List of works - Satoshi Ishii

A microfluidic platform for the simultaneous quantification of methanogen populations in anaerobic digestion processes

scientific article published on 29 March 2019

Advantages of functional single-cell isolation method over standard agar plate dilution method as a tool for studying denitrifying bacteria in rice paddy soil

scientific article

Afforestation can lower microbial diversity and functionality in deep soil layers in a semiarid region

scientific article published in 2022

Antibiotic Resistance Genes in Freshwater Trout Farms in a Watershed in Chile

scientific article published on 01 September 2019

Application of a Microfluidic Quantitative Polymerase Chain Reaction Technique To Monitor Bacterial Pathogens in Beach Water and Complex Environmental Matrices

Application of a clustering-based peak alignment algorithm to analyze various DNA fingerprinting data.

scientific article published on 17 July 2009

Applications of the rep-PCR DNA fingerprinting technique to study microbial diversity, ecology and evolution

scientific article

Association between submerged aquatic vegetation and elevated levels of Escherichia coli and potential bacterial pathogens in freshwater lakes

scientific article published on 02 December 2018

Bacterial histo-blood group antigens contributing to genotype-dependent removal of human noroviruses with a microfiltration membrane

scientific article

Beach sand and sediments are temporal sinks and sources of Escherichia coli in Lake Superior

scientific article

Chicken- and duck-associated Bacteroides–Prevotella genetic markers for detecting fecal contamination in environmental water ⬇️

scientific article published on October 9, 2012

Cladophora (Chlorophyta) spp. harbor human bacterial pathogens in nearshore water of Lake Michigan

scientific article

Complete Genome Sequence of Klebsiella quasipneumoniae Strain S05, a Fouling-Causing Bacterium Isolated from a Membrane Bioreactor.

scientific article

Complete Genome Sequence of a Novel Myoviridae Phage, SfΦ01, Infecting Shigella spp

scientific article published on 06 June 2019

Complete genome sequence of the denitrifying and N(2)O-reducing bacterium Pseudogulbenkiania sp. strain NH8B.

scientific article published on November 2011

Complete genome sequence of the denitrifying and N2O-reducing bacterium Azoarcus sp. strain KH32C.

scientific article published on March 2012

Correlations between pathogen concentration and fecal indicator marker genes in beach environments.

scientific article

Corrigendum to “Precipitation influences pathogenic bacteria and antibiotic resistance genes abundance in storm drain outfalls in coastal sub-tropical waters” [Environ. Int. 116 (2018) 308–318]

article

Denitrification and Nitrate-Dependent Fe(II) Oxidation in Various Pseudogulbenkiania Strains

scientific article published on 15 July 2016

Denitrifying Bacteria Active in Woodchip Bioreactors at Low-Temperature Conditions

scientific article published on 02 April 2019

Development and characterization of the partial nitrification aerobic granules in a sequencing batch airlift reactor ⬇️

scientific article published on April 20, 2013

Effects of dissolved oxygen and pH on nitrous oxide production rates in autotrophic partial nitrification granules

scientific article

Environmental Escherichia coli: ecology and public health implications-a review.

scientific article published on 6 April 2017

Escherichia coli in the Environment: Implications for Water Quality and Human Health

scientific article

Escherichia coli populations in Great Lakes waterfowl exhibit spatial stability and temporal shifting

scientific article

Estimation of concentration ratio of indicator to pathogen-related gene in environmental water based on left-censored data.

scientific article

Evaluation of virus reduction efficiency in wastewater treatment unit processes as a credit value in the multiple-barrier system for wastewater reclamation and reuse

scientific article published on December 2016

Experimental Evidence for in Situ Nitric Oxide Production in Anaerobic Ammonia-Oxidizing Bacterial Granules

scientific article published on 30 April 2018

Factors controlling long-term survival and growth of naturalized Escherichia coli populations in temperate field soils.

scientific article published on January 2010

Generation of Small Colony Variants in Biofilms by Escherichia coli Harboring a Conjugative F Plasmid

scientific article published on 8 March 2017

Genome Sequence of Enterobacter cloacae Strain SENG-6, a Bacterium Producing Histo-Blood Group Antigen-Like Substances That Can Bind with Human Noroviruses.

