Table 1.

Overview of gene clusters containing DEGs under 100% CO and 100% N₂

Metabolism category	Locus tag	Predicted function	Fold change	No. of genes in gene cluster	No. of DEGs in gene cluster	Average read count		Expression category
						CO 100%	N2 100%
Significantly expressed gene cluster under CO 100%
Energy conservation	cpu_03670-03750	ECH	480–1760	9	9	35,565	48	Very high
	cpu_14030-14050	CODH-II	70–380	3	3	97,573	405	Very high
	cpu_22890-22980	H2-uptake Ni–Fe-hydrogenase	20	1	10	471	118	Moderate
Carbohydrate metabolism	cpu_07810-07850	Anion/Na+  symporter, fumarate hydratase, and succinate dehydrogenase	460–960	5	5	12,770	23	Very high
	cpu_15750-15760	Succinate dehydrogenase	420–640	2	2	21,045	40	Very high
Transcriptional regulation	cpu_03570-03580	TetR/AcrR family transcriptional regulator	20–30	1	2	593	46	Moderate
	cpu_05930-05940	LysR-type transcriptional regulator	60–70	2	2	45,670	710	Very high
Unknown	cpu_03830-03840	Unknown	40	2	2	22,067	561	Very high
	cpu_23290-23300	Unknown	10	2	2	4326	58	High
Significantly expressed gene cluster under N2 100%
Energy conservation	cpu_18560-18580	Dimethyl sulfoxide reductase	30–40	3	3	205	6819	High
Prophage region	cpu_00830-00840	Myoviridae like prophage region	10–50	2	2	971	40,766	Very high
	cpu_00860-00940			9	9	465	15,716	Very high
	cpu_00950-01010			7	5	32	852	Moderate
	cpu_01060-01070			2	1	163	2382	High
	cpu_01080-01100			3	3	86	1504	High
	cpu_01110-01130			3	3	217	5618	High
	cpu_01140-01200			6	6	139	3903	High
	cpu_01220-01350			12	10	89	1428	High
Amino acid synthesis	cpu_11010-11030	Aromatic amino acid biosynthesis	20–40	3	3	74	2021	High
	cpu_11630-11700	Aromatic amino acid biosynthesis	20–30	8	4	26	292	Moderate
Membrane transport	cpu_18330-18350	Ferrous iron transport	10–20	3	2	1174	12,640	Very high
Unknown	cpu_13490-13500	Unknown	20–50	2	2	35	1372	High
	cpu_24930-24940	Unknown	20	2	2	1862	30,424	Very high