dc.contributor.author |
Carocha, Victor
|
|
dc.contributor.author |
Soler, Marçal
|
|
dc.contributor.author |
Hefer, Charles
|
|
dc.contributor.author |
Cassan-Wang, Hua
|
|
dc.contributor.author |
Fevereiro, Pedro
|
|
dc.contributor.author |
Myburg, Alexander Andrew
|
|
dc.contributor.author |
Paiva, Jorge A.P.
|
|
dc.contributor.author |
Grima-Pettenati, Jacqueline
|
|
dc.date.accessioned |
2016-08-30T13:35:19Z |
|
dc.date.available |
2016-08-30T13:35:19Z |
|
dc.date.issued |
2015-06 |
|
dc.description.abstract |
Lignin, a major component of secondary cell walls, hinders the optimal processing of wood for industrial uses. The recent availability of the Eucalyptus grandis genome sequence allows comprehensive analysis of the genes encoding the 11 protein families specific to the lignin branch of the phenylpropanoid pathway and identification of those mainly involved in xylem developmental lignification. We performed genome-wide identification of putative members of the lignin gene families, followed by comparative phylogenetic studies focusing on bona fide clades inferred from genes functionally characterized in other species. RNA-seq and microfluid real-time quantitative PCR (RT-qPCR) expression data were used to investigate the developmental and environmental responsive expression patterns of the genes. The phylogenetic analysis revealed that 38 E. grandis genes are located in bona fide lignification clades. Four multigene families (shikimate O-hydroxycinnamoyltransferase (HCT), p-coumarate 3-hydroxylase (C3H), caffeate/5-hydroxyferulate O-methyltransferase (COMT) and phenylalanine ammonia-lyase (PAL)) are expanded by tandem gene duplication compared with other plant species. Seventeen of the 38 genes exhibited strong, preferential expression in highly lignified tissues, probably representing the E. grandis core lignification toolbox. The identification of major genes involved in lignin biosynthesis in E. grandis, the most widely planted hardwood crop world-wide, provides the foundation for the development of biotechnology approaches to develop tree varieties with enhanced processing qualities. |
en_ZA |
dc.description.department |
Genetics |
en_ZA |
dc.description.librarian |
hb2016 |
en_ZA |
dc.description.sponsorship |
This work, part of the LABEX project TULIP (ANR-10-LABX-41), was supported by grants
from the Project Tree For Joules (ANR-2010-KBBE-007-01 and FCT-PKBBE/
AGR_GPL/0001/2010), the CNRS, the Toulouse III University (UPS), and the FCT
project microEGo (PTDC/AGR-GPL/098179/2008). V.C. was supported by a FCT PhD grant
(SFRH/BD/72982/2010). M.S. received a postdoctoral fellowship ‘Beatriu de Pinós’ from the
DURSI de la Generalitat de Catalunya. J.A.P.P. acknowledges FCT for the research contract
Ciência 2008 program and the postdoctoral fellowship SFRH/BPD/92207/2013. We are
grateful to C. Araujo and L. Neves (Altri Florestal, Portugal), C. Marques (RAIZ, Portugal)
and L. Harvengt (FCBA, France) for kindly providing and/or allowing collection of
Eucalyptus samples, and C. Graça (IBET, IICT), N. Saidi, H. Yu and E. Camargo (all LRSV)
for help with sample design/collection and RNA extraction. We also thank N. Ladouce
(LRSV) and the Genotoul Genomic platform http://get.genotoul.fr/ for technical assistance
with the Biomark Fluidigm RT-qPCR amplifications, and E. Mizrachi for assistance with
RNA-seq data analysis. RNA-seq was funded by Mondi and Sappi through the FMG
Program, the THRIP Program (UID 80118), the NRF (UID 71255 and 86936) and the DST
of South Africa. |
en_ZA |
dc.description.uri |
http://onlinelibrary.wiley.com/journal/10.1111/(ISSN)1469-8137 |
en_ZA |
dc.identifier.citation |
Carocha, V, Soler, M, Hefer, C, Cassan-Wang, H, Fevereiro, P, Myburg, AA, Paiva, JAP & Grima-Pettenati, J 2015, 'Genome-wide analysis of the lignin toolbox of Eucalyptus grandis', New Phytologist, vol. 206, no. 4, pp. 1297-1313. |
en_ZA |
dc.identifier.issn |
0028-646X (print) |
|
dc.identifier.issn |
1469-8137 (online) |
|
dc.identifier.other |
10.1111/nph.13313 |
|
dc.identifier.uri |
http://hdl.handle.net/2263/56496 |
|
dc.language.iso |
en |
en_ZA |
dc.publisher |
Wiley |
en_ZA |
dc.rights |
© 2015 The Authors New Phytologist © 2015 New Phytologist Trust. This is the pre-peer reviewed version of the following article : Genome-wide analysis of the lignin toolbox of Eucalyptus grandis, New Phytologist, vol. 206, no. 4, pp. 1297-1313, 2015. doi : 10.1111/nph.13313. The definite version is available at : http://onlinelibrary.wiley.comjournal/10.1111/(ISSN)1469-8137. |
en_ZA |
dc.subject |
Eucalyptus |
en_ZA |
dc.subject |
Lignin biosynthesis |
en_ZA |
dc.subject |
Phenylpropanoid pathway |
en_ZA |
dc.subject |
Secondary cell wall (SCW) |
en_ZA |
dc.subject |
Xylem |
en_ZA |
dc.title |
Genome-wide analysis of the lignin toolbox of Eucalyptus grandis |
en_ZA |
dc.type |
Postprint Article |
en_ZA |