Cargando…
A synthesis of bacterial and archaeal phenotypic trait data
A synthesis of phenotypic and quantitative genomic traits is provided for bacteria and archaea, in the form of a scripted, reproducible workflow that standardizes and merges 26 sources. The resulting unified dataset covers 14 phenotypic traits, 5 quantitative genomic traits, and 4 environmental char...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
Nature Publishing Group UK
2020
|
| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7275036/ https://www.ncbi.nlm.nih.gov/pubmed/32503990 http://dx.doi.org/10.1038/s41597-020-0497-4 |
| _version_ | 1783542700732055552 |
|---|---|
| author | Madin, Joshua S. Nielsen, Daniel A. Brbic, Maria Corkrey, Ross Danko, David Edwards, Kyle Engqvist, Martin K. M. Fierer, Noah Geoghegan, Jemma L. Gillings, Michael Kyrpides, Nikos C. Litchman, Elena Mason, Christopher E. Moore, Lisa Nielsen, Søren L. Paulsen, Ian T. Price, Nathan D. Reddy, T. B. K. Richards, Matthew A. Rocha, Eduardo P. C. Schmidt, Thomas M. Shaaban, Heba Shukla, Maulik Supek, Fran Tetu, Sasha G. Vieira-Silva, Sara Wattam, Alice R. Westfall, David A. Westoby, Mark |
| author_facet | Madin, Joshua S. Nielsen, Daniel A. Brbic, Maria Corkrey, Ross Danko, David Edwards, Kyle Engqvist, Martin K. M. Fierer, Noah Geoghegan, Jemma L. Gillings, Michael Kyrpides, Nikos C. Litchman, Elena Mason, Christopher E. Moore, Lisa Nielsen, Søren L. Paulsen, Ian T. Price, Nathan D. Reddy, T. B. K. Richards, Matthew A. Rocha, Eduardo P. C. Schmidt, Thomas M. Shaaban, Heba Shukla, Maulik Supek, Fran Tetu, Sasha G. Vieira-Silva, Sara Wattam, Alice R. Westfall, David A. Westoby, Mark |
| author_sort | Madin, Joshua S. |
| collection | PubMed |
| description | A synthesis of phenotypic and quantitative genomic traits is provided for bacteria and archaea, in the form of a scripted, reproducible workflow that standardizes and merges 26 sources. The resulting unified dataset covers 14 phenotypic traits, 5 quantitative genomic traits, and 4 environmental characteristics for approximately 170,000 strain-level and 15,000 species-aggregated records. It spans all habitats including soils, marine and fresh waters and sediments, host-associated and thermal. Trait data can find use in clarifying major dimensions of ecological strategy variation across species. They can also be used in conjunction with species and abundance sampling to characterize trait mixtures in communities and responses of traits along environmental gradients. |
| format | Online Article Text |
| id | pubmed-7275036 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2020 |
| publisher | Nature Publishing Group UK |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-72750362020-06-16 A synthesis of bacterial and archaeal phenotypic trait data Madin, Joshua S. Nielsen, Daniel A. Brbic, Maria Corkrey, Ross Danko, David Edwards, Kyle Engqvist, Martin K. M. Fierer, Noah Geoghegan, Jemma L. Gillings, Michael Kyrpides, Nikos C. Litchman, Elena Mason, Christopher E. Moore, Lisa Nielsen, Søren L. Paulsen, Ian T. Price, Nathan D. Reddy, T. B. K. Richards, Matthew A. Rocha, Eduardo P. C. Schmidt, Thomas M. Shaaban, Heba Shukla, Maulik Supek, Fran Tetu, Sasha G. Vieira-Silva, Sara Wattam, Alice R. Westfall, David A. Westoby, Mark Sci Data Data Descriptor A synthesis of phenotypic and quantitative genomic traits is provided for bacteria and archaea, in the form of a scripted, reproducible workflow that standardizes and merges 26 sources. The resulting unified dataset covers 14 phenotypic traits, 5 quantitative genomic traits, and 4 environmental characteristics for approximately 170,000 strain-level and 15,000 species-aggregated records. It spans all habitats including soils, marine and fresh waters and sediments, host-associated and thermal. Trait data can find use in clarifying major dimensions of ecological strategy variation across species. They can also be used in conjunction with species and abundance sampling to characterize trait mixtures in communities and responses of traits along environmental gradients. Nature Publishing Group UK 2020-06-05 /pmc/articles/PMC7275036/ /pubmed/32503990 http://dx.doi.org/10.1038/s41597-020-0497-4 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the metadata files associated with this article. |
| spellingShingle | Data Descriptor Madin, Joshua S. Nielsen, Daniel A. Brbic, Maria Corkrey, Ross Danko, David Edwards, Kyle Engqvist, Martin K. M. Fierer, Noah Geoghegan, Jemma L. Gillings, Michael Kyrpides, Nikos C. Litchman, Elena Mason, Christopher E. Moore, Lisa Nielsen, Søren L. Paulsen, Ian T. Price, Nathan D. Reddy, T. B. K. Richards, Matthew A. Rocha, Eduardo P. C. Schmidt, Thomas M. Shaaban, Heba Shukla, Maulik Supek, Fran Tetu, Sasha G. Vieira-Silva, Sara Wattam, Alice R. Westfall, David A. Westoby, Mark A synthesis of bacterial and archaeal phenotypic trait data |
