Fitness for 5 genes in Bifidobacterium breve UCC2003

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500 ntBBR_RS18520 and BBR_RS18525 are separated by 110 nucleotidesBBR_RS18525 and BBR_RS18530 are separated by 56 nucleotidesBBR_RS18530 and BBR_RS18535 are separated by 115 nucleotidesBBR_RS18535 and BBR_RS18540 are separated by 117 nucleotides BBR_RS18520: BBR_RS18520 - ABC transporter ATP-binding protein, at 1,943,503 to 1,944,138 _RS18520 BBR_RS18525: BBR_RS18525 - hypothetical protein, at 1,944,249 to 1,944,527 _RS18525 BBR_RS18530: BBR_RS18530 - low molecular weight phosphotyrosine protein phosphatase, at 1,944,584 to 1,945,102 _RS18530 BBR_RS18535: BBR_RS18535 - dihydrofolate reductase, at 1,945,218 to 1,945,880 _RS18535 BBR_RS18540: BBR_RS18540 - thymidylate synthase, at 1,945,998 to 1,946,870 _RS18540
Group Condition BBR_RS18520 BBR_RS18525 BBR_RS18530 BBR_RS18535 BBR_RS18540
mouse preculture cage3; mouse3; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs +0.1 -4.1 -0.6 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day6 -0.4 -4.0 +0.6 N.D. N.D.
stress Recovery broth with Ciprofloxacin 0.1 mM -0.8 -2.5 -0.2 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day3 -0.2 -3.0 +0.2 N.D. N.D.
mouse preculture cage3; mouse1; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs -0.7 -0.9 -1.5 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day4 -0.1 -2.5 -0.2 N.D. N.D.
stress Recovery broth with 3-Acetylpyridine 0.04 mM -0.1 -1.5 -0.8 N.D. N.D.
stress Recovery broth with Chenodeoxycholic 2.5 mM -0.2 -1.9 -0.1 N.D. N.D.
stress Recovery broth with Cetomacrogol 1000 4.0 mM -0.1 -1.6 -0.4 N.D. N.D.
chicken coculture chicken 4; day 4; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron +0.2 -1.2 -0.9 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day3 +0.2 -2.1 -0.1 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day2 -0.1 -1.5 -0.3 N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse15; day1 -0.2 -0.9 -0.7 N.D. N.D.
stress Recovery broth with nitrite 1.0 mM -0.1 -1.1 -0.4 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse2; day3 -0.0 -1.6 +0.2 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day5 -0.1 -2.1 +0.7 N.D. N.D.
chicken chicken 5; day 7; diet=StandardDiet; sample=FecalPellet +0.4 -1.8 +0.1 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day5 -0.0 -1.4 +0.2 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse2; day3 +0.3 -1.3 -0.2 N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse13; day3 -0.8 -1.1 +0.8 N.D. N.D.
mouse preculture cage3; mouse2; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs +0.2 +0.2 -1.5 N.D. N.D.
stress timecourse MRS + carbenicillin Time48hr -0.5 -0.9 +0.4 N.D. N.D.
stress Recovery broth with Streptomycin 0.3 mM -0.2 +0.8 -1.2 N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse12; day4 -0.2 -1.0 +0.6 N.D. N.D.
stress Recovery broth with Levofloxacin 0.2 mM -0.4 +0.5 -0.6 N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse14; day3 +0.3 -1.0 +0.3 N.D. N.D.
nutrient dropout control CDM1 +0.2 +0.8 -0.5 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; mouse1; day4 +0.1 +0.9 +0.6 N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day6 -0.0 +1.0 +0.6 N.D. N.D.
nutrient dropout CDM1 without Methionine +0.5 +1.2 +0.0 N.D. N.D.
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