[HTML][HTML] Extensive gut virome variation and its associations with host and environmental factors in a population-level cohort

S Nishijima, N Nagata, Y Kiguchi, Y Kojima… - Nature …, 2022 - nature.com
Indigenous bacteriophage communities (virome) in the human gut have a huge impact on
the structure and function of gut bacterial communities (bacteriome), but virome variation at a …

The gut microbiome of healthy Japanese and its microbial and functional uniqueness

S Nishijima, W Suda, K Oshima, SW Kim… - DNA …, 2016 - academic.oup.com
The human gut microbiome has profound influences on the host's health largely through its
interference with various intestinal functions. As recent studies have suggested diversity in …

[HTML][HTML] Population-level metagenomics uncovers distinct effects of multiple medications on the human gut microbiome

N Nagata, S Nishijima, T Miyoshi-Akiyama, Y Kojima… - Gastroenterology, 2022 - Elsevier
Background & aims Medication is a major determinant of human gut microbiome structure,
and its overuse increases the risks of morbidity and mortality. However, effects of certain …

[HTML][HTML] Long-read metagenomic exploration of extrachromosomal mobile genetic elements in the human gut

Y Suzuki, S Nishijima, Y Furuta, J Yoshimura, W Suda… - Microbiome, 2019 - Springer
Background Elucidating the ecological and biological identity of extrachromosomal mobile
genetic elements (eMGEs), such as plasmids and bacteriophages, in the human gut remains …

[HTML][HTML] Nitrogen fixation and nifH diversity in human gut microbiota

K Igai, M Itakura, S Nishijima, H Tsurumaru, W Suda… - Scientific reports, 2016 - nature.com
It has been hypothesized that nitrogen fixation occurs in the human gut. However, whether
the gut microbiota truly has this potential remains unclear. We investigated the nitrogen-fixing …

[HTML][HTML] Metagenomic identification of microbial signatures predicting pancreatic cancer from a multinational study

N Nagata, S Nishijima, Y Kojima, Y Hisada, K Imbe… - Gastroenterology, 2022 - Elsevier
Background & Aims To identify gut and oral metagenomic signatures that accurately predict
pancreatic ductal carcinoma (PDAC) and to validate these signatures in independent cohorts…

[HTML][HTML] Effects of bowel preparation on the human gut microbiome and metabolome

N Nagata, M Tohya, S Fukuda, W Suda, S Nishijima… - Scientific reports, 2019 - nature.com
Large bowel preparation may cause a substantial change in the gut microbiota and metabolites.
Here, we included a bowel prep group and a no-procedure control group and evaluated …

Circadian oscillations of microbial and functional composition in the human salivary microbiome

…, C Shindo, Y Hattori, N Yamashita, S Nishijima… - DNA …, 2017 - academic.oup.com
The human microbiomes across the body evidently interact with various signals in response
to biogeographical physiological conditions. To understand such interactions in detail, we …

[HTML][HTML] Revealing the microbial assemblage structure in the human gut microbiome using latent Dirichlet allocation

S Hosoda, S Nishijima, T Fukunaga, M Hattori… - Microbiome, 2020 - Springer
Background The human gut microbiome has been suggested to affect human health and thus
has received considerable attention. To clarify the structure of the human gut microbiome, …

Long-read metagenomics of multiple displacement amplified DNA of low-biomass human gut phageomes by SACRA pre-processing chimeric reads

Y Kiguchi, S Nishijima, N Kumar, M Hattori… - DNA …, 2021 - academic.oup.com
The human gut bacteriophage community (phageome) plays an important role in the host’s
health and disease; however, the entire structure is poorly understood, partly owing to the …