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硝化杆菌科（学名：Nitrobacteraceae）為生丝微菌目的一科细菌。此科的模式属为硝化杆菌属（Nitrobacter）。
本科包括以下属：
- 阿菲波菌属 Afipia Brenner et al. 1992
- 土壤单胞菌属 Agromonas Ohta and Hattori 1985
- 芽生杆菌属 Blastobacter Zavarzin 1961
- 慢生根瘤菌属 Bradyrhizobium Jordan 1982
- 硝化杆菌属 Nitrobacter Winogradsky 1892
- 寡养菌属 Oligotropha Meyer et al. 1994
- Pseudolabrys Kämpfer et al. 2006
- Pseudorhodoplanes Tirandaz et al. 2015
- 红游动菌属 Rhodoplanes Hiraishi and Ueda 1994
- 红假单胞菌属 Rhodopseudomonas Czurda and Maresch 1937
- Tardiphaga De Meyer et al. 2012
- 变异杆菌属 Variibacter Kim et al. 2014
- LPSN - List of Prokaryotic names with Standing in Nomenclature
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