Replication data for "Essential oil supplementation in milk replacers: short- and long-term impacts on feed efficiency, the faecal microbiota and the plasma metabolome in dairy calves"

The Replication data for "Essential oil supplementation in milk replacers: short- and long-term impacts on feed efficiency, the faecal microbiota and the plasma metabolome in dairy calves" dataset contains 64 compressed fastq format files, representing the forward and reverse reads of 32 fecal samples belonging to the MILKQUA project that were sequenced in the V3-V4 regione of the 16S rRNA gene. Feces samples (rectal grab samples) were collected before the morning meal and stored at –80°C, aiming to study the microbial population present on the feces of calves fed with Milk replacers supplemented with essential oils. Guidelines to file naming: Samples were identified with a number ranging from 45 to 76, followed by the letter R plus number 1 or 2 to identify forward or reverse reads, plus the time point of collection of the sample and the belonging to the Control or EO group respectively. The samples were collected at 45 days old in the calves, and at 3 months old, and samples were paired end sequenced, which produced forward and reverse reads, which were identified with R1 and R2 respectively. Example: 45_R2_45daysold_EO.fastq.gz is sample 45 belonging to EO group, collected at 45 days old, and this file is the reverse read. All files are in fastq format (.fastq) and compressed (.gz). At the bottom of the reads files there is also the unfiltered and raw OTU table obtained using Qiime1.9 with database Silva 132.

《代乳粉中添加精油对奶牛犊牛饲料效率、粪便菌群及血浆代谢组的短期与长期影响》一文的复制数据集包含64个压缩fastq格式文件，对应隶属于MILKQUA项目的32份粪便样本的正向与反向测序读段，上述样本针对16S rRNA基因的V3-V4区域完成测序。粪便样本（直肠拭子样本）于晨间饲喂前采集，保存于-80℃环境，本研究旨在探究饲喂添加精油的代乳粉的犊牛粪便中的微生物群落组成。
文件命名规范如下：样本以45至76的数字编号标识，后续跟随字母R及数字1或2以区分正向/反向读段，同时标注样本采集时间点以及所属组别（对照组Control或精油组EO）。样本采集时间点为犊牛45日龄及3月龄，采用双端测序，分别以R1和R2标识正向与反向读段。命名示例：45_R2_45daysold_EO.fastq.gz 代表编号为45的精油组样本，采集于45日龄，该文件为反向测序读段。所有文件均为fastq格式（.fastq）且经.gz压缩。
此外，该数据集的读段文件中还包含使用Qiime1.9结合Silva 132数据库得到的未过滤原始操作分类单元（Operational Taxonomic Unit，OTU）表。