Pan genome of the phytoplankton Emiliania underpins its global distribution
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 scul...
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Format: | Article in Journal/Newspaper |
Language: | English |
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2013
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Online Access: | https://eprints.soton.ac.uk/370396/ |
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University of Southampton: e-Prints Soton |
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English |
description |
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. |
format |
Article in Journal/Newspaper |
author |
Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan 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 de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen Allen, Andrew E. Bidle, Kay Borodovsky, Mark Bowler, Chris Brownlee, Colin Cock, J. Mark Elias, Marek Gladyshev, Vadim N. Groth, Marco Guda, Chittibabu Hadaegh, Ahmad Iglesias-Rodriguez, Debora Maria Jenkins, Jerry Jones, Bethan M. Lawson, Tracy Leese, Florian Lindquist, Erika Lobanov, Alexei Lomsadze, Alexandre Malik, Shehre-Banoo Marsh, Mary E. Mackinder, Luke Mock, Thomas Mueller-Roeber, Bernd Pagarete, António Parker, Micaela Probert, Ian Quesneville, Hadi Raines, Christine Rensing, Stefan A. Riaño-Pachón, Diego Mauricio Richier, Sophie Rokitta, Sebastian Shiraiwa, Yoshihiro Soanes, Darren M. van der Giezen, Mark Wahlund, Thomas M. Williams, Bryony Wilson, Willie Wolfe, Gordon Wurch, Louie L. Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glöckner, Gernot John, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. |
spellingShingle |
Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan 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 de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen Allen, Andrew E. Bidle, Kay Borodovsky, Mark Bowler, Chris Brownlee, Colin Cock, J. Mark Elias, Marek Gladyshev, Vadim N. Groth, Marco Guda, Chittibabu Hadaegh, Ahmad Iglesias-Rodriguez, Debora Maria Jenkins, Jerry Jones, Bethan M. Lawson, Tracy Leese, Florian Lindquist, Erika Lobanov, Alexei Lomsadze, Alexandre Malik, Shehre-Banoo Marsh, Mary E. Mackinder, Luke Mock, Thomas Mueller-Roeber, Bernd Pagarete, António Parker, Micaela Probert, Ian Quesneville, Hadi Raines, Christine Rensing, Stefan A. Riaño-Pachón, Diego Mauricio Richier, Sophie Rokitta, Sebastian Shiraiwa, Yoshihiro Soanes, Darren M. van der Giezen, Mark Wahlund, Thomas M. Williams, Bryony Wilson, Willie Wolfe, Gordon Wurch, Louie L. Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glöckner, Gernot John, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. Pan genome of the phytoplankton Emiliania underpins its global distribution |
author_facet |
Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan 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 de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen Allen, Andrew E. Bidle, Kay Borodovsky, Mark Bowler, Chris Brownlee, Colin Cock, J. Mark Elias, Marek Gladyshev, Vadim N. Groth, Marco Guda, Chittibabu Hadaegh, Ahmad Iglesias-Rodriguez, Debora Maria Jenkins, Jerry Jones, Bethan M. Lawson, Tracy Leese, Florian Lindquist, Erika Lobanov, Alexei Lomsadze, Alexandre Malik, Shehre-Banoo Marsh, Mary E. Mackinder, Luke Mock, Thomas Mueller-Roeber, Bernd Pagarete, António Parker, Micaela Probert, Ian Quesneville, Hadi Raines, Christine Rensing, Stefan A. Riaño-Pachón, Diego Mauricio Richier, Sophie Rokitta, Sebastian Shiraiwa, Yoshihiro Soanes, Darren M. van der Giezen, Mark Wahlund, Thomas M. Williams, Bryony Wilson, Willie Wolfe, Gordon Wurch, Louie L. Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glöckner, Gernot John, 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 |
publishDate |
2013 |
url |
https://eprints.soton.ac.uk/370396/ |
genre |
Subarctic |
genre_facet |
Subarctic |
op_relation |
