch data collected during research cruise KNOX04RR using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492175
title: Hibernation temperature-dependent <i>Pseudogymnoascus destructans</i> infection intensity in Palearctic bats

description: White-nose syndrome (WNS) is a fungal disease caused by <i>Pseudogymnoascus destructans</i> that is devastating to Nearctic bat populations but tolerated by Palearctic bats. Temperature is a factor known to be important for fungal growth and bat choice of hibernation. Here we investigated the effect of temperature on the pathogenic fungal growth in the wild across the Palearctic. We modelled body surface temperature of bats with respect to fungal infection intensity and disease severity and were able to relate this to the mean annual surface temperature at the site. Bats that hibernated at lower temperatures had less fungal growth and fewer skin lesions on their wings. Contrary to expectation derived from laboratory <i>P. destructans</i> culture experiments, natural infection intensity peaked between 5 and 6°C and decreased at warmer hibernating temperature. We made predictive maps based on bat species distributions, temperature and infection intensity and disease severity data to determine not only where <i>P. destructans</i> will be found but also where the infection will be invasive to bats across the Palearctic. Together these data highlight the mechanistic model of the interplay between environmental and biological factors, which determine progression in a wildlife disease.
DOI: 10.7284/103716
title: Expendable Probe data collected during research cruise KNOX05RR using a Sippican MK21 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492175.v2
title: Hibernation temperature-dependent <i>Pseudogymnoascus destructans</i> infection intensity in Palearctic bats

description: White-nose syndrome (WNS) is a fungal disease caused by <i>Pseudogymnoascus destructans</i> that is devastating to Nearctic bat populations but tolerated by Palearctic bats. Temperature is a factor known to be important for fungal growth and bat choice of hibernation. Here we investigated the effect of temperature on the pathogenic fungal growth in the wild across the Palearctic. We modelled body surface temperature of bats with respect to fungal infection intensity and disease severity and were able to relate this to the mean annual surface temperature at the site. Bats that hibernated at lower temperatures had less fungal growth and fewer skin lesions on their wings. Contrary to expectation derived from laboratory <i>P. destructans</i> culture experiments, natural infection intensity peaked between 5 and 6°C and decreased at warmer hibernating temperature. We made predictive maps based on bat species distributions, temperature and infection intensity and disease severity data to determine not only where <i>P. destructans</i> will be found but also where the infection will be invasive to bats across the Palearctic. Together these data highlight the mechanistic model of the interplay between environmental and biological factors, which determine progression in a wildlife disease.
DOI: 10.6084/m9.figshare.7492175.v1
title: Hibernation temperature-dependent <i>Pseudogymnoascus destructans</i> infection intensity in Palearctic bats

description: White-nose syndrome (WNS) is a fungal disease caused by <i>Pseudogymnoascus destructans</i> that is devastating to Nearctic bat populations but tolerated by Palearctic bats. Temperature is a factor known to be important for fungal growth and bat choice of hibernation. Here we investigated the effect of temperature on the pathogenic fungal growth in the wild across the Palearctic. We modelled body surface temperature of bats with respect to fungal infection intensity and disease severity and were able to relate this to the mean annual surface temperature at the site. Bats that hibernated at lower temperatures had less fungal growth and fewer skin lesions on their wings. Contrary to expectation derived from laboratory <i>P. destructans</i> culture experiments, natural infection intensity peaked between 5 and 6°C and decreased at warmer hibernating temperature. We made predictive maps based on bat species distributions, temperature and infection intensity and disease severity data to determine not only where <i>P. destructans</i> will be found but also where the infection will be invasive to bats across the Palearctic. Together these data highlight the mechanistic model of the interplay between environmental and biological factors, which determine progression in a wildlife disease.
DOI: 10.7284/103712
title: GNSS (Global Navigation Satellite System) data collected during research cruise KNOX05RR using a Furuno GP-90D instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103713
title: GNSS (Global Navigation Satellite System) data collected during research cruise KNOX05RR using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103714
title: Gravimeter data collected during research cruise KNOX05RR using a Bell BGM-3 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103715
title: Meteorological Station data collected during research cruise KNOX05RR using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103720
title: Multibeam Echosounder data collected during research cruise KNOX05RR using a Kongsberg EM120 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492109
title: Norms, Clark & Paivio (2004)

