Distribution and evolution of nitrogen fixation genes in the phylum Bacteroidetes

Microbes and Environments
Jun-ichi InoueMoriya Ohkuma

Abstract

Diazotrophs had not previously been identified among bacterial species in the phylum Bacteroidetes until the rapid expansion of bacterial genome sequences, which revealed the presence of nitrogen fixation (nif) genes in this phylum. We herein determined the draft genome sequences of Bacteroides graminisolvens JCM 15093(T) and Geofilum rubicundum JCM 15548(T). In addition to these and previously reported 'Candidatus Azobacteroides pseudotrichonymphae' and Paludibacter propionicigenes, an extensive survey of the genome sequences of diverse Bacteroidetes members revealed the presence of a set of nif genes (nifHDKENB) in strains of Dysgonomonas gadei, Dysgonomonas capnocytophagoides, Saccharicrinis fermentans, and Alkaliflexus imshenetskii. These eight species belonged to and were distributed sporadically within the order Bacteroidales. Acetylene reduction activity was detected in the five species examined, strongly suggesting their diazotrophic nature. Phylogenetic analyses showed monophyletic clustering of the six Nif protein sequences in the eight Bacteroidales species, implying that nitrogen fixation is ancestral to Bacteroidales and has been retained in these species, but lost in many other lineages. The identification of nif ...Continue Reading

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Citations

Jul 22, 2015·Annual Review of Microbiology·Andreas Brune, Carsten Dietrich
May 29, 2016·Applied and Environmental Microbiology·Vera TaiPatrick J Keeling
Apr 20, 2017·Frontiers in Microbiology·Marika TruuJaak Truu
Mar 31, 2018·Frontiers in Microbiology·Byron C CrumpRyan S Mueller
Aug 8, 2015·Environmental Microbiology·Moriya Ohkuma
Jul 27, 2020·International Journal of Systematic and Evolutionary Microbiology·Yuzhong HuZhaobin Huang
Nov 2, 2016·Molecular Ecology·Shantanu P ShuklaNaomi E Pierce
Feb 6, 2021·Frontiers in Microbiology·Ugo MarzocchiUlisse Cardini
Feb 6, 2021·Applied Microbiology and Biotechnology·Zhongyi LuMeng Li
Sep 14, 2021·International Journal of Systematic and Evolutionary Microbiology·Atsuko UekiKatsuji Ueki

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Datasets Mentioned

BETA
AP010656
CP002345
BAJS00000000

Software Mentioned

RaxML MPI
Kakusan4 package
BLAST
Aminosan
NifN
MAFFT

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