| title | A synthesis of bacterial and archaeal phenotypic trait data |
| title_full | A synthesis of bacterial and archaeal phenotypic trait data |
| title_fullStr | A synthesis of bacterial and archaeal phenotypic trait data |
| title_full_unstemmed | A synthesis of bacterial and archaeal phenotypic trait data |
| title_short | A synthesis of bacterial and archaeal phenotypic trait data |
| title_sort | synthesis of bacterial and archaeal phenotypic trait data |
| topic | Data Descriptor |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7275036/ https://www.ncbi.nlm.nih.gov/pubmed/32503990 http://dx.doi.org/10.1038/s41597-020-0497-4 |
| work_keys_str_mv | AT madinjoshuas asynthesisofbacterialandarchaealphenotypictraitdata AT nielsendaniela asynthesisofbacterialandarchaealphenotypictraitdata AT brbicmaria asynthesisofbacterialandarchaealphenotypictraitdata AT corkreyross asynthesisofbacterialandarchaealphenotypictraitdata AT dankodavid asynthesisofbacterialandarchaealphenotypictraitdata AT edwardskyle asynthesisofbacterialandarchaealphenotypictraitdata AT engqvistmartinkm asynthesisofbacterialandarchaealphenotypictraitdata AT fierernoah asynthesisofbacterialandarchaealphenotypictraitdata AT geogheganjemmal asynthesisofbacterialandarchaealphenotypictraitdata AT gillingsmichael asynthesisofbacterialandarchaealphenotypictraitdata AT kyrpidesnikosc asynthesisofbacterialandarchaealphenotypictraitdata AT litchmanelena asynthesisofbacterialandarchaealphenotypictraitdata AT masonchristophere asynthesisofbacterialandarchaealphenotypictraitdata AT moorelisa asynthesisofbacterialandarchaealphenotypictraitdata AT nielsensørenl asynthesisofbacterialandarchaealphenotypictraitdata AT paulseniant asynthesisofbacterialandarchaealphenotypictraitdata AT pricenathand asynthesisofbacterialandarchaealphenotypictraitdata AT reddytbk asynthesisofbacterialandarchaealphenotypictraitdata AT richardsmatthewa asynthesisofbacterialandarchaealphenotypictraitdata AT rochaeduardopc asynthesisofbacterialandarchaealphenotypictraitdata AT schmidtthomasm asynthesisofbacterialandarchaealphenotypictraitdata AT shaabanheba asynthesisofbacterialandarchaealphenotypictraitdata AT shuklamaulik asynthesisofbacterialandarchaealphenotypictraitdata AT supekfran asynthesisofbacterialandarchaealphenotypictraitdata AT tetusashag asynthesisofbacterialandarchaealphenotypictraitdata AT vieirasilvasara asynthesisofbacterialandarchaealphenotypictraitdata AT wattamalicer asynthesisofbacterialandarchaealphenotypictraitdata AT westfalldavida asynthesisofbacterialandarchaealphenotypictraitdata AT westobymark asynthesisofbacterialandarchaealphenotypictraitdata AT madinjoshuas synthesisofbacterialandarchaealphenotypictraitdata AT nielsendaniela synthesisofbacterialandarchaealphenotypictraitdata AT brbicmaria synthesisofbacterialandarchaealphenotypictraitdata AT corkreyross synthesisofbacterialandarchaealphenotypictraitdata AT dankodavid synthesisofbacterialandarchaealphenotypictraitdata AT edwardskyle synthesisofbacterialandarchaealphenotypictraitdata AT engqvistmartinkm synthesisofbacterialandarchaealphenotypictraitdata AT fierernoah synthesisofbacterialandarchaealphenotypictraitdata AT geogheganjemmal synthesisofbacterialandarchaealphenotypictraitdata AT gillingsmichael synthesisofbacterialandarchaealphenotypictraitdata AT kyrpidesnikosc synthesisofbacterialandarchaealphenotypictraitdata AT litchmanelena synthesisofbacterialandarchaealphenotypictraitdata AT masonchristophere synthesisofbacterialandarchaealphenotypictraitdata AT moorelisa synthesisofbacterialandarchaealphenotypictraitdata AT nielsensørenl synthesisofbacterialandarchaealphenotypictraitdata AT paulseniant synthesisofbacterialandarchaealphenotypictraitdata AT pricenathand synthesisofbacterialandarchaealphenotypictraitdata AT reddytbk synthesisofbacterialandarchaealphenotypictraitdata AT richardsmatthewa synthesisofbacterialandarchaealphenotypictraitdata AT rochaeduardopc synthesisofbacterialandarchaealphenotypictraitdata AT schmidtthomasm synthesisofbacterialandarchaealphenotypictraitdata AT shaabanheba synthesisofbacterialandarchaealphenotypictraitdata AT shuklamaulik synthesisofbacterialandarchaealphenotypictraitdata AT supekfran synthesisofbacterialandarchaealphenotypictraitdata AT tetusashag synthesisofbacterialandarchaealphenotypictraitdata AT vieirasilvasara synthesisofbacterialandarchaealphenotypictraitdata AT wattamalicer synthesisofbacterialandarchaealphenotypictraitdata AT westfalldavida synthesisofbacterialandarchaealphenotypictraitdata AT westobymark synthesisofbacterialandarchaealphenotypictraitdata |