Patrick K. H. Lee

ORCID: 0000-0003-0911-5317
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About
Contact & Profiles
Research Areas
  • Microbial Community Ecology and Physiology
  • Indoor Air Quality and Microbial Exposure
  • Dermatology and Skin Diseases
  • Gut microbiota and health
  • Air Quality and Health Impacts
  • Skin Protection and Aging
  • Microbial bioremediation and biosurfactants
  • Anaerobic Digestion and Biogas Production
  • Microbial Metabolic Engineering and Bioproduction
  • Psoriasis: Treatment and Pathogenesis
  • Atmospheric chemistry and aerosols
  • Genomics and Phylogenetic Studies
  • Biofuel production and bioconversion
  • Odor and Emission Control Technologies
  • Methane Hydrates and Related Phenomena
  • Microbial metabolism and enzyme function
  • Infection Control and Ventilation
  • Wastewater Treatment and Nitrogen Removal
  • Atmospheric and Environmental Gas Dynamics
  • Air Quality Monitoring and Forecasting
  • Toxic Organic Pollutants Impact
  • Bacteriophages and microbial interactions
  • Microbial Fuel Cells and Bioremediation
  • Nail Diseases and Treatments
  • Building materials and conservation

City University of Hong Kong
2016-2025

Mae Fah Luang University Hospital
2024

University of Technology Malaysia
2024

Peking University Shenzhen Hospital
2024

National University of Singapore
2024

Chulalongkorn University
2024

Mae Fah Luang University
2024

University of Malaya
2024

Environment and Climate Change Canada
2003-2023

University of Hong Kong
2021-2022

The toxicity of metal oxide nanomaterials and their antimicrobial activity is attracting increasing attention. Among these materials, MgO particularly interesting as a low cost, environmentally‐friendly material. MgO, similar to other nanomaterials, commonly attributed the production reactive oxygen species (ROS). We investigated three different nanoparticle samples, clearly demonstrated robust towards Escherichia coli bacterial cells in absence ROS for two samples. Proteomics data also...

10.1002/smll.201302434 article EN Small 2013-12-17
David Danko Daniela Bezdan Evan E. Afshin Sofia Ahsanuddin Chandrima Bhattacharya and 95 more Daniel Butler Kern Rei Chng Daisy Donnellan Jochen Hecht Katelyn Jackson Katerina Kuchin Mikhail Karasikov Abigail Lyons Lauren Mak Dmitry Meleshko Harun Mustafa Beth Mutai Russell Y. Neches Amanda Hui Qi Ng Olga Nikolayeva Tatyana Nikolayeva Eileen Png Krista Ryon Jorge L. Sánchez Heba Shaaban Maria A. Sierra Dominique Thomas Ben Young Omar O. Abudayyeh Josue Alicea Malay Bhattacharyya Ran Blekhman Eduardo Castro‐Nallar A Cañas Aspassia D. Chatziefthimiou Robert W. Crawford Francesca De Filippis Youping Deng Christelle Desnues Emmanuel Dias‐Neto Marius Dybwad Eran Elhaik Danilo Ercolini Alina Frolova Dennis Gankin Jonathan S. Gootenberg Alexandra Gráf David C. Green Iman Hajirasouliha Jaden J. A. Hastings Mark Hernandez Gregorio Iraola Soojin Jang André Kahles Frank J. Kelly Kaymisha Knights Nikos C. Kyrpides Paweł P. Łabaj Patrick K. H. Lee Marcus H. Y. Leung Per O. Ljungdahl Gabriella Mason-Buck Ken McGrath Cem Meydan Emmanuel F. Mongodin Milton Ozório Moraes Niranjan Nagarajan Marina Nieto‐Caballero Houtan Noushmehr Manuela Oliveira Stephan Ossowski Olayinka Osuolale Orhan Özcan David Páez-Espino Nicolás Rascovan Hugues Richard Gunnar Rätsch Lynn M. Schriml Torsten Semmler Uğur Sezerman Leming Shi Tieliu Shi Rania Siam Le Huu Song Haruo Suzuki Denise Syndercombe Court Scott Tighe Xinzhao Tong Klas I. Udekwu Juan A. Ugalde Brandon Valentine Dimitar Vassilev Elena Vayndorf Thirumalaisamy P. Velavan Jun Wu María Mercedes Zambrano Jifeng Zhu Sibo Zhu Christopher E. Mason Nurul Akmaryanti Abdullah

We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over 3 years, representing the first systematic, worldwide catalog urban microbial ecosystem. This provides an annotated, geospatial profile strains, functional characteristics, antimicrobial resistance (AMR) markers, and genetic elements, including 10,928 viruses, 1,302 bacteria, 2 archaea, 838,532 CRISPR arrays not found reference databases. identified 4,246 known species microorganisms consistent...

