Evaluation of Primers Targeting the Diazotroph Functional Gene and Development of NifMAP - A Bioinformatics Pipeline for Analyzing <i>nifH</i> Amplicon Data.

ABSTRACT: Diazotrophic microorganisms introduce biologically available nitrogen (N) to the global N cycle through the activity of the nitrogenase enzyme. The genetically conserved dinitrogenase reductase (nifH) gene is phylogenetically distributed across four clusters (I-IV) and is widely used as a marker gene for N₂ fixation, permitting investigators to study the genetic diversity of diazotrophs in nature and target potential participants in N₂ fixation. To date there have been limited, standardized pipelines for analyzing the nifH functional gene, which is in stark contrast to the 16S rRNA gene. Here we present a bioinformatics pipeline for processing nifH amplicon datasets - NifMAP ("NifH MiSeq Illumina Amplicon Analysis Pipeline"), which as a nov

SUBMITTER: Angel R 

PROVIDER: S-EPMC5936773 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature