Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus
The Southern Ocean houses a diverse and productive community of organisms. Unicellular eukaryotic diatoms are the main primary producers in this environment, where photosynthesis is limited by low concentrations of dissolved iron and large seasonal fluctuations in light, temperature and the extent o...
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ftcdlib:oai:escholarship.org:ark:/13030/qt7pt9h997 2024-01-14T10:10:37+01:00 Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus Mock, Thomas Otillar, Robert P Strauss, Jan McMullan, Mark Paajanen, Pirita Schmutz, Jeremy Salamov, Asaf Sanges, Remo Toseland, Andrew Ward, Ben J Allen, Andrew E Dupont, Christopher L Frickenhaus, Stephan Maumus, Florian Veluchamy, Alaguraj Wu, Taoyang Barry, Kerrie W Falciatore, Angela Ferrante, Maria I Fortunato, Antonio E Glöckner, Gernot Gruber, Ansgar Hipkin, Rachel Janech, Michael G Kroth, Peter G Leese, Florian Lindquist, Erika A Lyon, Barbara R Martin, Joel Mayer, Christoph Parker, Micaela Quesneville, Hadi Raymond, James A Uhlig, Christiane Valas, Ruben E Valentin, Klaus U Worden, Alexandra Z Armbrust, E Virginia Clark, Matthew D Bowler, Chris Green, Beverley R Moulton, Vincent van Oosterhout, Cock Grigoriev, Igor V 536 - 540 2017-01-01 application/pdf https://escholarship.org/uc/item/7pt9h997 unknown eScholarship, University of California qt7pt9h997 https://escholarship.org/uc/item/7pt9h997 public Nature, vol 541, iss 7638 Biological Sciences Genetics Human Genome Biotechnology Acclimatization Alleles Carbon Dioxide Cold Temperature Darkness Diatoms Evolution Molecular Freezing Gene Expression Profiling Genetic Drift Genome Genomics Ice Cover Iron Mutation Rate Oceans and Seas Phylogeny Recombination Genetic Transcriptome General Science & Technology article 2017 ftcdlib 2023-12-18T19:08:41Z The Southern Ocean houses a diverse and productive community of organisms. Unicellular eukaryotic diatoms are the main primary producers in this environment, where photosynthesis is limited by low concentrations of dissolved iron and large seasonal fluctuations in light, temperature and the extent of sea ice. How diatoms have adapted to this extreme environment is largely unknown. Here we present insights into the genome evolution of a cold-adapted diatom from the Southern Ocean, Fragilariopsis cylindrus, based on a comparison with temperate diatoms. We find that approximately 24.7 per cent of the diploid F. cylindrus genome consists of genetic loci with alleles that are highly divergent (15.1 megabases of the total genome size of 61.1 megabases). These divergent alleles were differentially expressed across environmental conditions, including darkness, low iron, freezing, elevated temperature and increased CO2. Alleles with the largest ratio of non-synonymous to synonymous nucleotide substitutions also show the most pronounced condition-dependent expression, suggesting a correlation between diversifying selection and allelic differentiation. Divergent alleles may be involved in adaptation to environmental fluctuations in the Southern Ocean. Article in Journal/Newspaper Sea ice Southern Ocean University of California: eScholarship Southern Ocean |
institution |
Open Polar |
collection |
University of California: eScholarship |
op_collection_id |
ftcdlib |
language |
unknown |
topic |
Biological Sciences Genetics Human Genome Biotechnology Acclimatization Alleles Carbon Dioxide Cold Temperature Darkness Diatoms Evolution Molecular Freezing Gene Expression Profiling Genetic Drift Genome Genomics Ice Cover Iron Mutation Rate Oceans and Seas Phylogeny Recombination Genetic Transcriptome General Science & Technology |
spellingShingle |
Biological Sciences Genetics Human Genome Biotechnology Acclimatization Alleles Carbon Dioxide Cold Temperature Darkness Diatoms Evolution Molecular Freezing Gene Expression Profiling Genetic Drift Genome Genomics Ice Cover Iron Mutation Rate Oceans and Seas Phylogeny Recombination Genetic Transcriptome General Science & Technology Mock, Thomas Otillar, Robert P Strauss, Jan McMullan, Mark Paajanen, Pirita Schmutz, Jeremy Salamov, Asaf Sanges, Remo Toseland, Andrew Ward, Ben J Allen, Andrew E Dupont, Christopher L Frickenhaus, Stephan Maumus, Florian Veluchamy, Alaguraj Wu, Taoyang Barry, Kerrie W Falciatore, Angela Ferrante, Maria I Fortunato, Antonio E Glöckner, Gernot Gruber, Ansgar Hipkin, Rachel Janech, Michael G Kroth, Peter G Leese, Florian Lindquist, Erika A Lyon, Barbara R Martin, Joel Mayer, Christoph Parker, Micaela Quesneville, Hadi Raymond, James A Uhlig, Christiane Valas, Ruben E Valentin, Klaus U Worden, Alexandra Z Armbrust, E Virginia Clark, Matthew D Bowler, Chris Green, Beverley R Moulton, Vincent van Oosterhout, Cock Grigoriev, Igor V Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
