Development of a MATLAB program to analyze fungal metagenomics in different environments and conditions.

• Main Authors: Wu, Chun-Hsien, 吳俊賢
• Other Authors: Lee, Yun-Shien
• Format: Others
• Language: zh-TW
• Published: 2019
• Online Access: http://ndltd.ncl.edu.tw/handle/ns6xrq

碩士 === 銘傳大學 === 生物科技學系碩士班 === 108 === Bacteria and fungi are the most wide spreading organisms and they affect human’s life so far since ancient time. They included thousands of allergens, pathogen, and involved in making food science and industry more thriving. However, the composition of microbiome could differ from time and space, produces much uncertainty in our life. In 2005, the development of metagenomics which study of the microorganisms genetic material recovered directly from environmental samples. The bacterial 16s ribosomal RNA sequences that can provide species-specific signature sequences useful for identification of bacteria. And the Internal transcribed spacer (ITS) were used to recognize the fungal species. We downloaded 18 sequences datasets of fungal ITS metagenomics project from NCBI. The composition of fungal microbiome of each dataset were generated by classified the fungal species of each sequence with alignment and counted the repeat times of every species. We also performed the analysis of variance (ANOVA), principal component analysis (PCA) and heat map plot. In this thesis, we developed a matlab program which can import the sequences data and can explore the interaction between fungal microbiome and environment (condition).