Biodiversity Consistently Promotes Ecosystem Multifunctionality Across Multiple Temporal Scales in an Aquatic Microbial Community.

Biodiversity is essential for sustaining ecosystem multifunctionality (EMF), yet its role in natural ecosystems remains uncertain because various environmental drivers, alongside biodiversity, influence EMF, complicating the empirical biodiversity-EMF relationship. Additionally, the effects of biodiversity and environmental drivers on EMF likely vary across temporal scales, making this relationship inherently scale-dependent. Over nine years, we conducted a biweekly sampling, measuring microbial diversity, EMF (via 31 carbon utilisation functions), and various environmental variables in a subtropical freshwater ecosystem.

Characterization of prokaryotic plankton community structure in the Southern East China Sea using combined 16S-rDNA and 16S-rRNA.

Prokaryotic plankton play a crucial role in marine biogeochemical processes, but their activities can vary significantly among different taxonomic groups. To capture the active part of the communities, both 16S rDNA (genome-level) and 16S rRNA (transcript-level) data were generated in this study to investigate the diversity and activity of prokaryotic plankton in the southern East China Sea. A total of 120 high-throughput sequencing datasets were generated, representing 60 communities sampled seasonally from four water layers along a coastal to pelagic transect.

Small eukaryotic plankton community and alpha diversity variability in the Kuroshio region.

Small eukaryotic plankton (1.2-20 μm), exhibiting remarkable diversity and employing various trophic strategies, plays crucial roles in marine biogeochemical cycling. However, limited exploration of their composition and diversity has hindered our understanding of their functional roles in food-web dynamics and biogeochemical processes.

Bioenergetically constrained dynamical microbial interactions govern the performance and stability of methane-producing bioreactors.

Biogas generation from organic waste by anaerobic bioreactors as renewable energy largely depends on microbial community and species interplays involved. This microbial networking is complex and time-dependent, influencing community succession and reactor performance, but remains unexplored due to the challenges in quantifying dynamics. We employed empirical dynamic modeling to analyze daily networking from a newly established bioreactor converting sucrose to biogas.

Dramatic effect of extreme rainfall event and storm on microbial community dynamics in a subtropical coastal region.

Extreme weather events, such as heavy rainfall and typhoons, are becoming more frequent due to climate change and can significantly impact coastal microbial communities. This study examines the short-term alterations in microbial food webs-viruses, bacteria, picophytoplankton, nanoflagellates, ciliates, and diatom-following Typhoon Krathon in Taiwan's coastal waters in October 2024. Daily in situ sampling revealed a significant post-typhoon increased in viral, nanoflagellate, and Synechococcus spp.

Ecological processes shaping highly connected bacterial communities along strong environmental gradients.

Along the river-sea continuum, microorganisms are directionally dispersed by water flow while being exposed to strong environmental gradients. To compare the two assembly mechanisms that may strongly and differently influence metacommunity dynamics, namely homogenizing dispersal and heterogeneous selection, we characterized the total (16S rRNA gene) and putatively active (16S rRNA transcript) bacterial communities in the Pearl River-South China Sea Continuum, during the wet (summer) and dry (winter) seasons using high-throughput sequencing. Moreover, well-defined sampling was conducted by including freshwater, oligohaline, mesohaline, polyhaline, and marine habitats.

Effects of Tropical Cyclone Passage on Plankton Community Respiration in a Phosphate-Limited Freshwater Ecosystem.

Plankton community respiration (CR) in aquatic ecosystems varies with environmental factors, which could be altered during tropical cyclones (TCs). A potential increase in CR resulting from the effects of TCs is generally understudied. Here, we examined the relationship between plankton CR and environmental factors, including during TC-affected periods, in a phosphate-limited freshwater ecosystem.

Detecting shifts in nonlinear dynamics using Empirical Dynamic Modeling with Nested-Library Analysis.

Abrupt changes in system states and dynamical behaviors are often observed in natural systems; such phenomena, named regime shifts, are explained as transitions between alternative steady states (more generally, attractors). Various methods have been proposed to detect regime shifts from time series data, but a generic detection method with theoretical linkage to underlying dynamics is lacking. Here, we provide a novel method named Nested-Library Analysis (NLA) to retrospectively detect regime shifts using empirical dynamic modeling (EDM) rooted in theory of attractor reconstruction.

Spatiotemporal variations and influential factors affecting reproductive dynamics of Pacific saury in the Northwest Pacific during fishing season.

This study examined the spatial and monthly variations in reproductive dynamics of Pacific saury collected in the high sea (40°N-49°N, 149°E-168°E) of the northwestern Pacific during the fishing season of the Taiwanese stick-held dip-net fisheries (July-November) from 2018 to 2019. Generalized additive mixed-effects models (GAMMs) were applied to explore the relationship between the probability of maturing and spawning occurrence (P ) and the explanatory variables (month, body length, sea-surface temperature [SST] as fixed effects, and fishing set as a random effect) for the age 0 and age 1 fish, respectively. In addition, the impact of the geographical difference in growth rates of age 0 fish, quantified as the radius of the otolith annual ring, on the P of age 1 fish was explored in the GAMMs.

