Bovine milk microbiome sequence data

MiSeq sequence data plus additional files of processed data.Paired end (PE) DNA sequence files from MiSeq sequencing of 16s rRNA gene V4 PCR amplicons from 21 dairy cow milk samples.The filenames ending in qf.fastq.gz are fastq files that have been quality filtered using Trimmomatic.Files beginning AEEYU_PCR-Neg contain sequence from PCR and MiSeq sequence steps where water was used in place of microbial DNA from milk (all other ingredients the same as +DNA samples).Sample identifiers in the fastq filenames refer to these cows:ID cowmsb001334 c400msb001335 c604msb001336 c644msb001337 c659msb001338 c666msb001339 c675msb001340 c690msb001342 c774msb001343 c807msb001344 c854msb001345 c1029msb001347 c5601msb001348 c5621msb001349 c6808msb001350 c8192msb001351 c7905msb001353 c8421msb001354 c9501msb001355 c9504msb001356 c9510msb001357 c9536Also a file of the unique (dereplicated) 16s v4 sequences closely related to Faecalibacterium, together with the list and membership of swarm clusters of those sequences and a fasta file of the swarm seeds. Also 2 sample x abundance tables (space delimited) for cows vs microbial families and cows vs Greengenes OTU.