Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes
Abstract Nitrate ammonification is important for soil nitrogen retention. However, the ecology of ammonifiers and their prevalence compared with denitrifiers, being competitors for nitrate, are overlooked. Here, we screen 1 million genomes for nrfA and onr, encoding ammonifier nitrite reductases. Ab...
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ftdoajarticles:oai:doaj.org/article:0be3c971ada042d0bf50aa577bb419d7 2024-01-21T10:10:58+01:00 Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes Aurélien Saghaï Grace Pold Christopher M. Jones Sara Hallin 2023-12-01T00:00:00Z https://doi.org/10.1038/s41467-023-44022-3 https://doaj.org/article/0be3c971ada042d0bf50aa577bb419d7 EN eng Nature Portfolio https://doi.org/10.1038/s41467-023-44022-3 https://doaj.org/toc/2041-1723 doi:10.1038/s41467-023-44022-3 2041-1723 https://doaj.org/article/0be3c971ada042d0bf50aa577bb419d7 Nature Communications, Vol 14, Iss 1, Pp 1-13 (2023) Science Q article 2023 ftdoajarticles https://doi.org/10.1038/s41467-023-44022-3 2023-12-24T01:47:09Z Abstract Nitrate ammonification is important for soil nitrogen retention. However, the ecology of ammonifiers and their prevalence compared with denitrifiers, being competitors for nitrate, are overlooked. Here, we screen 1 million genomes for nrfA and onr, encoding ammonifier nitrite reductases. About 40% of ammonifier assemblies carry at least one denitrification gene and show higher potential for nitrous oxide production than consumption. We then use a phylogeny-based approach to recruit gene fragments of nrfA, onr and denitrification nitrite reductase genes (nirK, nirS) in 1861 global terrestrial metagenomes. nrfA outnumbers the nearly negligible onr counts in all biomes, but denitrification genes dominate, except in tundra. Random forest modelling teases apart the influence of the soil C/N on nrfA-ammonifier vs denitrifier abundance, showing an effect of nitrate rather than carbon content. This study demonstrates the multiple roles nitrate ammonifiers play in nitrogen cycling and identifies factors ultimately controlling the fate of soil nitrate. Article in Journal/Newspaper Tundra Directory of Open Access Journals: DOAJ Articles Nature Communications 14 1 |
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Science Q Aurélien Saghaï Grace Pold Christopher M. Jones Sara Hallin Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
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Science Q |
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Abstract Nitrate ammonification is important for soil nitrogen retention. However, the ecology of ammonifiers and their prevalence compared with denitrifiers, being competitors for nitrate, are overlooked. Here, we screen 1 million genomes for nrfA and onr, encoding ammonifier nitrite reductases. About 40% of ammonifier assemblies carry at least one denitrification gene and show higher potential for nitrous oxide production than consumption. We then use a phylogeny-based approach to recruit gene fragments of nrfA, onr and denitrification nitrite reductase genes (nirK, nirS) in 1861 global terrestrial metagenomes. nrfA outnumbers the nearly negligible onr counts in all biomes, but denitrification genes dominate, except in tundra. Random forest modelling teases apart the influence of the soil C/N on nrfA-ammonifier vs denitrifier abundance, showing an effect of nitrate rather than carbon content. This study demonstrates the multiple roles nitrate ammonifiers play in nitrogen cycling and identifies factors ultimately controlling the fate of soil nitrate. |
format |
Article in Journal/Newspaper |
author |
Aurélien Saghaï Grace Pold Christopher M. Jones Sara Hallin |
author_facet |
Aurélien Saghaï Grace Pold Christopher M. Jones Sara Hallin |
author_sort |
Aurélien Saghaï |
title |
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
title_short |
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
title_full |
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
title_fullStr |
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
title_full_unstemmed |
Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
title_sort |
phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes |
publisher |
Nature Portfolio |
publishDate |
2023 |
url |
https://doi.org/10.1038/s41467-023-44022-3 https://doaj.org/article/0be3c971ada042d0bf50aa577bb419d7 |
genre |
Tundra |
genre_facet |
Tundra |
op_source |
Nature Communications, Vol 14, Iss 1, Pp 1-13 (2023) |
op_relation |
https://doi.org/10.1038/s41467-023-44022-3 https://doaj.org/toc/2041-1723 doi:10.1038/s41467-023-44022-3 2041-1723 https://doaj.org/article/0be3c971ada042d0bf50aa577bb419d7 |
op_doi |
https://doi.org/10.1038/s41467-023-44022-3 |
container_title |
Nature Communications |
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14 |
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1 |
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1788702435120775168 |