Read, Betsy A., Kegel, Jessica, Klute, Mary J., Kuo, Alan, 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, de Vargas, Colomban, Verret, Frederic, von Dassow, Peter, Valentin, Klaus, Van de Peer, Yves, Wheeler, Glen, Allen, Andrew E., Bidle, Kay, Borodovsky, Mark, Bowler, Chris, Brownlee, Colin, Cock, J. Mark, Elias, Marek, Gladyshev, Vadim N., Groth, Marco, Guda, Chittibabu, Hadaegh, Ahmad, Iglesias-Rodriguez, Debora Maria, Jenkins, Jerry, Jones, Bethan M., Lawson, Tracy, Leese, Florian, Lindquist, Erika, Lobanov, Alexei, Lomsadze, Alexandre, Malik, Shehre-Banoo, Marsh, Mary E., Mackinder, Luke, Mock, Thomas, Mueller-Roeber, Bernd, Pagarete, António, Parker, Micaela, Probert, Ian, Quesneville, Hadi, Raines, Christine, Rensing, Stefan A., Riaño-Pachón, Diego Mauricio, Richier, Sophie, Rokitta, Sebastian, Shiraiwa, Yoshihiro, Soanes, Darren M., van der Giezen, Mark, Wahlund, Thomas M., Williams, Bryony, Wilson, Willie, Wolfe, Gordon, Wurch, Louie L., Dacks, Joel B., Delwiche, Charles F., Dyhrman, Sonya T., Glöckner, Gernot, John, Uwe, Richards, Thomas, Worden, Alexandra Z., Zhang, Xiaoyu and Grigoriev, Igor V. (2013) Pan genome of the phytoplankton Emiliania underpins its global distribution. Nature, 499 (7457), 209-213. (doi:10.1038/nature12221 <http://dx.doi.org/10.1038/nature12221>). |
op_doi |
https://doi.org/10.1038/nature12221 |
container_title |
Nature |
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499 |
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7457 |
container_start_page |
209 |
op_container_end_page |
213 |
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1772820294977716224 |
spelling |
ftsouthampton:oai:eprints.soton.ac.uk:370396 2023-07-30T04:07:09+02:00 Pan genome of the phytoplankton Emiliania underpins its global distribution Read, Betsy A. Kegel, Jessica Klute, Mary J. Kuo, Alan 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 de Vargas, Colomban Verret, Frederic von Dassow, Peter Valentin, Klaus Van de Peer, Yves Wheeler, Glen Allen, Andrew E. Bidle, Kay Borodovsky, Mark Bowler, Chris Brownlee, Colin Cock, J. Mark Elias, Marek Gladyshev, Vadim N. Groth, Marco Guda, Chittibabu Hadaegh, Ahmad Iglesias-Rodriguez, Debora Maria Jenkins, Jerry Jones, Bethan M. Lawson, Tracy Leese, Florian Lindquist, Erika Lobanov, Alexei Lomsadze, Alexandre Malik, Shehre-Banoo Marsh, Mary E. Mackinder, Luke Mock, Thomas Mueller-Roeber, Bernd Pagarete, António Parker, Micaela Probert, Ian Quesneville, Hadi Raines, Christine Rensing, Stefan A. Riaño-Pachón, Diego Mauricio Richier, Sophie Rokitta, Sebastian Shiraiwa, Yoshihiro Soanes, Darren M. van der Giezen, Mark Wahlund, Thomas M. Williams, Bryony Wilson, Willie Wolfe, Gordon Wurch, Louie L. Dacks, Joel B. Delwiche, Charles F. Dyhrman, Sonya T. Glöckner, Gernot John, Uwe Richards, Thomas Worden, Alexandra Z. Zhang, Xiaoyu Grigoriev, Igor V. 2013-07 https://eprints.soton.ac.uk/370396/ English eng Read, Betsy A., Kegel, Jessica, Klute, Mary J., Kuo, Alan, 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, de Vargas, Colomban, Verret, Frederic, von Dassow, Peter, Valentin, Klaus, Van de Peer, Yves, Wheeler, Glen, Allen, Andrew E., Bidle, Kay, Borodovsky, Mark, Bowler, Chris, Brownlee, Colin, Cock, J. Mark, Elias, Marek, Gladyshev, Vadim N., Groth, Marco, Guda, Chittibabu, Hadaegh, Ahmad, Iglesias-Rodriguez, Debora Maria, Jenkins, Jerry, Jones, Bethan M., Lawson, Tracy, Leese, Florian, Lindquist, Erika, Lobanov, Alexei, Lomsadze, Alexandre, Malik, Shehre-Banoo, Marsh, Mary E., Mackinder, Luke, Mock, Thomas, Mueller-Roeber, Bernd, Pagarete, António, Parker, Micaela, Probert, Ian, Quesneville, Hadi, Raines, Christine, Rensing, Stefan A., Riaño-Pachón, Diego Mauricio, Richier, Sophie, Rokitta, Sebastian, Shiraiwa, Yoshihiro, Soanes, Darren M., van der Giezen, Mark, Wahlund, Thomas M., Williams, Bryony, Wilson, Willie, Wolfe, Gordon, Wurch, Louie L., Dacks, Joel B., Delwiche, Charles F., Dyhrman, Sonya T., Glöckner, Gernot, John, Uwe, Richards, Thomas, Worden, Alexandra Z., Zhang, Xiaoyu and Grigoriev, Igor V. (2013) Pan genome of the phytoplankton Emiliania underpins its global distribution. Nature, 499 (7457), 209-213. (doi:10.1038/nature12221 <http://dx.doi.org/10.1038/nature12221>). Article PeerReviewed 2013 ftsouthampton https://doi.org/10.1038/nature12221 2023-07-09T21:55:55Z 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. Article in Journal/Newspaper Subarctic University of Southampton: e-Prints Soton Nature 499 7457 209 213 |