The fate of tandemly duplicated genes assessed by the expression analysis of a group of Arabidopsis thaliana RING-H2 ubiquitin ligase genes of the ATL family

The fate of tandemly duplicated genes assessed by the expression analysis of a group of... Gene duplication events exert key functions on gene innovations during the evolution of the eukaryotic genomes. A large portion of the total gene content in plants arose from tandem duplications events, which often result in paralog genes with high sequence identity. Ubiquitin ligases or E3 enzymes are components of the ubiquitin proteasome system that function during the transfer of the ubiquitin molecule to the substrate. In plants, several E3s have expanded in their genomes as multigene families. To gain insight into the consequences of gene duplications on the expansion and diversification of E3s, we examined the evolutionary basis of a cluster of six genes, duplC-ATLs, which arose from segmental and tandem duplication events in Brassicaceae. The assessment of the expression suggested two patterns that are supported by lineage. While retention of expression domains was observed, an apparent absence or reduction of expression was also inferred. We found that two duplC-ATL genes underwent pseudogenization and that, in one case, gene expression is probably regained. Our findings provide insights into the evolution of gene families in plants, defining key events on the expansion of the Arabidopsis Tóxicos en Levadura family of E3 ligases. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Plant Molecular Biology Springer Journals

The fate of tandemly duplicated genes assessed by the expression analysis of a group of Arabidopsis thaliana RING-H2 ubiquitin ligase genes of the ATL family

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Publisher
Springer Journals
Copyright
Copyright © 2013 by Springer Science+Business Media Dordrecht
Subject
Life Sciences; Plant Sciences; Biochemistry, general; Plant Pathology
ISSN
0167-4412
eISSN
1573-5028
D.O.I.
10.1007/s11103-013-0143-z
Publisher site
See Article on Publisher Site

Abstract

Gene duplication events exert key functions on gene innovations during the evolution of the eukaryotic genomes. A large portion of the total gene content in plants arose from tandem duplications events, which often result in paralog genes with high sequence identity. Ubiquitin ligases or E3 enzymes are components of the ubiquitin proteasome system that function during the transfer of the ubiquitin molecule to the substrate. In plants, several E3s have expanded in their genomes as multigene families. To gain insight into the consequences of gene duplications on the expansion and diversification of E3s, we examined the evolutionary basis of a cluster of six genes, duplC-ATLs, which arose from segmental and tandem duplication events in Brassicaceae. The assessment of the expression suggested two patterns that are supported by lineage. While retention of expression domains was observed, an apparent absence or reduction of expression was also inferred. We found that two duplC-ATL genes underwent pseudogenization and that, in one case, gene expression is probably regained. Our findings provide insights into the evolution of gene families in plants, defining key events on the expansion of the Arabidopsis Tóxicos en Levadura family of E3 ligases.

Journal

Plant Molecular BiologySpringer Journals

Published: Oct 18, 2013

References

  • RING domain E3 ubiquitin ligases
    Deshaies, RJ; Joazeiro, CAP
  • Preservation of duplicate genes by complementary, degenerative mutations
    Force, A; Lynch, M; Pickett, FB; Amores, A; Yan, Y; Postlethwait, J
  • The prolific ATL family of RING-H2 ubiquitin ligases
    Guzmán, P
  • GUS fusions: beta-glucuronidase as a sensitive and versatile gene fusion marker in higher plants
    Jefferson, RA; Kavanagh, TA; Bevan, MW
  • Toward a general model for the evolutionary dynamics of gene duplicates
    Konrad, A; Teufel, AI; Grahnen, JA; Liberles, DA
  • Interactive tree of life (iTOL): an online tool for phylogenetic tree display and annotation
    Letunic, I; Bork, P
  • Identification of 14-3-3 proteins as a target of ATL31 ubiquitin ligase, a regulator of the C/N response in Arabidopsis
    Sato, T; Maekawa, S; Yasuda, S; Domeki, Y; Sueyoshi, K; Fujiwara, M; Fukao, Y; Goto, DB; Yamaguchi, J
  • Genome sequence of the palaeopolyploid soybean
    Schmutz, J; Cannon, SB; Schlueter, J; Ma, J; Mitros, T; Nelson, W; Hyten, DL; Song, Q; Thelen, JJ; Cheng, J

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