Replication data for "The effects of Thymus capitatus essential oil topical application on milk quality: a systems biology approach", Milk dataset

The Replication data for "The effects of Thymus capitatus essential oil topical application on milk quality: a systems biology approach", Milk dataset contains 128 compressed fastq format files, representing the forward and reverse reads of 64 milk samples belonging to the MILKQUA project that were sequenced in the V3-V4 regione of the 16S rRNA gene. Milk was collected from cows massaged on the udder with Thymus capitatus essential oil (TCEO), to unravel its effects on the microbiota. Guidelines to file naming: Cows were identified with the code CT or TR depending on the belonging to the Control or Treated group respectively, followed by an increasing group-dependent numbering. In the cases of two quarters considered on the same animal, the samples were differentiated adding a letter to the ID (A and B). the samples were collected on day 0, 7, 21 and 28, referred as T0, T7, T21 and T28: therefore, samples were named specifying the timepoint followed by the number samples were paired end sequenced, which produced forward and reverse reads, which were identified with R1 and R2 respectively. Example: CT1A_timepoint0_R1.fastq.gz is a sample belonging to control group, cow number 1 quarter A, collected at T0, and this file is the forward read. All files are in fastq format (.fastq) and compressed (.gz).

《香蜂草（Thymus capitatus）精油局部涂抹对牛乳品质的影响：系统生物学方法》的重复实验数据集。本牛乳数据集包含128个压缩fastq格式文件，对应隶属于MILKQUA项目的64个牛乳样本的正向与反向测序读段，上述样本均在16S核糖体RNA（16S rRNA）基因的V3-V4区域完成测序。本研究的牛乳采集自经香蜂草精油（Thymus capitatus essential oil, TCEO）按摩乳房的奶牛，旨在解析该精油对牛乳微生物群的影响。样本命名规范如下：奶牛以所属组别编码标识，对照组奶牛编码为CT，处理组为TR，后续跟随递增的组内编号；若同一头奶牛的两个乳区均采集样本，则在ID后追加字母A或B以区分样本。样本采集时间点为第0、7、21和28天，分别记为T0、T7、T21和T28。该样本为双端测序产物，正向读段与反向读段分别以R1和R2标识，样本命名需依次标明时间点、编号。示例：CT1A_timepoint0_R1.fastq.gz 代表对照组1号奶牛A乳区的样本，采集于T0，该文件为正向测序读段。所有文件均为fastq格式（.fastq）并经.gz压缩（.gz）。