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List of works by Steven James Hallam

A compendium of geochemical information from the Saanich Inlet water column

scientific article published on 31 October 2017

A compendium of multi-omic sequence information from the Saanich Inlet water column

scientific article published on 31 October 2017

A geographically-diverse collection of 418 human gut microbiome pathway genome databases

scientific article

A high throughput screen for biomining cellulase activity from metagenomic libraries

scientific article

A metagenomic survey of forest soil microbial communities more than a decade after timber harvesting

scientific article

A programmable droplet-based microfluidic device applied to multiparameter analysis of single microbes and microbial communities

scientific article

A single mutation (V64G) within the RING Domain of Z attenuates Junin virus

scientific article published on 25 September 2020

Ammonium and nitrite oxidation at nanomolar oxygen concentrations in oxygen minimum zone waters

scientific article published on 06 September 2016

An Improved Whole-Cell Biosensor for the Discovery of Lignin-Transforming Enzymes in Functional Metagenomic Screens.

scientific article published on 28 November 2017

An enzymatic pathway in the human gut microbiome that converts A to universal O type blood

scientific article published on 10 June 2019

Archaeal pre-mRNA splicing: a connection to hetero-oligomeric splicing endonuclease

scientific article

Author Correction: A compendium of geochemical information from the Saanich Inlet water column

scholarly article published in Scientific Data

Bacterial, archaeal and eukaryal community structures throughout soil horizons of harvested and naturally disturbed forest stands

scientific article published on 31 July 2009

Baseline mapping of Lassa fever virology, epidemiology and vaccine research and development

scientific article published on 20 March 2018

Biocatalysts for biomass deconstruction from environmental genomics

scientific article published on 28 July 2015

Biomining active cellulases from a mining bioremediation system

scientific article

CRAGE-mediated insertion of fluorescent chromosomal markers for accurate and scalable measurement of co-culture dynamics in <i>Escherichia coli</i>

scientific article published on 03 September 2020

Combining genomic sequencing methods to explore viral diversity and reveal potential virus-host interactions

scientific article published on 10 April 2015

Comparative genomics reveals electron transfer and syntrophic mechanisms differentiating methanotrophic and methanogenic archaea

scientific article published on 05 January 2022

Consent insufficient for data release-Response

scientific article published on 01 May 2019

Correction: Pathways of Carbon Assimilation and Ammonia Oxidation Suggested by Environmental Genomic Analyses of Marine Crenarchaeota

erratum published in 2006

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

scientific article published in February 2018

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

article

DNA extraction from 0.22 microM Sterivex filters and cesium chloride density gradient centrifugation

scientific article

Development and Application of a High-Throughput Functional Metagenomic Screen for Glycoside Phosphorylases

scientific article published on 09 May 2019

Development of human B cells and antibodies following human hematopoietic stem cell transplantation to Rag2(-/-)γc(-/-) mice

scientific article published on 02 April 2015

Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients.

scientific article published on 15 November 2017

Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean

scientific article

Draft Genome Sequence of the Pelagic Photoferrotroph Chlorobium phaeoferrooxidans

scientific article published on 30 March 2017

Ecology and evolution of viruses infecting uncultivated SUP05 bacteria as revealed by single-cell- and meta-genomics

scientific article published on 29 August 2014

Ecology and molecular targets of hypermutation in the global microbiome

scientific article published on 24 May 2021

Editorial overview: Remapping the body of the world: Exploring interactions at the interface of microbial ecology, biological engineering and information science

scientific article published on 16 May 2016

Effect of oxygen minimum zone formation on communities of marine protists

scientific article

Environmental Acquisition of Thiotrophic Endosymbionts by Deep-Sea Mussels of the Genus Bathymodiolus ⬇️

scientific article published on November 1, 2003

Erratum: Significant and persistent impact of timber harvesting on soil microbial communities in Northern coniferous forests

article

Expanding the boundaries of local similarity analysis ⬇️

scientific article published on January 21, 2013

Expression of recombinant proteins in the methylotrophic yeast Pichia pastoris

scientific article published on 25 February 2010

Extraction of high molecular weight genomic DNA from soils and sediments

scientific article

Forest harvesting reduces the soil metagenomic potential for biomass decomposition

scientific article

Fractional factorial experimental design for optimizing volatile fatty acids from anaerobic fermentation of municipal sludge: Microbial community and activity investigation

scientific article published in 2022

Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum

scientific article

Genomic and transcriptomic studies of an RDX (hexahydro-1,3,5-trinitro-1,3,5-triazine)-degrading actinobacterium

scientific article published on 24 August 2012

Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle

scientific article

Glycoprotein N-linked glycans play a critical role in arenavirus pathogenicity

scientific article published on 01 March 2021

Growth and methane oxidation rates of anaerobic methanotrophic archaea in a continuous-flow bioreactor

scientific article

High-Throughput Recovery and Characterization of Metagenome-Derived Glycoside Hydrolase-Containing Clones as a Resource for Biocatalyst Development.