10.1016/j.cell.2021.05.002 article EN cc-by Cell 2021-05-26
Kern Rei Chng Chenhao Li Denis Bertrand Amanda Hui Qi Ng Junmei Samantha Kwah and 95 more Hwee Meng Low Chengxuan Tong Maanasa Natrajan Michael Hongjie Zhang Licheng Xu Karrie Kwan Ki Ko Eliza Xin Pei Ho Tamar V. Av‐Shalom Jeanette Teo Chiea Chuen Khor David Danko Daniela Bezdan Ebrahim Afshinnekoo Sofia Ahsanuddin Chandrima Bhattacharya Daniel Butler Kern Rei Chng Francesca De Filippis Jochen Hecht André Kahles Mikhail Karasikov Nikos C. Kyrpides Marcus H. Y. Leung Dmitry Meleshko Harun Mustafa Beth Mutai Russell Y. Neches Amanda Hui Qi Ng Marina Nieto‐Caballero Olga Nikolayeva Tatyana Nikolayeva Eileen Png Jorge L. Sánchez Heba Shaaban Maria A. Sierra Xinzhao Tong Ben Young Josue Alicea Malay Bhattacharyya Ran Blekhman Eduardo Castro‐Nallar A Cañas Aspassia D. Chatziefthimiou Robert W. Crawford Youping Deng Christelle Desnues Emmanuel Dias‐Neto Daisy Donnellan Marius Dybwad Eran Elhaik Danilo Ercolini Alina Frolova Alexandra Gráf David C. Green Iman Hajirasouliha Mark Hernandez Gregorio Iraola Soojin Jang Angela Jones Frank J. Kelly Kaymisha Knights Paweł P. Łabaj Patrick K. H. Lee Levy Shawn Per O. Ljungdahl Abigail Lyons Gabriella Mason-Buck Ken McGrath Emmanuel F. Mongodin Milton Ozório Moraes Niranjan Nagarajan Houtan Noushmehr Manuela Oliveira Stephan Ossowski Olayinka Osuolale Orhan Özcan David Páez-Espino Nicolás Rascovan Hugues Richard Gunnar Rätsch Lynn M. Schriml Torsten Semmler Uğur Sezerman Leming Shi Le Huu Song Haruo Suzuki Denise Syndercombe Court Dominique Thomas Scott Tighe Klas I. Udekwu Juan A. Ugalde Brandon Valentine Dimitar Vassilev Elena Vayndorf Thirumalaisamy P. Velavan

Although disinfection is key to infection control, the colonization patterns and resistomes of hospital-environment microbes remain underexplored. We report first extensive genomic characterization microbiomes, pathogens antibiotic resistance cassettes in a tertiary-care hospital, from repeated sampling (up 1.5 years apart) 179 sites associated with 45 beds. Deep shotgun metagenomics unveiled distinct ecological niches genes characterized by biofilm-forming human-microbiome-influenced...

10.1038/s41591-020-0894-4 article EN cc-by Nature Medicine 2020-06-01

Bacteria belonging to the genus Dehalococcoides play a key role in complete detoxification of chloroethenes as these organisms are only microbes known be capable dechlorination beyond dichloroethenes vinyl chloride (VC) and ethene. However, strains usually grow slowly with doubling time 1 2 days have complex nutritional requirements. Here we describe growth ethenogenes 195 defined mineral salts medium, improved strain when medium was amended high concentrations vitamin B(12), strategy for...

10.1128/aem.02574-06 article EN Applied and Environmental Microbiology 2007-03-03

Subway systems are indispensable for urban societies, but microbiological characteristics of subway aerosols relatively unknown. Previous studies investigating microbial compositions in subways employed methodologies that underestimated the diversity exposure commuters, with little focus on factors governing air microbiology, which may have public health implications. Here, a culture-independent approach unraveling bacterial within network Hong Kong is presented. Aerosol samples from...

10.1128/aem.02244-14 article EN Applied and Environmental Microbiology 2014-08-30

ABSTRACT Quantitative PCR (qPCR) was coupled with reverse transcription (RT) to analyze both gene copy numbers and transcripts of the 16S rRNA three reductive dehalogenase (RDase) genes ( tceA , vcrA bvcA ) as biomarkers “ Dehalococcoides ” spp. in groundwater a trichloroethene-dense nonaqueous-phase liquid site at Fort Lewis, WA, that sequentially subjected biostimulation bioaugmentation. cells carrying were indigenous site. The sum identified RDase closely correlated throughout...

