A5100781239- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Protist diversity and phylogeny
- Methane Hydrates and Related Phenomena
- Marine and coastal ecosystems
- Bacteriophages and microbial interactions
- Wastewater Treatment and Nitrogen Removal
- Legume Nitrogen Fixing Symbiosis
- Agronomic Practices and Intercropping Systems
- Polar Research and Ecology
- Coral and Marine Ecosystems Studies
- Aquaculture disease management and microbiota
- Plant Virus Research Studies
- RNA and protein synthesis mechanisms
- Evolution and Genetic Dynamics
- Coastal wetland ecosystem dynamics
- Antibiotic Resistance in Bacteria
- Bacterial biofilms and quorum sensing
- Chromosomal and Genetic Variations
- Paleontology and Stratigraphy of Fossils
- Cassava research and cyanide
- Marine Biology and Ecology Research
- Bacterial Identification and Susceptibility Testing
- Bacterial Genetics and Biotechnology
- Aquatic Ecosystems and Phytoplankton Dynamics
Chinese University of Hong Kong
2016-2025
Chinese University of Hong Kong, Shenzhen
2016-2023
Hong Kong Biotechnology Organization
2023
Guangxi Academy of Agricultural Science
2022
Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou)
2021
University of Georgia
2011-2019
Nanjing Agricultural University
2016
University of Hong Kong
2015
Tsinghua University
2015
University of South Carolina
2008-2012
Planktonic bacteria dominate surface ocean biomass and influence global biogeochemical processes, but remain poorly characterized owing to difficulties in cultivation. Using large-scale single cell genomics, we obtained insight into the genome content biogeography of many bacterial lineages inhabiting ocean. We found that, compared with existing cultures, natural bacterioplankton have smaller genomes, fewer gene duplications, are depleted guanine cytosine, noncoding nucleotides, genes...
Significance In the surface ocean, organic matter released by phytoplankton and degraded heterotrophic bacteria is a key step in carbon cycle. Compounds important this trophic link are poorly known, part because of thousands chemicals making up marine dissolved matter. We cocultured Roseobacter clade bacterium with diatom Thalassiosira pseudonana used gene expression changes to assay for compounds passed bacterium. A C 3 -sulfonate no previously known role microbial food web was identified...
Abstract Viral infections dynamically alter the composition and metabolic potential of marine microbial communities evolutionary trajectories host populations with resulting feedback on biogeochemical cycles. It is quite possible that all in ocean are impacted by viral infections. Our knowledge virus–host relationships, however, has been limited to a minute fraction cultivated groups. Here, we utilized single-cell sequencing obtain genomic blueprints viruses inside or attached individual...
Bacterial alkaline phosphatases (APases) are important enzymes in organophosphate utilization the ocean. The subcellular localization of APases has significant ecological implications for marine biota but is largely unknown. extensive metagenomic sequence databases from Global Ocean Sampling Expedition provide an opportunity to address this question. A bioinformatics pipeline was developed identify bacterial databases, and a consensus classification algorithm designed predict their...
ABSTRACT Marine bacteria in the Roseobacter and SAR11 lineages successfully exploit ocean habitat, together accounting for ~40% of surface waters, yet have divergent life histories that exemplify patch-adapted versus free-living ecological roles. Here, we use a phylogenetic birth-and-death model to understand how genome content supporting different history strategies evolved these related alphaproteobacterial taxa, showing streamlined genomes were gradually downsized from common ancestral...
Members of the order Rhizobiales include those capable nitrogen fixation in nodules as well pathogens animals and plants. This lifestyle diversity has important implications for agricultural medical research. Leveraging large-scale genomic data, we infer that originated a free-living ancestor ∼1,500 million years ago (Mya) later emergence host-associated lifestyles broadly coincided with rise their eukaryotic hosts. In particular, first nodulating lineage arose from either Azorhizobium or...
Abstract Elucidating the timescale of evolution Alphaproteobacteria , one most prevalent microbial lineages in marine and terrestrial ecosystems, is key to testing hypotheses on their co-evolution with eukaryotic hosts Earth’s systems, which, however, largely limited by scarcity bacterial fossils. Here, we incorporate fossils date divergence times based mitochondrial endosymbiosis that mitochondria evolved from an alphaproteobacterial lineage. We estimate arose ~1900 million years (Ma) ago,...
Corallimorpharia is a small Order of skeleton-less animals that closely related to the reef-building corals (Scleractinia) and fundamental interest in context understanding potential impacts climate change future on coral reefs. The relationship between nominal Orders Scleractinia controversial—the former either closest outgroup or alternatively derived from via skeleton loss. This latter scenario, "naked coral" hypothesis, strongly supported by analyses based mitochondrial (mt) protein...
Summary Marine Group II archaea are widely distributed in global oceans and dominate the total archaeal community within upper euphotic zone of temperate waters. However, factors controlling distribution MGII poorly delineated physiology ecological functions these still‐uncultured organisms remain elusive. In this study, we investigated planktonic associated with particles free‐living forms Pearl River Estuary (PRE) over a 10‐month period. We detected high abundance particle‐associated PRE...
The genomic G+C content of ocean bacteria varies from below 30% to over 60%. This broad range base composition is likely shaped by distinct mutational processes, recombination, effective population size, and selection driven environmental factors. A number studies have hypothesized that depletion G/C in genomes marine bacterioplankton cells an adaptation the nitrogen-poor pelagic oceans, but they failed disentangle factors biases history. Here, we reconstructed evolutionary changes bases at...
Metagenomics investigates the DNA sequences directly recovered from environmental samples. It often starts with reads assembly, which leads to contigs rather than more complete genomes. Therefore, contig binning methods are subsequently used bin into genome bins. While some clustering-based have been developed, they generally suffer problems related stability and robustness.We introduce BMC3C, an ensemble method, accurately robustly by making use of sequence Composition, Coverage across...
ABSTRACT Members of the marine Roseobacter clade are major participants in global carbon and sulfur cycles. While roseobacters well represented cultures, several abundant pelagic lineages, including SAG-O19, DC5-80-3, NAC11-7, remain largely uncultivated show evidence genome streamlining. Here, we analyzed partial genomes three single cells affiliated with CHAB-I-5, another but exclusively lineage. this lineage encode metabolic potentials that absent streamlined genomes. Examples quorum...