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Expressed sequence tags from cold‐acclimatized barley can identify novel plant genes
Author(s) -
Faccioli P.,
Pecchioni N.,
Cattivelli L.,
Stanca A. M.,
Terzi V.
Publication year - 2001
Publication title -
plant breeding
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.583
H-Index - 71
eISSN - 1439-0523
pISSN - 0179-9541
DOI - 10.1046/j.1439-0523.2001.00652.x
Subject(s) - biology , expressed sequence tag , complementary dna , gene , cdna library , genetics , homology (biology) , genome , ribosomal protein , ribosomal rna , ribosome , rna
Expressed sequence tags (ESTs) databases are being created for several plant species. ESTs have the potential to analyse the expressed part of the genome, and to be used in a wide range of applications from the theoretical aspect of plant biology to the breeding process. The present study is based on a cold‐stressed cDNA library as a source of ESTs in barley: partial cDNA sequencing of randomly isolated clones yielded 960 ESTs. The strategy of random sequencing cDNA clones at their 5’ ends allows one to obtain information on the steady‐state level of the transcripts in a cold‐stressed green leaf of barley. Repetitive sequencing of nearly identical ESTs provides, in addition, useful information on the existence of multigene families. The results of a BLAST search performed on this set of ESTs showed that 18.5% of the tags exhibited no significant homology to known genes, 10% had significant levels of homology with known cold or other stress‐related genes, about 26% proved homologous to enzymes involved in several metabolic pathways and about 15% encoded for ribosomal proteins, cytoskeleton proteins, histones, ubiquitin, elongation factors and others. Redundancy was found for some classes of tag: RuBisCo, cab proteins, carbonic anhydrase, glutamate decarboxylase and stress related proteins.