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Table 2 Flask 1 population mutations

From: Reframing gene essentiality in terms of adaptive flexibility

Keio Exp. # Fraction Gene Protein change Perceived impact
strain   population    
Δ thrA 4 0.58 metK N226S -
  2 0.46 metK G235A -
  2 0.23 metJ V46E *Reduce MetJ repression1
  1 0.79 metJ/metB Intergenic (-211/-66) *Reduce MetJ repression1
  3 - 117 genes 130 kbp, 1.2X GDA Increase metL expression
    [rrlA-rrfB]   
Δ ptsI 4, 5 1.0, 0.82 ydhF G65S -
  (1, 4, (1.0, 1.0, metK/galP Intergenic (+328/-96) *Reduce GalR repression2
  5, 6) 0.36, 0.39)    
  5 0.25 metK/galP Intergenic (+333/-91) Reduce GalR repression2
  3 1.0 metK/galP Intergenic (+334/-90) Reduce GalR repression2
  6 0.57 metK/galP Intergenic (+339/-85) Reduce GalR repression2
  3 1.0 crp T141P Global regulatory effects3
  5 0.70 crp G142S Global regulatory effects3
  6 0.59 crp G142D Global regulatory effects3
  4 1.0 crp R143H Global regulatory effects3
  1 1.0 crp A145V Global regulatory effects3
  6 0.43 crp I187T Global regulatory effects3
  7 1.0 96 genes 99 kbp, 2X GDA Affect cyaA expression
    [rrsC-rrlA]   
Δ serB 1 0.67 hisL/hisG Intergenic (+41/-105) *Increase his operon expression4
  5 0.43 yhaC/garK Intergenic (+653/+370) -
  1 0.27 yhaC/garK Intergenic (+883/+140) -
  6 0.88 hisR His tRNA (5/77 bp) Increase his operon expression4
  2 0.82 hisR His tRNA (48/77 bp) Increase his operon expression4
  4 0.92 hisR His tRNA (67/77 bp) *Increase his operon expression4
  7 0.71 hisR His tRNA (72/77 bp) Increase his operon expression4
Δ proA 2 1.0 proB 1 bp Del -
  1 0.77 argD G282D Reduce ArgD activity
  2 0.56 argD Del (772-774/1221 bp) Reduce ArgD activity
  4 0.43 argD Q154* Reduce ArgD activity
  3 0.34 argD G49R Reduce ArgD activity
Δ proB 6, 7 0.83, 0.72 glnA F463L Reduce GlnA activity
  5 0.86 glnA D187E Reduce GlnA activity
  4 0.45 glnA G179C Reduce GlnA activity
  4 0.23 glnA H172R Reduce GlnA activity
  1 1.0 glnA G171S Reduce GlnA activity
  2 0.86 glnA E156D Reduce GlnA activity
  3 1.0 glnA S148F Reduce GlnA activity
Δ carA 7 0.27 carA/ carB Intergenic (+2/-16) Increase carB expression
  5 0.86 carB L11L -
  3, 7 0.31, 0.81 rpoS E96* -
  3, 7 1.0 508 genes 520 kbp, 2X GDA Increase carB expression
    [insD6-insD1]   
Δ metC 4 0.55 malI 10bp Dup (227/1029 bp) Reduce MalI activity5
  2 0.32 malI Q55* Reduce MalI activity5
  3 0.55 malX Q529Q -
Δ metL 2, 4 0.72, 0.38 rpoS L317R -
  4 1.0 metB 1 bp Del (1144/1161 bp) -
Δ cysK 1 1.0 2,062 genes 2.1 Mbp, 2X GDA Increase cysM expression
    [insL3-insL1]   
  3 0.21 sspA/rpsI Intergenic (-10/+385) -
  1. GDA abbreviation stands for genome duplication amplification event. 1Binding site recognition sites predicted in [26]. 2Evidence to support binding site in [31]. 3Information regarding CRP global regulatory effects in [3234]. 4Attenuator-model of regulation for histidine operon described in [4447]. 5Information related to the MalI transcriptional repressor in [38, 39]. *Perceived impact was further confirmed by RNA sequencing results (Fig. 3, Table 3)