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List of works by Josh D Neufeld

"Candidatus Nitrosotenuis aquarius," an Ammonia-Oxidizing Archaeon from a Freshwater Aquarium Biofilter

scientific article published on 17 September 2018

AXIOME: automated exploration of microbial diversity

scientific article

Active autotrophic ammonia-oxidizing bacteria in biofilm enrichments from simulated creek ecosystems at two ammonium concentrations respond to temperature manipulation

scientific article published on 2 September 2011

Agricultural soil denitrifiers possess extensive nitrite reductase gene diversity

scientific article published on 10 December 2016

Anaerobic oxidation of methane coupled with extracellular electron transfer to electrodes

scientific article

Anoxygenic photosynthesis and iron-sulfur metabolic potential of Chlorobia populations from seasonally anoxic Boreal Shield lakes

scientific article published on 03 August 2020

Aquarium Nitrification Revisited: Thaumarchaeota Are the Dominant Ammonia Oxidizers in Freshwater Aquarium Biofilters ⬇️

scientific article published on August 16, 2011

Archaeal nitrification is constrained by copper complexation with organic matter in municipal wastewater treatment plants

scientific article published on 17 October 2019

Back to the Future of Soil Metagenomics

scientific article

Bacterial biogeography of the human digestive tract

scientific article

Bacterial communities associated with culex mosquito larvae and two emergent aquatic plants of bioremediation importance

scientific article

Biogeography of anaerobic ammonia-oxidizing (anammox) bacteria

scientific article

Butyric acid- and dimethyl disulfide-assimilating microorganisms in a biofilter treating air emissions from a livestock facility

scientific article

Correction: Cultivation and characterization of Candidatus Nitrosocosmicus exaquare, an ammonia-oxidizing archaeon from a municipal wastewater treatment system

scientific article published on 10 July 2020

Cultivation and characterization of Candidatus Nitrosocosmicus exaquare, an ammonia-oxidizing archaeon from a municipal wastewater treatment system

scientific article

Current and future resources for functional metagenomics

scientific article published on 29 October 2015

DNA stable-isotope probing

scientific article published in January 2007

Developmental succession of the microbiome of Culex mosquitoes

scientific article

Evaluating bias of illumina-based bacterial 16S rRNA gene profiles

scientific article

Evaluating primers for profiling anaerobic ammonia oxidizing bacteria within freshwater environments

scientific article

Evaluation of a pooled strategy for high-throughput sequencing of cosmid clones from metagenomic libraries

scientific article

Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm

scientific article published on 25 October 2013

Fifteen shades of clay: distinct microbial community profiles obtained from bentonite samples by cultivation and direct nucleic acid extraction

scientific article published in 2021

Functional metagenomics reveals novel β-galactosidases not predictable from gene sequences

scientific article

Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads

article

Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads

scientific article

Handlebar: a flexible, web-based inventory manager for handling barcoded samples

scientific article published in March 2007

High functional diversity among Nitrospira populations that dominate rotating biological contactor microbial communities in a municipal wastewater treatment plant

scientific article published on 24 April 2020

Identification of Methanoculleus spp. as active methanogens during anoxic incubations of swine manure storage tank samples

scientific article published on 26 October 2012

Inter-personal diversity and temporal dynamics of dental, tongue, and salivary microbiota in the healthy oral cavity

scientific article

Life in a World without Microbes

scientific article

Low-ammonia niche of ammonia-oxidizing archaea in rotating biological contactors of a municipal wastewater treatment plant

scientific article (publication date: September 2012)

Meeting report: 1st international functional metagenomics workshop may 7-8, 2012, st. Jacobs, ontario, Canada

scientific article

Methane-based denitrification kinetics and syntrophy in a membrane biofilm reactor at low methane pressure

scientific article published on 06 August 2019

Microbial Community Succession and Nutrient Cycling Responses following Perturbations of Experimental Saltwater Aquaria

article

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article

Nitric oxide scavengers differentially inhibit ammonia oxidation in ammonia-oxidizing archaea and bacteria

scientific article published on 4 March 2016

Nonlinear electrophoresis for purification of soil DNA for metagenomics

scientific article

Omics for understanding microbial functional dynamics

scientific article published on 8 June 2011

PANDAseq: paired-end assembler for illumina sequences ⬇️

scientific article published on February 14, 2012

Phylogenetic identification of methanogens assimilating acetate-derived carbon in dairy and swine manures

scientific article published on 29 November 2014

SSUnique: Detecting Sequence Novelty in Microbiome Surveys

scientific article

Seasonal habitat drives intestinal microbiome composition in anadromous Arctic char (Salvelinus alpinus)

scientific article published on 03 May 2020

Stability of Microbial Community Profiles Associated with Compacted Bentonite from the Grimsel Underground Research Laboratory

scientific article published on 18 December 2019

Targeted metagenomics of active microbial populations with stable-isotope probing.

scientific article published on 3 March 2016

Targeted recovery of novel phylogenetic diversity from next-generation sequence data ⬇️

scientific article published on July 12, 2012

Temporal and spatial stability of ammonia-oxidizing archaea and bacteria in aquarium biofilters

scientific article

The Skin Microbiome of Cohabiting Couples

scientific article

The skin microbiome of vertebrates

scientific article published on 23 May 2019

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

Thousands of small, novel genes predicted in global phage genomes

scientific article published in 2022

Time Series Resolution of the Fish Necrobiome Reveals a Decomposer Succession Involving Toxigenic Bacterial Pathogens

scientific article published on 28 April 2020

Transplantation of fecal microbiota from patients with irritable bowel syndrome alters gut function and behavior in recipient mice.

scientific article published in March 2017

Type I photosynthetic reaction center in an anoxygenic phototrophic member of the Chloroflexota

preprint

Validating DNA Extraction Protocols for Bentonite Clay

scientific article published on 30 October 2019

Versatile broad-host-range cosmids for construction of high quality metagenomic libraries

scientific article published on 01 February 2014

Who eats what, where and when? Isotope-labelling experiments are coming of age.

scientific article published on 17 May 2007

Witnessing the last supper of uncultivated microbial cells with Raman-FISH.

scientific article published on 28 June 2007

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