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List of works by Liyou Wu

A comprehensive insight into functional profiles of free-living microbial community responses to a toxic Akashiwo sanguinea bloom

scientific article published on 05 October 2016

Annual Removal of Aboveground Plant Biomass Alters Soil Microbial Responses to Warming

scientific article

Arsenic Methylation in Soils and Its Relationship with Microbial arsM Abundance and Diversity, and As Speciation in Rice

Assessment of data processing to improve reliability of microarray experiments using genomic DNA reference

scientific article

Bacterial community and arsenic functional genes diversity in arsenic contaminated soils from different geographic locations

scientific article

Bacterial diversity based on 16S rRNA and gyrB genes at Yinshan mine, China

scientific article

Biogeographic patterns of microbial co-occurrence ecological networks in six American forests

scientific article published in 2020

Biogeographic patterns of soil diazotrophic communities across six forests in the North America.

scientific article

Cellular response of Shewanella oneidensis to strontium stress

scientific article published in January 2006

Characterization of the Shewanella oneidensis Fur gene: roles in iron and acid tolerance response

scientific article

Climate warming accelerates temporal scaling of grassland soil microbial biodiversity

scientific article published on 25 March 2019

Climate warming enhances microbial network complexity and stability

scientific article published in 2021

Climate warming leads to divergent succession of grassland microbial communities

scholarly article

Climate warming restructures seasonal dynamics of grassland soil microbial communities

scientific article published in 2022

Comparative Metagenomics of Freshwater Microbial Communities

Comparative analysis of differentially expressed genes in Shewanella oneidensis MR-1 following exposure to UVC, UVB, and UVA radiation

scientific article

Comparative metagenomics reveals impact of contaminants on groundwater microbiomes

scientific article published on 31 October 2015

Continuous cellulosic bioethanol fermentation by cyclic fed-batch cocultivation

scientific article published on 28 December 2012

Contrasting responses of heterotrophic and autotrophic respiration to experimental warming in a winter annual-dominated prairie

scientific article

Conversion of marginal land into switchgrass conditionally accrues soil carbon and reduces methane consumption

scientific article

Conversion of marginal land into switchgrass conditionally accrues soil carbon but reduces methane consumption

scientific article

Correction: Bacterial community and arsenic functional genes diversity in arsenic contaminated soils from different geographic locations

scientific article published on 7 December 2017

Correlation of genomic and physiological traits of thermoanaerobacter species with biofuel yields

scientific article (publication date: November 2011)

Correspondence: Reply to 'Analytical flaws in a continental-scale forest soil microbial diversity study'

scientific article

Denitrifying and diazotrophic community responses to artificial warming in permafrost and tallgrass prairie soils

scientific article

Detection of genes involved in biodegradation and biotransformation in microbial communities by using 50-mer oligonucleotide microarrays

scientific article published on July 2004

Development and evaluation of microarray-based whole-genome hybridization for detection of microorganisms within the context of environmental applications

scientific article published in December 2004

Development of HuMiChip for functional profiling of human microbiomes

scientific article

Development of a common oligonucleotide reference standard for microarray data normalization and comparison across different microbial communities.

scientific article

Development of highly fluorescent silica nanoparticles chemically doped with organic dye for sensitive DNA microarray detection.

scientific article

Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem

scientific article (publication date: March 2014)

Divergent Responses of Forest Soil Microbial Communities under Elevated CO2 in Different Depths of Upper Soil Layers.

scientific article published on 27 October 2017

Draft Genome Sequence of Shewanella decolorationis S12, a Dye-Degrading Bacterium Isolated from a Wastewater Treatment Plant

scientific article published on 05 December 2013

Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer.

