Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_t59 and PP_4097 are separated by 63 nucleotidesPP_4097 and PP_4098 are separated by 33 nucleotidesPP_4098 and PP_4099 are separated by 6 nucleotidesPP_4099 and PP_4100 are separated by 63 nucleotides PP_t59: PP_t59 - tRNA-Gly, at 4,632,554 to 4,632,629 _t59 PP_4097: PP_4097 - CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase, at 4,632,693 to 4,633,253 _4097 PP_4098: PP_4098 - UvrABC system protein C, at 4,633,287 to 4,635,110 _4098 PP_4099: PP_4099 - two-componenent system BarA/UvrY - regulatory subunit, at 4,635,117 to 4,635,755 _4099 PP_4100: PP_4100 - Transcriptional regulator, Cro/CI family, at 4,635,819 to 4,636,208 _4100
Group Condition PP_t59 PP_4097 PP_4098 PP_4099 PP_4100
phage P. putida PUT10 MOI 0.1 N.D. N.D. -3.0 -6.3 +0.1
phage P. putida South MOI 0.1 N.D. N.D. -2.9 -6.0 -0.2
phage P. putida PUT10 MOI 10 N.D. N.D. -1.3 -7.7 +0.1
phage P. putida South MOI 10 N.D. N.D. -3.3 -5.1 -0.3
pH Growth at pH9 and (C) Trisodium citrate N.D. N.D. -4.0 -4.6 +0.0
phage moi 100 Time6-phageFRS N.D. N.D. -2.4 -5.8 +0.7
carbon source Soil Extract with D-Glucose 10 mM; 30C; then outgrowth in LB N.D. N.D. -2.5 +5.8 +0.7
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant N.D. N.D. -1.9 +7.6 +0.2
agar plate interaction control Parafilmed volatile agar plate with no fungus N.D. N.D. -1.7 +7.7 +0.2
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days N.D. N.D. -1.0 +6.4 +1.2
nitrogen source 6-aminocaproic (N) N.D. N.D. -1.0 +7.3 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. N.D. -1.4 +7.7 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant N.D. N.D. -0.9 +7.3 +0.6
agar plate interaction control Parafilmed volatile agar plate with no fungus N.D. N.D. -1.4 +8.0 +0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant N.D. N.D. -1.0 +7.7 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. N.D. -1.0 +7.9 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant N.D. N.D. -0.9 +7.8 +0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI N.D. N.D. -0.7 +7.9 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI N.D. N.D. -0.6 +8.2 +0.3
agar plate interaction control Parafilmed volatile agar plate with no fungus N.D. N.D. +0.2 +7.9 +0.6
carbon source Crotonic (C) N.D. N.D. +0.3 +7.6 +0.8
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. N.D. +0.5 +7.7 +0.6
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. N.D. +0.6 +8.0 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant N.D. N.D. -0.2 +8.5 +0.6
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. N.D. N.D. +1.3 +6.9 +0.7
reactor 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. N.D. N.D. +1.2 +7.2 +0.7
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. N.D. N.D. +1.1 +7.2 +0.8
carbon source L-Alanine (C) N.D. N.D. +1.6 +7.1 +0.5
carbon source 3-Hydroxydecanoic (C) N.D. N.D. +0.7 +7.4 +1.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI N.D. N.D. +0.6 +8.3 +0.7
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