scientific article published on 4 June 2019

High-resolution phylogenetic microbial community profiling

scientific article published on 9 February 2016

Histones in crenarchaea

scientific article

Hive Panel Explorer: an interactive network visualization tool

scientific article published on 27 July 2020

Identification of methyl coenzyme M reductase A (mcrA) genes associated with methane-oxidizing archaea

scientific article

Illuminating microbial dark matter in meromictic Sakinaw Lake

scientific article

In Silico Analysis of the Metabolic Potential and Niche Specialization of Candidate Phylum "Latescibacteria" (WS3).

scientific article published on 3 June 2015

Insights into the phylogeny and coding potential of microbial dark matter

scientific article

Integrating biogeochemistry with multiomic sequence information in a model oxygen minimum zone

scientific article

LCA*: an entropy-based measure for taxonomic assignment within assembled metagenomes

scientific article

Large insert environmental genomic library production

scientific article

Large volume (20L+) filtration of coastal seawater samples

scientific article published on 18 June 2009

Leveraging heterogeneous network embedding for metabolic pathway prediction

scientific article published on 20 October 2020

Machupo Virus Expressing GPC of the Candid#1 Vaccine Strain of Junin Virus Is Highly Attenuated and Immunogenic

scientific article

Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation.

scientific article

Mercury methylation by metabolically versatile and cosmopolitan marine bacteria

scientific article published in 2021

MetaPathways v2.5: quantitative functional, taxonomic and usability improvements

scientific article

MetaPathways: a modular pipeline for constructing pathway/genome databases from environmental sequence information ⬇️

scientific article published on June 21, 2013

Metabolic Pathway Prediction Using Non-Negative Matrix Factorization with Improved Precision

scientific article published in 2021

Metabolic pathway inference using multi-label classification with rich pathway features

scientific article published on 01 October 2020

Metabolic pathways for the whole community

scientific article

Metabolic reprogramming by viruses in the sunlit and dark ocean

scientific article published on 7 November 2013

Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zones

scientific article published in October 2009

Metagenomes Reveal Global Distribution of Bacterial Steroid Catabolism in Natural, Engineered, and Host Environments

scientific article published on 30 January 2018

Metagenomic scaffolds enable combinatorial lignin transformation

scientific article

Metagenomics of hydrocarbon resource environments indicates aerobic taxa and genes to be unexpectedly common

scientific article (publication date: 17 September 2013)

Metagenomics reveals functional synergy and novel polysaccharide utilization loci in the Castor canadensis fecal microbiome

scholarly article by Zachary Armstrong et al published 16 July 2018 in The ISME Journal

Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes

scientific article

Methanotrophic Community Dynamics in a Seasonally Anoxic Fjord: Saanich Inlet, British Columbia

article

Methanotrophic communities of Saanich Inlet: a microcosm perspective.

scientific article

Microbes don't play solitaire: how cooperation trumps isolation in the microbial world

scientific article published on February 2015

Microbial and geochemical controls on waste rock weathering and drainage quality

scientific article published on 05 June 2018

Microbial community dynamics in a seasonally anoxic fjord: Saanich Inlet, British Columbia

scientific article published on 24 September 2009

Microbial community structure across fluid gradients in the Juan de Fuca Ridge hydrothermal system ⬇️

scientific article published on September 17, 2012

Microbial ecology of expanding oxygen minimum zones ⬇️

scientific article published on May 14, 2012

Microbial life in a liquid asphalt desert

scientific article

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article

Molecular tools for investigating ANME community structure and function

scientific article published in January 2011

Molecular tools for investigating microbial community structure and function in oxygen-deficient marine waters

scientific article

Monitoring microbial responses to ocean deoxygenation in a model oxygen minimum zone

