Plankton Community Research Articles

Transformation of Planktonic Assemblages in a Severely Stressed Cooling Reservoir

The results of long-term studies in the cooling reservoir of the Kharanorskaya SDPP (Transbaikalia) are presented, conventionally divided into four periods depending on the increase in power plant capacity. The stages of phyto- and zooplankton development determined by the influence of technogenic and biotic factors are determined. The response of plankton communities to changes in heat load is shown. Periods of intensive vegetation of algae and mass development of invertebrates alternate with a significant decline in the number and biomass of hydrobionts, which indicates an unstable state of the forming cooling pond technoecosystem.

Insights into the plankton community seasonal variations in a finer scale of the Bohai Sea: biodiversity, trophic linkage, and biotic-abiotic interplay

Plankton play an indispensable role in the biogeochemical processes of marine ecosystem. However, unraveling the intricate interactions among biodiversity, trophic linkages, and biotic-abiotic interplay between phytoplankton-zooplankton remains a significant challenge. Here, we conducted field studies in the neritic area of the Bohai Sea during autumn 2023 and spring 2024 to explore seasonal variations of both phytoplankton and zooplankton through microscope. Our analysis revealed a sharp decline in trophic interactions across phytoplankton and zooplankton, with an abundance ratio in autumn 2023 being 5.5 times higher than in spring 2024. Additionally, dominant plankton species (Y ≥ 0.02) exhibited obvious differences between the two seasons, with higher species diversity observed in autumn. Moreover, each dominant zooplankton species had distinct preferred food items in both seasons, with Rhizosolenia setigera being favored by Noctiluca scintillans and Acartia pacifica. Furthermore, a multivariate biota-environment analysis indicated that each dominant plankton species had unique correlation with specific environmental parameters, highlighting how plankton can fully exploit external environmental conditions to survive in seasonal variations. Ultimately, our findings emphasize significant seasonal dynamics and provide a solid foundation for assessing the potential impacts of environmental changes on plankton in coastal marine realm.

Unveiling interactions mediated by B vitamins between diatoms and their associated bacteria from cocultures.

Unveiling the interactions among phytoplankton and bacteria at the level of species requires axenic isolates to experimentally demonstrate their mutual effects. In this study, we describe the interactions among the diatoms Pseudo-nitzschia granii and Chaetoceros tenuissimus and their associated bacterial species, isolated from surface water of a coastal upwelling system using coculture experiments. Microalgae growth was assessed in axenic monocultures or in coculture with each of their co-isolated bacteria in the presence or absence of B vitamins. Pseudo-nitzschia granii growth was limited by B-vitamin supply, except when cultured with the bacteria Jannaschia cystaugens, which seemed to provide adequate levels of B vitamins to the diatom. Chaetoceros tenuissimus growth was reduced in the absence of B vitamins. Moreover, the growth of C. tenuissimus was stimulated by Alteromonas sp. and Celeribacter baekdonensis during the exponential growth. These results show a diversity of specific interactions between the diatoms and co-isolated bacteria, ranging from allelopathy to commensalism. Understanding how interactions between phytoplankton and bacteria modulate the structure and function of marine microbial plankton communities will contribute to a greater knowledge of plankton ecology and improve our ability to predict nutrient fluxes in marine ecosystems or the formation of blooms in a context of global change.

Biological invasions into planktonic and bottom communities of the Kaliningrad (Vistula) Lagoon of the Baltic Sea and their impact on the food supply and fish catches

Biological invasions into planktonic and bottom communities of the Kaliningrad (Vistula) Lagoon of the Baltic Sea and their impact on the food supply and fish catches

The effect of urbanization on planktonic and biofilm bacterial communities in different water bodies of the Danube River in Hungary

