Strain Fitness in Herbaspirillum seropedicae SmR1 around HSERO_RS00280

Experiment: Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntHSERO_RS00270 and HSERO_RS00275 are separated by 126 nucleotidesHSERO_RS00275 and HSERO_RS00280 are separated by 18 nucleotidesHSERO_RS00280 and HSERO_RS00285 are separated by 8 nucleotidesHSERO_RS00285 and HSERO_RS00290 are separated by 35 nucleotides HSERO_RS00270: HSERO_RS00270 - hypothetical protein, at 68,024 to 68,380 _RS00270 HSERO_RS00275: HSERO_RS00275 - methylated-DNA--protein-cysteine methyltransferase, at 68,507 to 69,079 _RS00275 HSERO_RS00280: HSERO_RS00280 - ABC transporter permease, at 69,098 to 69,964 _RS00280 HSERO_RS00285: HSERO_RS00285 - sulfonate ABC transporter ATP-binding lipoprotein, at 69,973 to 70,845 _RS00285 HSERO_RS00290: HSERO_RS00290 - nitrate ABC transporter substrate-binding protein, at 70,881 to 71,909 _RS00290 Position (kb) 69 70Strain fitness (log2 ratio) -2 -1 0 1 2at 68.146 kb on + strand, within HSERO_RS00270at 68.229 kb on - strand, within HSERO_RS00270at 68.533 kb on - strandat 68.632 kb on + strand, within HSERO_RS00275at 68.647 kb on - strand, within HSERO_RS00275at 68.717 kb on - strand, within HSERO_RS00275at 68.755 kb on + strand, within HSERO_RS00275at 68.789 kb on - strand, within HSERO_RS00275at 68.855 kb on - strand, within HSERO_RS00275at 68.993 kb on - strand, within HSERO_RS00275at 69.294 kb on - strand, within HSERO_RS00280at 69.294 kb on - strand, within HSERO_RS00280at 69.337 kb on - strand, within HSERO_RS00280at 69.402 kb on + strand, within HSERO_RS00280at 69.512 kb on + strand, within HSERO_RS00280at 69.517 kb on + strand, within HSERO_RS00280at 69.525 kb on - strand, within HSERO_RS00280at 69.528 kb on + strand, within HSERO_RS00280at 69.536 kb on - strand, within HSERO_RS00280at 69.553 kb on - strand, within HSERO_RS00280at 69.680 kb on - strand, within HSERO_RS00280at 69.807 kb on + strand, within HSERO_RS00280at 70.099 kb on + strand, within HSERO_RS00285at 70.227 kb on - strand, within HSERO_RS00285at 70.239 kb on + strand, within HSERO_RS00285at 70.376 kb on - strand, within HSERO_RS00285at 70.457 kb on + strand, within HSERO_RS00285at 70.506 kb on - strand, within HSERO_RS00285at 70.906 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant assay with Setaria viridis; 10 days of inoculation with plant; outgrowth in LB
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68,146 + HSERO_RS00270 0.34 +0.2
68,229 - HSERO_RS00270 0.57 -0.1
68,533 - +0.6
68,632 + HSERO_RS00275 0.22 -1.3
68,647 - HSERO_RS00275 0.24 +1.6
68,717 - HSERO_RS00275 0.37 -0.1
68,755 + HSERO_RS00275 0.43 +1.8
68,789 - HSERO_RS00275 0.49 -0.2
68,855 - HSERO_RS00275 0.61 +1.5
68,993 - HSERO_RS00275 0.85 +0.7
69,294 - HSERO_RS00280 0.23 -0.5
69,294 - HSERO_RS00280 0.23 -1.2
69,337 - HSERO_RS00280 0.28 -0.1
69,402 + HSERO_RS00280 0.35 -1.1
69,512 + HSERO_RS00280 0.48 +0.7
69,517 + HSERO_RS00280 0.48 -0.7
69,525 - HSERO_RS00280 0.49 -0.1
69,528 + HSERO_RS00280 0.50 -1.8
69,536 - HSERO_RS00280 0.51 -0.2
69,553 - HSERO_RS00280 0.52 -1.4
69,680 - HSERO_RS00280 0.67 -0.8
69,807 + HSERO_RS00280 0.82 +0.3
70,099 + HSERO_RS00285 0.14 -0.3
70,227 - HSERO_RS00285 0.29 -1.0
70,239 + HSERO_RS00285 0.30 -0.0
70,376 - HSERO_RS00285 0.46 +0.7
70,457 + HSERO_RS00285 0.55 -0.2
70,506 - HSERO_RS00285 0.61 +0.0
70,906 - -0.5

Or see this region's nucleotide sequence