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  • Open Access
    Authors: 
    Morgan, Claire; Hart, Michael;
    Publisher: figshare
    Project: NSERC

    Appendix S3. Summary of species names, accession numbers, and Newick strings used in codon model analyses (XLSX 51 kb)

  • Open Access
    Authors: 
    Borgognone, Alessandra; Noguera-Julian, Marc; Oriol, Bruna; Noël-Romas, Laura; Ruiz-Riol, Marta; Guillén, Yolanda; Parera, Mariona; Casadellà, Maria; Duran, Clara; Puertas, Maria C.; +13 more
    Publisher: figshare
    Project: CIHR , EC | EAVI2020 (681137), EC | MISTRAL (847943)

    Additional file 2: Dataset S1. Longitudinal microbial composition (relative abundance) in viremic controllers and non-controllers analyzed by MetaPhlAn2.0. Dataset S2. Raw bacterial protein counts at baseline in viremic controllers and non-controllers analysed using Scaffold Q+ software v4.9.0. Dataset S3. Raw gene counts at baseline in viremic controllers and non-controllers estimated using RSEM v1.3.0. Dataset S4. Soluble factors (normalized protein expression units) from the Olink inflammation panel at baseline in viremic controllers and non-controllers. Dataset S5. List of transcripts significantly correlated with the Bacteroidales:Clostridiales ratio adjusted for multiple comparisons (spearman’s rho and corresponding q-value<0.05 are reported). Dataset S6. Spearman’s correlation (rho=0.5) between viral reservoir (CA HIV-1 RNA and HIV-1 DNA), bacterial species (Bacteroidales and Clostrdiales), transcripts correlated with the ratio Bacteroidales / Clostridiales and differentially abundant microbial proteins (p<0.025). Dataset S7. Benjamini–Hochberg multiple hypothesis correction for unadjusted p-values ≤ 0.05 (metagenomics and metaproteomics datasets).

  • Open Access
    Authors: 
    Twardek, W. M.; Ekström, A.; E. J. Eliason; Lennox, R. J.; Tuononen, E.; Abrams, A. E. I.; A. L. Jeanson; S. J. Cooke;
    Publisher: The Royal Society
    Project: NSERC

    During spawning, adult Pacific salmonids (Oncorhynchus spp.) complete challenging upriver migrations during which energy and oxygen delivery must be partitioned into activities such as locomotion, maturation and spawning behaviours under the constraints of an individual's cardiac capacity. To advance our understanding of cardiac function in free-swimming fishes, we implanted migrating adult Chinook salmon (Oncorhynchus tshawytscha) collected near the mouth of the Sydenham River, Ontario, with heart rate (fH) biologgers that recorded fH every 3 min until these semelparous fish expired on spawning grounds several days later. Fundamental aspects of cardiac function were quantified, including resting, routine and maximum fH, as well as scope for fH (maximum−resting fH). Predictors of fH were explored using generalized least-squares regression, including water temperature, discharge, fish size and fish origin (wild versus hatchery). Heart rate was positively correlated with water temperature, which aligned closely with daily and seasonal shifts. Wild fish had slower resting heart rates than hatchery fish, which led to significantly higher scope for fH. Our findings suggest that wild salmon may have better cardiac capacity during migration than hatchery fish, potentially promoting migration success in wild fish.This article is part of the theme issue ‘Measuring physiology in free living animals (Part I)’.

  • Open Access
    Authors: 
    Borgognone, Alessandra; Noguera-Julian, Marc; Oriol, Bruna; Noël-Romas, Laura; Ruiz-Riol, Marta; Guillén, Yolanda; Parera, Mariona; Casadellà, Maria; Duran, Clara; Puertas, Maria C.; +13 more
    Publisher: figshare
    Project: CIHR , EC | MISTRAL (847943), EC | EAVI2020 (681137)

    Additional file 3: Table S1. List of differentially expressed genes between controllers and non-controllers at baseline (adjusted p-value <0.1and log2 FoldChange = 0). Table S2. Detailed information of differentially expressed genes (DEGs) between controllers and non-controllers at baseline (adjusted p-value <0.1 and log2 FoldChange = 0). Table S3. GO terms from enrichment analysis (biological process) based on upregulated genes in viremic controllers (n. transcripts =15). Table S4. Enriched GO biological process terms of host transcripts significantly correlated with the ratio Bacteroidales/Clostridiales. Table S5. Enriched GO biological process terms of transcripts (n=453) significantly correlated with the ratio Bacteroidales/Clostridiales and viral reservoir (CA HIV-1 RNA and HIV-1 DNA). Table S6. Summary of shotgun metagenomics sequencing yield from longitudinally-collected fecal samples. Statistics of reads mapped to integrated gene catalog (IGC) are also shown.

