S. Stockdale

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Reproducible protocols for metagenomic analysis of human faecal phageomes

T. Sutton, F. Ryan, R. P. Ross, 2018, Microbiome.

Expansion of known ssRNA phage genomes: From tens to over a thousand

R. P. Ross, C. Hill, A. Shkoporov, 2020, Science Advances.

Isolation of a Novel Jumbo Bacteriophage Effective Against Klebsiella aerogenes

A. Clooney, R. P. Ross, C. Hill, 2020, Frontiers in Medicine.

Metagenomics Reveals Impact of Urbanisation in Central India on the Human Gut Microbiome and its Antimicrobial Resistance Profiles

Richard D Emes, C. Hill, R. Kashyap, 2019 .

The Lactococcus lactis plasmidome: much learnt, yet still lots to discover.

D. van Sinderen, S. Stockdale, F. Bottacini, 2014, FEMS microbiology reviews.

Metagenomic assembled plasmids of the human microbiome vary across disease cohorts

R. P. Ross, A. Lavelle, F. Shanahan, 2022, Scientific Reports.

ΦCrAss001, a member of the most abundant bacteriophage family in the human gut, infects Bacteroides

R. P. Ross, C. Hill, A. Shkoporov, 2018, bioRxiv.

Viral biogeography of the mammalian gut and parenchymal organs

C. Hill, A. Lavelle, A. Shkoporov, 2022, Nature Microbiology.

An IBD-associated pathobiont synergises with NSAID to promote colitis which is blocked by NLRP3 inflammasome and Caspase-8 inhibitors

A. Clooney, S. Melgar, F. Shanahan, 2022, bioRxiv.

Phages of lactic acid bacteria: the role of genetics in understanding phage-host interactions and their co-evolutionary processes.

D. van Sinderen, S. Stockdale, J. Mahony, 2012, Virology.

Tail-associated lytic enzymes of Siphoviridae phages 1 The lactococcal phages Tuc2009 and TP901-1 incorporate two alternate forms of their tail fibre into their virions for infection specialization*

D. Sinderen, H. Neve, R. Britton, 2013 .

Guidance for creating individual and batch latinized binomial virus species names

A. Mushegian, J. Kuhn, Jiro Wada, 2022, The Journal of general virology.

Isolation of a Novel Phage with Activity against Streptococcus mutans Biofilms

Fabien J. Cousin, H. Neve, R. P. Ross, 2015, PloS one.

Stability of the human gut virome and effect of gluten-free diet.

A. Kurilshikov, Jingyuan Fu, A. Zhernakova, 2021, Cell reports.

The Lactococcal Phages Tuc2009 and TP901-1 Incorporate Two Alternate Forms of Their Tail Fiber into Their Virions for Infection Specialization*

H. Neve, F. Vogensen, R. Britton, 2013, The Journal of Biological Chemistry.

Metagenomics reveals impact of geography and acute diarrheal disease on the Central Indian human gut microbiome

Richard D Emes, C. Hill, R. Kashyap, 2020, Gut microbes.

Viral Dark Matter in the Gut Virome of Elderly Humans

F. Ryan, C. Hill, Angela McCann, 2018 .

Biology and Taxonomy of crAss-like Bacteriophages, the Most Abundant Virus in the Human Gut.

T. Sutton, A. Clooney, F. Ryan, 2018, Cell host & microbe.

Biology and taxonomy of crAss-like bacteriophages, the most abundant virus in the human gut

T. Sutton, A. Clooney, F. Ryan, 2018, bioRxiv.

ΦCrAss001 represents the most abundant bacteriophage family in the human gut and infects Bacteroides intestinalis

C. Hill, A. Shkoporov, L. Draper, 2018, Nature Communications.

Viromes of one year old infants reveal the impact of birth mode on microbiome diversity

Colin Hill, Susan Mills, F. Ryan, 2018, PeerJ.

Interpersonal variability of the human gut virome confounds disease signal detection in IBD

T. Sutton, A. Clooney, F. Ryan, 2023, Communications Biology.

Alpha-synuclein alters the faecal viromes of rats in a gut-initiated model of Parkinson’s disease

C. Hill, W. Barton, Ó. O’Sullivan, 2021, Communications Biology.

Leviviricetes: expanding and restructuring the taxonomy of bacteria-infecting single-stranded RNA viruses

Evelien M. Adriaenssens, M. Pallen, J. Kuhn, 2021, Microbial genomics.

VIGA: a sensitive, precise and automatic de novo VIral Genome Annotator

Colin Hill, Enrique González-Tortuero, C. Hill, 2018, bioRxiv.

Diverse Bacteriocins Produced by Strains From the Human Milk Microbiota

C. Hill, C. Stanton, A. Shkoporov, 2020, Frontiers in Microbiology.

Biases in Viral Metagenomics-Based Detection, Cataloguing and Quantification of Bacteriophage Genomes in Human Faeces, a Review

C. Hill, A. Shkoporov, L. Draper, 2021, Microorganisms.

Viral biogeography of gastrointestinal tract and parenchymal organs in two representative species of mammals

C. Hill, A. Lavelle, A. Shkoporov, 2021 .

Isolation and characterisation of ΦcrAss002, a crAss-like phage from the human gut that infects Bacteroides xylanisolvens

A. Clooney, C. Hill, A. Shkoporov, 2021, Microbiome.

Functional and structural dissection of the tape measure protein of lactococcal phage TP901-1

D. Sinderen, C. Cambillau, S. Spinelli, 2016, Scientific Reports.

Progress and prospects of the healthy human gut virome.

C. Hill, S. Stockdale, C. Hill, 2021, Current opinion in virology.

RNA Phage Biology in a Metagenomic Era

C. Hill, A. Shkoporov, L. Draper, 2018, Viruses.

Thanks ! Title ΦCrAss 001 represents the most abundant bacteriophage family in the human gut and infects Bacteroides intestinalis

C. Hill, A. Shkoporov, L. Draper, 2019 .

Structure and Assembly of TP901-1 Virion Unveiled by Mutagenesis

C. Cambillau, S. Spinelli, D. van Sinderen, 2015, PloS one.

Incorporating plasmid biology and metagenomics into a holistic model of the human gut microbiome.

C. Hill, S. Stockdale, C. Hill, 2023, Current opinion in microbiology.

RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance

A. Tarr, C. Hill, R. Kashyap, 2023, The Lancet regional health. Southeast Asia.

Stability of the human gut virome and effect of gluten-free diet.

A. Kurilshikov, Jingyuan Fu, A. Zhernakova, 2020, Cell reports.

RNA-Seq of untreated wastewater to assess COVID-19 and emerging and endemic viruses for public health surveillance

A. Tarr, R. Kashyap, Umashankar Vetrivel, 2023, The Lancet regional health. Southeast Asia.

Lactococcus lactis phage TP901–1 as a model for Siphoviridae virion assembly

C. Cambillau, S. Spinelli, D. van Sinderen, 2016, Bacteriophage.

Phages of lactic acid bacteria: the role of genetics in understanding phage-host interactions and their co-evolutionary processes.

D. van Sinderen, S. Stockdale, J. Mahony, 2012, Virology.