Freshwaters play an essential role in providing ecosystem services worldwide, however, the water quality of different water bodies is strongly influenced by human activities such as urbanization, industry and agriculture. In this study, water and biofilm samples were collected from the main channel of the Danube River upstream and downstream of a metropolitan, from a regulated side arm within an urbanized area, and from two differently separated oxbow lakes located in nature conservation areas. The taxonomic diversity of bacterial communities was revealed by 16S rRNA gene-based amplicon sequencing using Illumina MiSeq platform. The results showed that all samples were dominated by phyla Pseudomonadota, Actinobacteriota and Bacteroidota. The bacterial community structures, however, clearly differentiated according to planktonic and epilithic or epiphytic habitats, as well as by riverine body types (main channel, side arm, oxbow lakes). The taxonomic diversity of biofilm communities was higher than that of planktonic ones in all studied habitats. Human impacts were mainly reflected in the slowly changing biofilm composition compared to the planktonic ones. Genera with pollution tolerance and/or degradation potential, such as Acinetobacter, Pseudomonas and Shewanella were mainly detected in biofilm communities of the highly urbanized section of the river side arm.

Nitrogen fixation in the North Atlantic supported by Gulf Stream eddy-borne diazotrophs

Mesoscale oceanic eddies contribute to the redistribution of resources needed for plankton to thrive. However, due to their fluid-trapping capacity, they can also isolate plankton communities, subjecting them to rapidly changing environmental conditions. Diazotrophs, which fix dinitrogen (N2), are key members of the plankton community, providing reactive nitrogen, particularly in large nutrient-depleted regions such as subtropical gyres. However, there is still limited knowledge about how mesoscale structures characterized by specific local environmental conditions can affect the distribution and metabolic response of diazotrophs when compared with the large-scale dynamics of an oceanic region. Here we investigated genetic diazotroph diversity and N2 fixation rates in a transect across the Gulf Stream and two associated eddies, a region with intense mesoscale activity known for its important role in nutrient transport into the North Atlantic Gyre. We show that eddy edges are hotspots for diazotroph activity with potential community connectivity between eddies. Using a long-term mesoscale eddy database, we quantified N2 fixation rates as up to 17 times higher within eddies than in ambient waters, overall providing ~21 µmol N m−2 yr−1 to the region. Our results indicate that mesoscale eddies are hotspots of reactive nitrogen production within the broader marine nitrogen cycle.

Response of the Cyanobacteria Plankton Community to Anthropogenic Impact in Small Lakes of Urbanized Territory in the Permafrost Zone of Northeast Asia (Eastern Siberia, Yakutia)

In the conditions of growing anthropogenic pressure, aquatic ecosystems all over the world are subject to transformation, expressed in the growth of eutrophication, increase in acidity, changes in water exchange, etc. In the region of Eastern Siberia we studied, located in Yakutia in the middle reaches of the Lena River basin, there is a significant population growth accompanied by advancements in agriculture and public utilities. The region is rich in small lakes, which have been under pressure from human activities for the past few decades. The studied region is located in the permafrost zone and is characterized by severe climatic conditions, cold long winters, short hot summers, and a short ice-free period on reservoirs. We studied 17 lakes of various genesis, with varying degrees of anthropogenic pressure, located in the largest city of the region, small villages, and at different distances from them. Previous studies have established that cyanobacteria constitute the phytoplankton main group in these lakes during the summer period. Therefore, we selected them as the focus for our bioindication analysis. An integrated assessment of the bioindication properties of cyanobacteria, along with chemical water parameters, was undertaken using statistical mapping methods, JASP, and Redundancy Analysis (RDA). This analysis revealed the impact of urbanized areas, characterized by a decrease in pH, runoff of nitrogen compounds, and an increase in organic matter. Despite the cryolithozone harsh conditions, in small lakes of urbanized areas, cyanobacteria exhibit their competitive advantages within the plankton community. The prospect of continuing our work is associated with the need to determine the risk of cyanoHAB development since potentially toxic cyanobacteria have a mass development in a number of lakes.