  • Open Access
    Authors: 
    Anirudh Singh Rana; Gupta, Vinay Kumar; Struchtrup, Henning;
    Publisher: The Royal Society
    Project: UKRI | Nano-Engineered Flow Tech... (EP/N016602/1), NSERC , EC | WIRL (713548)

    This Malab file solves the normal shock structure problem (figure no: 6 in the manuscript) for the CCR/NSF/Grad models.

  • Open Access
    Authors: 
    Dumontier, Michel; Baker, Christopher JO; Baran, Joachim; Callahan, Alison; Chepelev, Leonid; Cruz-Toledo, José; Del Rio, Nicholas R; Duck, Geraint; Furlong, Laura I; Keath, Nichealla; +7 more
    Publisher: figshare
    Project: NSF | CREST Phase II: Cyber-ShA... (1242122), NSERC , EC | OPEN PHACTS (115191)

    Authors’ original file for figure 1

  • Open Access
    Authors: 
    Quesnel-Vallières, Mathieu;
    Publisher: Mendeley
    Project: EC | NEURAL AS (637591), CIHR

    Primary image data related to Quesnel-Vallières et al., 2016, Mol Cell: http://dx.doi.org/10.1016/j.molcel.2016.11.033

  • Open Access
    Authors: 
    W. Patrick Neumann; Winkel, Jörgen; Palmerud, Gunnar; Forsman, Mikael;
    Publisher: Taylor & Francis
    Project: NSERC

    Engineering innovations in car disassembly systems are studied for affects on system operators’ risk of repetitive strain injury (RSI). Objective instrumented measures of injury risk factors with synchronised video-based task analyses were used to examine changes in operators’ RSI risk during two cases of engineering innovation: (1) a shift in industrial model from traditional extracting saleable parts to line-based full material recovery, and (2) the prospective effects of a simulated ‘Lean’-inspired process improvement in the line system. Both cases of innovation showed significantly increased movement speeds and reduced muscular recovery opportunities, implying increased RSI risk. This case study reveals a mechanism by which innovation may increase RSI risks for operators. Managers responsible for engineering innovation should ensure their teams have the tools and mandate necessary to control injury hazards as part of the development and design process. These cases suggest how failure to manage RSI hazards in the innovation process may allow increases of injury risks that can compromise operational performance. This ‘innovation pitfall’ has implications for operator health and organisational sustainability. Alternative pathways are discussed.

  • Open Access English
    Authors: 
    Beaulieu, Samuel; Schusser, Jakub; Dong, Shuo; Schüler, Michael; Pincelli, Tommaso; Dendzik, Maciej; Maklar, Julian; Neef, Alexander; Ebert, Hubert; Hricovini, Karol; +5 more
    Publisher: Zenodo
    Project: NSERC , EC | OPTOlogic (899794), EC | FLATLAND (682843)

    Angle-resolved photoemission spectroscopy (ARPES) of bulk 2H-WSe2 for different crystal orientations linked to each other by time-reversal symmetry. This dataset supplements a manuscript, and was used to measure a new observable called time-reversal dichroism in photoelectron angular distributions (TRDAD), which quantifies the modulation of the photoemission intensity upon effective time-reversal operation. Experimental results are in quantitative agreement with both tight-binding model and state-of-the-art fully relativistic calculations performed using the one-step model of photoemission, unambiguously demonstrating that TRDAD reveals its orbital pseudospin texture counterpart.

