TABLE 1.
Pure bacterial strains, enrichment culture, and environmental samples used in this study
| Bacterial strain or enrichment culture | N cycle functional gene(s) | GenBank accession no. or reference(s) |
|---|---|---|
| Nitrosomonas europaea NBRC 14298 | amoA, hao, nirK, norB | NC_004757 |
| AOA enrichment culturea | amoA | H. Fujitani, unpublished |
| Nitrobacter vulgarisa | nxrB | H. Fujitani, unpublished |
| Nitrospira japonica J1a | nxrB | 50 |
| Nitrospira sp. ND1a | nxrB | 49 |
| Bradyrhizobium sp. TSA1 | napA, nirS, nirK, norB, nosZ | LFJC00000000 |
| Cupriavidus necator H16 | narG, napA, nirS, norB, nosZ | NC_008313, NC_008314, NC_005241 |
| Noviherbaspirillum autotrophicum TSA66T | narG, napA, nirS, norB, nosZ | JWJG00000000 |
| Paracoccus denitrificans JCM 21484T | napA, nirS, norB, nosZ | BBFH00000000 |
| Pseudogulbenkiania sp. strain 2002 | narG, nirS, norB, nosZ | NZ_ACIS00000000 |
| Pseudogulbenkiania sp. strain NH8B | narG, nirS, norB, nosZ | NC_016002 |
| Pseudomonas aeruginosa PAO1 | narG, napA, nirS, norB, nosZ | NC_002516 |
| Anaeromyxobacter dehalogenans 2CP-C | nrfA, norB, nosZ | NC_007760 |
| Campylobacter jejuni JCM 2013 | napA, nrfA | |
| Escherichia coli K-12 MG1655 | narG, napA, nrfA | NC_000913 |
| Azospirillum brasilense Sp7 | napA, nirK, norB, nosZ, nifH | NZ_CP012914–NZ_CP012919 |
| Bradyrhizobium diazoefficiens USDA110T | napA, nirK, norB, nosZ, nifH | NC_004463 |
| Herbaspirillum seropedicae JCM 21448T | narG, norB, nifH | NZ_CP011930 |
| “Candidatus Brocadia sinica” enrichment | hao, hzs, nxrB, nrfA | BAFN01000001–BAFN01000003 |
a
Provided by Hirotsugu Fujitani.