A novel phylogenetic tree based on the presence of protein domains in selected actinobacteria
Abstract
Protein functional domains are semi-autonomous parts of proteins capable of functioning independently. One protein may contain several domains and one domain may be present in different protein sequences. Thus, protein domains represent the niche specific adaptive nature of an organism. We hypothesized that the presence and absence of protein domains in an organism could be used to make a phylogenetic tree, which may better depict the biotope (niche). Here, we selected 100 actinobacteria and built a phylogenetic tree depending upon the presence and absence of protein domains. Strains of different genera from the same niche were found to cluster together suggesting niche specific domain acquisition among selected strains. Thus, the domain based phylogeny clustered the selected actinobacteria mainly according to their niche rather than their taxonomic classification.
Department
Molecular, Cellular and Biomedical Sciences
Publication Date
8-31-2018
Journal Title
Antonie van Leeuwenhoek
Publisher
Springer
Digital Object Identifier (DOI)
Document Type
Article
Recommended Citation
Sarkar, I., Gtari, M., Tisa, L.S. et al. A novel phylogenetic tree based on the presence of protein domains in selected actinobacteria. Antonie van Leeuwenhoek 112, 101–107 (2019). https://doi.org/10.1007/s10482-018-1154-1