scientific article published on 25 August 2016

Growth and antibiotic resistance acquisition of Escherichia coli in a river that receives treated sewage effluent

scientific article published on 04 July 2019

Halophytes increase rhizosphere microbial diversity, network complexity and function in inland saline ecosystem

scientific article published in 2022

High-Throughput Short Variable Region Sequencing to Assess Diversity in Fecal Samples From Birds

scientific article published on 25 September 2018

Identification and isolation of active N2O reducers in rice paddy soil.

scientific article

Identification and phylogenetic characterization of cobalamin biosynthetic genes of Ensifer adhaerens.

scientific article

Identification of Active Denitrifiers in Rice Paddy Soil by DNA- and RNA-Based Analyses ⬇️

scientific article published on September 5, 2012

Identification of key nitrous oxide production pathways in aerobic partial nitrifying granules

scientific article published on 18 April 2014

Identification of novel betaproteobacteria in a succinate-assimilating population in denitrifying rice paddy soil by using stable isotope probing.

scientific article

Impact of long-term grazing exclusion on soil microbial community composition and nutrient availability

scholarly article

Improved simultaneous quantification of multiple waterborne pathogens and fecal indicator bacteria with the use of a sample process control

scientific article published on 10 March 2018

Invasive earthworms alter forest soil microbiomes and nitrogen cycling

scientific article published in 2022

Isolation and Characterization of Denitrifiers from Woodchip Bioreactors for Bioaugmentation Application

scientific article published on 07 April 2020

Isolation of Cold-Adapted Nitrate-Reducing Fungi That Have Potential to Increase Nitrate Removal in Woodchip Bioreactors

scientific article published on 22 November 2020

Isolation of functional single cells from environments using a micromanipulator: application to study denitrifying bacteria

scientific article published on 20 November 2009

Isolation of oligotrophic denitrifiers carrying previously uncharacterized functional gene sequences.

scientific article published on 12 November 2010

Large scale analysis of virulence genes in Escherichia coli strains isolated from Avalon Bay, CA.

scientific article

Membrane fouling potentials and cellular properties of bacteria isolated from fouled membranes in a MBR treating municipal wastewater

scientific article published on 10 May 2016

Microbial Populations Responsive to Denitrification-Inducing Conditions in Rice Paddy Soil, as Revealed by Comparative 16S rRNA Gene Analysis.

scientific article published in June 2010

Microbial competition among anammox bacteria in nitrite-limited bioreactors.

scientific article

Microbial populations responsive to denitrification-inducing conditions in rice paddy soil, as revealed by comparative 16S rRNA gene analysis.

scientific article

Microfluidic PCR Amplification and MiSeq Amplicon Sequencing Techniques for High-Throughput Detection and Genotyping of Human Pathogenic RNA Viruses in Human Feces, Sewage, and Oysters.

scientific article

Microfluidic quantification of multiple enteric and opportunistic bacterial pathogens in roof-harvested rainwater tank samples

scientific article published on 30 January 2018

Microfluidic quantitative PCR for simultaneous quantification of multiple viruses in environmental water samples

scientific article

Nitrogen Cycle Evaluation (NiCE) Chip for the Simultaneous Analysis of Multiple N-Cycle Associated Genes.

scientific article published on 2 February 2018

Nitrogen cycling in rice paddy environments: past achievements and future challenges.

scientific article

Noviherbaspirillum denitrificans sp. nov., a denitrifying bacterium isolated from rice paddy soil and Noviherbaspirillum autotrophicum sp. nov., a denitrifying, facultatively autotrophic bacterium isolated from rice paddy soil and proposal to reclas

scientific article

Phylogenetic and functional diversity of denitrifying bacteria isolated from various rice paddy and rice-soybean rotation fields.

scientific article

Population structure of Cladophora-borne Escherichia coli in nearshore water of Lake Michigan

scientific article

Population structure, persistence, and seasonality of autochthonous Escherichia coli in temperate, coastal forest soil from a Great Lakes watershed.

scientific article

Potentially Mobile Denitrification Functional Genes Identified in sp. Strain TSH58

article

Precipitation influences pathogenic bacteria and antibiotic resistance gene abundance in storm drain outfalls in coastal sub-tropical waters.

scientific article

Presence and growth of naturalized Escherichia coli in temperate soils from Lake Superior watersheds.

scientific article published on January 2006

Presence and sources of fecal coliform bacteria in epilithic periphyton communities of Lake Superior

scientific article

Presence of Cu-Type (NirK) and cd-Type (NirS) Nitrite Reductase Genes in the Denitrifying Bacterium Bradyrhizobium nitroreducens sp. nov

article

Rapid and successful start-up of anammox process by immobilizing the minimal quantity of biomass in PVA-SA gel beads

scientific article

Relationship between phylogenetic groups, genotypic clusters, and virulence gene profiles of Escherichia coli strains from diverse human and animal sources.

scientific article

Role of wastewater treatment plants on environmental abundance of Antimicrobial Resistance Genes in Chilean rivers

scientific article published on 10 November 2019

Seasonal stability of Cladophora-associated Salmonella in Lake Michigan watersheds

scientific article published on 21 November 2008

Seasonal transition of active bacterial and archaeal communities in relation to water management in paddy soils

scientific article

Simple and reliable enumeration of Escherichia coli concentrations in wastewater samples by measuring β-d-glucuronidase (GUS) activities via a microplate reader

scientific article published on 25 January 2020

Simultaneous quantification of multiple food- and waterborne pathogens by use of microfluidic quantitative PCR

scientific article published on 22 February 2013

Simultaneous removal of nitrate and heavy metals in a continuous flow nitrate-dependent ferrous iron oxidation (NDFO) bioreactor

scientific article published on 01 August 2020

Single-cell analysis and isolation for microbiology and biotechnology: methods and applications.

scientific article published on 23 March 2010

Source identification of nitrous oxide emission pathways from a single-stage nitritation-anammox granular reactor

scientific article published on 16 June 2016

Sources and Sinks of Escherichia coli in Benthic and Pelagic Fish

scholarly article by Dennis L. Hansen et al published June 2008 in Journal of Great Lakes Research

Specific Single-Cell Isolation of Escherichia coli O157 from Environmental Water Samples by Using Flow Cytometry and Fluorescence-Activated Cell Sorting

scientific article published on 16 May 2016

Target virus log10 reduction values determined for two reclaimed wastewater irrigation scenarios in Japan based on tolerable annual disease burden.

scientific article published on 26 August 2017

The Microbial Nitrogen Cycling, Bacterial Community Composition, and Functional Potential in a Natural Grassland Are Stable from Breaking Dormancy to Being Dormant Again

scientific article published on 28 April 2022

The nitrogen cycle in cryoconites: naturally occurring nitrification-denitrification granules on a glacier.

scientific article published on 15 July 2014

The population structure of Escherichia coli isolated from subtropical and temperate soils.

scientific article published on 20 January 2012

Use of a genetically-engineered Escherichia coli strain as a sample process control for quantification of the host-specific bacterial genetic markers

scientific article

Virulence and biodegradation potential of dynamic microbial communities associated with decaying Cladophora in Great Lakes.

scientific article published on 22 September 2016

Water quality monitoring and risk assessment by simultaneous multipathogen quantification

scientific article

Waterfowl abundance does not predict the dominant avian source of beach Escherichia coli

scientific article

nirK-harboring denitrifiers are more responsive to denitrification- inducing conditions in rice paddy soil than nirS-harboring bacteria.

scientific article

List of works by Satoshi Ishii

A microfluidic platform for the simultaneous quantification of methanogen populations in anaerobic digestion processes

Advantages of functional single-cell isolation method over standard agar plate dilution method as a tool for studying denitrifying bacteria in rice paddy soil

Afforestation can lower microbial diversity and functionality in deep soil layers in a semiarid region

Antibiotic Resistance Genes in Freshwater Trout Farms in a Watershed in Chile

Application of a Microfluidic Quantitative Polymerase Chain Reaction Technique To Monitor Bacterial Pathogens in Beach Water and Complex Environmental Matrices

Application of a clustering-based peak alignment algorithm to analyze various DNA fingerprinting data.

