The application of high-throughput sequencing technology to analysis of amoA phylogeny and environmental niche specialisation of terrestrial bacterial ammonia-oxidisers

Axel Aigle, James I. Prosser, Cécile Gubry-Rangin (Corresponding Author)

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Abstract

Characterisation of microbial communities increasingly involves use of high throughput sequencing methods (e.g. MiSeq Illumina) that amplify relatively short sequences of 16S rRNA or functional genes, the latter including ammonia monooxygenase subunit A (amoA), a key functional gene for ammonia oxidising bacteria (AOB) and archaea (AOA). The availability of these techniques, in combination with developments in phylogenetic methodology, provides the potential for better analysis of microbial niche specialisation. This study aimed to develop an approach for sequencing of bacterial and archaeal amoA genes amplified from soil using bioinformatics pipelines developed for general analysis of functional genes and employed sequence data to reassess phylogeny and niche specialisation in terrestrial bacterial ammonia oxidisers.
Original languageEnglish
Article number3
JournalEnvironmental Microbiome
Volume14
Early online date4 Jul 2019
DOIs
Publication statusPublished - Dec 2019

Keywords

  • nitrification
  • amoA
  • 16S rRNA
  • Archaea
  • bacteria
  • Illumina MiSeq
  • pH
  • Nitrification
  • Bacteria

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