The Mesorhizobium huakuii transcriptional regulator AbiEi plays a critical role in nodulation and is important for bacterial stress response

Chen, Xiaohong; Hu, Aiqi; Zou, Qian; Luo, Sha; Wu, Hetao; Yan, Chunlan; Liu, Tao; He, Donglan; Li, Xiaohua; Cheng, Guojun

doi:10.1186/s12866-021-02304-0

Table 4 List of 111 genes that showed significantly decreased expression in Astragalus sinicus nodules, induced by the abiEi mutant strain compared to the wild-type 7653R

From: The Mesorhizobium huakuii transcriptional regulator AbiEi plays a critical role in nodulation and is important for bacterial stress response

Gene ID	Location	Description	FC ^α	RT-PCR
Symbiotic nitrogen Fixation and nitrogen mechanism
MCHK_RS32450	pMHb	electron transfer flavoprotein FixA	−8.38	− 9.98
MCHK_RS32495	pMHb	nitrogen fixation protein NifZ	−8.37
MCHK_RS32500	pMHb	nitrogen fixation protein NifT	−8.64
MCHK_RS32360	pMHb	nitrogen fixation protein NifQ	−7.12
MCHK_RS31365	pMHa	Nif11-like leader peptide family natural product precursor	−6.00
MCHK_RS31560	pMHa	Nif11 family protein	−4.35
MCHK_RS32300	pMHb	nitrogen fixation protein NifX	−4.30
MCHK_RS32485	pMHb	nitrogenase cofactor biosynthesis protein NifB	−4.53
MCHK_RS32590	pMHb	alanine racemase	−4.28
MCHK_RS32615	pMHb	aminotransferase	−4.82
MCHK_RS34850	pMHb	pilus assembly lipoprotein	−3.11
MCHK_RS31565	pMHa	amino acid epimerase	−4.46
MCHK_RS31130	pMHa	N-acetyltransferase	−3.22
MCHK_RS08325	Chro	ABC transporter permease	−4.28
MCHK_RS11590	Chro	urea ABC transporter substrate-binding protein	−3.40
MCHK_RS34620	pMHa	ABC transporter permease	−3.24
MCHK_RS08320	Chro	ABC transporter permease	−3.16
MCHK_RS08335	Chro	ABC transporter ATP-binding protein	−5.74
MCHK_RS08330	Chro	ABC transporter substrate-binding protein	−5.15
MCHK_RS07300	Chro	ABC transporter substrate-binding protein	−3.12
MCHK_RS11580	Chro	urea ABC transporter permease subunit UrtC	−3.11
Type VI secretion system
MCHK_RS31520	pMHa	type VI secretion system baseplate subunit TssG	−6.17
MCHK_RS31510	pMHa	type VI secretion system baseplate subunit TssE	−6.12
MCHK_RS31500	pMHa	type VI secretion system contractile sheath large subunit	−6.08
MCHK_RS31530	pMHa	type VI secretion system tip protein VgrG	−6.78
MCHK_RS31415	pMHa	type VI secretion system baseplate subunit TssK	−5.84
MCHK_RS31515	pMHa	type VI secretion system baseplate subunit TssF	−7.52
MCHK_RS31420	pMHa	type VI secretion system-associated FHA domain protein TagH	−5.17
MCHK_RS31490	pMHa	type VI secretion system protein TssA	−4.94
MCHK_RS31495	pMHa	type VI secretion system contractile sheath small subunit	−3.14
MCHK_RS31505	pMHa	type VI secretion system tube protein Hcp	−6.97
MCHK_RS31430	pMHa	type VI secretion system membrane subunit TssM	−6.87
MCHK_RS31425	pMHa	type IV/VI secretion system protein	−5.73
Electron transport and antioxidant system
MCHK_RS34955	pMHa	ferredoxin	−5.68
MCHK_RS32340	pMHb	cytochrome P450	−10.19
MCHK_RS32465	pMHb	ferredoxin family protein	−8.26	−9.60
MCHK_RS32535	pMHb	cytochrome P450	−5.40
MCHK_RS32600	pMHb	4Fe4S-binding protein	−3.77
MCHK_RS31355	pMHa	peroxiredoxin	−8.09
MCHK_RS31120	pMHa	FAD-dependent oxidoreductase	−3.91
MCHK_RS32355	pMHb	flavin-dependent oxidoreductase	−8.59
MCHK_RS34760	pMHa	cold-shock protein	−6.69
MCHK_RS32350	pMHb	short-chain dehydrogenase	−8.59
MCHK_RS34755	pMHa	cysteine protease avirulence protein AvrRpt2	−9.06
MCHK_RS31555	pMHa	L-ascorbate oxidase	−9.55	−13.04
MCHK_RS08620	Chro	FAD-binding oxidoreductase	−3.14
MCHK_RS32460	pMHb	FAD-dependent oxidoreductase	−6.41
MCHK_RS32390	pMHb	cold-shock protein	−6.31
