Table 2.
Investigation of parallel genotypic adaptation in evolution endpoint populations
| Gene | ||||||
|---|---|---|---|---|---|---|
| Population | acrA | acrB | tolC | mdh | hfq | marC |
| X1 | - | 481310 A→C (V773G) | - | - | 4407590 T→G (I24M) | 1625925 IS1 insertion (Disruption) |
| X2 | 484383 T→G (N154T) | - | - | 3390659 +4:GATT (Frameshfit) | - | 1626084 IS5 insertion (Disruption) |
| X3 | 483735 +1:A (Frameshift) | - | - | 3390936 +5:AACCT (Frameshift) | - | 1626081 IS1 insertion (Disruption) |
| G1 | 484669 G→T (R59S) | - | - | - | - | 1625925 IS1 insertion (Disruption) |
| G2 | - | - | - | - | - | 1626100 -6:CCACCA (Deletion of V13 and V14) |
| G3 | - | 480665 G→A (P988L) | - | 3390726 -1:C (Frameshift) | 4407505 -7:AGGAAAA (RBS deletion) | 1625925 IS1 insertion (Disruption) |
Parallel genotypic adaptation in isobutanol tolerant E. coli EcNR1 endpoint populations was investigated by direct sequencing of loci of interest in sets of clonal isolates from each population. Each entry is formatted as follows: mutation position first line, nucleotide changes second line, and protein effect third line. Mutation positions are given as absolute genomic coordinates in the E. coli EcNR1 reference sequence (Additional file 2). SNPs are indicated by base transition/transversion. Small insertions are indicated by a '+', with the size (number of bp) of the insertion and sequence of inserted bases. Small deletions are designated by '-' with a format similar to that for small insertions. Ribosome binding site is abbreviated as RBS.