Annals of the 1st MCAA Brazil-Europe Workshop

IDENTIFICATION OF TERPENE SYNTHASES OBTAINED FROM CYANOBACTERIAS THROUGH HIDDEN MARKOV MODELS

Published in 15/05/2018 - ISBN: 978-85-5722-068-3

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Paper Title
IDENTIFICATION OF TERPENE SYNTHASES OBTAINED FROM CYANOBACTERIAS THROUGH HIDDEN MARKOV MODELS
Authors
  • José C. da S. Junior
  • Renato Renison Moreira Oliveira
  • Alex Ranieri Jerônimo Lima
  • Evonnildo Costa Gonçalves
  • Danielle Costa Carrara Couto
  • Regiane Kawasaki Francês
Modality
resumo
Subject area
Exact and Earth Sciences
Publishing Date
15/05/2018
Country of Publishing
Brasil
Language of Publishing
Português
Paper Page
https://www.even3.com.br/anais/mcaaworkshop/60467-identification-of-terpene-synthases-obtained-from-cyanobacterias-through-hidden-markov-models
ISBN
978-85-5722-068-3
Keywords
Cyanobacteria, Terpenes, Hidden Markov Model
Summary
Terpenes are essential natural products for the growth and survival of photosynthetic organisms. Terpenes have an extensive commercial application, being the plants the main source of this substance for the industry, however, the terpenes also occur in cyanobacteria. The main objective of this work was to generate terpene synthase models using Hidden Markov Model (HMM) to identify the presence of these enzymes in cyanobacterial sequences. Different HMM models were generated in this work: a general HMM model of terpene synthases and specific HMM models. However, the construction of all models was performed following the same procedures: 1) Searching NCBI and EBI banks for bacterial terpene synthase sequences as references for the model; 2) Previous treatment in the obtained data; 3) Geneious v9 was used to perform DNA translation to protein sequences; 4) Alignment of the protein sequences using the online version of MAFFT; 5) Construction of the model with HMMER version 3.1. After conducting searches for reference sequences for the construction of HMM models, 249 bacterial terpene synthase sequences were obtained. The database in which the tests of this work were carried out has 778,419 protein sequences of cyanobacteria. To measure the efficiency of the general model its results were compared with those of PF03936, a model based on sequences of plant terpene synthases. The PF03936 model, when applied in the cyanobacteria sequences database, identified 20 sequences of terpene synthases, while our general hmm model found a total of 250 terpene synthases. Specific models were also applied to the cyanobacteria database for HMM models: Seshiterpeno Sintase, 2-methylisoborneol Sintase, Phytoeno Sintase and Esqualene Sintase. The HMM models demonstrated their efficiency in the identification of non-classified hypothetical and terpene synthase proteins, in addition to the e-value verified in the results of the general HMM model which show the reliability of such model.
Title of the Event
1st MCAA Brazil-Europe Workshop (BREUW): Building a sustainable future based on cooperative science, technology and education
City of the Event
São Luís
Title of the Proceedings of the event
Annals of the 1st MCAA Brazil-Europe Workshop
Name of the Publisher
Even3
Means of Dissemination
Meio Digital

How to cite

JUNIOR, José C. da S. et al.. IDENTIFICATION OF TERPENE SYNTHASES OBTAINED FROM CYANOBACTERIAS THROUGH HIDDEN MARKOV MODELS.. In: Annals of the 1st MCAA Brazil-Europe Workshop. Anais...São Luís(MA) UFMA, 2018. Available in: https//www.even3.com.br/anais/mcaaworkshop/60467-IDENTIFICATION-OF-TERPENE-SYNTHASES-OBTAINED-FROM-CYANOBACTERIAS-THROUGH-HIDDEN-MARKOV-MODELS. Access in: 22/05/2025

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