Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS28900

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntBPHYT_RS28890 and BPHYT_RS28895 are separated by 21 nucleotidesBPHYT_RS28895 and BPHYT_RS28900 are separated by 20 nucleotidesBPHYT_RS28900 and BPHYT_RS28905 are separated by 21 nucleotidesBPHYT_RS28905 and BPHYT_RS28910 are separated by 52 nucleotides BPHYT_RS28890: BPHYT_RS28890 - 3,4-dihydroxyphenylacetate 2,3-dioxygenase, at 2,031,050 to 2,031,913 _RS28890 BPHYT_RS28895: BPHYT_RS28895 - 5-carboxymethyl-2-hydroxymuconate isomerase, at 2,031,935 to 2,032,336 _RS28895 BPHYT_RS28900: BPHYT_RS28900 - 2-oxo-hepta-3-ene-1,7-dioic acid hydratase, at 2,032,357 to 2,033,160 _RS28900 BPHYT_RS28905: BPHYT_RS28905 - alpha-dehydro-beta-deoxy-D-glucarate aldolase, at 2,033,182 to 2,033,985 _RS28905 BPHYT_RS28910: BPHYT_RS28910 - diguanylate phosphodiesterase, at 2,034,038 to 2,036,371 _RS28910 Position (kb) 2032 2033 2034Strain fitness (log2 ratio) -2 -1 0 1 2at 2031.449 kb on - strand, within BPHYT_RS28890at 2031.744 kb on - strand, within BPHYT_RS28890at 2032.098 kb on - strand, within BPHYT_RS28895at 2032.753 kb on + strand, within BPHYT_RS28900at 2033.029 kb on + strand, within BPHYT_RS28900at 2033.030 kb on - strand, within BPHYT_RS28900at 2033.436 kb on - strand, within BPHYT_RS28905

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
remove
2,031,449 - BPHYT_RS28890 0.46 +1.0
2,031,744 - BPHYT_RS28890 0.80 +0.4
2,032,098 - BPHYT_RS28895 0.41 +1.8
2,032,753 + BPHYT_RS28900 0.49 -1.9
2,033,029 + BPHYT_RS28900 0.84 +0.1
2,033,030 - BPHYT_RS28900 0.84 -1.4
2,033,436 - BPHYT_RS28905 0.32 -0.9

Or see this region's nucleotide sequence