Pan genome of the phytoplankton Emiliania underpins its global distribution
© The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Nature 499 (2013): 209–213, doi:10.1038/nature12221. Coccolithophores have influenced the global climate for over 200 million years1. These marine p...
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ftwhoas:oai:darchive.mblwhoilibrary.org:1912/6161 2023-05-15T18:28:32+02:00 Pan genome of the phytoplankton Emiliania underpins its global distribution Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan J. Lefebvre, Stephane C. Maumus, Florian Mayer, Christoph Miller, John Monier, Adam Salamov, Asaf Young, Jeremy Aguilar, Maria Claverie, Jean-Michel Frickenhaus, Stephan Gonzalez, Karina Herman, Emily K. Lin, Yao-Cheng Napier, Johnathan Ogata, Hiroyuki Sarno, Analissa F. Shmutz, Jeremy Schroeder, Declan C. de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen L. Emiliania huxleyi Annotation Consortium Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glockne, Gernot Joh, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. 2013-07-10 application/pdf application/vnd.ms-excel https://hdl.handle.net/1912/6161 en_US eng Nature Publishing Group https://doi.org/10.1038/nature12221 Nature 499 (2013): 209–213 https://hdl.handle.net/1912/6161 doi:10.1038/nature12221 Attribution-NonCommercial-ShareAlike 3.0 Unported http://creativecommons.org/licenses/by-nc-sa/3.0/ CC-BY-NC-SA Nature 499 (2013): 209–213 doi:10.1038/nature12221 Genetic variation Article 2013 ftwhoas https://doi.org/10.1038/nature12221 2022-05-28T22:58:56Z © The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Nature 499 (2013): 209–213, doi:10.1038/nature12221. Coccolithophores have influenced the global climate for over 200 million years1. These marine phytoplankton can account for 20 per cent of total carbon fixation in some systems2. They form blooms that can occupy hundreds of thousands of square kilometres and are distinguished by their elegantly sculpted calcium carbonate exoskeletons (coccoliths), rendering them visible from space3. Although coccolithophores export carbon in the form of organic matter and calcite to the sea floor, they also release CO2 in the calcification process. Hence, they have a complex influence on the carbon cycle, driving either CO2 production or uptake, sequestration and export to the deep ocean4. Here we report the first haptophyte reference genome, from the coccolithophore Emiliania huxleyi strain CCMP1516, and sequences from 13 additional isolates. Our analyses reveal a pan genome (core genes plus genes distributed variably between strains) probably supported by an atypical complement of repetitive sequence in the genome. Comparisons across strains demonstrate that E. huxleyi, which has long been considered a single species, harbours extensive genome variability reflected in different metabolic repertoires. Genome variability within this species complex seems to underpin its capacity both to thrive in habitats ranging from the equator to the subarctic and to form large-scale episodic blooms under a wide variety of environmental conditions. Joint Genome Institute (JGI) contributions were supported by the Office of Science of the US Department of Energy (DOE) under contract no. 7DE-AC02-05CH11231. Article in Journal/Newspaper Subarctic Woods Hole Scientific Community: WHOAS (Woods Hole Open Access Server) Nature 499 7457 209 213 |
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Woods Hole Scientific Community: WHOAS (Woods Hole Open Access Server) |
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English |
topic |
Genetic variation |
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Genetic variation Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan J. Lefebvre, Stephane C. Maumus, Florian Mayer, Christoph Miller, John Monier, Adam Salamov, Asaf Young, Jeremy Aguilar, Maria Claverie, Jean-Michel Frickenhaus, Stephan Gonzalez, Karina Herman, Emily K. Lin, Yao-Cheng Napier, Johnathan Ogata, Hiroyuki Sarno, Analissa F. Shmutz, Jeremy Schroeder, Declan C. de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen L. Emiliania huxleyi Annotation Consortium Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glockne, Gernot Joh, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. Pan genome of the phytoplankton Emiliania underpins its global distribution |
