We are currently doing an screening of lactobacilli in diferents kinds of samples. I have isolated around 40 strains, sequenced a fragment of their 16S gene and BLASTed it to get the specie.
I'd like to build up some kind of phylogenetic tree. In order to do so, I have downloaded in fasta format all lactobacilli 16S sequences available in european databases and i'd like to build a tree using this sequences but also including the ones I sequenced to place them regarding downloaded ones. I though about doing so using closing neightbours algorithm.. but im not sure
I'm pretty new doing phylogenetic trees so i'd like if somebody could give me any tips and also a good tool recomendation for unix systems or windows. I have also did a bit of research in forums and found this topic ( What is the fastest way and software to build phylogenetic trees from WGS NGS data ) would the method described in answers there be valid?
Thank you :)