ArticleMicrobiome2022
Genomic profiling of Nitrospira species reveals ecological success of comammox Nitrospira.
Article in Microbiome, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 81 citations in OpenAlex.
- Cultivation-Based Detection of a Novel High-GC Nitrospira Derived From the Argentinian Copahue Volcano Area.Environmental microbiology · 2026Article
- Hypoosmolarity inhibits ammonia oxidation by terrestrial and freshwater Nitrosopumilaceae members.The ISME journal · 2026Article
- Article
- Unique phylogenies and metabolic adaptations of novel lineage III and comammoxISME communications · 2026Article
- Copper availability controls niche differentiation between comammoxISME communications · 2026Article
- Ubiquity and Dominance of Comammox Over AOB and AOA and their Links To ARGs in Antarctic Lake Sediments.Microbial ecology · 2025Article
- Genomics and physiological characterizations of an acidotolerant nitrite-oxidizingApplied and environmental microbiology · 2025Article
- Comparative enrichment of complete ammonium oxidation bacteria in floccular sludge reactors: Sequencing batch reactor vs. continuous stirred tank reactor.Water research X · 2025Article
- Comparative genome analysis reveals broad phylogenetic and functional diversity within the order Nitrospirales.The ISME journal · 2025Article
- Functional redundancy and niche complementarity maintain nitrification stability in rapid sand filters.Frontiers in microbiology · 2025Article
- Microbial community succession of home aquarium biofilters associated with early establishment of comammoxISME communications · 2025Article
- The emergence of nitrification during DOM processing by marine microbial assemblages.PloS one · 2025Article
- Exploring the enzymatic repertoires of Bacteria and Archaea and their associations with metabolic maps.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Microbial and mineralogical characterization of the alkaline Chae Son hot spring, Northern Thailand.Extremophiles : life under extreme conditions · 2024Article
- Enhancing Photosynthetic Carbon Transport in Rice Plant Optimizes Rhizosphere Bacterial Community in Saline Soil.International journal of molecular sciences · 2024Article
- Comprehensive evaluation of primer pairs targeting the ammonia monooxygenase subunit A gene of complete ammonia-oxidizingMicrobiology spectrum · 2024Article
- Article
- Nitrification inhibitor chlorate and nitrogen substrates differentially affect comammoxFrontiers in microbiology · 2024Article
- Transcriptional activity of ammonia oxidisers in response to soil temperature, moisture and nitrogen amendment.Frontiers in microbiology · 2024Article
- Differential contribution of nitrifying prokaryotes to groundwater nitrification.The ISME journal · 2023Article
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Authors and funding
4 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe discovery of microorganisms capable of complete ammonia oxidation to nitrate (comammox) has prompted a paradigm shift in our understanding of nitrification, an essential process in N cycling, hitherto considered to require both ammonia oxidizing and nitrite oxidizing microorganisms. This intriguing metabolism is unique to the genus Nitrospira, a diverse taxon previously known to only contain canonical nitrite oxidizers. Comammox Nitrospira have been detected in diverse environments; however, a global view of the distribution, abundance, and diversity of Nitrospira species is still incomplete.
resultsIn this study, we retrieved 55 metagenome-assembled Nitrospira genomes (MAGs) from newly obtained and publicly available metagenomes. Combined with publicly available MAGs, this constitutes the largest Nitrospira genome database to date with 205 MAGs, representing 132 putative species, most without cultivated representatives. Mapping of metagenomic sequencing reads from various environments against this database enabled an analysis of the distribution and habitat preferences of Nitrospira species. Comammox Nitrospira's ecological success is evident as they outnumber and present higher species-level richness than canonical Nitrospira in all environments examined, except for marine and wastewaters samples. The type of environment governs Nitrospira species distribution, without large-scale biogeographical signal. We found that closely related Nitrospira species tend to occupy the same habitats, and that this phylogenetic signal in habitat preference is stronger for canonical Nitrospira species. Comammox Nitrospira eco-evolutionary history is more complex, with subclades achieving rapid niche divergence via horizontal transfer of genes, including the gene encoding hydroxylamine oxidoreductase, a key enzyme in nitrification.
conclusionsOur study expands the genomic inventory of the Nitrospira genus, exposes the ecological success of complete ammonia oxidizers within a wide range of habitats, identifies the habitat preferences of (sub)lineages of canonical and comammox Nitrospira species, and proposes that horizontal transfer of genes involved in nitrification is linked to niche separation within a sublineage of comammox Nitrospira. Video Abstract.
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