description: Expanded Norms for Original 925 Paivio, Yuille, and Madigan (1968) Items.<br>reference_to_cite: "Clark, J. M., & Paivio, A. (2004). Extensions of the Paivio, Yuille, and Madigan (1968) norms. Behavior Research Methods, Instruments, and Computers, 36 (3), 371-383"url_information: "Authors' website ( http://io.uwinnipeg.ca/~clark/cog/norms/cp2004.html ), http://psychonomic.org"<br>public_note: &gt;<br> Note 1. Log10 of values obtained from John Benjafield and described in Keenan, T. R., & Benjafield, J. G. (1994). An additional measure of availability derived from the Oxford English Dictionary. Psychonomic Bulletin & Review, 1, 255-257. Reprinted with permission. Note 2. Log10 of values obtained from David Rubin and descripted in Rubin, D. C., & Friendly, M. (1986). Predicting which words get recalled: Measures of free recall, availability, goodness, emotionality, and pronounceability for 925 nouns. Memory & Cognition, 14, 79-94. Reprinted with permission. Note 3. Values obtained from Paivio, A. U., Yuille, J. C., & Madigan, S. A. (1968). Concreteness, imagery, and meaningfulness values for 925 nouns. Journal of Experimental Psychology, 76(1, PT. 2), 1-25. Reprinted with permission of American Psychological Association and Allan Paivio."
DOI: 10.7284/103721
title: Singlebeam Echosounder data collected during research cruise KNOX05RR using a Knudsen 320B/R instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/103717
title: Winch data collected during research cruise KNOX05RR using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107414
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise KNOX06RR using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107412
title: Expendable Probe data collected during research cruise KNOX06RR using a Sippican MK21 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492079
title: From the wound to the bench: exoproteome interplay between wound-colonizing <i>Staphylococcus aureus</i> strains and co-existing bacteria

description: Wound-colonizing microorganisms can form complex and dynamic polymicrobial communities where pathogens and commensals may co-exist, cooperate or compete with each other. The present study was aimed at identifying possible interactions between different bacteria isolated from the same chronic wound of a patient with the genetic blistering disease epidermolysis bullosa (EB). Specifically, this involved two different isolates of the human pathogen <i>Staphylococcus aureus</i>, and isolates of <i>Bacillus thuringiensis</i> and <i>Klebsiella oxytoca</i>. Particular focus was attributed to interactions of <i>S. aureus</i> with the two other species, because of the high staphylococcal prevalence among chronic wounds. Intriguingly, upon co-cultivation, none of the wound isolates inhibited each other's growth. Since the extracellular proteome of bacterial pathogens is a reservoir of virulence factors, the exoproteomes of the staphylococcal isolates in monoculture and co-culture with <i>B. thuringiensis</i> and <i>K. oxytoca</i> were characterized by Mass Spectrometry to explore the inherent relationships between these co-exisiting bacteria. This revealed a massive reduction in the number of staphylococcal exoproteins upon co-culturing with <i>K. oxytoca</i> or <i>B. thuringiensis</i>. Interestingly, this decrease was particularly evident for extracellular proteins with a predicted cytoplasmic localization, which were recently implicated in staphylococcal virulence and epidemiology. Furthermore, our exoproteome analysis uncovered potential cooperativity between the two different <i>S. aureus</i> isolates. Altogether, the observed exoproteome variations upon co-culturing are indicative of unprecedented adaptive mechanisms that set limits to the production of secreted staphylococcal virulence factors.
DOI: 10.7284/107409
title: GNSS (Global Navigation Satellite System) data collected during research cruise KNOX06RR using a Furuno GP-90D instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107410
title: GNSS (Global Navigation Satellite System) data collected during research cruise KNOX06RR using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492052
title: Carnegie Mellon Pronouncing Dictionary

