The poplar root transcriptome: analysis of 7000 expressed sequence tags

Autor: David Martin, Nathalie Encelot, Francis Martin, Christine Delaruelle, Annegret Kohler
Přispěvatelé: ProdInra, Migration, Interactions Arbres-Microorganismes (IAM), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL)
Rok vydání: 2003
Předmět:
0106 biological sciences
Populus trichocarpa
DNA
Plant
Proteome
Transcription
Genetic
Biophysics
UniGene
[SDV.BC]Life Sciences [q-bio]/Cellular Biology
Computational biology
RACINE ADVENTIVE
Aquaporins
01 natural sciences
Biochemistry
Plant Roots
Transcriptome
03 medical and health sciences
Expressed sequence tag
Structural Biology
Complementary DNA
Botany
Genetics
Hormone metabolism
EST
Nutrient uptake
POPULUS TRICHOCARPA X DELTOIDES
Molecular Biology
[SDV.BC] Life Sciences [q-bio]/Cellular Biology
ComputingMilieux_MISCELLANEOUS
030304 developmental biology
Oligonucleotide Array Sequence Analysis
Plant Proteins
Expressed Sequence Tags
0303 health sciences
Adventitious root
biology
cDNA library
Aquaporin
Gene Expression Profiling
food and beverages
Cell Biology
biology.organism_classification
Populus trichocarpa×deltoides
Populus
PEUPLIER
DNA microarray
Carrier Proteins
010606 plant biology & botany
Zdroj: FEBS Letters
FEBS Letters, Wiley, 2003, 542, pp.37-41
ISSN: 0014-5793
1873-3468
Popis: To date, most poplar expressed sequence tags (ESTs) are from above-ground tissues such as wood, leaf and buds. Here, we present a large-scale production of ESTs from roots of the hybrid cottonwood, Populus trichocarpa×deltoides. cDNA libraries were generated from the root system of 2-month-old rooted cuttings, and roots of 2.5-month-old cuttings water-stressed for 19 days. Partial sequences obtained from 7013 clones were assembled into 1347 clusters and 3527 singletons. This set of ESTs represents 4874 unique transcripts expressed in roots. Putative functions could be assigned to 3021 (62%) of the transcripts. A significant portion of the ESTs encode proteins of common metabolic pathways; energy and metabolism represented 5% and 8% of total transcripts, respectively. Of specific interest to root functions are the 6% of ESTs involved in signalling pathways and hormone metabolism, and 4% encoding transporters and channels. The current poplar root ESTs and the aspen root ESTs present in public databases represent 6700 unique transcripts. The Unigene set was selected from the ESTs and used to generate nylon microarrays. Changes in aquaporins and transporter transcripts were then studied during adventitious root development.
Databáze: OpenAIRE
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