  • Open Access
    Authors: 
    Dumontier, Michel; Baker, Christopher JO; Baran, Joachim; Callahan, Alison; Chepelev, Leonid; Cruz-Toledo, José; Del Rio, Nicholas R; Duck, Geraint; Furlong, Laura I; Keath, Nichealla; +7 more
    Publisher: figshare
    Project: NSERC , NSF | CREST Phase II: Cyber-ShA... (1242122), EC | OPEN PHACTS (115191)

    Authors’ original file for figure 2

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Include:
The following results are related to Canada. Are you interested to view more results? Visit OpenAIRE - Explore.
45 Research products, page 1 of 5
  • Open Access
    Authors: 
    Morgan, Claire; Hart, Michael;
    Publisher: figshare
    Project: NSERC

    Appendix S3. Summary of species names, accession numbers, and Newick strings used in codon model analyses (XLSX 51 kb)

  • Open Access
    Authors: 
    Borgognone, Alessandra; Noguera-Julian, Marc; Oriol, Bruna; Noël-Romas, Laura; Ruiz-Riol, Marta; Guillén, Yolanda; Parera, Mariona; Casadellà, Maria; Duran, Clara; Puertas, Maria C.; +13 more
    Publisher: figshare
    Project: CIHR , EC | EAVI2020 (681137), EC | MISTRAL (847943)

    Additional file 2: Dataset S1. Longitudinal microbial composition (relative abundance) in viremic controllers and non-controllers analyzed by MetaPhlAn2.0. Dataset S2. Raw bacterial protein counts at baseline in viremic controllers and non-controllers analysed using Scaffold Q+ software v4.9.0. Dataset S3. Raw gene counts at baseline in viremic controllers and non-controllers estimated using RSEM v1.3.0. Dataset S4. Soluble factors (normalized protein expression units) from the Olink inflammation panel at baseline in viremic controllers and non-controllers. Dataset S5. List of transcripts significantly correlated with the Bacteroidales:Clostridiales ratio adjusted for multiple comparisons (spearman’s rho and corresponding q-value<0.05 are reported). Dataset S6. Spearman’s correlation (rho=0.5) between viral reservoir (CA HIV-1 RNA and HIV-1 DNA), bacterial species (Bacteroidales and Clostrdiales), transcripts correlated with the ratio Bacteroidales / Clostridiales and differentially abundant microbial proteins (p<0.025). Dataset S7. Benjamini–Hochberg multiple hypothesis correction for unadjusted p-values ≤ 0.05 (metagenomics and metaproteomics datasets).

  • Open Access
    Authors: 
    Twardek, W. M.; Ekström, A.; E. J. Eliason; Lennox, R. J.; Tuononen, E.; Abrams, A. E. I.; A. L. Jeanson; S. J. Cooke;
    Publisher: The Royal Society
    Project: NSERC

    During spawning, adult Pacific salmonids (Oncorhynchus spp.) complete challenging upriver migrations during which energy and oxygen delivery must be partitioned into activities such as locomotion, maturation and spawning behaviours under the constraints of an individual's cardiac capacity. To advance our understanding of cardiac function in free-swimming fishes, we implanted migrating adult Chinook salmon (Oncorhynchus tshawytscha) collected near the mouth of the Sydenham River, Ontario, with heart rate (fH) biologgers that recorded fH every 3 min until these semelparous fish expired on spawning grounds several days later. Fundamental aspects of cardiac function were quantified, including resting, routine and maximum fH, as well as scope for fH (maximum−resting fH). Predictors of fH were explored using generalized least-squares regression, including water temperature, discharge, fish size and fish origin (wild versus hatchery). Heart rate was positively correlated with water temperature, which aligned closely with daily and seasonal shifts. Wild fish had slower resting heart rates than hatchery fish, which led to significantly higher scope for fH. Our findings suggest that wild salmon may have better cardiac capacity during migration than hatchery fish, potentially promoting migration success in wild fish.This article is part of the theme issue ‘Measuring physiology in free living animals (Part I)’.

  • Open Access
    Authors: 
    Borgognone, Alessandra; Noguera-Julian, Marc; Oriol, Bruna; Noël-Romas, Laura; Ruiz-Riol, Marta; Guillén, Yolanda; Parera, Mariona; Casadellà, Maria; Duran, Clara; Puertas, Maria C.; +13 more
    Publisher: figshare
    Project: CIHR , EC | MISTRAL (847943), EC | EAVI2020 (681137)

    Additional file 3: Table S1. List of differentially expressed genes between controllers and non-controllers at baseline (adjusted p-value <0.1and log2 FoldChange = 0). Table S2. Detailed information of differentially expressed genes (DEGs) between controllers and non-controllers at baseline (adjusted p-value <0.1 and log2 FoldChange = 0). Table S3. GO terms from enrichment analysis (biological process) based on upregulated genes in viremic controllers (n. transcripts =15). Table S4. Enriched GO biological process terms of host transcripts significantly correlated with the ratio Bacteroidales/Clostridiales. Table S5. Enriched GO biological process terms of transcripts (n=453) significantly correlated with the ratio Bacteroidales/Clostridiales and viral reservoir (CA HIV-1 RNA and HIV-1 DNA). Table S6. Summary of shotgun metagenomics sequencing yield from longitudinally-collected fecal samples. Statistics of reads mapped to integrated gene catalog (IGC) are also shown.

