Berckx, Fede
- Department of Crop Production Ecology, Swedish University of Agricultural Sciences
- Stockholm University
Research article2024Peer reviewedOpen access
Frankia [NiFe] uptake hydrogenases and genome reduction: different lineages of loss
Pawlowski, Katharina; Wibberg, Daniel; Mehrabi, Sara; Obaid, Nadia Binte; Patyi, Andras; Berckx, Fede; Nguyen, Han; Hagen, Michelle; Lundin, Daniel; Brachmann, Andreas; Blom, Jochen; Herrera-Belaroussi, Aude; Abrouk, Danis; Pujic, Petar; Hahlin, Ann-Sofi; Kalinowski, Joern; Normand, Philippe; Sellstedt, Anita
Abstract
Uptake hydrogenase (Hup) recycles H2 formed by nitrogenase during nitrogen fixation, thereby preserving energy. Among root nodule bacteria, most rhizobial strains examined are Hup-, while only one Hup- Frankia inoculum had been identified. Previous analyses had led to the identification of two different [NiFe] hydrogenase syntons. We analysed the distribution of different types of [NiFe] hydrogenase in the genomes of different Frankia species. Our results show that Frankia strains can contain four different [NiFe] hydrogenase syntons representing groups 1f, 1h, 2a, and 3b according to S & oslash;ndergaard, Pedersen, and Greening (HydDB: a web tool for hydrogenase classification and analysis. Sci Rep 2016;6:34212. https://doi.org/10.1038/srep34212.); no more than three types were found in any individual genome. The phylogeny of the structural proteins of groups 1f, 1h, and 2a follows Frankia phylogeny; the phylogeny of the accessory proteins does not consistently. An analysis of different [NiFe] hydrogenase types in Actinomycetia shows that under the most parsimonious assumption, all four types were present in the ancestral Frankia strain. Based on Hup activities analysed and the losses of syntons in different lineages of genome reduction, we can conclude that groups 1f and 2a are involved in recycling H2 formed by nitrogenase while group 1 h and group 3b are not.Different types of [NiFe] hydrogenases in the genus Frankia and their roles in nitrogen fixation deduced from losses in lineages of genome erosion.
Keywords
root nodules; actinorhiza; Frankia; nitrogen fixation; uptake hydrogenase
Published in
FEMS Microbiology Ecology
2024, volume: 100, number: 12, article number: fiae147
Publisher: OXFORD UNIV PRESS
SLU Authors
Hahlin, Ann-Sofi
- Department of Agricultural Research for Northern Sweden, Swedish University of Agricultural Sciences
- Department of Agricultural Research for Northern Sweden, Swedish University of Agricultural Sciences
UKÄ Subject classification
Ecology
Microbiology
Publication identifier
- DOI: https://doi.org/10.1093/femsec/fiae147
Permanent link to this page (URI)
https://res.slu.se/id/publ/139904