From the Cover: Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses

Mock, Thomas ORCID:, Samanta, Manoj Pratim, Iverson, Vaughn, Berthiaume, Chris, Robison, Matthew, Holtermann, Karie, Durkin, Colleen, BonDurant, Sandra Splinter, Richmond, Kathryn, Rodesch, Matthew, Kallas, Toivo, Huttlin, Edward L., Cerrina, Francesco, Sussman, Michael R. and Armbrust, E. Virginia (2008) From the Cover: Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses. Proceedings of the National Academy of Sciences, 105 (5). pp. 1579-1584. ISSN 0027-8424

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Formation of complex inorganic structures is widespread in nature. Diatoms create intricately patterned cell walls of inorganic silicon that are a biomimetic model for design and generation of three-dimensional silica nanostructures. To date, only relatively simple silica structures can be generated in vitro through manipulation of known diatom phosphoproteins (silaffins) and long-chain polyamines. Here, we report the use of genome-wide transcriptome analyses of the marine diatom Thalassiosira pseudonana to identify additional candidate gene products involved in the biological manipulation of silicon. Whole-genome oligonucleotide tiling arrays and tandem mass spectrometry identified transcripts for >8,000 genes, ˜3,000 of which were not previously described and included noncoding and antisense RNAs. Gene-specific expression profiles detected a set of 75 genes induced only under low concentrations of silicon but not under low concentrations of nitrogen or iron, alkaline pH, or low temperatures. Most of these induced gene products were predicted to contain secretory signals and/or transmembrane domains but displayed no homology to known proteins. Over half of these genes were newly discovered, identified only through the use of tiling arrays. Unexpectedly, a common set of 84 genes were induced by both silicon and iron limitations, suggesting that biological manipulation of silicon may share pathways in common with iron or, alternatively, that iron may serve as a required cofactor for silicon processes. These results provide insights into the transcriptional and translational basis for the biological generation of elaborate silicon nanostructures by these ecologically important microbes.

Item Type: Article
Uncontrolled Keywords: sdg 14 - life below water ,/dk/atira/pure/sustainabledevelopmentgoals/life_below_water
Faculty \ School: Faculty of Science > School of Environmental Sciences
UEA Research Groups: Faculty of Science > Research Centres > Centre for Ecology, Evolution and Conservation
Faculty of Science > Research Groups > Environmental Biology
Faculty of Science > Research Groups > Resources, Sustainability and Governance (former - to 2018)
Faculty of Science > Research Groups > Marine and Atmospheric Sciences (former - to 2017)
Faculty of Science > Research Groups > Centre for Ocean and Atmospheric Sciences
Depositing User: Rosie Cullington
Date Deposited: 30 Jun 2011 15:05
Last Modified: 23 Oct 2022 05:44
DOI: 10.1073/pnas.0707946105

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