Recent progress in the application of omics technologies in the study of bio-mining microorganisms from extreme environments

Table 2 Pathways of carbon and nitrogen metabolism of some common bio-mining microorganisms

Organism	Carbon catabolism				Nitrogen metabolism			Refs
Organism	CBB	EMP	PPP	TCA	N₂ fixation	Nitrate reduction	Ammonium uptake	Refs
A. ferrooxidans ATCC 23270	P	P	P	I	P	A	P	[32]
A. ferrooxidans ATCC 53993	P	P	P	I	P	A	P	[36]
A. ferrooxidans YQH-1	P	P	P	I	P	A	P	[36]
A. ferrivorans SS3	P	P	P	I	P	D/An	P	[37]
A. ferrivorans CF27	P	P	P	I	P	D/An	P	[36]
A. thiooxidans ATCC 19377	P	P	P	I	A	D/An	P	[36]
A. thiooxidans A01	P	P	P	I	A	D/An	P	[38]
A. thiooxidans Licanantay	P	P	P	I	A	D/An	P	[13]
A. caldus ATCC 51,756	P	P	P	I	A	D/An	P	[15]
A. caldus SM-1	P	P	P	I	A	D/An	P	[16]
A. caldus DX	P	P	P	I	A	D/An	P	[17]
A. caldus ZJ	P	P	P	I	A	D/An	P	[17]
L. ferriphilum ML-04	?	I	P	R	P	?	P	[19]
L. ferriphilum YSK	?	?	?	?	P	?	?	[20]
L. ferriphilum ZJ	A	?	?	I/R	P	D	P	[23]
L. ferriphilum DX	A	?	?	I/R	A	D	P	[23]
L. ferriphilum DSM 14647	?	?	?	R	A	?	P	[22]
L. ferrooxidans C2-3	?	?	?	I/R	P	?	?	[18]
S. thermotolerans Kr1	?	?	?	I	?	?	?	[28]
S. thermosulfidooxidans DX	P	P	P	P	A	An	P	[27]
S. thermosulfidooxidans ZJ	P	P	P	P	A	An	P	[27]

A: absence of the gene/operon or pathway; P: presence of the gene/operon or pathway; I: incomplete pathway; R: reverse tricarboxylic acid cycle; D: dissimilatory nitrate reduction; An: assimilatory nitrate reduction; CBB: Calvin Basham Benson cycle; ?: no information available

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