Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

NorWood: A gene expression resource for evo-devo studies of conifer wood development

ABSTRACT: NorWood: A gene expression resource for evo-devo studies of conifer wood development

PROVIDER: PRJEB15530 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR1661400_1.fastq.gz	Fastqsanger.gz
	ERR1661400_2.fastq.gz	Fastqsanger.gz
	ERR1661410_1.fastq.gz	Fastqsanger.gz
	ERR1661410_2.fastq.gz	Fastqsanger.gz
	ERR1661420_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 146

Similar Datasets

Characterization of extracellular enzymes involved in natural decomposition of conifer wood

Project description:The conifer needle endophyte, Phialocephala scopiformis, was cultivated in media containing ground Pinus contorta wood as sole carbon source. After five and seven days growth, concentrated extracellular fluids were subjected to LC-MS/MS analyses.

2018-11-28 | PXD010720 | Pride

NorWood: a gene expression resource for evo-devo studies of conifer wood development.

Project description:The secondary xylem of conifers is composed mainly of tracheids that differ anatomically and chemically from angiosperm xylem cells. There is currently no high-spatial-resolution data available profiling gene expression during wood formation for any coniferous species, which limits insight into tracheid development. RNA-sequencing data from replicated, high-spatial-resolution section series throughout the cambial and woody tissues of Picea abies were used to generate the NorWood.conGenIE.org web resource, which facilitates exploration of the associated gene expression profiles and co-expression networks. Integration within PlantGenIE.org enabled a comparative regulomics analysis, revealing divergent co-expression networks between P. abies and the two angiosperm species Arabidopsis thaliana and Populus tremula for the secondary cell wall (SCW) master regulator NAC Class IIB transcription factors. The SCW cellulose synthase genes (CesAs) were located in the neighbourhoods of the NAC factors in A. thaliana and P. tremula, but not in P. abies. The NorWood co-expression network enabled identification of potential SCW CesA regulators in P. abies. The NorWood web resource represents a powerful community tool for generating evo-devo insights into the divergence of wood formation between angiosperms and gymnosperms and for advancing understanding of the regulation of wood development in P. abies.

| S-EPMC6079643 | biostudies-literature

Transcriptome profiling of Pinus radiata branches reveals new insights into compression wood formation in response to gravity stress

Project description:Compression (CW) and opposite wood (OW) are formed in the uniderside and upperside of conifer branches respectively in response to gravity stress. We investigated genes differentially transcribed between the underside and upside of radiate pine branches using cDNA microarrays with a view to plant gravitropism.

2014-05-30 | GSE47167 | GEO

wood decay metagenome

Project description:Resource utilization of wood-inhabiting fungi

| PRJNA319605 | ENA

[E-MTAB-366] Transcription profiling by array of chicken embryos at 15 different stages

Project description:Transcription profiling of chicken development The experiment were perfomed as a part of our Vertebrate Evo-Devo project. The aim of the project is to compare transcription profiles of normal (unmanipulated, wild-type, whole embryo) vertebrate embryos.

2011-04-05 | GSE28388 | GEO

[E-MTAB-369] Transcription profiling by array of Xenopus laevis embryos at 15 different stages

Project description:Transcription profiling of X.laevis development. The experiment were perfomed as a part of our Vertebrate Evo-Devo project. The aim of the project is to compare transcription profiles of normal (unmanipulated, wild-type, whole embryo) vertebrate embryos.

2011-04-05 | GSE28390 | GEO

[E-MTAB-368] Transcription profiling by array of mouse embryos at 8 different stages

Project description:Transcription profiling of mouse development The experiment were perfomed as a part of our Vertebrate Evo-Devo project. The aim of the project is to compare transcription profiles of normal (unmanipulated, wild-type, whole embryo) vertebrate embryos.

2011-04-05 | GSE28389 | GEO

Hallmarks of basidiomycete soft- and white-rot in wood-decay -omics data of Armillaria [ARCE]

Project description:The genus Armillaria spp. (Fungi, Basidiomycota) includes devastating pathogens of temperate forests and saprotrophs that decay wood. Pathogenic and saprotrophic Armillaria species can efficiently colonize and decay woody substrates, however, mechanisms of wood penetration and colonization are poorly known. We assayed the colonization and decay of autoclaved spruce roots using the conifer-specialists Armillaria ostoyae and A. cepistipes using transcriptomic and proteomic data. Transcript and protein levels were altered more extensively in the saprotrophic A. cepistipes than in the pathogenic A. ostoyae and in invasive mycelia of both species compared to their rhizomorphs. Diverse suites of carbohydrate-active enzyme genes (CAZymes), in particular pectinolytic ones and expansins, were upregulated in both species, whereas ligninolytic genes were mostly downregulated. Our gene expression data, together with previous comparative genomic and decay-chemistry analyses suggest that wood decay by Armillaria differs from that of typical white rot fungi and shows features resembling soft rot. We propose that Armillaria species have modified the ancestral white rot machinery so that it allows for selective ligninolysis based on environmental conditions and/or host types.

2020-05-04 | GSE149725 | GEO

Hallmarks of basidiomycete soft- and white-rot in wood-decay -omics data of Armillaria [AROC18]

2020-05-04 | GSE149701 | GEO

Transcriptome reorganization during wood maturation in Pinus radiata

Project description:Wood maturation produces two distinct wood tissues: juvenile wood (JW) and mature wood (LW), which are the major cause of wood qaulity variation within a tree. We investigate transcriptome reorganization during wood maturation process in radiata pine using a newly developed 18k cDNA microarrays.

2011-06-01 | GSE20535 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data