MCHK_RS31275	pMHa	NADPH-dependent F420 reductase	−7.42
Nucleic acid metabolism
MCHK_RS31350	pMHa	recombinase family protein	−3.09
MCHK_RS31480	pMHa	DNA-binding response regulator	−4.52
MCHK_RS32415	pMHb	integrase	−4.71
MCHK_RS31865	pMHb	transposase	−4.70
MCHK_RS34785	pMHa	IS110 family transposase	−7.61
MCHK_RS31270	pMHa	IS6 family transposase	−7.60
MCHK_RS31860	pMHb	IS6 family transposase	−4.07
MCHK_RS33710	Chro	IS6 family transposase	−3.65
MCHK_RS34835	pMHa	IS6 family transposase	−3.60
MCHK_RS32210	pMHb	IS6 family transposase	−4.68
MCHK_RS34745	pMHa	IS6 family transposase	−4.63
MCHK_RS31375	pMHa	IS6 family transposase	−3.26
MCHK_RS31385	pMHa	IS21 family transposase	−6.61
MCHK_RS05160	Chro	translocated repetitive protein	−8.36
MCHK_RS31125	pMHa	maturation protein 1	−3.03
MCHK_RS32635	pMHb	autoinducer synthase	−5.04
MCHK_RS31360	pMHa	RNA polymerase sigma-54 factor	−7.22
MCHK_RS31390	pMHa	GntR family transcriptional regulator	−6.74
MCHK_RS32640	pMHb	LuxR family transcriptional regulator	−6.49
MCHK_RS31250	pMHa	XRE family transcriptional regulator	−5.93
MCHK_RS34740	pMHa	hypothetical protein(transcriptional regulator)	−7.35
MCHK_RS32365	pMHb	RNA polymerase sigma-54 factor	−5.62
MCHK_RS34845	pMHa	DNA-binding response regulator	−3.47
MCHK_RS31380	pMHa	nuclear transport factor 2 family protein	−8.90
MCHK_RS32345	pMHb	nuclear transport factor 2 family protein	−8.59	− 8.83
MCHK_RS34720	pMHa	DDE-type integrase/transposase/recombinas	−6.91
MCHK_RS31330	pMHa	(Nucleotidyl transferase proteins) NTP transferase	−9.47	−4.57
Carbon mechanism
MCHK_RS17040	Chro	formyl transferase	−4.39
MCHK_RS17020	Chro	glycosyltransferase	−4.37
MCHK_RS00340	Chro	acyltransferase	−3.88
MCHK_RS08380	Chro	acyltransferase	−3.19
MCHK_RS31550	pMHa	tyrosinase	−8.35
MCHK_RS32545	pMHb	metalloenzyme	−3.22
MCHK_RS17025	Chro	glycosyl hydrolase	−3.70
MCHK_RS32620	pMHb	alkaline phosphatase	−4.31
MCHK_RS32605	pMHb	transketolase	−3.46
MCHK_RS31340	pMHa	EamA family transporter	−9.09	−6.79
MCHK_RS31315	pMHa	EamA family transporter	−5.96
Hypothetical protein
MCHK_RS34775	pMHa	hypothetical protein	−9.07
MCHK_RS32295	pMHb	hypothetical protein	−9.03
MCHK_RS33605	pMHb	hypothetical protein	−7.97
MCHK_RS31545	pMHa	hypothetical protein	−7.62
MCHK_RS31320	pMHa	hypothetical protein	−9.16
MCHK_RS34780	pMHa	hypothetical protein	−6.56
MCHK_RS09340	Chro	hypothetical protein	−6.25
MCHK_RS32420	pMHb	hypothetical protein	−6.18
MCHK_RS33530	Chro	hypothetical protein	−5.37
MCHK_RS32630	pMHb	hypothetical protein	−5.22
MCHK_RS32550	pMHb	hypothetical protein	−5.03
MCHK_RS34750	pMHa	hypothetical protein	−4.98
MCHK_RS32395	pMHb	hypothetical protein	−4.90
MCHK_RS31405	pMHa	hypothetical protein	−4.55
MCHK_RS31285	pMHa	hypothetical protein	−4.16
MCHK_RS31535	pMHa	hypothetical protein	−4.12
MCHK_RS34940	pMHb	hypothetical protein	−3.79
MCHK_RS32575	pMHb	hypothetical protein	−3.59
MCHK_RS09315	Chro	hypothetical protein	−3.52
MCHK_RS31115	pMHa	hypothetical protein	−4.39
MCHK_RS32680	pMHb	hypothetical protein	−3.38
MCHK_RS32585	pMHb	hypothetical protein	−4.70
MCHK_RS32595	pMHb	hypothetical protein	−4.96
MCHK_RS31435	pMHa	hypothetical protein	−6.69

^α log₂ of the fold change (FC) in expression of A. sinicus nodules induced by an abiE mutant (abiE mt nod) versus the wild type 7653R (wt nod); GHMP kinase: the galactokinase, homoserine kinase, mevalonate kinase, and phosphomevalonate kinase; ROK repressor: open reading frame, kinase; MFS: major facilitator superfamily

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ISSN: 1471-2180

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