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The complete genome sequence of the candidate probiotic strain Lactococcus lactis FNZ339 was determined using a hybrid genome assembly comprising data from Illumina and Oxford Nanopore Technologies sequencing platforms. The genome assembly comprised 2,673,297 bp, including the complete circular chromosome and four circular plasmids., Competing Interests: E.L.D.A. and S.A.B. are both employees of Fonterra. P.W.O. has received research funding from Fonterra.

The complete genome sequence of the candidate probiotic strain Lactiplantibacillus plantarum FNZ042 was determined using a hybrid genome assembly comprising data from Illumina and PacBio sequencing platforms. The genome assembly comprised 3,265,637 bp, including the complete circular chromosome and three circular plasmids., Competing Interests: E.L.D.A. and S.A.B. are both employees of Fonterra. P.W.O. has received research funding from Fonterra.