  • Open Access
    Authors: 
    Anirudh Singh Rana; Gupta, Vinay Kumar; Struchtrup, Henning;
    Publisher: The Royal Society
    Project: UKRI | Nano-Engineered Flow Tech... (EP/N016602/1), NSERC , EC | WIRL (713548)

    This Malab file solves the normal shock structure problem (figure no: 6 in the manuscript) for the CCR/NSF/Grad models.

  • Open Access
    Authors: 
    Dumontier, Michel; Baker, Christopher JO; Baran, Joachim; Callahan, Alison; Chepelev, Leonid; Cruz-Toledo, José; Del Rio, Nicholas R; Duck, Geraint; Furlong, Laura I; Keath, Nichealla; +7 more
    Publisher: figshare
    Project: NSF | CREST Phase II: Cyber-ShA... (1242122), NSERC , EC | OPEN PHACTS (115191)

    Authors’ original file for figure 1

  • Open Access
    Authors: 
    Quesnel-Vallières, Mathieu;
    Publisher: Mendeley
    Project: EC | NEURAL AS (637591), CIHR

    Primary image data related to Quesnel-Vallières et al., 2016, Mol Cell: http://dx.doi.org/10.1016/j.molcel.2016.11.033

  • Open Access
    Authors: 
    W. Patrick Neumann; Winkel, Jörgen; Palmerud, Gunnar; Forsman, Mikael;
    Publisher: Taylor & Francis
    Project: NSERC

    Engineering innovations in car disassembly systems are studied for affects on system operators’ risk of repetitive strain injury (RSI). Objective instrumented measures of injury risk factors with synchronised video-based task analyses were used to examine changes in operators’ RSI risk during two cases of engineering innovation: (1) a shift in industrial model from traditional extracting saleable parts to line-based full material recovery, and (2) the prospective effects of a simulated ‘Lean’-inspired process improvement in the line system. Both cases of innovation showed significantly increased movement speeds and reduced muscular recovery opportunities, implying increased RSI risk. This case study reveals a mechanism by which innovation may increase RSI risks for operators. Managers responsible for engineering innovation should ensure their teams have the tools and mandate necessary to control injury hazards as part of the development and design process. These cases suggest how failure to manage RSI hazards in the innovation process may allow increases of injury risks that can compromise operational performance. This ‘innovation pitfall’ has implications for operator health and organisational sustainability. Alternative pathways are discussed.

  • Open Access English
    Authors: 
    Beaulieu, Samuel; Schusser, Jakub; Dong, Shuo; Schüler, Michael; Pincelli, Tommaso; Dendzik, Maciej; Maklar, Julian; Neef, Alexander; Ebert, Hubert; Hricovini, Karol; +5 more
    Publisher: Zenodo
    Project: NSERC , EC | OPTOlogic (899794), EC | FLATLAND (682843)

    Angle-resolved photoemission spectroscopy (ARPES) of bulk 2H-WSe2 for different crystal orientations linked to each other by time-reversal symmetry. This dataset supplements a manuscript, and was used to measure a new observable called time-reversal dichroism in photoelectron angular distributions (TRDAD), which quantifies the modulation of the photoemission intensity upon effective time-reversal operation. Experimental results are in quantitative agreement with both tight-binding model and state-of-the-art fully relativistic calculations performed using the one-step model of photoemission, unambiguously demonstrating that TRDAD reveals its orbital pseudospin texture counterpart.

  • Open Access
    Authors: 
    Dumontier, Michel; Baker, Christopher JO; Baran, Joachim; Callahan, Alison; Chepelev, Leonid; Cruz-Toledo, José; Del Rio, Nicholas R; Duck, Geraint; Furlong, Laura I; Keath, Nichealla; +7 more
    Publisher: figshare
    Project: NSERC , NSF | CREST Phase II: Cyber-ShA... (1242122), EC | OPEN PHACTS (115191)

    Authors’ original file for figure 2