Fitness for 5 genes in Bifidobacterium breve UCC2003

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500 ntBBR_RS19425 and BBR_RS19430 are separated by 39 nucleotidesBBR_RS19430 and BBR_RS19435 are separated by 214 nucleotidesBBR_RS19435 and BBR_RS19440 are separated by 141 nucleotidesBBR_RS19440 and BBR_RS19445 are separated by 95 nucleotides BBR_RS19425: BBR_RS19425 - preprotein translocase subunit SecE, at 2,141,766 to 2,141,993 _RS19425 BBR_RS19430: BBR_RS19430 - tRNA-Trp, at 2,142,033 to 2,142,108 _RS19430 BBR_RS19435: BBR_RS19435 - pyridoxal phosphate-dependent aminotransferase, at 2,142,323 to 2,143,528 _RS19435 BBR_RS19440: BBR_RS19440 - polysaccharide deacetylase family protein, at 2,143,670 to 2,144,932 _RS19440 BBR_RS19445: BBR_RS19445 - glutamate 5-kinase, at 2,145,028 to 2,146,161 _RS19445
Group Condition BBR_RS19425 BBR_RS19430 BBR_RS19435 BBR_RS19440 BBR_RS19445
nutrient dropout CDM1 without Glycine N.D. N.D. -3.4 -0.0 -4.0
mouse coculture cage1; mouse3; day2; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -6.5 +0.0 -0.0
mouse coculture cage1; mouse2; day2; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -6.2 +0.0 -0.1
nutrient dropout CDM1 without Proline N.D. N.D. +0.1 -0.1 -6.1
mouse coculture cage1; mouse1; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.9 +0.1 -0.1
mouse coculture cage1; mouse2; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.7 +0.1 -0.2
mouse coculture cage1; mouse3; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.8 +0.1 -0.0
nutrient dropout CDM1 without Glycine N.D. N.D. -2.0 -0.1 -3.5
nutrient dropout CDM1 without Proline N.D. N.D. +0.7 -0.0 -6.2
mouse coculture cage1; mouse1; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.1 +0.1 -0.2
mouse coculture cage1; mouse3; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.2 +0.1 +0.0
mouse coculture cage1; mouse3; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -5.1 +0.1 -0.0
mouse coculture cage1; mouse2; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -4.9 +0.1 -0.1
nutrient dropout control CDM1 N.D. N.D. -3.1 +0.0 -1.7
carbon source reconstituted MRS with Sucrose 29 mM N.D. N.D. -3.8 +0.0 -0.9
stress Recovery broth with Nisin from Lactococcus lactis 0.001 mM N.D. N.D. -2.8 -1.4 -0.4
mouse coculture cage1; mouse2; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -4.2 -0.0 -0.3
carbon source reconstituted MRS with D-Glucose 28 mM N.D. N.D. -3.4 +0.0 -1.0
stress MRS with cholate 500 ug/ml N.D. N.D. -3.4 +0.1 -1.0
mouse coculture cage1; mouse1; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 N.D. N.D. -4.2 +0.1 -0.1
nutrient dropout CDM1 with Glycine Leucine Cysteine Methionine Glutamate as the only aminos N.D. N.D. +1.7 +0.1 -5.6
carbon source reconstituted MRS with Actilight 0.5 %w/v N.D. N.D. -3.0 +0.4 -1.2
nutrient dropout CDM1 without Phenylalanine N.D. N.D. +0.8 -0.2 -4.4
nutrient dropout CDM1 without Phenylalanine N.D. N.D. +1.9 -0.3 -5.0
nutrient dropout CDM1 with Glycine Leucine Cysteine Methionine Glutamate as the only aminos N.D. N.D. +2.9 -0.2 -5.4
nutrient dropout CDM1 without Adenine N.D. N.D. +1.0 -0.4 -3.2
nutrient dropout CDM1 without Asparagine N.D. N.D. +1.0 -0.3 -3.1
chicken chicken 5; day 6; diet=StandardDiet; sample=FecalPellet N.D. N.D. -2.5 +1.2 -0.7
stress Recovery broth with Streptomycin 0.3 mM N.D. N.D. +4.2 +0.1 -0.2
stress Recovery broth with acetate 350 mM N.D. N.D. +5.4 -0.2 -0.1
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