Trade-Offs between Competitive Ability and Resistance to Top-Down Control in Marine Microbes.

Trade-offs between competitive ability and resistance to top-down control manifest the "kill-the-winner" hypothesis that explains how mortality caused by protists and viruses can promote bacterial diversity. However, the existence of such trade-offs has rarely been investigated in natural marine bacterial communities. To address this question, we conducted on-board dilution experiments to manipulate top-down control pressure (protists only or protists plus viruses [protists+viruses] combined) and then applied 16S rRNA gene high-throughput sequencing techniques to assess the responses of each bacterial taxon.

Anticipating the occurrence and type of critical transitions.

Critical transition can occur in many real-world systems. The ability to forecast the occurrence of transition is of major interest in a range of contexts. Various early warning signals (EWSs) have been developed to anticipate the coming critical transition or distinguish types of transition.

Deterministic Assembly Processes Strengthen the Effects of β-Diversity on Community Biomass of Marine Bacterioplankton.

The presence of more species in the community of a sampling site (α diversity) typically increases ecosystem functions via nonrandom processes like resource partitioning. When considering multiple communities, we hypothesize that higher compositional difference (β diversity) increases overall functions of these communities. Further, we hypothesize that the β diversity effect is more positive when β diversity is increased by nonrandom assembly processes.

Plankton Community Respiration and Particulate Organic Carbon in the Kuroshio East of Taiwan.

Biological organic carbon production and consumption play a fundamental role in the understanding of organic carbon cycling in oceans. However, studies on them in the Kuroshio, the western boundary current in the North Pacific Ocean, are scarce. To better understand the variations of plankton community respiration (CR) and particulate organic carbon (POC), eight cruises.

Allometric scaling of interspecific RNA transcript abundance to extend the use of metatranscriptomics in characterizing complex communities.

Metatranscriptomics allows profiling of community mRNA and rRNA transcript abundance under certain environmental conditions. However, variations in the proportion of RNA transcripts across different community size structures remain less explained, thus limiting the possible applications of metatranscriptomics in community studies. Here, we extended the assumptions of the growth-rate hypothesis (GRH) and the metabolic theory of ecology (MTE) to validate the allometric scaling of interspecific RNA transcript (mRNA and rRNA) abundance through metatranscriptomic analysis of mock communities consisting of model organisms.

Causal networks of phytoplankton diversity and biomass are modulated by environmental context.

Untangling causal links and feedbacks among biodiversity, ecosystem functioning, and environmental factors is challenging due to their complex and context-dependent interactions (e.g., a nutrient-dependent relationship between diversity and biomass).

Reconstructing large interaction networks from empirical time series data.

Reconstructing interactions from observational data is a critical need for investigating natural biological networks, wherein network dimensionality is usually high. However, these pose a challenge to existing methods that can quantify only small interaction networks. Here, we proposed a novel approach to reconstruct high-dimensional interaction Jacobian networks using empirical time series without specific model assumptions.

Using metatranscriptomics to estimate the diversity and composition of zooplankton communities.

DNA metabarcoding is a rapid, high-resolution tool used for biomonitoring complex zooplankton communities. However, diversity estimates derived with this approach can be biased by the co-detection of sequences from environmental DNA (eDNA), nuclear-encoded mitochondrial (NUMT) pseudogene contamination, and taxon-specific PCR primer affinity differences. To avoid these methodological uncertainties, we tested the use of metatranscriptomics as an alternative approach for characterizing zooplankton communities.

Age-specific habitat preference, carrying capacity, and landscape structure determine the response of population spatial variability to fishing-driven age truncation.

Understanding the mechanisms underlying spatial variability of exploited fish is critical for the sustainable management of fish stocks. Empirical studies suggest that size-selective fishing can elevate fish population spatial variability (i.e.

Change in rheotactic behavior patterns of dinoflagellates in response to different microfluidic environments.

Plankton live in dynamic fluid environments. Their ability to change in response to different hydrodynamic cues is critical to their energy allocation and resource uptake. This study used a microfluidic device to evaluate the rheotactic behaviors of a model dinoflagellate species, Karlodinium veneficum, in different flow conditions.

Importance of prey size on investigating prey availability of larval fishes.

Prey availability plays an important role in determining larval fish survival. Numerous studies have found close relationships between the density of mesozooplankton and larval fishes; however, emerging studies suggest that small-size zooplankton are more important prey for some larval fish species. One arising question is whether the size of zooplankton determines the relationship between zooplankton and larval fish community in natural environments.