S. Nishijima

Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations

This study shows that fecal microbial load, not disease, is the main driver of gut microbiome changes and identifies it as a major confounder in microbiome studies.

Distributional shifts change the biodiversity-ecosystem stability relationship under climate change

The paper examines how distributional shifts under climate change affect biodiversity-ecosystem stability relationships by analyzing over 25 years of species data.

Consistency across multi-omics layers in a drug-perturbed gut microbial community

The paper examines consistency and complementarity across five omics layers in a drug-perturbed gut microbial community, finding high agreement in species abundance and functional insights from different data types.

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

The paper analyzes the gut virome in a large cohort, identifying factors influencing virome diversity and its relationship with host and environmental variables.

Modeling Pulse Dynamics of Juvenile Fish Enables the Short-term Forecasting of Population Dynamics in Japanese Pufferfish: A Latent Variable Approach

This study uses a latent-variable approach to standardize small-scale survey data of juvenile Japanese pufferfish, improving short-term population forecasting accuracy.

Environmental filtering in marine fish communities is weakened during severe hypoxia season

This study shows that environmental filtering in marine fish communities weakens during severe hypoxia, despite increased environmental severity and heterogeneity.

State-space Modeling Clarifies Productivity Regime Shifts of Japanese Flying Squid

The paper develops a state-space model to detect regime shifts in Japanese flying squid productivity, showing significant changes in maximum sustainable yields around 1991 and 2015.

Spatio-temporal model reduces species misidentification bias of spawning eggs in stock assessment of spotted mackerel in the western North Pacific

The paper uses a spatio-temporal model to reduce species misidentification bias in spotted mackerel stock assessment by incorporating chub mackerel egg density effects.

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

This study uses latent Dirichlet allocation to detect microbial assemblages in the human gut microbiome, revealing four assemblages with distinct compositions and relationships to enterotypes.

Collaborative environmental DNA sampling from petal surfaces of flowering cherry Cerasus ×- yedoensis 'Somei-yoshino' across the Japanese archipelago

The paper collects and analyzes environmental DNA from petal surfaces of cherry trees across Japan, showing rapid DNA attachment and the presence of other plant DNA, supporting the use of petals for studying environmental DNA dynamics.