scientific article

Dynamics of Microbial Community Composition and Function duringIn SituBioremediation of a Uranium-Contaminated Aquifer

article

Dynamics of microbial community composition and function during in situ bioremediation of a uranium-contaminated aquifer

scientific article

Effects of Nitrate Exposure on the Functional Structure of a Microbial Community in a Uranium-contaminated Aquifer

scholarly article published 17 May 2010

Effects of legacy nuclear waste on the compositional diversity and distributions of sulfate-reducing bacteria in a terrestrial subsurface aquifer

scientific article published in March 2006

Effects of substrate addition on soil respiratory carbon release under long-term warming and clipping in a tallgrass prairie

scientific article

Elevated CO and Warming Altered Grassland Microbial Communities in Soil Top-Layers

article

Elevated CO2 shifts the functional structure and metabolic potentials of soil microbial communities in a C4 agroecosystem.

scientific article

Elevated CO₂ influences microbial carbon and nitrogen cycling

scientific article (publication date: 29 May 2013)

Elevated carbon dioxide alters the structure of soil microbial communities

scientific article

Empirical establishment of oligonucleotide probe design criteria

scientific article

Enhanced decomposition of stable soil organic carbon and microbial catabolic potentials by long-term field warming.

scientific article

Environmental filtering decreases with fish development for the assembly of gut microbiota

scientific article

Erosion of functional independence early in the evolution of a microbial mutualism.

scientific article

Evaluation of 50-mer oligonucleotide arrays for detecting microbial populations in environmental samples

scientific article published in April 2004

Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform.

scientific article

Functional Gene Array-Based Analysis of Microbial Community Structure in Groundwaters with a Gradient of Contaminant Levels

article

Functional Gene Array-Based Ultrasensitive and Quantitative Detection of Microbial Populations in Complex Communities.

scientific article published on 18 June 2019

Functional gene differences in soil microbial communities from conventional, low-input, and organic farmlands

scientific article

Functional gene diversity of soil microbial communities from five oil-contaminated fields in China.

scientific article

Functional genomic analysis of three nitrogenase isozymes in the photosynthetic bacterium Rhodopseudomonas palustris

scientific article

Functional metagenomics of Escherichia coli O157:H7 interactions with spinach indigenous microorganisms during biofilm formation

scientific article

Fungal communities respond to long-term CO2 elevation by community reassembly

scientific article

Fungal diversity in permafrost and tallgrass prairie soils under experimental warming conditions

scientific article

Gene-informed decomposition model predicts lower soil carbon loss due to persistent microbial adaptation to warming

scientific article published on 29 September 2020

GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity

scientific article

GeoChip 3.0: A High Throughput Tool for Analyzing Microbial Community, Composition, Structure, and Functional Activity

article

GeoChip 4: a functional gene-array-based high-throughput environmental technology for microbial community analysis

scientific article

GeoChip-based analysis of functional microbial communities during the reoxidation of a bioreduced uranium-contaminated aquifer

scientific article published on 14 July 2009

GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent

scientific article

GeoChip-based analysis of the functional gene diversity and metabolic potential of microbial communities in acid mine drainage.

scientific article

GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes.

scientific article

Geochip-based functional gene analysis of anodophilic communities in microbial electrolysis cells under different operational modes

scientific article

Global transcriptional profiling of Shewanella oneidensis MR-1 during Cr(VI) and U(VI) reduction

scientific article

Global transcriptome analysis of the cold shock response of Shewanella oneidensis MR-1 and mutational analysis of its classical cold shock proteins

scientific article

Global transcriptome analysis of the heat shock response of Shewanella oneidensis

scientific article

Hybridization of Environmental Microbial Community Nucleic Acids by GeoChip

scientific article published on January 2016

Illumina sequencing-based analysis of free-living bacterial community dynamics during an Akashiwo sanguine bloom in Xiamen sea, China.

scientific article

Impacts of the Three Gorges Dam on microbial structure and potential function

scientific article

In situ bioreduction of uranium (VI) to submicromolar levels and reoxidation by dissolved oxygen

scientific article published in August 2007

Key Metabolites and Mechanistic Changes for Salt Tolerance in an Experimentally Evolved Sulfate-Reducing Bacterium, Desulfovibrio vulgaris.

