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Genomics of host-pa...
Genomics of host-pathogen interactions: challenges and opportunities across ecological and spatiotemporal scales
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- Naepflin, Kathrin (författare)
- Harvard University
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- O'Connor, Emily A. (författare)
- Lunds universitet,Lund University
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- Becks, Lutz (författare)
- Universität Konstanz,University of Konstanz
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- Bensch, Staffan (författare)
- Lunds universitet,Lund University
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- Ellis, Vincenzo A. (författare)
- Lunds universitet,Lund University
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- Hafer-Hahmand, Nina (författare)
- Eawag - Swiss Federal Institute of Aquatic Science and Technology,Max Planck Gesellschaft zur Förderung der Wissenschaften e.V. (MPG),Max Planck Society for the Advancement of Science (MPG)
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- Harding, Karin C., 1968 (författare)
- Chalmers tekniska högskola,Chalmers University of Technology,Göteborgs universitet,University of Gothenburg
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- Linden, Sara K. (författare)
- Göteborgs universitet,University of Gothenburg
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- Olsen, Morten T. (författare)
- Köpenhamns universitet,University of Copenhagen
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- Roved, Jacob (författare)
- Lunds universitet,Lund University
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- Sackton, Timothy B. (författare)
- Harvard University
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Shultz, Allison J. (författare)
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- Venkatakrishnans, Vignesh (författare)
- Göteborgs universitet,University of Gothenburg
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- Videvall, Elin (författare)
- Lunds universitet,Lund University
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- Westerdahl, Helena (författare)
- Lunds universitet,Lund University
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- Winternitz, Jamie C. (författare)
- Universität Bielefeld,Bielefeld University,Max Planck Gesellschaft zur Förderung der Wissenschaften e.V. (MPG),Max Planck Society for the Advancement of Science (MPG)
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- Edwards, Scott V. (författare)
- Chalmers tekniska högskola,Chalmers University of Technology,Harvard University,Göteborgs universitet,University of Gothenburg
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(creator_code:org_t)
- 2019
- 2019
- Engelska.
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Ingår i: PeerJ. - 2167-8359. ; 7
- Relaterad länk:
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https://research.cha... (primary) (free)
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https://doi.org/10.7...
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https://research.cha...
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Abstract
Ämnesord
Stäng
- Evolutionary genomics has recently entered a new era in the study of host-pathogen interactions. A variety of novel genomic techniques has transformed the identification, detection and classification of both hosts and pathogens, allowing a greater resolution that helps decipher their underlying dynamics and provides novel insights into their environmental context. Nevertheless, many challenges to a general understanding of host-pathogen interactions remain, in particular in the synthesis and integration of concepts and findings across a variety of systems and different spatiotemporal and ecological scales. In this perspective we aim to highlight some of the commonalities and complexities across diverse studies of host-pathogen interactions, with a focus on ecological, spatiotemporal variation, and the choice of genomic methods used. We performed a quantitative review of recent literature to investigate links, patterns and potential tradeoffs between the complexity of genomic, ecological and spatiotemporal scales undertaken in individual host-pathogen studies. We found that the majority of studies used whole genome resolution to address their research objectives across a broad range of ecological scales, especially when focusing on the pathogen side of the interaction. Nevertheless, genomic studies conducted in a complex spatiotemporal context are currently rare in the literature. Because processes of host-pathogen interactions can be understood at multiple scales, from molecular-, cellular-, and physiological-scales to the levels of populations and ecosystems, we conclude that a major obstacle for synthesis across diverse host-pathogen systems is that data are collected on widely diverging scales with different degrees of resolution. This disparity not only hampers effective infrastructural organization of the data but also data granularity and accessibility. Comprehensive metadata deposited in association with genomic data in easily accessible databases will allow greater inference across systems in the future, especially when combined with open data standards and practices. The standardization and comparability of such data will facilitate early detection of emerging infectious diseases as well as studies of the impact of anthropogenic stressors, such as climate change, on disease dynamics in humans and wildlife.
Ämnesord
- NATURVETENSKAP -- Biologi -- Evolutionsbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Evolutionary Biology (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Bioinformatik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Bioinformatics (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Nyckelord
- Infectious diseases
- Natural selection
- Immunotoxins
- MHC
- Co-evolution
- GWAS
- Plasmodium
- Epidemiological surveillance
- Mucus
- Anthropogenic stressors
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Naepflin, Kathri ...
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O'Connor, Emily ...
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Becks, Lutz
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Bensch, Staffan
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Ellis, Vincenzo ...
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Hafer-Hahmand, N ...
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visa fler...
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Harding, Karin C ...
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Linden, Sara K.
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Olsen, Morten T.
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Roved, Jacob
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Sackton, Timothy ...
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Shultz, Allison ...
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Venkatakrishnans ...
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Videvall, Elin
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Westerdahl, Hele ...
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Winternitz, Jami ...
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Edwards, Scott V ...
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- NATURVETENSKAP
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NATURVETENSKAP
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och Biologi
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och Evolutionsbiolog ...
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- NATURVETENSKAP
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NATURVETENSKAP
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och Data och informa ...
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och Bioinformatik
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- NATURVETENSKAP
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NATURVETENSKAP
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Chalmers tekniska högskola