description: This was originally a pronouncing dictionary, and can be found on the net with phonetic information included in the file. That file also includes an informative text header explaining the list's origin and purpose. This list was originally upper case; I have converted it to lower case. It contained many duplicates, showing multiple pronunciations: these have been removed. It does not contain compound forms. 111,308 entries<br>url_information: "http://www.puzzlers.org/wordlists/cmudict_info.txt
DOI: 10.6084/m9.figshare.7492052.v1
title: Carnegie Mellon Pronouncing Dictionary

description: This was originally a pronouncing dictionary, and can be found on the net with phonetic information included in the file. That file also includes an informative text header explaining the list's origin and purpose. This list was originally upper case; I have converted it to lower case. It contained many duplicates, showing multiple pronunciations: these have been removed. It does not contain compound forms. 111,308 entries<br>url_information: "http://www.puzzlers.org/wordlists/cmudict_info.txt
DOI: 10.7284/107416
title: Gravimeter data collected during research cruise KNOX06RR using a Bell BGM-3 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107408
title: Magnetometer data collected during research cruise KNOX06RR using a Marine Magnetics SeaSPY instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107411
title: Meteorological Station data collected during research cruise KNOX06RR using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107415
title: Multibeam Echosounder data collected during research cruise KNOX06RR using a Kongsberg EM120 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7492043.v2
title: Slides from presentation at BES Annual Meeting 2018 - Baboon Spider Atlas and citizen science

description: These slides are from an oral presentation given at the British Ecological Society Annual Meeting 2018 in Birmingham. The presentation title is "USING CITIZEN SCIENCE AND THE ‘FEAR FACTOR’ TO MAP BABOON SPIDERS IN AFRICA"
DOI: 10.7284/107417
title: Singlebeam Echosounder data collected during research cruise KNOX06RR using a Knudsen 320B/R instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/107413
title: Winch data collected during research cruise KNOX06RR using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7491992
title: Secreted <i>Giardia intestinalis</i> cysteine proteases disrupt intestinal epithelial cell junctional complexes and degrade chemokines

description: Giardiasis is a common diarrheal disease caused by the protozoan parasite <i>Giardia intestinalis</i>. Cysteine proteases (CPs) are acknowledged as virulence factors in <i>Giardia</i> but their specific role in the molecular pathogenesis of disease is not known. Herein, we aimed to characterize the three main secreted CPs (CP14019, CP16160 and CP16779), which were identified by mass spectrometry in the medium during interaction with intestinal epithelial cells (IECs) <i>in vitro</i>. First, the CPs were epitope-tagged and localized to the endoplasmic reticulum and cytoplasmic vesicle-like structures. Second, we showed that recombinant CPs, expressed in <i>Pichia pastoris</i>, are more active in acidic environment (pH 5.5-6) and we determined the kinetic parameters using fluorogenic substrates. Third, excretory-secretory proteins (ESPs) from <i>Giardia</i> trophozoites affect the localization of apical junctional complex (AJC) proteins and recombinant CPs cleave or re-localize the AJC proteins (claudin-1 and -4, occludin, JAM-1, β-catenin and E-cadherin) of IECs. Finally, we showed that the ESPs and recombinant CPs can degrade several chemokines, including CXCL1, CXCL2, CXCL3, IL-8, CCL2, and CCL20, which are up-regulated in IECs during <i>Giardia</i>-host cell interactions. This is the first study that characterizes the role of specific CPs secreted from <i>Giardia</i> and our results collectively indicate their roles in the disruption of the intestinal epithelial barrier and modulating immune responses during <i>Giardia</i> infections.
DOI: 10.6084/m9.figshare.7491992.v1
title: Secreted <i>Giardia intestinalis</i> cysteine proteases disrupt intestinal epithelial cell junctional complexes and degrade chemokines

