Selection of Zeocin-resistant transformants: Plating heat-shock or electroporated Escherichia coli on selective media to recover clones carrying Zeocin®-resistance plasmids.

Maintenance of Zeocin-selectable plasmids: Streaking and passaging Zeocin-marked constructs in E. coli and other susceptible bacteria to preserve genotype.

Clonal isolation for downstream analysis: Picking single Zeocin-resistant colonies for colony PCR, sequencing, and plasmid minipreps.

Transformation efficiency and CFU quantification: Counting colony-forming units under Zeocin selection to assess cloning or transformation success.

Library construction and screening: Selecting genetic libraries (e.g., mutagenesis or assembly pools) under Zeocin to enrich desired constructs.

Counter-selection of non-recombinants: Eliminating background cells lacking the Zeocin-resistance marker in mixed or ligation reactions.

Conjugation/transconjugant selection: Selecting Zeocin-marked transconjugants after bacterial mating (e.g., Escherichia coli, Agrobacterium tumefaciens).

CRISPR/recombineering workflows: Maintaining helper or editing plasmids with Zeocin resistance during genome engineering in E. coli.