Research Progress in Area 3 方向 ( 三 ) 課題進展 167 Abstract Marine bacteria are key drivers of ocean biogeochemistry. Assembling microbial genomes is a powerful and appealing method to understand structure-function relationships in complex environments. Prof. Chen’s team will develop the first metagenomics of deep sea microbiome by combining both 2nd and 3rd generation sequencing platforms. They plan to generate shotgun metagenomes with Illumina sequencing accompanied with long reads derived from the Oxford Nanopore sequencing platform. Contigs and Metagenome-assembled genome (MAGs) will be assembled from a hybrid assembly approach. These MAGs will be used to do functional and phylogenetic analysis to understand the microbial diversity. And hybrid assembledmetagenomes will affect downstream analysis (BGCs) significantly. Research Activities and Progress • We have established 2nd and 3rd generation sequencing platforms and applied to microbiome sequencing for various samples; the hybrid assembly method for 2nd and 3rd generation sequencing platforms have also been developed for various microbiome samples; • Different hybrid assembly methods have been developed and compare their resolution and completeness of microbiomes using these methods to identify the best one; • Two water samples from SCS (South China Sea) were collected and sequenced on using above mentioned platforms; • Developed genome mining methods to identify biosynthetic genetic clusters (BGCs) from these high resolution microbiome metagenomes. Key Findings • Explore 2nd and 3rd generation sequencing methods and establish experimental workflow; • Obtained high resolutionmetagenomewith higher quality and more quantity of contigs and MAGS; • Demonstrated the advantages of hybrid assembly in downstream analysis of metagenomic (BGCs); • Obtain high-quality MAGs from human gut, rat gut, soil and deep sea water samples (Fig1A) (58,110,14,39); • Obtained new 241, 150,50 and 201 (Fig1B) BGCs from human gut, rat gut, soil and deep sea water Microbiome. Research Output Manuscript under review 0 Trained personnel 2 Establishment of a metagenomic database of deep sea microorganisms in South China Sea Prof. Sheng Chen City University of Hong Kong Fig 1. (A) High-quality bacterial genomes of deep sea water by a hybrid assembly method and (B)The novel BGCs
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