Please use this identifier to cite or link to this item: https://hdl.handle.net/10356/88143
Title: PhytoNet : comparative co-expression network analyses across phytoplankton and land plants
Authors: Ferrari, Camilla
Proost, Sebastian
Ruprecht, Colin
Mutwil, Marek
Keywords: Phytoplankton
DRNTU::Science::Biological sciences
Co-expression Network
Issue Date: 2018
Source: Ferrari, C., Proost, S., Ruprecht, C., & Mutwil, M. (2018). PhytoNet: comparative co-expression network analyses across phytoplankton and land plants. Nucleic Acids Research, 46(W1), W76-W83. doi:10.1093/nar/gky298
Series/Report no.: Nucleic Acids Research
Abstract: Phytoplankton consists of autotrophic, photosynthesizing microorganisms that are a crucial component of freshwater and ocean ecosystems. However, despite being the major primary producers of organic compounds, accounting for half of the photosynthetic activity worldwide and serving as the entry point to the food chain, functions of most of the genes of the model phytoplankton organisms remain unknown. To remedy this, we have gathered publicly available expression data for one chlorophyte, one rhodophyte, one haptophyte, two heterokonts and four cyanobacteria and integrated it into our PlaNet (Plant Networks) database, which now allows mining gene expression profiles and identification of co-expressed genes of 19 species. We exemplify how the co-expressed gene networks can be used to reveal functionally related genes and how the comparative features of PhytoNet allow detection of conserved transcriptional programs between cyanobacteria, green algae, and land plants. Additionally, we illustrate how the database allows detection of duplicated transcriptional programs within an organism, as exemplified by two putative DNA repair programs within Chlamydomonas reinhardtii. PhytoNet is available from www.gene2function.de.
URI: https://hdl.handle.net/10356/88143
http://hdl.handle.net/10220/45653
ISSN: 0305-1048
DOI: http://dx.doi.org/10.1093/nar/gky298
Rights: © The Author(s) 2018. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com.
Fulltext Permission: open
Fulltext Availability: With Fulltext
Appears in Collections:SBS Journal Articles

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