Extended Data Fig. 4: Culturing, whole genome sequencing, and RNA–seq of Flagellimonas taeanensis strains that encode dCas12f-σ^E systems.

a, Summary table of strain information and culturing conditions for five F. taeanensis (Fta) strains and one Mucilaginibacter rigui strain, which were acquired because of the likely presence of rpoE-dcas12f loci. The number of loci identified after whole-genome sequencing (WGS) is highlighted. b, BioCircos plots of the six strains in a after WGS analysis, with the positions of rpoE-dcas12f loci highlighted in red. Information regarding the internal strain ID, total genome size, GC content; contigs are denoted in cases where genome assembly was incomplete. c, Genomic neighbourhoods of rpoE-dcas12f loci in the indicated strains from a. Genes encoding HTH (hth), σ^E (rpoE) and dCas12f (dcas12f) are shown in yellow, blue, and red, respectively; gRNAs and hth-associated ncRNAs are annotated in orange and magenta, respectively. d, Magnified RNA–seq coverage plots from Fta strain sSL4759 for two distinct loci, highlighting the abundance of reads corresponding to hth-associated ncRNAs at both rpoE-dcas12f locus 1 (left) and the presumed susC target site of dCas12f-associated gRNAs (right). The top panels show a 2-kbp window; the bottom panels zoom in on the ncRNA sequence. Coverage is shown as counts per million (CPM).