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Unraveling Virus-Microbe Interaction...

Xu, Yangbing,

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Unraveling Virus-Microbe Interactions in the Ocean: An Integrated Approach From Cultivation to Community-Wide Multi-Omics /

Record Type:	Electronic resources : Monograph/item
Title/Author:	Unraveling Virus-Microbe Interactions in the Ocean: An Integrated Approach From Cultivation to Community-Wide Multi-Omics // Yangbing Xu.
Author:	Xu, Yangbing,
Description:	1 electronic resource (183 pages)
Notes:	Source: Dissertations Abstracts International, Volume: 87-06, Section: A.
Contained By:	Dissertations Abstracts International87-06A.
Subject:	Chromosomes. -
Online resource:	https://pqdd.sinica.edu.tw/twdaoapp/servlet/advanced?query=32433161
ISBN:	9798265488282

Unraveling Virus-Microbe Interactions in the Ocean: An Integrated Approach From Cultivation to Community-Wide Multi-Omics /
Xu, Yangbing,

Unraveling Virus-Microbe Interactions in the Ocean: An Integrated Approach From Cultivation to Community-Wide Multi-Omics /Yangbing Xu. - 1 electronic resource (183 pages)

Source: Dissertations Abstracts International, Volume: 87-06, Section: A.

Viruses are the most abundant biological entities in marine ecosystems. Despite their profound impacts on biogeochemical cycles, the majority of these viruses remain uncharacterized "Viral Dark Matter", posing significant challenges for their recovery and linkage to microbial hosts. This thesis integrates cultivation with muti-omics approaches, including genomics, metagenomics, metatranscriptomics, and Hi-C, to characterize the genomic diversity, functional adaptation, and interaction dynamics of viruses and microbes in the coastal South China Sea (SCS). We first isolated 321 strains of key eukaryotic phytoplankton order Mamiellales to establish virus-host model systems. Analysis of 37 Bathycoccus genomes revealed that this seemly monospecific genus comprises four distinct genomic clades, each with unique ecological niches, biogeographic patterns, and functional traits. We reconstructed a comprehensive phylogeny for Mamillales using 20 whole genomes and 102 metagenome-assembled genomes, which elucidate their genomic landscape and substantially revised the conventional taxonomy of Mamiellales. Metagenomic surveys identified temperature as the dominate abiotic factor shaping their spatial-temporal dynamics. Using these host strains, we isolated diverse Prasinoviruses demonstrating cross-oceanic infectivity. Additionally, we identified diverse integrated viruses from host genomes, including Polintoviruses, NCLDVs, and ssDNA viruses, suggesting that the viral diversity associated with Mamiellales has been underestimated. To characterize the uncultivated viral majority, we recovered multi-realm DNA and RNA viruses from SCS monthly metagenomic and metatranscriptomic datasets, substantially expanding the known virosphere in this region. We tracked the seasonal dynamics of viral communities and linked them to microbial communities using metagenomic Hi-C, identifying 4,183 virus-host pairs and revealing complex, seasonally shifting interaction networks. We further uncovered the seasonal dynamics of viral auxiliary metabolic genes, demonstrating their profound influence on functional adaptation of host communities. Collectively, this research advances understanding of diversity, functions and interactions of viruses and microbes in SCS, providing new insights into marine viral ecology and host-virus dynamics in tropical coastal waters.

English

ISBN: 9798265488282Subjects--Topical Terms:

638948
Chromosomes.
Subjects--Index Terms:

Marine ecosystems

Unraveling Virus-Microbe Interactions in the Ocean: An Integrated Approach From Cultivation to Community-Wide Multi-Omics /
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520 $a Viruses are the most abundant biological entities in marine ecosystems. Despite their profound impacts on biogeochemical cycles, the majority of these viruses remain uncharacterized "Viral Dark Matter", posing significant challenges for their recovery and linkage to microbial hosts. This thesis integrates cultivation with muti-omics approaches, including genomics, metagenomics, metatranscriptomics, and Hi-C, to characterize the genomic diversity, functional adaptation, and interaction dynamics of viruses and microbes in the coastal South China Sea (SCS). We first isolated 321 strains of key eukaryotic phytoplankton order Mamiellales to establish virus-host model systems. Analysis of 37 Bathycoccus genomes revealed that this seemly monospecific genus comprises four distinct genomic clades, each with unique ecological niches, biogeographic patterns, and functional traits. We reconstructed a comprehensive phylogeny for Mamillales using 20 whole genomes and 102 metagenome-assembled genomes, which elucidate their genomic landscape and substantially revised the conventional taxonomy of Mamiellales. Metagenomic surveys identified temperature as the dominate abiotic factor shaping their spatial-temporal dynamics. Using these host strains, we isolated diverse Prasinoviruses demonstrating cross-oceanic infectivity. Additionally, we identified diverse integrated viruses from host genomes, including Polintoviruses, NCLDVs, and ssDNA viruses, suggesting that the viral diversity associated with Mamiellales has been underestimated. To characterize the uncultivated viral majority, we recovered multi-realm DNA and RNA viruses from SCS monthly metagenomic and metatranscriptomic datasets, substantially expanding the known virosphere in this region. We tracked the seasonal dynamics of viral communities and linked them to microbial communities using metagenomic Hi-C, identifying 4,183 virus-host pairs and revealing complex, seasonally shifting interaction networks. We further uncovered the seasonal dynamics of viral auxiliary metabolic genes, demonstrating their profound influence on functional adaptation of host communities. Collectively, this research advances understanding of diversity, functions and interactions of viruses and microbes in SCS, providing new insights into marine viral ecology and host-virus dynamics in tropical coastal waters.
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