scientific article published on 14 November 2017

Knock-out of SO1377 gene, which encodes the member of a conserved hypothetical bacterial protein family COG2268, results in alteration of iron metabolism, increased spontaneous mutation and hydrogen peroxide sensitivity in Shewanella oneidensis MR-1

scientific article published on 6 April 2006

Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities

scientific article published on 6 June 2014

Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community

scientific article

Long-Term Warming in Alaska Enlarges the Diazotrophic Community in Deep Soils

article

Long-term soil transplant simulating climate change with latitude significantly alters microbial temporal turnover

scientific article

Metagenomic analysis reveals a marked divergence in the structure of belowground microbial communities at elevated CO2.

scientific article published on 23 March 2010

Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community

scientific article

Metagenomic reconstruction of nitrogen cycling pathways in a CO 2 -enriched grassland ecosystem

scholarly article by Qichao Tu et al published March 2017 in Soil Biology and Biochemistry

Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem

scientific article (publication date: 2016)

Methylated arsenic species in plants originate from soil microorganisms

scientific article published on 18 November 2011

Microarray transcription profiling of a Shewanella oneidensis etrA mutant

scientific article

Microarray-based analysis of changes in diversity of microbial genes involved in organic carbon decomposition following land use/cover changes

scientific article

Microarray-based analysis of microbial community RNAs by whole-community RNA amplification.

scientific article published on 10 November 2006

Microarray-based analysis of microbial functional diversity along an oil contamination gradient in oil field

scientific article published on 28 August 2009

Microarray-based analysis of subnanogram quantities of microbial community DNAs by using whole-community genome amplification

scientific article

Microarray-based characterization of microbial community functional structure and heterogeneity in marine sediments from the Gulf of Mexico

scientific article

Microarray-based evaluation of whole-community genome DNA amplification methods

scientific article

Microarray-based whole-genome hybridization as a tool for determining procaryotic species relatedness

article

Microbial Community Dynamics and Activity Link to Indigo Production from Indole in Bioaugmented Activated Sludge Systems

scientific article published on 15 September 2015

Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning.

scientific article published on 20 February 2018

Microbial Interactions With Dissolved Organic Matter Drive Carbon Dynamics and Community Succession.

scientific article

Microbial communities and functional genes associated with soil arsenic contamination and the rhizosphere of the arsenic-hyperaccumulating plant Pteris vittata L

scientific article

Microbial community structure and function of nitrobenzene reduction biocathode in response to carbon source switchover

scientific article published on 5 February 2014

Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil

scientific article

Microbial functional gene diversity with a shift of subsurface redox conditions during In Situ uranium reduction

scientific article

Microbial functional genes commonly respond to elevated carbon dioxide

scientific article published on 29 August 2020

Microbiological characteristics in a zero-valent iron reactive barrier

scientific article published in August 2002

Molecular diversity and characterization of nitrite reductase gene fragments (nirK and nirS) from nitrate- and uranium-contaminated groundwater

scientific article published in January 2003

Molecular diversity of denitrifying genes in continental margin sediments within the oxygen-deficient zone off the Pacific coast of Mexico

scientific article

Molecular diversity of sulfate-reducing bacteria from two different continental margin habitats

scientific article

More replenishment than priming loss of soil organic carbon with additional carbon input

scientific article published in Nature Communications

Natural bacterial communities serve as quantitative geochemical biosensors

scientific article published on 12 May 2015

Nearly a decade-long repeatable seasonal diversity patterns of bacterioplankton communities in the eutrophic Lake Donghu (Wuhan, China).

scientific article

NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient

scientific article

Oral microbiota of periodontal health and disease and their changes after nonsurgical periodontal therapy.

scientific article published on 16 January 2018

Over 150 years of long-term fertilization alters spatial scaling of microbial biodiversity

scientific article published on 7 April 2015

PRIMEGENS: robust and efficient design of gene-specific probes for microarray analysis

scientific article published in November 2002

Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis.

