sh.sePublications
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
A comprehensive classification and evolutionary analysis of plant homeobox genes
Södertörn University, School of Life Sciences, Molecular biology. Karolinska institutet.
2009 (English)In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 26, no 12, 2775-2794 p.Article in journal (Refereed) Published
Abstract [en]

The full complement of homeobox transcription factor sequences, including genes and pseudogenes, was determined from the analysis of 10 complete genomes from flowering plants, moss, Selaginella, unicellular green algae, and red algae. Our exhaustive genome-wide searches resulted in the discovery in each class of a greater number of homeobox genes than previously reported. All homeobox genes can be unambiguously classified by sequence evolutionary analysis into 14 distinct classes also characterized by conserved intron-exon structure and by unique codomain architectures. We identified many new genes belonging to previously defined classes (HD-ZIP I to IV, BEL, KNOX, PLINC, WOX). Other newly identified genes allowed us to characterize PHD, DDT, NDX, and LD genes as members of four new evolutionary classes and to define two additional classes, which we named SAWADEE and PINTOX. Our comprehensive analysis allowed us to identify several newly characterized conserved motifs, including novel zinc finger motifs in SAWADEE and DDT. Members of the BEL and KNOX classes were found in Chlorobionta (green plants) and in Rhodophyta. We found representatives of the DDT, WOX, and PINTOX classes only in green plants, including unicellular green algae, moss, and vascular plants. All 14 homeobox gene classes were represented in flowering plants, Selaginella, and moss, suggesting that they had already differentiated in the last common ancestor of moss and vascular plants.

Place, publisher, year, edition, pages
2009. Vol. 26, no 12, 2775-2794 p.
Keyword [en]
Homeobox, Homeodomain, Plant, Transcription factor, homeodomain protein, article, BEL gene, DDT gene, exon, gene identification, gene sequence, green alga, HD ZIP I gene, HD ZIP II gene, HD ZIP III gene, HD ZIP IV gene, intron, KNOX gene, last common ancestor, LD gene, molecular evolution, moss, NDX gene, nonhuman, PHD gene, phylogeny, PINTOX gene, plant gene, plant genome, PLINC gene, red alga, SAWADEE gene, Selaginella, sequence homology, vascular plant, WOX gene, zinc finger motif, Amino Acid Motifs, Amino Acid Sequence, Evolution, Molecular, Genes, Homeobox, Genes, Plant, Homeodomain Proteins, Introns, Leucine Zippers, Likelihood Functions, Models, Genetic, Molecular Sequence Data, Plants, Protein Structure, Tertiary, Sequence Alignment, Zinc Fingers, Bryophyta, Chlorophyta, Magnoliophyta, Rhodophyta, Tracheophyta, Viridiplantae
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:sh:diva-20885DOI: 10.1093/molbev/msp201ISI: 000271818500012PubMedID: 19734295Scopus ID: 2-s2.0-70450265540OAI: oai:DiVA.org:sh-20885DiVA: diva2:681362
Available from: 2013-12-19 Created: 2013-12-18 Last updated: 2017-07-18Bibliographically approved

Open Access in DiVA

No full text

Other links

Publisher's full textPubMedScopusPMC Full text

Search in DiVA

By author/editor
Bürglin, Tomas R.
By organisation
Molecular biology
In the same journal
Molecular biology and evolution
Biochemistry and Molecular Biology

Search outside of DiVA

GoogleGoogle Scholar

Altmetric score

Total: 78 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf