Ontology highlight
ABSTRACT:
PROVIDER: PRJNA505895 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:RNA-seq was performed to examine the differential expressed transcriptomes with five-point experiment (6, 12, 24, 48 and 96 h) at the stem bases of cuttings in PuHox52 overexpression line compare to wild type Populus ussuriensis.
2020-06-18 | GSE117426 | GEO
Project description:Illumina technology was used to generate mRNA profiles of stem apex of Populus yunnanensis with cutting and inverted cutting. Total RNA was extracted separately from each plant and pooled to three biological replicates per condition. RNA concentration and purity was measured using NanoDrop 2000(Thermo Fisher Scientific, Wilmington, DE). RNA integrity was assessed using the RNA Nano 6000 Assay Kit of the Agilent Bioanalyzer 2100 system (Agilent Technologies, CA, USA).
2023-12-08 | GSE249347 | GEO
Project description:In a context of climate changes, water availability is expected to become a limiting factor for plant growth and to have an impact on forest health. In order to identify genes involved in shoot phenotypic plasticity in response to variations in water availability in trees, DNA methylation patterns were investigated in the shoot apical meristem (SAM) of Populus deltoides M-CM-^W P. nigra hybrid cuttings submitted to a moderate water deficit followed by a rewatering step. Transcriptomic response was also studied and is another GEO submission. Populus deltoides M-CM-^W P. nigra 'Carpaccio' hybrid cuttings were submitted to 3 water conditions: non-limiting, water deficit and water deficit/rewatering cycle (14 days treatment). At the end of the experiment, buds were collected and SAM maually isolated for 6 individuals per condition. DNA was extracted from 3 individuals per condition and pooled. For each condition, methylated DNA was isolated using a MethylDNA Immunoprecipitation (MeDIP) and both total DNA and MeDIP fraction were hybridised to microarrays.
2014-01-01 | E-GEOD-46624 | biostudies-arrayexpress
Project description:Adventitious roots (AR) develop from tissues other than the primary root, in a developmental process physiologically regulated by phytohormones. Adventitious roots provide structural support and contribute to water and nutrient absorption, and are critical for commercial vegetative propagation of several crops. Here we quantified the number of AR, root architectural traits and root biomass in cuttings from a pseudo-backcross population of Populus deltoides and Populus trichocarpa. Quantitative trait loci (QTL) mapping and whole-transcriptome analysis of individuals carrying alternative QTL alleles for AR number wereas used to identify putative regulatorsregions in the genome that regulateof AR development in the genome., and putative candidate genesregulators.
2016-03-01 | GSE71630 | GEO
Project description:In a context of climate changes, water availability is expected to become a limiting factor for plant growth and to have an impact on forest health. In order to identify genes involved in shoot phenotypic plasticity in response to variations in water availability in trees, gene expression patterns were investigated in the shoot apical meristem (SAM) of Populus deltoides M-CM-^W P. nigra hybrid cuttings submitted to a moderate water deficit followed by a rewatering step. Methylome response was also studied and is another GEO submission. Several gene clusters with expression patterns specific to SAM drought response as well as specific to the rewatering condition could be identified. Among them, genes involved in phytohormone pathways like brassinosteroids were found. Populus deltoides M-CM-^W P. nigra 'Carpaccio' hybrid cuttings were submitted to 3 water conditions: non-limiting, water deficit and water deficit/rewatering cycle (14 days treatment). At the end of the experiment, buds were collected and SAM maually isolated for 6 individuals per condition. Total RNA were independently extracted from 3 individuals per condition and used for microarray analyses.
2014-01-01 | E-GEOD-46605 | biostudies-arrayexpress
Project description:In a context of climate changes, water availability is expected to become a limiting factor for plant growth and to have an impact on forest health. In order to identify genes involved in shoot phenotypic plasticity in response to variations in water availability in trees, DNA methylation patterns were investigated in the shoot apical meristem (SAM) of Populus deltoides × P. nigra hybrid cuttings submitted to a moderate water deficit followed by a rewatering step. Transcriptomic response was also studied and is another GEO submission.
2014-01-01 | GSE46624 | GEO
Project description:Stem cuttings of P. trichocarpa (clone 101-74) were rooted in liquid medium without growth regulators (basal medium). The first emerging roots were observed on cuttings 6 days after the start of culture. The highest average root number per cutting (10 ± 2 roots/cutting) was obtained after 14 days. The first macroscopic evidence of root initiation was the appearance of root primordia, as lateral bulges observed at the stem surface 3 to 4 days after transfer to basal medium. Stem cross-sections showed intensely dividing cells forming root primordial. One to two days later the bark split and the organized sequence of cell division and differentiation steps in the primordium led to the establishment of the main root tissues, as well as the vascular connections of the incipient root with the pre-existing stem vasculature. Subsequently, the outgrowth and emergence of the adventitious root occurred. We refer to the dormant cutting as stage 0, the organizing primordium as stage 1, the primordium differentiation as stage 2. To examine changes in gene transcription associated with the development of adventitious roots, we monitored the transcript levels in differentiating primordia using microarrays. cDNA was prepared from replicate sets of P. trichocarpa rooted cuttings harvested at stages 0, 1 and 2. The Populus whole-genome expression array version 2.0 manufactured by NimbleGen Systems Limited (Madison, WI) contains in duplicates three independent, non-identical, 60-mer probes per whole gene model plus control probes and labeling controls. Included in the microarray are 65,965 probe sets corresponding to 55,970 gene models predicted on the P. trichocarpa genome sequence version 1.0 and 9,995 aspen cDNA sequences (Populus tremula, Populus tremuloides, and P. tremula x P. tremuloides). NimbleGen whole genome microarray analyses were performed in triplicate as per manufacturers instructions. We carried out nine hybridizations (NimbleGen) with samples derived from three early developmental stages of P. trichocarpa adventitious roots. cDNA was synthesized using CLONTECH Smart cDNA Synthesis kit containing an amplification step on the cDNA level. All samples were labeled with Cy3.
2012-11-01 | E-GEOD-34096 | biostudies-arrayexpress
Project description:Light plays a key role in plant growth, development and response to adversity. Plants perceive different wavelengths of light in the environment through various photoreceptors and regulate plant growth and development through light signaling. However, there are fewer studies on the effects of different light qualities on the growth and development of tree species at high altitude. In the study, the effects of blue and green light treatments on the growth and development of Populus cuttings were investigated. Blue light treatment significantly increased the high growth of Populus, while green light treatment showed the opposite trend. Consequently, blue light treatment demonstrated growth promotion by increasing the growth hormone content of Populus. This implies that Populus may benefit from blue light therapy in terms of growth and development, which may be helpful for further research into the introduction and cultivation of poplar species in high altitude regions.
2024-06-09 | GSE269248 | GEO