scientific article published on 19 June 2015

Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients

scientific article

Plant roots alter microbial functional genes supporting root litter decomposition

scientific article

Plant-microbe networks in soil are weakened by century-long use of inorganic fertilizers

scientific article published on 19 September 2019

Random sampling process leads to overestimation of β-diversity of microbial communities

scientific article

Reduction of microbial diversity in grassland soil is driven by long-term climate warming

scientific article published in 2022

Reproducibility and quantitation of amplicon sequencing-based detection

scientific article

Responses of microbial community functional structures to pilot-scale uranium in situ bioremediation

scientific article published on 18 March 2010

Responses of tundra soil microbial communities to half a decade of experimental warming at two critical depths

scientific article published on 08 July 2019

RpoN (σ54) Is Required for Floc Formation but Not for Extracellular Polysaccharide Biosynthesis in a Floc-Forming Aquincola tertiaricarbonis Strain

scientific article published on 12 May 2017

Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

scientific article

Shifts of tundra bacterial and archaeal communities along a permafrost thaw gradient in Alaska

scientific article

Snapshot of iron response in Shewanella oneidensis by gene network reconstruction

scientific article

Soil microbial community responses to a decade of warming as revealed by comparative metagenomics

scientific article

Spatial scaling of forest soil microbial communities across a temperature gradient

scientific article published on 02 September 2018

Stimulation of soil microbial functioning by elevated CO2 may surpass effects mediated by irrigation in a semiarid grassland

scientific article published in 2021

Stochastic assembly leads to alternative communities with distinct functions in a bioreactor microbial community

scientific article

Stochasticity, succession, and environmental perturbations in a fluidic ecosystem

scientific article

StressChip as a high-throughput tool for assessing microbial community responses to environmental stresses

scientific article

Successional change in species composition alters climate sensitivity of grassland productivity

article

Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions

scientific article published on 21 February 2021

Taxonomic and Functional Responses of Soil Microbial Communities to Annual Removal of Aboveground Plant Biomass.

scientific article

Temperature mediates continental-scale diversity of microbes in forest soils.

scientific article

Temperature sensitivity of organic matter decomposition of permafrost-region soils during laboratory incubations

article

The Diversity and Co-occurrence Patterns of N₂-Fixing Communities in a CO₂-Enriched Grassland Ecosystem

scientific article published on 18 August 2015

The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities

scientific article published on 13 June 2013

The spatial scale dependence of diazotrophic and bacterial community assembly in paddy soil

scientific article published in 2019

Transcript profiles of Nitrosomonas europaea during growth and upon deprivation of ammonia and carbonate

scientific article published on 01 April 2006

Transcriptome analysis applied to survival of Shewanella oneidensis MR-1 exposed to ionizing radiation

scientific article

Transcriptome analysis of Shewanella oneidensis MR-1 in response to elevated salt conditions

scientific article

Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation

scholarly article

Transcriptome of a Nitrosomonas europaea mutant with a disrupted nitrite reductase gene (nirK).

scientific article

Transcriptome profiling of Shewanella oneidensis gene expression following exposure to acidic and alkaline pH.

scientific article

Transcriptomic and proteomic characterization of the Fur modulon in the metal-reducing bacterium Shewanella oneidensis

scientific article

Tundra microbial community taxa and traits predict decomposition parameters of stable, old soil organic carbon

scientific article published on 05 August 2019

Use of microarrays with different probe sizes for monitoring gene expression.

scientific article

Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning

scientific article

Warming enhances old organic carbon decomposition through altering functional microbial communities

scientific article

Warming-induced permafrost thaw exacerbates tundra soil carbon decomposition mediated by microbial community

scientific article published on 17 January 2020

Winter warming rapidly increases carbon degradation capacities of fungal communities in tundra soil: potential consequences on carbon stability

scientific article published on 10 December 2020

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