Applications of the rep-PCR DNA fingerprinting technique to study microbial diversity, ecology and evolution

Association between submerged aquatic vegetation and elevated levels of Escherichia coli and potential bacterial pathogens in freshwater lakes

Bacterial histo-blood group antigens contributing to genotype-dependent removal of human noroviruses with a microfiltration membrane

Beach sand and sediments are temporal sinks and sources of Escherichia coli in Lake Superior

Chicken- and duck-associated Bacteroides–Prevotella genetic markers for detecting fecal contamination in environmental water ⬇️

Cladophora (Chlorophyta) spp. harbor human bacterial pathogens in nearshore water of Lake Michigan

Complete Genome Sequence of Klebsiella quasipneumoniae Strain S05, a Fouling-Causing Bacterium Isolated from a Membrane Bioreactor.

Complete Genome Sequence of a Novel Myoviridae Phage, SfΦ01, Infecting Shigella spp

Complete genome sequence of the denitrifying and N(2)O-reducing bacterium Pseudogulbenkiania sp. strain NH8B.

Complete genome sequence of the denitrifying and N2O-reducing bacterium Azoarcus sp. strain KH32C.

Correlations between pathogen concentration and fecal indicator marker genes in beach environments.

Corrigendum to “Precipitation influences pathogenic bacteria and antibiotic resistance genes abundance in storm drain outfalls in coastal sub-tropical waters” [Environ. Int. 116 (2018) 308–318]

Denitrification and Nitrate-Dependent Fe(II) Oxidation in Various Pseudogulbenkiania Strains

Denitrifying Bacteria Active in Woodchip Bioreactors at Low-Temperature Conditions

Development and characterization of the partial nitrification aerobic granules in a sequencing batch airlift reactor ⬇️

Effects of dissolved oxygen and pH on nitrous oxide production rates in autotrophic partial nitrification granules

Environmental Escherichia coli: ecology and public health implications-a review.

Escherichia coli in the Environment: Implications for Water Quality and Human Health

Escherichia coli populations in Great Lakes waterfowl exhibit spatial stability and temporal shifting

Estimation of concentration ratio of indicator to pathogen-related gene in environmental water based on left-censored data.

Evaluation of virus reduction efficiency in wastewater treatment unit processes as a credit value in the multiple-barrier system for wastewater reclamation and reuse

Experimental Evidence for in Situ Nitric Oxide Production in Anaerobic Ammonia-Oxidizing Bacterial Granules

Factors controlling long-term survival and growth of naturalized Escherichia coli populations in temperate field soils.

Generation of Small Colony Variants in Biofilms by Escherichia coli Harboring a Conjugative F Plasmid

Genome Sequence of Enterobacter cloacae Strain SENG-6, a Bacterium Producing Histo-Blood Group Antigen-Like Substances That Can Bind with Human Noroviruses.

Growth and antibiotic resistance acquisition of Escherichia coli in a river that receives treated sewage effluent

Halophytes increase rhizosphere microbial diversity, network complexity and function in inland saline ecosystem

High-Throughput Short Variable Region Sequencing to Assess Diversity in Fecal Samples From Birds

Identification and isolation of active N2O reducers in rice paddy soil.

Identification and phylogenetic characterization of cobalamin biosynthetic genes of Ensifer adhaerens.

Identification of Active Denitrifiers in Rice Paddy Soil by DNA- and RNA-Based Analyses ⬇️

Identification of key nitrous oxide production pathways in aerobic partial nitrifying granules

Identification of novel betaproteobacteria in a succinate-assimilating population in denitrifying rice paddy soil by using stable isotope probing.

Impact of long-term grazing exclusion on soil microbial community composition and nutrient availability

Improved simultaneous quantification of multiple waterborne pathogens and fecal indicator bacteria with the use of a sample process control

Invasive earthworms alter forest soil microbiomes and nitrogen cycling

Isolation and Characterization of Denitrifiers from Woodchip Bioreactors for Bioaugmentation Application

Isolation of Cold-Adapted Nitrate-Reducing Fungi That Have Potential to Increase Nitrate Removal in Woodchip Bioreactors

Isolation of functional single cells from environments using a micromanipulator: application to study denitrifying bacteria

Isolation of oligotrophic denitrifiers carrying previously uncharacterized functional gene sequences.

