Extended Data Fig. 10: Potential utilization of electron acceptors by bacteria represented by genome bins harboring clade III L-nosZ and their predicted O2 preference.
From: A novel bacterial protein family that catalyses nitrous oxide reduction
The tree was constructed using the GTDB-TK workflow79. The scale bar represents the mean number of amino acid substitution per site. Terminal reductases investigated include nitrate reductase (encoded by napAB or narGHIJ), NO-forming nitrite reductase (nirK or nirS), ammonium-forming nitrite reductase (nrfAH), sulfate adenylytransferase (sat), and dissimilatory sulfite reductase (dsrAB) based on the annotations derived from eggNOG database v5122. Seven curated HMMs, comprising genes encoding nitric oxide reductases (NOR, NO → N2O)123, were queried against the protein sequences. The resulting NOR sequences were then filtered by conserved motif sequences in the different NOR families (i.e., cNOR, qNOR, gNOR, nNOR, sNOR, bNOR and eNOR). Genes encoding bacterial high affinity (ccoNOP and cydAB) and low affinity (ctaABCDE) oxidases catalyzing the reduction of O2 reduction were also investigated58. Bacteria represented by genome bins were classified as facultative and strict anaerobes with genome-based computational models using GenomeSpot v1.0.159, and the red squares indicate strict anaerobes. About two-thirds (n = 70) of the genome bins harbor NOR genes. Seventeen genome bins contain all genes required for complete denitrification (\({{\rm{NO}}}_{3}^{-}\) → \({{\rm{NO}}}_{2}^{-}\) → NO → N2O → N2).
