Amplicon sequencing of cecal contents: cecum of chickens
This study is dedicated to exploring the diversity and functional roles of the microbiota residing in the cecum of the Hetian Black Chicken, a breed known for its unique characteristics. Cecal content was carefully collected from two cohorts of healthy, mature Hetian Black Chickens, and equal parts of this material were combined to form six composite samples. To ensure the precise taxonomic classification of the microbial communities, we employed the high-throughput PacBio RS II sequencing platform for the comprehensive 16S amplicon sequencing, leveraging its capability to produce extended read lengths. The construction of sequencing libraries was facilitated by the PacBio SMRTbell Template Preparation Kit, opting not to enforce size selection to maintain the integrity of the microbial profiles.Our rigorous experimental design encompasses both control and treatment groups, each consisting of three meticulously pooled samples, ensuring a robust comparison between different physiological states. For the taxonomic annotation of the sequenced organisms, we relied on the comprehensive nt_v20221012/16s_bacteria database, a curated resource known for its accuracy and up-to-date taxonomy.The subsequent data analysis will involve the utilization of PacBio's SMRT Analysis software suite, an industry-standard toolkit renowned for its efficiency in quality control and sequence assembly. This step is critical in refining the raw sequencing data into a polished, reliable dataset.In the spirit of scientific transparency and collaboration, we are committed to sharing all resultant data in compliance with NCBI's guidelines on data sharing. This proactive approach not only promotes the advancement of research in this field but also fosters a collaborative environment where insights can be exchanged freely among the scientific community.