Large scale analysis of virulence genes in Escherichia coli strains isolated from Avalon Bay, CA.

Membrane fouling potentials and cellular properties of bacteria isolated from fouled membranes in a MBR treating municipal wastewater

Microbial Populations Responsive to Denitrification-Inducing Conditions in Rice Paddy Soil, as Revealed by Comparative 16S rRNA Gene Analysis.

Microbial competition among anammox bacteria in nitrite-limited bioreactors.

Microbial populations responsive to denitrification-inducing conditions in rice paddy soil, as revealed by comparative 16S rRNA gene analysis.

Microfluidic PCR Amplification and MiSeq Amplicon Sequencing Techniques for High-Throughput Detection and Genotyping of Human Pathogenic RNA Viruses in Human Feces, Sewage, and Oysters.

Microfluidic quantification of multiple enteric and opportunistic bacterial pathogens in roof-harvested rainwater tank samples

Microfluidic quantitative PCR for simultaneous quantification of multiple viruses in environmental water samples

Nitrogen Cycle Evaluation (NiCE) Chip for the Simultaneous Analysis of Multiple N-Cycle Associated Genes.

Nitrogen cycling in rice paddy environments: past achievements and future challenges.

Noviherbaspirillum denitrificans sp. nov., a denitrifying bacterium isolated from rice paddy soil and Noviherbaspirillum autotrophicum sp. nov., a denitrifying, facultatively autotrophic bacterium isolated from rice paddy soil and proposal to reclas

Phylogenetic and functional diversity of denitrifying bacteria isolated from various rice paddy and rice-soybean rotation fields.

Population structure of Cladophora-borne Escherichia coli in nearshore water of Lake Michigan

Population structure, persistence, and seasonality of autochthonous Escherichia coli in temperate, coastal forest soil from a Great Lakes watershed.

Potentially Mobile Denitrification Functional Genes Identified in sp. Strain TSH58

Precipitation influences pathogenic bacteria and antibiotic resistance gene abundance in storm drain outfalls in coastal sub-tropical waters.

Presence and growth of naturalized Escherichia coli in temperate soils from Lake Superior watersheds.

Presence and sources of fecal coliform bacteria in epilithic periphyton communities of Lake Superior

Presence of Cu-Type (NirK) and cd-Type (NirS) Nitrite Reductase Genes in the Denitrifying Bacterium Bradyrhizobium nitroreducens sp. nov

Rapid and successful start-up of anammox process by immobilizing the minimal quantity of biomass in PVA-SA gel beads

Relationship between phylogenetic groups, genotypic clusters, and virulence gene profiles of Escherichia coli strains from diverse human and animal sources.

Role of wastewater treatment plants on environmental abundance of Antimicrobial Resistance Genes in Chilean rivers

Seasonal stability of Cladophora-associated Salmonella in Lake Michigan watersheds

Seasonal transition of active bacterial and archaeal communities in relation to water management in paddy soils

Simple and reliable enumeration of Escherichia coli concentrations in wastewater samples by measuring β-d-glucuronidase (GUS) activities via a microplate reader

Simultaneous quantification of multiple food- and waterborne pathogens by use of microfluidic quantitative PCR

Simultaneous removal of nitrate and heavy metals in a continuous flow nitrate-dependent ferrous iron oxidation (NDFO) bioreactor

Single-cell analysis and isolation for microbiology and biotechnology: methods and applications.

Source identification of nitrous oxide emission pathways from a single-stage nitritation-anammox granular reactor

Sources and Sinks of Escherichia coli in Benthic and Pelagic Fish

Specific Single-Cell Isolation of Escherichia coli O157 from Environmental Water Samples by Using Flow Cytometry and Fluorescence-Activated Cell Sorting

Target virus log10 reduction values determined for two reclaimed wastewater irrigation scenarios in Japan based on tolerable annual disease burden.

The Microbial Nitrogen Cycling, Bacterial Community Composition, and Functional Potential in a Natural Grassland Are Stable from Breaking Dormancy to Being Dormant Again