10.1128/aem.02199-07 article EN Applied and Environmental Microbiology 2008-03-08

Abstract We performed a comprehensive investigation of the toxicity ZnO and TiO 2 nanoparticles using Escherichia coli as model organism. Both materials are wide band gap n-type semiconductors they can interact with lipopolysaccharide molecules present in outer membrane E. , well produce reactive oxygen species (ROS) under UV illumination. Despite similarities their properties, response bacteria to two nanomaterials was fundamentally different. When ROS generation is observed, nanomaterial...

10.1038/srep35243 article EN cc-by Scientific Reports 2016-10-12

The Metagenomics and Metadesign of the Subways Urban Biomes (MetaSUB) International Consortium is a novel, interdisciplinary initiative comprised experts across many fields, including genomics, data analysis, engineering, public health, architecture. ultimate goal MetaSUB to improve city utilization planning through detection, measurement, design metagenomics within urban environments. Although continual measures occur for temperature, air pressure, weather, human activity, longitudinal,...

10.1186/s40168-016-0168-z article EN cc-by Microbiome 2016-06-01

Humans host individually unique skin microbiota, suggesting that microbiota traces transferred from to surfaces could serve as forensic markers analogous fingerprints. While it is known individuals leave identifiable on surfaces, not clear for how long these persist. Moreover, and surface change with time, even persistent may lose their potential they would cease resemble the of person who left them. We followed within households four seasons determine whether accurate microbiota-based...

10.1186/s40168-016-0209-7 article EN cc-by Microbiome 2017-01-09

Abstract Many studies have characterized microbiomes of western individuals. However, involving non-westerners are scarce. This study characterizes the skin Chinese Skin-associated genera, including Propionibacterium , Corynebacterium Staphylococcus and Enhydrobacter were prevalent. Extensive inter-individual microbiome variations detected, with core genera present in all individuals constituting a minority detected. Species-level analyses presented dominance potential opportunistic...

10.1038/srep11845 article EN cc-by Scientific Reports 2015-07-16

Anaerobic digestion (AD) is a microbial process widely used to treat organic wastes. While the microbes involved in of municipal sludge are increasingly well characterized, taxonomic and functional compositions AD digesters treating industrial wastewater have been understudied. This study examined metagenomes from biogas-producing digester Shek Wu Hui (SWH), Hong Kong an Guangzhou (GZ), China, compared their composition reconstructed biochemical pathways. Genes encoding carbohydrate...

10.3389/fmicb.2016.00778 article EN cc-by Frontiers in Microbiology 2016-05-23

ABSTRACT Methanogenic archaea play a key role in biogas-producing anaerobic digestion and yet remain poorly taxonomically characterized. This is part due to the limitations of low-throughput Sanger sequencing single (16S rRNA) gene, which past may have undersampled methanogen diversity. In this study, archaeal communities from three sludge digesters Hong Kong one wastewater digester China were examined using high-throughput pyrosequencing methyl coenzyme M reductase ( mcrA ) 16S rRNA genes....

10.1128/aem.02566-14 article EN Applied and Environmental Microbiology 2014-11-08

Abstract Background Polycyclic aromatic hydrocarbons (PAHs) are of environmental and public health concerns contribute to adverse skin attributes such as premature aging pigmentary disorder. However, little information is available on the potential roles chronic urban PAH pollutant exposure cutaneous microbiota. Given microbiota have healthy undesirable phenotypes relationships between PAHs properties, we hypothesize that may be associated with changes in In this study, over two hundred...

10.1186/s40168-020-00874-1 article EN cc-by Microbiome 2020-06-26

Abstract Background Current understanding of the carbon cycle in methanogenic environments involves trophic interactions such as interspecies H 2 transfer between organotrophs and methanogens. However, many metabolic processes are thermodynamically sensitive to accumulation can be inhibited by produced from co-occurring metabolisms. Strategies for driving competing metabolisms remain unexplored. Results To uncover how anaerobes combat this conflict situ, we employ metagenomics...

10.1186/s40168-020-00885-y article EN cc-by Microbiome 2020-07-24

Incense burning is a common ritual in Asian communities, and it emits massive amounts of particles. These particles can undergo atmospheric aging upon exposure to sunlight other pollutants. In this work, we observed sulfate formation fresh incense SO2, using single-particle aerosol mass spectrometer (SPAMS). Analysis the positive spectra classified as K-type OC-type. both dark light experiments, SO2 uptake oxidation were found preferentially OC-type over Sulfate formation, represented by...

10.1021/acs.estlett.2c00492 article EN Environmental Science & Technology Letters 2022-08-26
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