128 Chapter 4 Figure 5. Transcriptional responses to ammonium removal and sulfide and NO toxicity experiments. Left: log2 fold change, as well as up- or downregulation of genes encoding proteins involved in carbon (C), sulfur (S) and nitrogen (N) cycling. In this analysis, all binned and unbinned contigs were analyzed together. Right: taxonomic contribution to selected gene transcripts of MAGs and unbinned contigs. Under norB, subunits of putative nitric oxide dismutases are also included. Abbreviations are as follows: B, before; A, after. A major response to the sulfide and NO toxicity experiment was upregulation of all sulfur oxidation genes (sqr, soxB, sorA, soeA, and dsrABC) (Figure 5). MAG 65 Thiohalobacteraceae accounted for 67% of sqr transcription by the end of the experiment (T5). Interestingly, the transcription of norB genes decreased 32 times. However, norB TPM values were the highest among all nitrogen cycle marker genes across all time points in this study except T5 in which hzsA (average TPM = 7) and
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