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Populus trichocarpa

ABSTRACT: Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa

OTHER RELATED OMICS DATASETS IN: E-GEOD-54153

PROVIDER: PRJNA235309 | ENA |

REPOSITORIES: ENA

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Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa

Project description:Laccases were proposed to catalyze the oxidative polymerization of monolignols. We identified 49 laccase gene models in Populus trichocarpa, of which 29 were predicted to be targets of ptr-miR397a. We overexpressed Ptr-MIR397a in transgenic P. trichocarpa. In each of all 9 transgenic lines tested, 17 PtrLACs were down-regulated as analyzed by RNA-seq. Transgenic lines with severe reduction in the expression of these laccase genes resulted in an approximately 40% decrease in the total laccase activity. Overexpression of Ptr-MIR397a in these transgenic lines also reduced lignin content, whereas levels of all monolignol biosynthetic gene transcripts remained unchanged. A hierarchical genetic regulatory network (GRN) built by a bottom-up Graphic Gaussian Model algorithm provides additional support for a role of ptr-miR397a as a negative regulator of laccases for lignin biosynthesis. Full transcriptome based differential gene expression in the overexpressed transgenics and protein domain analyses implicate previously unidentified transcription factors and their targets in an extended hierarchical GRN including ptr-miR397a and laccases that coregulate lignin biosynthesis in wood formation. Ptr-miR397a, laccases and other regulatory components of this network may provide additional strategies for genetic manipulation of lignin content.

2014-01-17 | GSE54153 | GEO

Ptr-miR397a is a negative regulator of laccase genes affecting lignin content in Populus trichocarpa

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Project description:Illumina HiSeq2000 technology was used to generate mRNA profiles from the ectomycorrhizal fungi Laccaria bicolor colonizing roots of Populus trichocarpa. Samples were taken after 3 months of contact in order to identify mycorrhiza-regulated transcripts. 100bp reads were generated and aligned to the Populus trichocarpa (http://www.phytozome.net/poplar.php) reference genome.

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Project description:We treated 6 month Populus trichocarpa by bending for 0, 3, and 7 days to see effects of bending treatment on wood formation at transcript level

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Transcriptome analyses of the Laccaria bicolor-Populus trichocarpa mycorrhiza development

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RNAseq of xylem tissue of transgenic and wildtype Populus trichocarpa (NSF Plant Genome Research Program Project 0922391)

Project description:We transformed Populus trichocarpa and generated transgenics with knockdown or overexpression of monolignol genes and transcription factors

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Ozone exposure of Populus deltoides and Populus trichocarpa

Project description:Populus deltoides and Populus trichocarpa were exposed to either ambient air or an acute ozone exposure of 200 ppb for 9 hrs and ozone response was profiled for each genotype by hybridising control against ozone-exposed samples per genotype. Keywords: stress response, genotype comparrison, ozone exposure

2009-04-01 | GSE10874 | GEO

Gene expression in leaves of a Populus trichocarpa and Populus deltoides pseudo-backcross population

Project description:A microarray analysis of whole-genome gene expression in leaves was carried out in a (Populus trichocarpa X Populus deltoides) X Populus deltoides pseudo-backcross pedigree. Genetic variation in gene expression was quantified for 55,793 predicted gene models based on a single probe per gene. Resultant data contributed to the analysis of the genetic architecture of gene expression in leaves of Populus.

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Gene expression in whole-roots of a Populus trichocarpa and Populus deltoides pseudo-backcross population

Project description:A microarray analysis of whole-genome gene expression in roots was carried out in a (Populus trichocarpa X Populus deltoides) X Populus deltoides pseudo-backcross pedigree. Genetic variation in gene expression was quantified for 55,793 predicted gene models based on a single probe per gene. Resultant data contributed to the analysis of the genetic architecture of gene expression in roots of Populus.

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2014-02-08 | E-GEOD-54789 | biostudies-arrayexpress

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