Fitness for 5 genes in Bifidobacterium breve UCC2003

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500 ntBBR_RS15520 and BBR_RS15525 overlap by 1 nucleotidesBBR_RS15525 and BBR_RS15530 are separated by 156 nucleotidesBBR_RS15530 and BBR_RS15535 are separated by 158 nucleotidesBBR_RS15535 and BBR_RS15540 are separated by 150 nucleotides BBR_RS15520: BBR_RS15520 - shikimate 5-dehydrogenase, at 1,256,171 to 1,257,151 _RS15520 BBR_RS15525: BBR_RS15525 - RNase adapter RapZ, at 1,257,151 to 1,258,116 _RS15525 BBR_RS15530: BBR_RS15530 - DNA-binding protein WhiA, at 1,258,273 to 1,259,223 _RS15530 BBR_RS15535: BBR_RS15535 - phosphoglycerate kinase, at 1,259,382 to 1,260,587 _RS15535 BBR_RS15540: BBR_RS15540 - triose-phosphate isomerase, at 1,260,738 to 1,261,541 _RS15540
Group Condition BBR_RS15520 BBR_RS15525 BBR_RS15530 BBR_RS15535 BBR_RS15540
chicken chicken 5; day 6; diet=StandardDiet; sample=FecalPellet -3.1 -5.0 N.D. N.D. N.D.
chicken chicken 5; day 7; diet=StandardDiet; sample=FecalPellet -2.9 -4.4 N.D. N.D. N.D.
chicken chicken 2; day 5; diet=StandardDiet; sample=FecalPellet -3.6 -3.7 N.D. N.D. N.D.
chicken coculture chicken 4; day 4; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron -3.1 -3.7 N.D. N.D. N.D.
chicken chicken 10; day 5; diet=StandardDiet; sample=FecalPellet -3.3 -3.1 N.D. N.D. N.D.
chicken chicken 10; day 4; diet=StandardDiet; sample=FecalPellet -3.8 -2.7 N.D. N.D. N.D.
chicken chicken 3; day 3; diet=StandardDiet; sample=FecalPellet -4.3 -2.0 N.D. N.D. N.D.
chicken coculture chicken 4; day 3; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron -3.2 -3.0 N.D. N.D. N.D.
chicken chicken 2; day 6; diet=StandardDiet; sample=FecalPellet -2.0 -4.2 N.D. N.D. N.D.
mouse coculture cage1; mouse3; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -5.0 -0.8 N.D. N.D. N.D.
mouse coculture cage1; mouse1; day3; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -5.2 -0.3 N.D. N.D. N.D.
mouse coculture cage1; mouse2; day2; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -5.5 -0.0 N.D. N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse13; day2 -2.3 -3.2 N.D. N.D. N.D.
chicken chicken 1; day 2; diet=StandardDiet; sample=FecalPellet -4.3 -1.1 N.D. N.D. N.D.
mouse diet=StandardDiet2; sample=FecalPellet; mouse18; day3 -3.9 -1.4 N.D. N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day6 -2.2 -3.2 N.D. N.D. N.D.
nutrient dropout CDM1 without FolicAcid -5.0 -0.4 N.D. N.D. N.D.
nutrient dropout CDM1 without FolicAcid -5.2 -0.1 N.D. N.D. N.D.
mouse coculture cage1; mouse1; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -4.4 -0.9 N.D. N.D. N.D.
mouse mouse 16; day 1; diet=StandardDiet_Methotrexate; sample=FecalPellet -4.9 -0.3 N.D. N.D. N.D.
mouse diet=HighFatHighSugar; sample=FecalPellet; mouse12; day1 -4.6 -0.5 N.D. N.D. N.D.
chicken coculture chicken 2; day 7; diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron -2.1 -3.1 N.D. N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day2 -4.4 -0.8 N.D. N.D. N.D.
mouse diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse16; day6 -2.3 -2.8 N.D. N.D. N.D.
mouse coculture cage1; mouse3; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -4.4 -0.7 N.D. N.D. N.D.
mouse coculture cage1; mouse2; day5; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482 -4.5 -0.6 N.D. N.D. N.D.
mouse mouse 4; day 1; diet=StandardDiet; sample=FecalPellet -5.0 -0.1 N.D. N.D. N.D.
chicken chicken 9; day 2; diet=StandardDiet; sample=FecalPellet -4.3 -0.8 N.D. N.D. N.D.
mouse mouse 3; day 1; diet=StandardDiet; sample=FecalPellet -5.0 +0.1 N.D. N.D. N.D.
mouse mouse 12; day 1; diet=HighFatHighSugar; sample=FecalPellet -4.8 +0.3 N.D. N.D. N.D.
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