scientific article published on 31 October 2017

Non-symbiotic Bradyrhizobium ecotypes dominate North American forest soils

scientific article published on 24 April 2015

Nutrient Acquisition and the Metabolic Potential of Photoferrotrophic Chlorobi

scientific article

On Single-Cell Enzyme Assays in Marine Microbial Ecology and Biogeochemistry

scientific article published in 2022

Pathway-Centric Analysis of Microbial Metabolic Potential and Expression Along Nutrient and Energy Gradients in the Western Atlantic Ocean

scientific article published on 19 May 2022

Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota

scientific article

Patterns of Endemism and Habitat Selection in Coalbed Microbial Communities

scientific article

Photophysics and multifunctionality of hypericin-like pigments in heterotrich ciliates: a phylogenetic perspective

scientific article published on September 2007

Phylogenetic diversity of transition and anoxic zone bacterial communities within a near-shore anoxic basin: Nitinat Lake

scientific article

Phylogeny and physiology of candidate phylum 'Atribacteria' (OP9/JS1) inferred from cultivation-independent genomics

scientific article published on 19 June 2015

Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters

scientific article published on 16 November 2020

Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean

scientific article published on 25 June 2013

Previously unknown evolutionary groups dominate the ssDNA gokushoviruses in oxic and anoxic waters of a coastal marine environment

scientific article published on 22 April 2015

Prospecting for microbial α-N-acetylgalactosaminidases yields a new class of GH31 O-glycanase

scientific article published on 17 September 2019

Rare taxa have potential to make metabolic contributions in enhanced biological phosphorus removal ecosystems

scientific article published on 9 April 2015

Recovering cellular biomass from fluids using chemical flocculation

scientific article published on 16 October 2018

Reverse methanogenesis: testing the hypothesis with environmental genomics

scientific article published in September 2004

Review of Biology and Replication

article

SYD-1, a presynaptic protein with PDZ, C2 and rhoGAP-like domains, specifies axon identity in C. elegans

scientific article published in November 2002

Seasonal and ecohydrological regulation of active microbial populations involved in DOC, CO2, and CH4 fluxes in temperate rainforest soil

scientific article published on 11 December 2018

Seawater sampling and collection

scientific article published on 17 June 2009

Sequencing platform and library preparation choices impact viral metagenomes

scientific article

Significant and persistent impact of timber harvesting on soil microbial communities in Northern coniferous forests

scientific article

Single cell genomics of uncultured marine alveolates shows paraphyly of basal dinoflagellates

scientific article published on 10 October 2017

Single-cell genomics-based analysis of virus-host interactions in marine surface bacterioplankton

scientific article

Small volume (1-3L) filtration of coastal seawater samples

scientific article

Structural and mechanistic analysis of a β-glycoside phosphorylase identified by screening a metagenomic library

scientific article published on 9 January 2018

Synthesis and evaluation of a series of 6-chloro-4-methylumbelliferyl glycosides as fluorogenic reagents for screening metagenomic libraries for glycosidase activity

scientific article published on 5 January 2016

The Bacteroidetes <i>Aequorivita</i> sp. and <i>Kaistella jeonii</i> Produce Promiscuous Esterases With PET-Hydrolyzing Activity

scientific article published on 01 January 2021

The Kwakshua Watersheds Observatory, central coast of British Columbia, Canada

scientific article published in 2021

The art and design of functional metagenomic screens

scientific article

The information science of microbial ecology

scientific article

The microbial community of a passive biochemical reactor treating arsenic, zinc, and sulfate-rich seepage

scientific article

Thousands of small, novel genes predicted in global phage genomes

scientific article published in 2022

Toward unrestricted use of public genomic data:

scientific article

TreeSAPP: The Tree-based Sensitive and Accurate Phylogenetic Profiler

scientific article published on 08 July 2020

Two-step activated carbon cloth enhances microbial interactions and methane production during anaerobic digestion of municipal sludge

scientific article published in 2022

Unexpected genomic features in widespread intracellular bacteria: evidence for motility of marine chlamydiae

scientific article published on 23 June 2017

V-REVCOMP: automated high-throughput detection of reverse complementary 16S rRNA gene sequences in large environmental and taxonomic datasets

scientific article published on 27 April 2011

Viral dark matter and virus-host interactions resolved from publicly available microbial genomes

scientific article published on 22 July 2015

Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea

scientific article published on 04 March 2019

Zika virus infection elicits auto-antibodies to C1q.

scientific article published on 30 January 2018

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