Fitness for 5 genes in Bifidobacterium breve UCC2003

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500 ntBBR_RS17795 and BBR_RS17800 are separated by 39 nucleotidesBBR_RS17800 and BBR_RS17805 overlap by 1 nucleotidesBBR_RS17805 and BBR_RS17810 overlap by 4 nucleotidesBBR_RS17810 and BBR_RS17815 are separated by 123 nucleotides BBR_RS17795: BBR_RS17795 - MFS transporter, at 1,772,687 to 1,774,132 _RS17795 BBR_RS17800: BBR_RS17800 - ribokinase, at 1,774,172 to 1,775,074 _RS17800 BBR_RS17805: BBR_RS17805 - NADH-dependent alcohol dehydrogenase, at 1,775,074 to 1,776,279 _RS17805 BBR_RS17810: BBR_RS17810 - HAD family hydrolase, at 1,776,276 to 1,776,962 _RS17810 BBR_RS17815: BBR_RS17815 - nucleoside hydrolase, at 1,777,086 to 1,778,069 _RS17815
Group Condition BBR_RS17795 BBR_RS17800 BBR_RS17805 BBR_RS17810 BBR_RS17815
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse12; day4 -0.3 -0.3 -0.4 -1.3 -0.4
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse11; day3 -0.7 -0.1 -0.3 -1.1 -0.5
mouse diet=StandardDiet; sample=FecalPellet; mouse5; day6 -0.3 -0.9 +0.0 -0.6 -0.4
mouse diet=StandardDiet2; sample=FecalPellet; mouse16; day4 -0.0 -0.3 -0.2 -0.7 -0.5
mouse preculture cage3; mouse3; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs -0.4 -0.0 +0.1 -1.5 +0.4
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day3 -0.1 -0.8 +0.1 -0.7 -0.0
nutrient dropout CDM1 without Phenylalanine -0.0 -0.3 -0.3 -0.5 -0.3
mouse diet=StandardDiet; sample=FecalPellet; mouse3; day5 -0.0 -0.9 +0.3 -0.7 -0.1
stress Recovery broth with Streptomycin 0.3 mM -0.2 -0.3 -0.5 -0.2 -0.1
mouse diet=StandardDiet; sample=FecalPellet; mouse1; day5 -0.1 -0.5 +0.1 -0.5 -0.3
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day6 +0.0 -0.7 +0.1 -0.3 -0.3
mouse diet=StandardDiet2; sample=FecalPellet; mouse18; day3 -0.0 -0.2 -0.2 +0.1 -1.0
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day6 +0.2 -0.8 +0.3 -0.5 -0.4
mouse diet=StandardDiet2; sample=FecalPellet; mouse16; day3 +0.2 -0.4 -0.1 -0.4 -0.3
mouse preculture cage3; mouse3; day3; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs -0.1 -0.5 +0.1 -0.8 +0.3
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day6 +0.0 -0.9 +0.5 -0.4 -0.1
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day4 +0.1 -0.5 +0.2 -0.3 -0.4
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day4 +0.0 -0.5 +0.3 -0.3 -0.4
chicken chicken 5; day 7; diet=StandardDiet; sample=FecalPellet +0.1 -0.1 +0.1 -1.1 +0.3
chicken chicken 2; day 6; diet=StandardDiet; sample=FecalPellet +0.4 -0.2 +0.1 -0.6 +0.2
nutrient dropout CDM1 without Phenylalanine +0.2 -0.4 +0.3 -0.3 +0.1
chicken coculture chicken 2; day 7; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron +0.3 -0.3 +0.2 +0.5 -0.3
mrs timecourse MRS Time24hr +0.1 +0.1 -0.3 +0.9 +0.1
mrs timecourse MRS Time48hr +0.3 -0.0 -0.2 +0.8 +0.0
chicken coculture chicken 4; day 3; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron +0.1 +0.2 -0.2 +0.9 +0.1
stress timecourse MRS + kanamycin Time8hr +0.3 +0.2 -0.2 +0.7 +0.2
mrs timecourse MRS Time8hr +0.4 +0.3 -0.2 +0.5 +0.2
stress Recovery broth with Benzethonium chloride 0.1 mM +0.1 +0.2 +0.1 +0.7 +0.4
nutrient dropout CDM1 without Glycine +0.6 +0.4 +0.6 +0.2 -0.1
stress Recovery broth with Ciprofloxacin 0.1 mM +0.4 +0.3 +0.4 +0.5 +0.5
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