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Phylogenetic tree from sequences of hva22 m rn as comparative analysis in silico


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Phylogenetic tree from sequences of hva22 m rn as comparative analysis in silico

  1. 1. Database ____________________________________________________________________ID 88 Phylogenetic tree from sequences of HVA22 mRNAs: comparative analysis in silico between Ricinus communis and Arabidopsis thaliana. Felipe Vieira de Souza, Universidade Federal da Bahia Guilherme Araújo Lacerda, Universidade Federal da Bahia Valdir Gomes-Neto, Universidade Federal da Bahia Luzimar Gonzaga Fernandez, Universidade Federal da Bahia Renato Delmondez de Castro, Universidade Federal da Bahia The HVA22 gene has been discovered in barley (Hordeum vulgare) when exposed to drought, cold or ABA. Although its function and proteins response are not totally clear yet, HVA22 have been related to stresses responses induced as homologs have been found in a wide class of eukaryotic organisms, such protists, fungi, plants, and mammals as the sequences deposited in public databases. In Arabidopsis thaliana, the homologs genes are designated from A to E (i.e. AtHVA22A), despite the institution rules, more than one group of researchers had published sequences with similar names. Due to this fact, it has two groups with the same name AtHVA22A to AtHVA22E and AtHVA22a to AtHVA22e, where it can be noticed the difference about the upper and lower case. Whilst the conflict of the name, more two situations are registered at this work, where it can be found the AtHVA22D registered twice and a group of protein like genes which are designated as HVA22F, G, H, J and K. This situation provides unclear information about HVA22 genes annotations. Castor bean (Ricinus communis L.) has been elected as main feedstock for biodiesel on the northeast semiarid region of Brazil due to its social economic importance for family farming. Castor seeds have high oil contents which useful on a wide range of industrial products from cosmetics to airplane lubricant. Although the castor partial genome publication in 2010, its genome’s function is not totally clear yet whereas it is possible to find genes published by different groups, or yet without specific identification. Therefore, the present study aimed at the comparison of the HVA22 gene in R. communis and A. thaliana by means of bioinformatics tools. We have proceeded in silico analysis and found 6 homologues of the HVA22 gene in R. communis in NCBI database without a good definition of the corresponding putative “Ricinus communis Protein HVA22”. The sequences were obtained in a public database (NCBI), and aligned by ClustalW using default parameters. A phylogenetic tree was built by MEGA4 using Neighbor-joining model, p distance and pair-wise suppression. The distance between the clusters on phylogenetic tree could be measured by bootstrap test. Results indicated that five out of six R. communis HVA22 genes were linked to A. thaliana HVA22 genes, among which two HVA22 genes (gi|255616182; gi|255558707) were strongly related to the HVA protein-like HVA22F. Two other genes (gi|255562797; gi|255540990) were clustered to AtHVA22A whereas one gene (gi|255540164) was linked to AtHVA22D. The sixth gene (gi|255554616) was posted as an out group. The proposed methodology allowed the clusterization of several candidate HVA22-like genes which may be subject to further experimental studies aiming to characterize varieties of R. communis tolerant to drought stresses. Supported by: Petrobras, CAPES, CNPq.1 of 1 17/10/2011 10:24