Metagenomic analysis of planktonic riverine microbial consortia using nanopore sequencing reveals insight into river microbe taxonomy and function
| العنوان: | Metagenomic analysis of planktonic riverine microbial consortia using nanopore sequencing reveals insight into river microbe taxonomy and function |
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| المؤلفون: | Terrance P. Snutch, Spyridon Oikonomopoulos, Tue Kjærgaard Nielsen, Miten Jain, Eric van der Helm, Richard M. Leggett, Dino Jolic, Hollian Richardson, Justin O'Grady, Hans J. Jansen, Jiannis Ragoussis, Ned Peel, David Eccles, Devin M. Drown, Lars Hestbjerg Hansen, Thomas Barry, John R. Tyson, Anne-Lise Ducluzeau, Bonnie L. Brown, Anthony Bayega, Kate Reddington, Darren Heavens |
| المصدر: | Reddington, K, Eccles, D, O'Grady, J, Drown, D M, Hansen, L H, Nielsen, T K, Ducluzeau, A L, Leggett, R M, Heavens, D, Peel, N, Snutch, T P, Bayega, A, Oikonomopoulos, S, Ragoussis, J, Barry, T, van der Helm, E, Jolic, D, Richardson, H, Jansen, H, Tyson, J R, Jain, M & Brown, B L 2020, ' Metagenomic analysis of planktonic riverine microbial consortia using nanopore sequencing reveals insight into river microbe taxonomy and function ', GigaScience, vol. 9, no. 6, giaa053 . https://doi.org/10.1093/gigascience/giaa053 Reddington, K, Eccles, D, O'Grady, J, Drown, D M, Hansen, L H, Nielsen, T K, Ducluzeau, A-L, Leggett, R M, Heavens, D, Peel, N, Snutch, T P, Bayega, A, Oikonomopoulos, S, Ragoussis, J, Barry, T, van der Helm, E, Jolic, D, Richardson, H, Jansen, H, Tyson, J R, Jain, M & Brown, B L 2020, ' Metagenomic analysis of planktonic riverine microbial consortia using nanopore sequencing reveals insight into river microbe taxonomy and function ', GigaScience, vol. 9, no. 6, 053 . https://doi.org/10.1093/gigascience/giaa053 Reddington, K, Eccles, D, O'Grady, J, Drown, D M, Hansen, L H, Nielsen, T K, Ducluzeau, A L, Leggett, R M, Heavens, D, Peel, N, Snutch, T P, Bayega, A, Oikonomopoulos, S, Ragoussis, I, Barry, T, van der Helm, E, Jolic, D, Richardson, H, Jansen, H, Tyson, J R, Jain, M & Brown, B L 2020, ' Metagenomic analysis of planktonic riverine microbial consortia using nanopore sequencing reveals insight into river microbe taxonomy and function ', GigaScience, vol. 9, no. 6, giaa053 . https://doi.org/10.1093/gigascience/giaa053 |
| سنة النشر: | 2020 |
| مصطلحات موضوعية: | Biogeochemical cycle, Temperate river metagenomes, River ecosystem, Nanopore sequencing, BIOTIC INTEGRITY, BACTERIAL COMMUNITY, MinION, Health Informatics, 03 medical and health sciences, Water column, Ecosystem, 14. Life underwater, 030304 developmental biology, 0303 health sciences, 030306 microbiology, Ecology, 15. Life on land, Plankton, 6. Clean water, Computer Science Applications, Microbial population biology, 13. Climate action, Metagenomics, Environmental science, Long-read |
| الوصف: | Background Riverine ecosystems are biogeochemical powerhouses driven largely by microbial communities that inhabit water columns and sediments. Because rivers are used extensively for anthropogenic purposes (drinking water, recreation, agriculture, and industry), it is essential to understand how these activities affect the composition of river microbial consortia. Recent studies have shown that river metagenomes vary considerably, suggesting that microbial community data should be included in broad-scale river ecosystem models. But such ecogenomic studies have not been applied on a broad “aquascape” scale, and few if any have applied the newest nanopore technology. Results We investigated the metagenomes of 11 rivers across 3 continents using MinION nanopore sequencing, a portable platform that could be useful for future global river monitoring. Up to 10 Gb of data per run were generated with average read lengths of 3.4 kb. Diversity and diagnosis of river function potential was accomplished with 0.5–1.0 ⋅ 106 long reads. Our observations for 7 of the 11 rivers conformed to other river-omic findings, and we exposed previously unrecognized microbial biodiversity in the other 4 rivers. Conclusions Deeper understanding that emerged is that river microbial consortia and the ecological functions they fulfil did not align with geographic location but instead implicated ecological responses of microbes to urban and other anthropogenic effects, and that changes in taxa manifested over a very short geographic space. |
| وصف الملف: | application/pdf |
| اللغة: | English |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9cb7f41189bf05d654da37b7b0fa9ab2 https://orbit.dtu.dk/en/publications/503cff13-37a3-40e7-ac13-683a2ac694b3 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....9cb7f41189bf05d654da37b7b0fa9ab2 |
| قاعدة البيانات: | OpenAIRE |
| الوصف غير متاح. |