RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral
Background: Coral reefs are disturbed on a global scale by environmental changes including rising sea surface temperatures and ocean acidification. Little is known about how corals respond or adapt to these environmental changes especially at the molecular level. This is mostly because of the paucit...
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ftciteseerx:oai:CiteSeerX.psu:10.1.1.290.3763 2023-05-15T17:51:24+02:00 RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral Taewoo Ryu Charalampos Harris Mavromatis Till Bayer Christian R Voolstra Timothy Ravasi The Pennsylvania State University CiteSeerX Archives application/zip http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.290.3763 en eng http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.290.3763 Metadata may be used without restrictions as long as the oai identifier remains attached to it. ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/22/c7/BMC_Syst_Biol_2011_Apr_28_5_58.tar.gz text ftciteseerx 2016-01-07T21:32:17Z Background: Coral reefs are disturbed on a global scale by environmental changes including rising sea surface temperatures and ocean acidification. Little is known about how corals respond or adapt to these environmental changes especially at the molecular level. This is mostly because of the paucity of genome-wide studies on corals and the application of systems approaches that incorporate the latter. Like in any other organism, the response of corals to stress is tightly controlled by the coordinated interplay of many transcription factors. Results: Here, we develop and apply a new system-wide approach in order to infer combinatorial transcription factor networks of the reef-building coral Acropora millepora. By integrating sequencing-derived transcriptome measurements, a network of physically interacting transcription factors, and phylogenetic network footprinting we were able to infer such a network. Analysis of the network across a phylogenetically broad sample of five species, including human, reveals that despite the apparent simplicity of corals, their transcription factors repertoire and interaction networks seem to be largely conserved. In addition, we were able to identify interactions among transcription factors that appear to be species-specific lending strength to the novel concept of “Taxonomically Restricted Interactions”. Conclusions: This study provides the first look at transcription factor networks in corals. We identified a Text Ocean acidification Unknown |
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English |
description |
Background: Coral reefs are disturbed on a global scale by environmental changes including rising sea surface temperatures and ocean acidification. Little is known about how corals respond or adapt to these environmental changes especially at the molecular level. This is mostly because of the paucity of genome-wide studies on corals and the application of systems approaches that incorporate the latter. Like in any other organism, the response of corals to stress is tightly controlled by the coordinated interplay of many transcription factors. Results: Here, we develop and apply a new system-wide approach in order to infer combinatorial transcription factor networks of the reef-building coral Acropora millepora. By integrating sequencing-derived transcriptome measurements, a network of physically interacting transcription factors, and phylogenetic network footprinting we were able to infer such a network. Analysis of the network across a phylogenetically broad sample of five species, including human, reveals that despite the apparent simplicity of corals, their transcription factors repertoire and interaction networks seem to be largely conserved. In addition, we were able to identify interactions among transcription factors that appear to be species-specific lending strength to the novel concept of “Taxonomically Restricted Interactions”. Conclusions: This study provides the first look at transcription factor networks in corals. We identified a |
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The Pennsylvania State University CiteSeerX Archives |
format |
Text |
author |
Taewoo Ryu Charalampos Harris Mavromatis Till Bayer Christian R Voolstra Timothy Ravasi |
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Taewoo Ryu Charalampos Harris Mavromatis Till Bayer Christian R Voolstra Timothy Ravasi RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
author_facet |
Taewoo Ryu Charalampos Harris Mavromatis Till Bayer Christian R Voolstra Timothy Ravasi |
author_sort |
Taewoo Ryu |
title |
RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
title_short |
RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
title_full |
RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
title_fullStr |
RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
title_full_unstemmed |
RESEARCH ARTICLE Open Access Unexpected complexity of the Reef-Building Coral |
title_sort |
research article open access unexpected complexity of the reef-building coral |
url |
http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.290.3763 |
genre |
Ocean acidification |
genre_facet |
Ocean acidification |
op_source |
ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/22/c7/BMC_Syst_Biol_2011_Apr_28_5_58.tar.gz |
op_relation |
http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.290.3763 |
op_rights |
Metadata may be used without restrictions as long as the oai identifier remains attached to it. |
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1766158538020749312 |