Fitness for 5 genes in Escherichia coli BW25113

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500 ntcoaA and thrU are separated by 361 nucleotidesthrU and tyrU are separated by 8 nucleotidestyrU and glyT are separated by 116 nucleotidesglyT and thrT are separated by 6 nucleotides b3974: coaA - pantothenate kinase (NCBI), at 4,172,099 to 4,173,049 coaA b3976: thrU - tRNA-Thr (NCBI), at 4,173,411 to 4,173,486 thrU b3977: tyrU - tRNA-Tyr (NCBI), at 4,173,495 to 4,173,579 tyrU b3978: glyT - tRNA-Gly (NCBI), at 4,173,696 to 4,173,770 glyT b3979: thrT - tRNA-Thr (NCBI), at 4,173,777 to 4,173,852 thrT
Group Condition b3974 b3976 b3977 b3978 b3979
coaA thrU tyrU glyT thrT
motility outer cut, LB soft agar motility assay N.D. N.D. -5.3 N.D. -5.1
control PBS_cage_2_mice _Feces_22 hr N.D. N.D. -6.0 N.D. -3.5
control PBS_cage_2_mouse_2_Cecum_40 hr N.D. N.D. -6.0 N.D. -3.5
micoeukaryotes Tetrahymena sp., Mixed culture-1 N.D. N.D. -4.8 N.D. -2.8
msc 22hr_MSC_rep1_highinoculum N.D. N.D. -4.6 N.D. -3.0
phage Phage_N4_cage_4_mice _Feces_22 hr N.D. N.D. -3.5 N.D. -3.7
carbon source carbon source D-Glucose 0.25mM N.D. N.D. -5.0 N.D. -2.1
carbon source succinate (C) N.D. N.D. -3.9 N.D. -3.1
motility outer cut, LB soft agar motility assay N.D. N.D. -1.9 N.D. -4.8
phage Phage_N4_cage_3_mouse_2_Cecum_40 hr N.D. N.D. -2.5 N.D. -3.7
control PBS_cage_2_mouse_3_Cecum_40 hr N.D. N.D. -2.8 N.D. -3.4
phage N4_phage 0.009375 MOI TC2 N.D. N.D. -3.8 N.D. -2.1
predation 3 hr rep1_HD100_no_dilution N.D. N.D. -3.2 N.D. -2.7
supernatant Fungal_growth_media_mCAFEs_v1_noCarbon with Supernatant; Trichoderma harzianum T22 grown in Fungal_growth_media_mCAFEs_v1, filtered and pH-adjusted 1x N.D. N.D. -4.3 N.D. -1.5
phage Phage_N4_cage_3_mice _Feces_16 hr N.D. N.D. -1.9 N.D. -3.8
mzaabcde mzaABCDE N.D. N.D. -4.7 N.D. -1.0
stress ethyl acetate 5 vol% N.D. N.D. -1.5 N.D. -4.1
carbon source Glycolic Acid (C) N.D. N.D. -3.9 N.D. -1.7
motility inner cut, LB soft agar motility assay N.D. N.D. -1.5 N.D. -4.0
stress M9 Aerobic 5-Fluorodihydropyrimidine-2,4-dione 5000 uM N.D. N.D. -3.6 N.D. -1.8
attachment_assay_attached_sample Time0_Wash=None; Attachment_time=2hrs; Attachment_surface=PDMS; Sample_type=attached; Outgrowth=LB N.D. N.D. -3.7 N.D. -1.8
nopredatorcontrol 3 hr NoPredatorControl N.D. N.D. -4.5 N.D. -0.9
stress hexanol 0.31 vol% N.D. N.D. -0.6 N.D. -4.8
phage Phage_N4_cage_4_mouse_2_Cecum_40 hr N.D. N.D. -1.8 N.D. -3.6
motility inner cut, LB soft agar motility assay N.D. N.D. -2.8 N.D. -2.6
carbon source succinate (C) N.D. N.D. -2.3 N.D. -3.0
motility inner cut, LB soft agar motility assay N.D. N.D. +1.0 N.D. -5.5
phage Phage_N4_cage_3_mouse_4_Cecum_40 hr N.D. N.D. +1.8 N.D. -3.6
stress LB Anaerobic with Furaltadone 0.000015625 mM N.D. N.D. +2.4 N.D. +3.3
stress Benzalkonium Chloride 0.004 mg/ml N.D. N.D. +3.1 N.D. +4.2
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