Table 2.

Selected genes that are probably affected by phosphate limitation in HY01.

Gene	Description	Function annotation	log2FDa
RSP_2020	DHC diheme cytochrome C	Energy metabolism	−7.01
nuoI1	NADH-quinone oxidoreductase	Energy metabolism	1.95
RSP_1848	Pyruvate kinase	Glycolysis	−6.97
glgC	ADP-glucose pyrophosphorylase	Glycogen metabolism	1.47
btaB	SAM-diacylgycerolhomoserine-N-methyltransferase	Lipid metabolism	−4.86
btaA	SAM-diacylglycerol 3-amino-3-carboxypropyl transferase	Lipid metabolism	−4.18
dgkA	Diacylglycerol kinase	Lipid metabolism	−3.54
murC	UDP-N-acetylmuramate--alanine ligase	Peptidoglycan metabolism	−1.22
murG	UDP-N-acetylglucosamine--N-acetylmuramyl-pyrophosphoryl-undecaprenol N-acetylglucosamine transferase	Peptidoglycan metabolism	−1.13
RSP_2543	Peptidoglycan-binding LysM	Peptidoglycan metabolism	−1.23
RSP_1794	Putative lytic transglycosylase	Peptidoglycan metabolism	−1.22
expE1	Hemolysin-type calcium-binding region	Galactoglucan metabolism	−1.99
RSP_2320	TRAP-T family transporter	Transporter	−2.38
RSP_1883	ABC polyamine/opine transporter	Transporter	−2.12
RSP_1613	TRAP-T family transporter	Transporter	−1.74
xylF	d-xylose transport system substrate-binding protein	Transporter	−1.50
RSP_3701	Monosaccharide ABC transporter substrate-binding protein	Transporter	−1.27
dctP	TRAP-T family transporter	Transporter	−1.04
RSP_0454	Two-component system	Signal transduction	−3.18
ctrA	Two-component system	Signal transduction	−2.40
RSP_3975	Two-component system	Signal transduction	−2.29
RSP_2177	DNA protecting protein DprA	Replication and repair	−2.96
RSP_3094	Putative transmembrane anti-sigma factor	Transcription machinery	−2.43
RSP_3095	RNA polymerase sigma-70 factor	Transcription machinery	−1.24
rpsK	30S ribosomal protein S11	Ribosome	1.14
RSP_3802	Universal stress protein UspA-like protein	Stress	1.14
RSP_3180	Transglutaminase-like enzyme	Stress	1.35
RSP_1909	Pilus assembly protein CpaC	Pilus system	−1.67
RSP_1908	Outer membrane protein	Pilus system	−1.59
RSP_0443	Rrf2 family transcriptional regulator	Transcription factors	−1.34
RSP_7510	Hypothetical protein	Unknown	−6.94
RSP_1521	Hypothetical protein	Unknown	−3.82
RSP_3092	Hypothetical protein	Unknown	−2.49
RSP_3363	Hypothetical protein	Unknown	−1.17
RSP_7526	Hypothetical protein	Unknown	1.44
RSP_6120	Protein of unknown function (DUF3309)	Unknown	1.18
RSP_2019	Protein of unknown function (DUF3478)	Unknown	−3.68

^aFD = FPKM(-phosphate)/FPKM(+phosphate); FPKM: fragments per kilobase of transcript per million fragments mapped.