topic_facet |
Genetic variation |
description |
© The Author(s), 2013. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Nature 499 (2013): 209–213, doi:10.1038/nature12221. Coccolithophores have influenced the global climate for over 200 million years1. These marine phytoplankton can account for 20 per cent of total carbon fixation in some systems2. They form blooms that can occupy hundreds of thousands of square kilometres and are distinguished by their elegantly sculpted calcium carbonate exoskeletons (coccoliths), rendering them visible from space3. Although coccolithophores export carbon in the form of organic matter and calcite to the sea floor, they also release CO2 in the calcification process. Hence, they have a complex influence on the carbon cycle, driving either CO2 production or uptake, sequestration and export to the deep ocean4. Here we report the first haptophyte reference genome, from the coccolithophore Emiliania huxleyi strain CCMP1516, and sequences from 13 additional isolates. Our analyses reveal a pan genome (core genes plus genes distributed variably between strains) probably supported by an atypical complement of repetitive sequence in the genome. Comparisons across strains demonstrate that E. huxleyi, which has long been considered a single species, harbours extensive genome variability reflected in different metabolic repertoires. Genome variability within this species complex seems to underpin its capacity both to thrive in habitats ranging from the equator to the subarctic and to form large-scale episodic blooms under a wide variety of environmental conditions. Joint Genome Institute (JGI) contributions were supported by the Office of Science of the US Department of Energy (DOE) under contract no. 7DE-AC02-05CH11231. |
format |
Article in Journal/Newspaper |
author |
Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan J. Lefebvre, Stephane C. Maumus, Florian Mayer, Christoph Miller, John Monier, Adam Salamov, Asaf Young, Jeremy Aguilar, Maria Claverie, Jean-Michel Frickenhaus, Stephan Gonzalez, Karina Herman, Emily K. Lin, Yao-Cheng Napier, Johnathan Ogata, Hiroyuki Sarno, Analissa F. Shmutz, Jeremy Schroeder, Declan C. de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen L. Emiliania huxleyi Annotation Consortium Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glockne, Gernot Joh, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. |
author_facet |
Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan J. Lefebvre, Stephane C. Maumus, Florian Mayer, Christoph Miller, John Monier, Adam Salamov, Asaf Young, Jeremy Aguilar, Maria Claverie, Jean-Michel Frickenhaus, Stephan Gonzalez, Karina Herman, Emily K. Lin, Yao-Cheng Napier, Johnathan Ogata, Hiroyuki Sarno, Analissa F. Shmutz, Jeremy Schroeder, Declan C. de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen L. Emiliania huxleyi Annotation Consortium Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glockne, Gernot Joh, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. |
author_sort |
Read, Betsy A. |
title |
Pan genome of the phytoplankton Emiliania underpins its global distribution |
title_short |
Pan genome of the phytoplankton Emiliania underpins its global distribution |
title_full |
Pan genome of the phytoplankton Emiliania underpins its global distribution |
title_fullStr |
Pan genome of the phytoplankton Emiliania underpins its global distribution |
title_full_unstemmed |
Pan genome of the phytoplankton Emiliania underpins its global distribution |
title_sort |
pan genome of the phytoplankton emiliania underpins its global distribution |
publisher |
Nature Publishing Group |
publishDate |
2013 |
url |
https://hdl.handle.net/1912/6161 |
genre |
Subarctic |
genre_facet |
Subarctic |
op_source |
Nature 499 (2013): 209–213 doi:10.1038/nature12221 |
op_relation |
https://doi.org/10.1038/nature12221 Nature 499 (2013): 209–213 https://hdl.handle.net/1912/6161 doi:10.1038/nature12221 |
op_rights |
Attribution-NonCommercial-ShareAlike 3.0 Unported http://creativecommons.org/licenses/by-nc-sa/3.0/ |
op_rightsnorm |
CC-BY-NC-SA |
op_doi |
https://doi.org/10.1038/nature12221 |
container_title |
Nature |
container_volume |
499 |
container_issue |
7457 |
container_start_page |
209 |
op_container_end_page |
213 |
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1766211044183638016 |