Division of Biotechnology, Dept. of Biology, Faculty Of Science
Istanbul University, Istanbul, Türkiye

https://profil.istanbul.edu.tr/en/p/muzafferarikan

Microbiome analysis by using meta-omics techniques

Abstract:
The complexity of microbial communities and their interactions with hosts and environments demand integrative meta-omics approaches. In this talk, I will present our recent efforts in advancing microbiome research through the development of comprehensive meta-omics tools and resources. We developed gNOMO2, a modular and scalable pipeline designed for the integrated analysis of amplicon sequencing, metagenomic, metatranscriptomic, and metaproteomic datasets, facilitating functional profiling and comparative analyses across diverse microbiomics data types. To explore the therapeutic potential of microbial communities, we introduced MetaPepticon, a modular, end-to-end bioinformatics pipeline for the discovery of candidate anticancer peptides directly from diverse sequencing inputs, including raw genomic, metagenomic, transcriptomic, and metatranscriptomic reads, as well as assembled contigs and peptide sequences. Furthermore, recognizing the limitations of general-purpose protein databases in metaproteomics, we constructed MetaproDB, a curated collection of biome-specific protein databases optimized for metaproteomic workflows. These tools collectively enable more accurate and functionally insightful microbiome analyses, with applications spanning human health, environmental microbiology, and synthetic biology.