Phenotypic convergence in bacterial adaptive evolution to ethanol stress

Horinouchi, Takaaki; Suzuki, Shingo; Hirasawa, Takashi; Ono, Naoaki; Yomo, Tetsuya; Shimizu, Hiroshi; Furusawa, Chikara

doi:10.1186/s12862-015-0454-6

BMC Ecology and Evolution

Table 1 List of identified mutations

From: Phenotypic convergence in bacterial adaptive evolution to ethanol stress

Strain	Type	Gene	Position		Nucleotide change		Source	Gene Description
Strain	Type	Gene	Reference	Gene	Nucleotide change		Source	Gene Description
A	125 SNPs and 6 Indels (see Additional file 9: Table S3)
B	Ins	*hns* ^a	1294843	−273	1195 bp	IS5 insertion, promoter	SOLiD and Sanger	global DNA-binding transcriptional dual regulator
	Ins	yeaR	1881551	147	1342 bp	IS186 insertion	SOLiD and Sanger	conserved hypothetical protein
	SNP	*iscR*	2660496	292	A → T		SOLiD and MiSeq	DNA-binding transcriptional activator
	SNP	ilvG	3685148	974	A → T		SOLiD and MiSeq	acetolactate synthase II, large subunit
C	Del	12 genes	575013		−6775 bp		SOLiD and Sanger	insH,nmpC,essD,ybcS,rzpD,rzoD,borD,ybcV,ybcW,nohB,tfaD,ybcY
	Ins	nagE	705229	864	+3:CCG	3 bp insertion	SOLiD and Sanger	fused N-acetyl glucosamine specific PTS enzyme
	Ins	*hns*	1294843	−273	1195 bp	IS5 insertion, promoter	SOLiD and Sanger	global DNA-binding transcriptional dual regulator
	SNP	yeaY	1892079	168	T → A	synonymous	SOLiD and MiSeq	predicted lipoprotein
	Ins	menC	2380504	485	1343 bp	IS186 insertion	SOLiD and Sanger	o-succinylbenzoyl-CoA synthase
	SNP	*relA*	2910761	1547	A → G		SOLiD, MiSeq and Sanger	(p)ppGpp synthetase I/GTP pyrophosphokinase
	SNP	rpoC	3448513	2819	G → A		SOLiD and MiSeq	RNA polymerase, beta prime subunit
	SNP	rpoA	4200347	961	T → A		SOLiD and MiSeq	RNA polymerase, alpha subunit
D	Ins	*hns*	1294843	−273	1195 bp	IS5 insertion, promoter	SOLiD and Sanger	global DNA-binding transcriptional dual regulator
	SNP	proQ	1916977	272	A → T		SOLiD and MiSeq	predicted structural transport element
	SNP	ispG	2639469	992	T → C		SOLiD and MiSeq	1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase
	SNP	rpsD	4198966	226	T → G		SOLiD and MiSeq	30S ribosomal subunit protein S4
	Ins	yjhA	4544220	−39	1199 bp	IS5 insertion, promoter	SOLiD and Sanger	N-acetylnuraminic acid outer membrane channel protein
E	Ins	*hns*	1294843	−273	1195 bp	IS5 insertion, promoter	SOLiD and Sanger	global DNA-binding transcriptional dual regulator
	Ins	*cspC*	1909109	45	1199 bp	IS5 insertion	SOLiD and Sanger	stress protein, member of the CspA (cold shock protein) family
	SNP	*relA*	2910944	1364	A → T		SOLiD, MiSeq and Sanger	(p)ppGpp synthetase I/GTP pyrophosphokinase
	Ins	yhcM	3379114	739	+1:C		SOLiD, MiSeq and Sanger	hypothetical protein with nucleoside triphosphate hydrolase domain
	SNP	atpE	3715545	54	T → G		SOLiD and MiSeq	F0 sector of membrane-bound ATP synthase, subunit c
F	Del	miaB	694563	728	−88 bp		SOLiD, MiSeq and Sanger	isopentenyl-adenosine A37 tRNA methylthiolase
	Ins	*cspC*	1909109	45	1199 bp	IS5 insertion	SOLiD and Sanger	stress protein, member of the CspA (cold shock protein) family
	SNP	wzxC	2120992	1304	A → T		SOLiD, MiSeq and Sanger	colanic acid exporter
	SNP	*iscR*	2660468	320	T → A		SOLiD, MiSeq and Sanger	DNA-binding transcriptional activator
	SNP	*relA*	2911891	417	T → G		SOLiD, MiSeq and Sanger	(p)ppGpp synthetase I/GTP pyrophosphokinase

^aBold-faced genes represent overlap among evolved strains

Back to article page

ISSN: 2730-7182

Contact us

General enquiries: journalsubmissions@springernature.com