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Transcription factor families inferred from genome sequences of photosynthetic stramenopiles
Author(s) -
Rayko Edda,
Maumus Florian,
Maheswari Uma,
Jabbari Kamel,
Bowler Chris
Publication year - 2010
Publication title -
new phytologist
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.742
H-Index - 244
eISSN - 1469-8137
pISSN - 0028-646X
DOI - 10.1111/j.1469-8137.2010.03371.x
Subject(s) - biology , haptophyte , thalassiosira pseudonana , phaeodactylum tricornutum , genetics , transcription factor , genome , diatom , evolutionary biology , gene , lineage (genetic) , computational biology , botany , ecology , phytoplankton , nutrient
Summary• By comparative analyses we identify lineage‐specific diversity in transcription factors (TFs) from stramenopile (or heterokont) genome sequences. We compared a pennate ( Phaeodactylum tricornutum ) and a centric diatom ( Thalassiosira pseudonana ) with those of other stramenopiles (oomycetes, Pelagophyceae, and Phaeophyceae ( Ectocarpus siliculosus )) as well as to that of Emiliania huxleyi , a haptophyte that is evolutionarily related to the stramenopiles. • We provide a detailed description of diatom TF complements and report numerous peculiarities: in both diatoms, the heat shock factor (HSF) family is overamplified and constitutes the most abundant class of TFs; Myb and C2H2‐type zinc finger TFs are the two most abundant TF families encoded in all the other stramenopile genomes investigated; the presence of diatom and lineage‐specific gene fusions, in particular a class of putative photoreceptors with light‐sensitive Per‐Arnt‐Sim (PAS) and DNA‐binding (basic‐leucine zipper, bZIP) domains and an HSF‐AP2 domain fusion. • Expression data analysis shows that many of the TFs studied are transcribed and may be involved in specific responses to environmental stimuli. • Evolutionary and functional relevance of these observations are discussed.