I would like to determine the functional role of a non cultured or eDNA based given bacterial community. Is there any online tool available which could determine the possible functional role of a microbes or its community using of 16s V3 / V4 region gene sequence ?
You can use PICRUSt (http://picrust.github.io/picrust/), BugBase (https://bugbase.cs.umn.edu/index.html) or Faprotax (http://www.zoology.ubc.ca/louca/FAPROTAX/lib/php/index.php?section=Home). You have to use the OTU table generated with your 16S sRNA sequencing data.
As mentioned before there is PICRUST and also Tax4Fun:
http://tax4fun.gobics.de/
https://academic.oup.com/bioinformatics/article/31/17/2882/183768
However, you have to be careful as it present major limitation and interpretation should be done cautiously. Such analysis should be supported by other analysis to ensure you can trust some of the results. It also really depend which function you want to assess, but a global approach is risky as taxonomy is not equal to function.
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