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Detalhes da Produção
| Tipo | Trabalho em Eventos |
| Grupo | Produção Bibliográfica |
| Descrição | COSTA, I. R. ; ORTEGA, J. M. ; PROSDOCIMI, F. Evidences of positive selection in metazoan genes for essential amino acid pathways. In: X-meeting 2011 -- Brazilian International Conference in Bioinformatics, 2011, Florianópolis. Anais do X-meeting 2011 -- Brazilian International Conference in Bioinformatics, 2011. v. . p. -. |
| Autor | Francisco Prosdocimi |
| Ano | 2011 |
Informações Complementares
| Ano de Realização | 2011 |
| Ano do Trabalho | 2011 |
| Cidade do Evento | Florianópolis |
| Classificação do Evento | INTERNACIONAL |
| Descrição e Informações Adicionais | Essential amino acids (EAA) are known to be the ones that organisms are incapable to synthesize by `de novo` pathways. In order to study enzymes for EAA biosynthetical pathways we curated a multi-fasta file containing all the enzymes responsible for these pathways in yeast. Each sequence entry on this file has been used as BLAST-query into a search for orthologs in animal, fungi and plant species in SwissProt and NR databases. Thus we described in detail each and every enzyme that metazoans miss for the biosynthesis of 9 EAAs. We were surprised, though, to find a number of enzymes that humans kept for these pathways. Ten enzymes for EAA pathways that showed significant similarity to annotated human genes were identified (e-value < 1e-20). Once all metazoans have lost the pathways to produce these amino acids, we proceeded to study why these genes were kept in our genome we will further refer to these proteins as REST (Remaining enzymes for Eaa Synthesis in meTazoans). Fungi share a more recent common ancestor with metazoan than plants and therefore their proteins can be predicted to be more similar to metazoans` ones, at least in general. Considering that both fungi and plants produce the complete set of amino acids through `de novo` pathways, neofunctionalization and/or subfuncionalization in metazoan proteins can be searched by comparing the sequence of REST with their autothrophic orthologs. Thus, from the 10 REST enzymes, we initially selected 4 by manual curation to search for neo/subfunctionalization: Acetolactate synthase (ALS), Branched-chain-amino-acid aminotransferase (BCA), Saccharopine dehydrogenase (SD) and Betaine-homocysteine S-metyl-transferase (BHMT). We built multiple alignments and phylogenetic trees of these selected RESTs and their homologs. Phylogenetic clustering evidenced that fungi proteins clustered with metazoans as expected in two cases (SD and BCA) and with plants in the other two ones (ALS, BHMT). This preliminar result suggests that |
| Descrição e Informações Adicionais(en) | Essential amino acids (EAA) are known to be the ones that organisms are incapable to synthesize by `de novo` pathways. In order to study enzymes for EAA biosynthetical pathways we curated a multi-fasta file containing all the enzymes responsible for these pathways in yeast. Each sequence entry on this file has been used as BLAST-query into a search for orthologs in animal, fungi and plant species in SwissProt and NR databases. Thus we described in detail each and every enzyme that metazoans miss for the biosynthesis of 9 EAAs. We were surprised, though, to find a number of enzymes that humans kept for these pathways. Ten enzymes for EAA pathways that showed significant similarity to annotated human genes were identified (e-value < 1e-20). Once all metazoans have lost the pathways to produce these amino acids, we proceeded to study why these genes were kept in our genome we will further refer to these proteins as REST (Remaining enzymes for Eaa Synthesis in meTazoans). Fungi share a more recent common ancestor with metazoan than plants and therefore their proteins can be predicted to be more similar to metazoans` ones, at least in general. Considering that both fungi and plants produce the complete set of amino acids through `de novo` pathways, neofunctionalization and/or subfuncionalization in metazoan proteins can be searched by comparing the sequence of REST with their autothrophic orthologs. Thus, from the 10 REST enzymes, we initially selected 4 by manual curation to search for neo/subfunctionalization: Acetolactate synthase (ALS), Branched-chain-amino-acid aminotransferase (BCA), Saccharopine dehydrogenase (SD) and Betaine-homocysteine S-metyl-transferase (BHMT). We built multiple alignments and phylogenetic trees of these selected RESTs and their homologs. Phylogenetic clustering evidenced that fungi proteins clustered with metazoans as expected in two cases (SD and BCA) and with plants in the other two ones (ALS, BHMT). This preliminar result suggests that |
| Divulgação Científica | NAO |
| Idioma | Português |
| Meio de Divulgação | IMPRESSO |
| Natureza | RESUMO |
| Nome do Evento | X-meeting 2011 -- Brazilian International Conference in Bioinformatics |
| País do Evento | Brasil |
| Relevância | NAO |
| Título dos Anais ou Proceedings | Anais do VII X-meeting |
| Título do Trabalho | Evidences of positive selection in metazoan genes for essential amino acid pathways |
| Título do Trabalho(en) | Evidences of positive selection in metazoan genes for essential amino acid pathways |