ArticleBMC genomics2014
A comprehensive assessment of the transcriptome of cork oak (Quercus suber) through EST sequencing.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 41 citations in OpenAlex.
- The first multi-tissue genome-scale metabolic model of a woody plant highlights suberin biosynthesis pathways in Quercus suber.PLoS computational biology · 2023Article
- Multiomics Molecular Research into the Recalcitrant and OrphanInternational journal of molecular sciences · 2022Review
- Article
- Characterizing the Leaf Transcriptome ofFrontiers in genetics · 2021Article
- CorkOakDB-The Cork Oak Genome Database Portal.Database : the journal of biological databases and curation · 2020Article
- Genome-Wide Identification of Epigenetic Regulators inInternational journal of molecular sciences · 2020Article
- Transcriptome profiles of Quercus rubra responding to increased OBMC genomics · 2020Article
- How Quercus ilex L. saplings face combined salt and ozone stress: a transcriptome analysis.BMC genomics · 2018Article
- Characterization of the cork formation and production transcriptome inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2018Article
- The draft genome sequence of cork oak.Scientific data · 2018Article
- Development of Target Sequence Capture and Estimation of Genomic Relatedness in a Mixed Oak Stand.Frontiers in plant science · 2018Article
- A comparative transcriptomic approach to understanding the formation of cork.Plant molecular biology · 2018Article
- Cork Oak Young and Traumatic Periderms Show PCD Typical Chromatin Patterns but Different Chromatin-Modifying Genes Expression.Frontiers in plant science · 2018Article
- Hardwood Tree Genomics: Unlocking Woody Plant Biology.Frontiers in plant science · 2018Article
- De novo assembly of Phlomis purpurea after challenging with Phytophthora cinnamomi.BMC genomics · 2017Article
- Role of floral organ identity genes in the development of unisexual flowers of Quercus suber L.Scientific reports · 2017Article
- The green ash transcriptome and identification of genes responding to abiotic and biotic stresses.BMC genomics · 2016Article
- Characterization of the cork oak transcriptome dynamics during acorn development.BMC plant biology · 2015Article
- RNA-Seq and Gene Network Analysis Uncover Activation of an ABA-Dependent Signalosome During the Cork Oak Root Response to Drought.Frontiers in plant science · 2015Article
- Evaluation of the presence of arabinogalactan proteins and pectins during Quercus suber male gametogenesis.Annals of botany · 2015Article
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Authors and funding
63 authors at 16 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCork oak (Quercus suber) is one of the rare trees with the ability to produce cork, a material widely used to make wine bottle stoppers, flooring and insulation materials, among many other uses. The molecular mechanisms of cork formation are still poorly understood, in great part due to the difficulty in studying a species with a long life-cycle and for which there is scarce molecular/genomic information. Cork oak forests are of great ecological importance and represent a major economic and social resource in Southern Europe and Northern Africa. However, global warming is threatening the cork oak forests by imposing thermal, hydric and many types of novel biotic stresses. Despite the economic and social value of the Q. suber species, few genomic resources have been developed, useful for biotechnological applications and improved forest management.
resultsWe generated in excess of 7 million sequence reads, by pyrosequencing 21 normalized cDNA libraries derived from multiple Q. suber tissues and organs, developmental stages and physiological conditions. We deployed a stringent sequence processing and assembly pipeline that resulted in the identification of ~159,000 unigenes. These were annotated according to their similarity to known plant genes, to known Interpro domains, GO classes and E.C. numbers. The phylogenetic extent of this ESTs set was investigated, and we found that cork oak revealed a significant new gene space that is not covered by other model species or EST sequencing projects. The raw data, as well as the full annotated assembly, are now available to the community in a dedicated web portal at http://www.corkoakdb.org.
conclusionsThis genomic resource represents the first trancriptome study in a cork producing species. It can be explored to develop new tools and approaches to understand stress responses and developmental processes in forest trees, as well as the molecular cascades underlying cork differentiation and disease response.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.