Evaluation of Monocot and Eudicot Divergence Using the Sugarcane Transcriptome

Over 40,000 sugarcane (Saccharum officinarum) consensus sequences assembled from 237,954 expressed sequence tags were compared with the protein and DNA sequences from other angiosperms, including the genomes of Arabidopsis and rice (Oryza sativa). Approximately two-thirds of the sugarcane transcript...

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Bibliographic Details
Published in:Plant physiology (Bethesda) 2004-03, Vol.134 (3), p.951-959
Main Authors: Vincentz, Michel, Frank A. A. Cara, Okura, Vagner K., Felipe R. da Silva, Guilherme L. Pedrosa, Hemerly, Adriana S., Adriana N. Capella, Marins, Mozart, Ferreira, Paulo C., Suzelei C. França, Laurent Grivet, Vettore, Andre L., Kemper, Edson L., Willian L. Burnquist, Maria L. P. Targon, Walter J. Siqueira, Eiko E. Kuramae, Celso L. Marino, Luis E. A. Camargo, Carrer, Helaine, Luis L. Coutinho, Luiz R. Furlan, Manoel V. F. Lemos, Luiz R. Nunes, Suely L. Gomes, Santelli, Roberto V., Maria H. Goldman, Maurício Bacci Jr, Eder A. Giglioti, Thiemann, Otávio H., Flávio H. Silva, Marie-Anne Van Sluys, Nobrega, Francisco G., Arruda, Paulo, Carlos F. M. Menck
Format: Article
Language:English
Subjects:
Agronomy. Soil science and plant productions
Angiosperms
Arabidopsis
Arabidopsis - classification
Arabidopsis - genetics
Biological and medical sciences
Biotechnology
Chromosomes, Plant - genetics
Consensus Sequence
Evolution
Evolution, Molecular
Evolutionary genetics
Expressed Sequence Tags
Fundamental and applied biological sciences. Psychology
Genes
Genetic engineering
Genetic engineering applications
Genetic technics
Genetics
Genetics and breeding of economic plants
Genome Analysis
Genome, Plant
Genomes
Life Sciences
Magnoliopsida - classification
Magnoliopsida - genetics
Methods. Procedures. Technologies
Oryza - classification
Oryza - genetics
Oryza sativa
Plant breeding: fundamental aspects and methodology
Plants
Plants genetics
Qualitative comparative analysis
Rice
Saccharum - classification
Saccharum - genetics
Saccharum officinarum
Sugar cane
Transcription, Genetic
Transcriptomes
Transgenic animals and transgenic plants
Transgenic plants
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Summary:Over 40,000 sugarcane (Saccharum officinarum) consensus sequences assembled from 237,954 expressed sequence tags were compared with the protein and DNA sequences from other angiosperms, including the genomes of Arabidopsis and rice (Oryza sativa). Approximately two-thirds of the sugarcane transcriptome have similar sequences in Arabidopsis. These sequences may represent a core set of proteins or protein domains that are conserved among monocots and eudicots and probably encode for essential angiosperm functions. The remaining sequences represent putative monocot-specific genetic material, one-half of which were found only in sugarcane. These monocot-specific cDNAs represent either novelties or, in many cases, fast-evolving sequences that diverged substantially from their eudicot homologs. The wide comparative genome analysis presented here provides information on the evolutionary changes that underlie the divergence of monocots and eudicots. Our comparative analysis also led to the identification of several not yet annotated putative genes and possible gene loss events in Arabidopsis.
ISSN:0032-0889
1532-2548
DOI:10.1104/pp.103.033878