Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae

Table 4 Toxicity of fragments versus whole ORF products

ORF/Gene name	Gene description	Phenotype of gene deletion	Conserved domain or TMS in entire protein	Phenotype of gene overexpression	Conserved domain or TMS in insert	Phenotype of insert overexpression
YDL112w/TRM3*	tRNA 2'-O-ribose methyltransferase	Viable	SpoU_methylase	3/3	-	3/1
YML128C/MSC1/ GIN3*^†	Weak similarity to Schizosaccharomyces pombe stress protein	Viable	1 TMS	3/3	-	3/0
YGR149w/_* ^‡§	Similar to S. pombe hypothetical protein	Viable	5 TMS	3/2 to 3/3	3 TMS	3/2
YGL023c/PIB2* ^§	Phosphatidylinositol 3-phosphate binding	Viable	FYVE	3/1	FYVE	3/0
YPL043w/NOP4^¶	Nucleolar protein, RNA processing	Lethal	RRM (4 motifs)	3/0	Bias D, E, K	3/0
YOR166c/_ * ^§	Similarity to hypothetical S. pombe protein	Viable	PINc (nucleotide binding)	3/0	PINc	3/0
YJL212c/OPT1^¶¥	Oligopeptide transporter	Viable	OPT	3/1	2 TMS, OPT	3/1
YNL003c/PET8^¥¤	Mitochondrial carrier	Viable	mito_carrier	3/2	mito_carrier	3/2
YJL092w/HPR5^¥#	DNA helicase involved in DNA repair	Viable	UvrD	2/0	UvrD (central)	3/2
YMR190c/SGS1^¥¤	DNA helicase of DEAD/DEAH family	Viable	DEAD, HELICc, HRDC	3/0	DEAD	3/2
YNL033W/_^§	Strong similarity to YNL019c	Viable	2 TMS	3/1	1 TMS	3/2
YHR067w/_* ^§	Weak similarity to S. pombe hypothetical protein	Viable	Maoc : Acyldehydratase	3/1	MaoC	3/2
YGL263w/COS12^§¥¤	Similarity to subtelomeric encoded proteins	Viable	DUP	3/0	DUP	3/1

Systematic nomenclature and gene name, where applicable, are given in the first column. *Singleton: the gene has no paralog in S. cerevisiae. ^†Gene fragment and ^#entire gene, respectively, were already known as toxic upon overexpression. ^‡Putative uncharacterized transporter (see [35]). ^§Gene of unknown classification. ^¶Two non-overlapping inserts of the ORF were selected. ^¥One or several paralogs of this gene have also been selected as toxic inserts in this work (see Additional data file 3). ^¤Gene having a paralog in S. cerevisiae already known as toxic upon overexpression. Columns 2 and 3 contain respectively a brief description of the function of the gene product and the phenotype of the disruption mutant (MIPS [38]). The results of a search for conserved domains is shown in columns 4 (in whole protein) and 6 (in inserts). Phenotypes in uninduced and overexpression conditions of the entire gene and of fragments are given in columns 5 and 7 respectively (see Figure 3 for illustrations of the phenotypes).

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