Expression divergence of cellulose synthase (CesA) genes after a recent whole genome duplication event in Populus

Takata, Naoki; Taniguchi, Tadatsugu

doi:10.1007/s00425-014-2217-9

Cited by 31 publications

(31 citation statements)

References 57 publications

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“…Our estimate of regulatory divergence can be considered conservative, representing cases where paralogs display distinctly different expression profiles across cambial growth and wood formation. However, the high spatial resolution of our dataset also enabled the identification of far more subtle differences, such as the previously reported differences in expression levels between CesA8-A and CesA8-B in secondary phloem and xylem (both located in cluster g, Figure 9C ( Takata and Taniguchi, 2015). While the processes of sub-, neo-or non-functionalization drives the divergence of paralog pairs, the gene dosage balance hypothesis may explain why some paralog pairs have retained similar expression profiles (Yoo et al, 2014).…”

Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 69%

“…These may 007G098600 (cluster g)). (C) Previously published real-time PCR data of CesA genes showed that PtCesA8-B (Potri.004G059600) was expressed higher than PtCesA8-A (Potri.011G069600) in secondary phloem and xylem (Takata and Taniguchi, 2015). Although these genes have highly similar expression profiles (Pearson correlation = 0.93), and are therefore considered as conserved according to our definition (both belong to cluster g), the data confirm the difference in expression levels and show that even more subtle regulatory divergence can be detected in the dataset.…”

Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 99%

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AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation inPopulus tremula

Sundell

Street

Kumar

et al. 2016

Preprint

116

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Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, however, efforts to engineer new, elite varieties are constrained by the lack of a comprehensive understanding of the transcriptional network underlying cambial growth and wood formation. We generated RNA Sequencing transcriptome data for four mature, wild-growing aspens (Populus tremula) from high-spatial-resolution tangential cryosection series spanning the secondary phloem, vascular cambium, expanding and secondary cell wall forming xylem cells, cell death zone and the previous year's annual ring. The transcriptome comprised 28,294 expressed, previously annotated protein-coding genes, 78 novel protein-coding genes and 567 long intergenic non-coding RNAs. Most paralogs originating from the Salicaceae whole genome duplication had diverged expression, with the notable exception of those with high expression during secondary cell wall deposition. We performed coexpression network analysis to identify central transcriptional modules and associated several of these with known biological processes. This revealed previously uncharacterized complexity underlying the regulation of cambial growth and wood formation, with modules forming a continuum of activated processes across the tissues. The high spatial resolution suggested novel roles for known genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and components of lignification. The associated web resource (AspWood, http://aspwood.popgenie.org) integrates the data within a set of interactive tools for exploring the co-expression network of cambial growth and wood formation.

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Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 69%

Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 99%

AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation inPopulus tremula

Sundell

Street

Kumar

et al. 2016

Preprint

116

View full text Add to dashboard Cite

show abstract

“…(C) Previously published real-time PCR data of CesA genes showed that PtCesA8-B (Potri.004G059600) was expressed higher than PtCesA8-A (Potri.011G069600) in secondary phloem and xylem (Takata and Taniguchi, 2015). Although these genes have highly similar expression profiles (Pearson correlation = 0.93) and are therefore considered as conserved according to our definition (both belong to cluster g), the data confirm the difference in expression levels and show that even more subtle regulatory divergence can be detected in the data set.…”

Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 99%

“…CesA8-A and CesA8-B in secondary phloem and xylem (both located in cluster g; Figure 8C; Takata and Taniguchi, 2015). While the processes of sub-, neo-, or nonfunctionalization drive the divergence of paralog pairs, the gene dosage balance hypothesis may explain why some paralog pairs have retained similar expression profiles (Yoo et al, 2014).…”

Section: A Majority Of Paralogs Show Differential Expression During Wmentioning

confidence: 99%

AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula

et al. 2017

View full text Add to dashboard Cite

Trees represent the largest terrestrial carbon sink and a renewable source of ligno-cellulose. There is significant scope for yield and quality improvement in these largely undomesticated species, and efforts to engineer elite varieties will benefit from improved understanding of the transcriptional network underlying cambial growth and wood formation. We generated highspatial-resolution RNA sequencing data spanning the secondary phloem, vascular cambium, and wood-forming tissues of Populus tremula. The transcriptome comprised 28,294 expressed, annotated genes, 78 novel protein-coding genes, and 567 putative long intergenic noncoding RNAs. Most paralogs originating from the Salicaceae whole-genome duplication had diverged expression, with the exception of those highly expressed during secondary cell wall deposition. Coexpression network analyses revealed that regulation of the transcriptome underlying cambial growth and wood formation comprises numerous modules forming a continuum of active processes across the tissues. A comparative analysis revealed that a majority of these modules are conserved in Picea abies. The high spatial resolution of our data enabled identification of novel roles for characterized genes involved in xylan and cellulose biosynthesis, regulators of xylem vessel and fiber differentiation and lignification. An associated web resource (AspWood, http://aspwood.popgenie.org) provides interactive tools for exploring the expression profiles and coexpression network.

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“…Moreover, three CesA genes, namely PtCesA4, PtCesA7, and PtCesA8, showed tissue-dependent expression divergence in Populus plants (Takata and Taniguchi 2015).…”

Section: Introductionmentioning

confidence: 99%

Effect of exogenous IAA on tension wood formation by facilitating polar auxin transport and cellulose biosynthesis in hybrid poplar (Populus deltoids × Populus nigra) wood

Liu

et al. 2016

Holzforschung

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Auxins as phytohormons, responsible for coordination of growing processes, also contribute to the formation of tension wood (TW) in trees, but the mechanism of this process is still unclear. In this study, it has been tried to induce TW formation in erect hybrid poplar trees (in opposite to inclined or bended trees) by treatment with exogenous indole-3-acetic acid (IAA, as one of the auxins) or N-1-naphthylphthalamic acid (NPA) as an auxin transport inhibitor. The treatment with IAA resulted in TW formation and, as expected, NPA treatment did not. The gelatinous fiber formation and higher cellulose content in the cell wall were unambiguous indicators for TW formation. Real-time polymerase chain reaction (PCR) analysis revealed that genes of PIN1, ABCB1, and AUX2 involved in polar auxin transport were highly expressed in trees treated with exogenous IAA. Moreover, expressions of cellulose biosynthesis related genes of UGP1, UGP2 and CesA13 were strongly up-regulated. These observations indicate that the accelerated intercellular polar auxin transport caused by exogenous IAA is accounted for TW formation, i.e. the signal transduction of auxin is affected, which then facilitates cellulose biosynthesis. In contrast, the transcript abundances of PIN1 and all selected cellulose synthases (CesAs) were decreased after NPA treatment via inhibiting the cellular auxin efflux with negative effects on plant's primary growth. These results are interpreted that TW formation is closely associated with the acceleration of intercellular polar auxin transport.

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Expression divergence of cellulose synthase (CesA) genes after a recent whole genome duplication event in Populus

Cited by 31 publications

References 57 publications

AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation inPopulus tremula

AspWood: High-spatial-resolution transcriptome profiles reveal uncharacterized modularity of wood formation inPopulus tremula

AspWood: High-Spatial-Resolution Transcriptome Profiles Reveal Uncharacterized Modularity of Wood Formation in Populus tremula

Effect of exogenous IAA on tension wood formation by facilitating polar auxin transport and cellulose biosynthesis in hybrid poplar (Populus deltoids × Populus nigra) wood

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