description: Giardiasis is a common diarrheal disease caused by the protozoan parasite <i>Giardia intestinalis</i>. Cysteine proteases (CPs) are acknowledged as virulence factors in <i>Giardia</i> but their specific role in the molecular pathogenesis of disease is not known. Herein, we aimed to characterize the three main secreted CPs (CP14019, CP16160 and CP16779), which were identified by mass spectrometry in the medium during interaction with intestinal epithelial cells (IECs) <i>in vitro</i>. First, the CPs were epitope-tagged and localized to the endoplasmic reticulum and cytoplasmic vesicle-like structures. Second, we showed that recombinant CPs, expressed in <i>Pichia pastoris</i>, are more active in acidic environment (pH 5.5-6) and we determined the kinetic parameters using fluorogenic substrates. Third, excretory-secretory proteins (ESPs) from <i>Giardia</i> trophozoites affect the localization of apical junctional complex (AJC) proteins and recombinant CPs cleave or re-localize the AJC proteins (claudin-1 and -4, occludin, JAM-1, β-catenin and E-cadherin) of IECs. Finally, we showed that the ESPs and recombinant CPs can degrade several chemokines, including CXCL1, CXCL2, CXCL3, IL-8, CCL2, and CCL20, which are up-regulated in IECs during <i>Giardia</i>-host cell interactions. This is the first study that characterizes the role of specific CPs secreted from <i>Giardia</i> and our results collectively indicate their roles in the disruption of the intestinal epithelial barrier and modulating immune responses during <i>Giardia</i> infections.
DOI: 10.7284/107421
title: Expendable Probe data collected during research cruise KNOX07RR using a Sippican MK21 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7491983
title: Familiarity and Difficulty of Spanish word fragments, Dasi et al. (2004a)

description: Normative data on the familiarity and difficulty of 196 Spanish word fragments<br>reference_to_cite: "Dasi, C., Soler, M. J., Ruiz, J. (2004). Normative data on the familiarity and difficulty of 196 Spanish word fragments. Behavior Research Methods, Instruments, & Computers (2004), Vol. 36, Issue 3, 559-563. [on-line]"<br>url_information: "http://psychonomic.org/archive/"<br>url_download: "http://psychonomic.org/archive/"
DOI: 10.6084/m9.figshare.7491989
title: Modulatory upregulation of an insulin peptide gene by different pathogens in <i>C. elegans</i>

description: When an animal is infected, its innate immune response needs to be tightly regulated across tissues and coordinated with other aspects of organismal physiology. Previous studies with <i>Caenorhabditis elegans</i> have demonstrated that insulin-like peptide genes are differentially expressed in response to different pathogens. They represent prime candidates for conveying signals between tissues upon infection. Here, we focused on one such gene, <i>ins-11</i> and its potential role in mediating cross-tissue regulation of innate immune genes. While diverse bacterial intestinal infections can trigger the up-regulation of <i>ins-11</i> in the intestine, we show that epidermal infection with the fungus <i>Drechmeria coniospora</i> triggers an upregulation of <i>ins-11</i> in the epidermis. Using the <i>Shigella</i> virulence factor OpsF, a MAP kinase inhibitor, we found that in both cases, <i>ins-11</i> expression is controlled cell autonomously by p38 MAPK, but via distinct transcription factors, STA-2/STAT in the epidermis and HLH-30/TFEB in the intestine. We established that <i>ins-11</i>, and the insulin signaling pathway more generally, are not involved in the regulation of antimicrobial peptide gene expression in the epidermis. The up-regulation of <i>ins-11</i> in the epidermis does, however, affect intestinal gene expression in a complex manner, and has a deleterious effect on longevity. These results support a model in which insulin signaling, via <i>ins-11</i>, contributes to the coordination of the organismal response to infection, influencing the allocation of resources in an infected animal.