Fitness for 5 genes in Escherichia fergusonii Becca

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500 ntEFB2_00540 and EFB2_00541 are separated by 4 nucleotidesEFB2_00541 and EFB2_00542 are separated by 4 nucleotidesEFB2_00542 and EFB2_00543 overlap by 4 nucleotidesEFB2_00543 and EFB2_00544 overlap by 25 nucleotides EFB2_00540: EFB2_00540 - DNA topoisomerase 1, at 546,007 to 546,549 _00540 EFB2_00541: EFB2_00541 - Threonylcarbamoyl-AMP synthase, at 546,554 to 547,126 _00541 EFB2_00542: EFB2_00542 - Shikimate dehydrogenase (NADP(+)), at 547,131 to 547,949 _00542 EFB2_00543: EFB2_00543 - hypothetical protein, at 547,946 to 548,203 _00543 EFB2_00544: EFB2_00544 - Protein YrdA, at 548,179 to 548,733 _00544
Group Condition EFB2_00540 EFB2_00541 EFB2_00542 EFB2_00543 EFB2_00544
no phage control BHIS_CaCl2 no phage control +0.7 N.D. -2.6 -0.5 +0.1
mixed community no phage control BHIS_CaCl2 no phage control with 14 member community -0.2 N.D. -0.9 -0.4 -0.0
mixed community no phage control BHIS no phage control with 14 member community plus Klebsiella pneumoniae -0.2 N.D. -1.0 -0.1 -0.1
phage mixed community phage mixed community; hk phage cocktail 1 MOI; stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 2) -0.1 N.D. -1.1 -0.1 -0.0
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 1) -0.2 N.D. -0.8 -0.3 +0.0
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1) -0.2 N.D. -1.0 -0.0 +0.0
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 2) -0.1 N.D. -0.8 -0.4 +0.0
mixed community no phage control BHIS_CaCl2 no phage control with 14 member community -0.2 N.D. -0.8 -0.2 +0.1
phage mixed community phage mixed community; hk phage cocktail 1 MOI; stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 2) -0.2 N.D. -0.7 -0.3 -0.1
phage mixed community phage mixed community; hk phage cocktail 1 MOI; 14 member community plus Klebsiella pneumoniae -0.3 N.D. -0.9 +0.0 +0.1
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1) +0.0 N.D. -0.8 -0.4 +0.1
mixed community no phage control BHIS no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1) -0.3 N.D. -0.7 -0.1 -0.0
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 2) -0.2 N.D. -0.7 -0.2 +0.0
phage mixed community phage mixed community; hk phage cocktail 1 MOI; stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 1) -0.3 N.D. -0.6 -0.3 -0.0
phage mixed community phage mixed community; hk phage cocktail 1 MOI; stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 1) -0.4 N.D. -0.6 -0.1 +0.1
mixed community no phage control BHIS no phage control with 14 member community plus Klebsiella pneumoniae -0.3 N.D. -0.9 +0.2 -0.0
no phage control BHIS_CaCl2 no phage control -0.2 N.D. -0.9 -0.1 +0.1
mixed community no phage control BHIS_CaCl2 no phage control with 14 member community plus Klebsiella pneumoniae -0.2 N.D. -0.5 -0.4 +0.0
phage mixed community phage mixed community; hk phage cocktail 1 MOI; stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 1) -0.2 N.D. -0.6 -0.3 +0.1
phage monoculture BHIS_CaCl2 with hk phage cocktail 1 MOI -0.3 N.D. -0.7 -0.1 +0.0
no phage control BHIS no phage control -0.4 N.D. -0.8 +0.2 -0.0
mixed community no phage control BHIS no phage control with 14 member community -0.3 N.D. -0.9 +0.2 +0.0
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 1) -0.3 N.D. -0.7 -0.2 +0.1
mixed community no phage control BHIS no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 2) -0.3 N.D. -0.5 -0.2 +0.0
no phage control BHIS no phage control -0.2 N.D. -0.8 +0.0 +0.1
mixed community no phage control BHIS_CaCl2 no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 2) -0.3 N.D. -0.7 -0.0 +0.1
mixed community no phage control BHIS_CaCl2 no phage control with 14 member community plus Klebsiella pneumoniae -0.2 N.D. -0.8 +0.1 +0.1
mixed community no phage control BHIS no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, standard diet, mouse 1) -0.3 N.D. -0.6 +0.1 +0.0
phage mixed community phage mixed community; hk phage cocktail 1 MOI; 14 member community +0.0 N.D. -1.0 +0.1 +0.0
mixed community no phage control BHIS no phage control with stool-derived community from humanized mice (condition: pre-antibiotic, MAC-deficient diet, mouse 2) -0.4 N.D. -0.4 +0.3 +0.0
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