The diversity of CO2-concentrating mechanisms in marine diatoms as inferred from their genetic content

Journal of Experimental Botany
Chen ShenBrian M Hopkinson

Abstract

Marine diatoms are one of the most ecologically significant primary producers in the ocean. Most diatoms use a CO2-concentrating mechanism (CCM) to overcome the scarcity of CO2 in the ocean and limitations of the carbon-fixing enzyme Rubisco. However, the CCMs in model diatoms differ substantially in their genetic make-up and structural organization. To assess the extent of CCM diversity in marine diatoms more generally, we analyzed genome and transcriptome data from 31 diatom strains to identify putative CCM genes, examine the overall CCM architecture, and study CCM development in the context of the evolutionary history of these diatoms. Key CCM genes [carbonic anhydrases (CAs) and solute carrier 4 (SLC4) bicarbonate transporters] identified in the diatoms were placed into groups of likely orthologs by sequence similarity (OrthoMCL) and phylogenetic methods. These analyses indicated that diatoms seem to share similar HCO3- transporters, but possess a variety of CAs that have either undergone extensive diversification within the diatom lineage or have been acquired through horizontal gene transfer. Hierarchical clustering of the diatom species based on their CCM gene content suggests that CCM development is largely congruent wi...Continue Reading

References

Jan 27, 1999·Bioinformatics·S R Eddy
Nov 9, 2000·Nature·J R ReinfelderF M Morel
Jan 15, 2004·Pflügers Archiv : European journal of physiology·Michael F RomeroWalter F Boron
Jan 22, 2004·Bioinformatics·Emmanuel ParadisKorbinian Strimmer
Oct 2, 2004·Science·E Virginia ArmbrustDaniel S Rokhsar
Dec 18, 2004·Plant Molecular Biology·Gustavo ParisiEduardo Zabaleta
Dec 31, 2005·Nucleic Acids Research·Feng ChenDavid S Roos
Jun 7, 2006·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·A H KnollP Cohen
Feb 6, 2007·Genome Biology·Sheila Podell, Terry Gaasterland
Apr 21, 1995·Science·P TréguerB Quéguiner
Sep 12, 2007·Bioinformatics·M A LarkinD G Higgins
Dec 8, 2007·Microbiology and Molecular Biology Reviews : MMBR·F Robert TabitaSum Chan
May 20, 2008·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·F Robert TabitaNathan E Kreel
Oct 17, 2008·Nature·Chris BowlerIgor V Grigoriev
Jun 27, 2009·Science·Ahmed MoustafaDebashish Bhattacharya
Mar 4, 2010·The Plant Cell·Jennifer KlodmannHans-Peter Braun
Feb 18, 2011·Photosynthesis Research·John A RavenStephen C Maberly
Feb 19, 2011·Annual Review of Marine Science·John R Reinfelder
Mar 11, 2011·BMC Evolutionary Biology·Véronique CampbellFrançois-Joseph Lapointe
Mar 29, 2011·Annual Review of Plant Biology·Martin F Hohmann-Marriott, Robert E Blankenship
Jan 11, 2012·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·J N YoungD A Filatov
Jan 11, 2012·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·John A RavenStephen C Maberly
May 5, 2012·Bioinformatics·Elmar PruesseFrank Oliver Glöckner
Jan 9, 2013·Proceedings of the National Academy of Sciences of the United States of America·Kensuke NakajimaYusuke Matsuda
Apr 17, 2013·Physiological Reviews·Mark D Parker, Walter F Boron
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Nov 15, 2013·Nucleic Acids Research·Henrik NordbergInna Dubchak
Mar 1, 1994·Photosynthesis Research·J A Raven
Jan 15, 2014·Photosynthesis Research·Mio SamukawaYusuke Matsuda
Feb 18, 2014·American Journal of Human Genetics·Clara D van KarnebeekSylvia Stockler-Ipsiroglu
Feb 21, 2014·Nature·Timothy W LyonsNoah J Planavsky
Apr 23, 2014·Photosynthesis Research·Nadine JungnickJames V Moroney
Apr 8, 2016·Current Opinion in Plant Biology·Brian M HopkinsonYusuke Matsuda

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Citations

Sep 16, 2017·Journal of Experimental Botany·Howard GriffithsRosalind E M Rickaby
Apr 14, 2020·Environmental Microbiology·Mercedes Nieves-MoriónRachel A Foster
May 13, 2018·International Journal of Molecular Sciences·Charlotte PoschenriederJuan Barceló
Mar 2, 2019·Annual Review of Plant Biology·Crysten E Blaby-Haas, Sabeeha S Merchant
Aug 14, 2020·Biology·Deepak SethiSeetharaman Vaidyanathan
Nov 27, 2019·The Science of the Total Environment·Carlos A Rivera-Rondón, Jordi Catalan
Aug 17, 2021·Conservation Physiology·Maximilian Berthold, Douglas A Campbell

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