topic_facet |
Biological Sciences Genetics Human Genome Biotechnology Acclimatization Alleles Carbon Dioxide Cold Temperature Darkness Diatoms Evolution Molecular Freezing Gene Expression Profiling Genetic Drift Genome Genomics Ice Cover Iron Mutation Rate Oceans and Seas Phylogeny Recombination Genetic Transcriptome General Science & Technology |
description |
The Southern Ocean houses a diverse and productive community of organisms. Unicellular eukaryotic diatoms are the main primary producers in this environment, where photosynthesis is limited by low concentrations of dissolved iron and large seasonal fluctuations in light, temperature and the extent of sea ice. How diatoms have adapted to this extreme environment is largely unknown. Here we present insights into the genome evolution of a cold-adapted diatom from the Southern Ocean, Fragilariopsis cylindrus, based on a comparison with temperate diatoms. We find that approximately 24.7 per cent of the diploid F. cylindrus genome consists of genetic loci with alleles that are highly divergent (15.1 megabases of the total genome size of 61.1 megabases). These divergent alleles were differentially expressed across environmental conditions, including darkness, low iron, freezing, elevated temperature and increased CO2. Alleles with the largest ratio of non-synonymous to synonymous nucleotide substitutions also show the most pronounced condition-dependent expression, suggesting a correlation between diversifying selection and allelic differentiation. Divergent alleles may be involved in adaptation to environmental fluctuations in the Southern Ocean. |
format |
Article in Journal/Newspaper |
author |
Mock, Thomas Otillar, Robert P Strauss, Jan McMullan, Mark Paajanen, Pirita Schmutz, Jeremy Salamov, Asaf Sanges, Remo Toseland, Andrew Ward, Ben J Allen, Andrew E Dupont, Christopher L Frickenhaus, Stephan Maumus, Florian Veluchamy, Alaguraj Wu, Taoyang Barry, Kerrie W Falciatore, Angela Ferrante, Maria I Fortunato, Antonio E Glöckner, Gernot Gruber, Ansgar Hipkin, Rachel Janech, Michael G Kroth, Peter G Leese, Florian Lindquist, Erika A Lyon, Barbara R Martin, Joel Mayer, Christoph Parker, Micaela Quesneville, Hadi Raymond, James A Uhlig, Christiane Valas, Ruben E Valentin, Klaus U Worden, Alexandra Z Armbrust, E Virginia Clark, Matthew D Bowler, Chris Green, Beverley R Moulton, Vincent van Oosterhout, Cock Grigoriev, Igor V |
author_facet |
Mock, Thomas Otillar, Robert P Strauss, Jan McMullan, Mark Paajanen, Pirita Schmutz, Jeremy Salamov, Asaf Sanges, Remo Toseland, Andrew Ward, Ben J Allen, Andrew E Dupont, Christopher L Frickenhaus, Stephan Maumus, Florian Veluchamy, Alaguraj Wu, Taoyang Barry, Kerrie W Falciatore, Angela Ferrante, Maria I Fortunato, Antonio E Glöckner, Gernot Gruber, Ansgar Hipkin, Rachel Janech, Michael G Kroth, Peter G Leese, Florian Lindquist, Erika A Lyon, Barbara R Martin, Joel Mayer, Christoph Parker, Micaela Quesneville, Hadi Raymond, James A Uhlig, Christiane Valas, Ruben E Valentin, Klaus U Worden, Alexandra Z Armbrust, E Virginia Clark, Matthew D Bowler, Chris Green, Beverley R Moulton, Vincent van Oosterhout, Cock Grigoriev, Igor V |
author_sort |
Mock, Thomas |
title |
Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
title_short |
Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
title_full |
Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
title_fullStr |
Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
title_full_unstemmed |
Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus |
title_sort |
evolutionary genomics of the cold-adapted diatom fragilariopsis cylindrus |
publisher |
eScholarship, University of California |
publishDate |
2017 |
url |
https://escholarship.org/uc/item/7pt9h997 |
op_coverage |
536 - 540 |
geographic |
Southern Ocean |
geographic_facet |
Southern Ocean |
genre |
Sea ice Southern Ocean |
genre_facet |
Sea ice Southern Ocean |
op_source |
Nature, vol 541, iss 7638 |
op_relation |
qt7pt9h997 https://escholarship.org/uc/item/7pt9h997 |
op_rights |
public |
_version_ |
1788065403712307200 |