How a constructed wetland within a natural park enhances plankton communities after more than 10 years of operation: Changes over space and time

Constructed wetlands are increasingly used as a solution to treat polluted water in natural environments. Located in the Albufera de València Natural Park, a constructed wetland was built in 2009 as a pilot project to act as an intermediary between low-quality waters and the largest protected coastal lagoon in the Iberian Peninsula. With a unique dataset spanning more than a decade (2009–2023), this study assessed changes in plankton communities both spatially (comparing six sampling sites) and temporally (comparing four periods of years). The results show how the constructed wetland, after nearly 15 years of operation, has not only maintained but also improved its capacity to enhance the biological quality of the water which is released into the protected lagoon, thus fulfilling one of the main aims of its construction. During the last period (2020–2023) of the time series, the constructed wetland outlets had significantly higher zooplankton biomass, particularly filter-feeding cladocerans, compared to the inlets. This clear improvement in the plankton community was due to management interventions (e.g., drying sectors of the constructed wetland during the summers since 2019) and the rise in temperature. These circumstances promoted earlier hatching of cladoceran diapause eggs from the sediments compared to previous years, maintaining their presence throughout all seasons. Consequently, the outlets of the constructed wetland had significantly lower phytoplankton abundance and sestonic chlorophyll-a concentrations than in the past, nearly oligotrophic states, and a reduced biovolume of potentially toxic cyanobacteria in the released waters.

Complementary roles of eDNA metabarcoding and microscopy in plankton monitoring across seven habitats

Abstract Plankton biodiversity in aquatic ecosystems is currently investigated by labor-intensive and time-consuming microscope identification. Environmental DNA (eDNA) metabarcoding is emerging as a highly effective and objective tool for assessing biodiversity. In this study, we compared the effectiveness of eDNA metabarcoding with conventional microscope identification for monitoring plankton biodiversity in seven habitats. The eDNA metabarcoding identified a rich diversity of 190 families, 410 genera and 871 species within the planktonic community across seven habitats. In contrast, traditional microscope identification only identified 51 families, 75 genera and 96 species. In addition, primer choice influenced the detected plankton community diversity, with the V4 primers performing poorly for detecting Cladocera and Euglenophyta taxa and the V9 primers revealing more eukaryotic plankton species. Despite primer-specific differences in species detection, there was substantial overlap between the species detected by eDNA metabarcoding strategies and microscope identification. These results suggest that eDNA metabarcoding can be used as a complementary method alongside microscope identification rather than replacing them entirely.

Early warning indicators of decadal shifts in the planktonic assemblage of the Cabo Frio upwelling ecosystem

Long-term monitoring of coupled environmental and biological components in upwelling ecosystems is critical for early warning under the global warming context. Temperature, salinity, nutrients, and plankton populations are promising indicators of the ecosystem state that help us to address the current status of the oceans and construct better predictions for the future. The Cabo Frio Upwelling System (CFUS) is a regionally productive wind-driven coastal upwelling ecosystem on the northern boundary of the South Brazilian Shelf sustaining diverse marine life including large stocks of fish and squid. Like other cold marine ecosystems, most of its functioning is likely threatened by ocean warming which emphasizes the need for ecological indicators. This study aimed to analyze the causal relationships between the temporal changes in the physical and chemical properties and the dominant planktonic communities leveraging long-term observations (20 years). The results suggested a link between the temporal changes in the ecosystem conditions and the composition of the plankton assemblage, notably an increasing proportion of dinoflagellates relative to diatoms and cladocerans relative to copepods. This increase in the proportional abundance of dinoflagellates and cladocerans over time suggests a regime shift in the plankton assemblages during the 2000s, highlighting some large phytoplankton and zooplankton groups as early indicators of productivity shifts in upwelling ecosystems.

Зообентос и зоопланктон малых рек бассейна реки Кобры (национальный парк «Койгородский»)

The studies were carried out on two small rivers – tributaries of the Kobra River (the Volga River basin), located on the territory of Koygorodsky National Park. The structure, quantitative development of zoobenthos and fauna of benthic invertebrates were studied. Hydrobiological sampling was carried out in June – July 2021. Standard methods were used for sampling. 87 species and taxa of a higher rank of invertebrates were found in the benthic fauna. The most diverse were caddisflies (21), mayflies (21), stoneflies (13) and oligochaetes (12 species). Quantitative development of the zoobenthos of the Kobra River basin is comparable to the average for the rivers of the Vyatka River basin as a whole and was 19 thous. ind./m2 and 74.6 g/m2 in the Suran River, and 14.1 thous. ind./m2 and 19.2 g/m2 in the Mytets River. The chironomids played a leading role in benthic invertebrate communities, and accounted for an average of 26.3–33.4% of the total zoobenthos abundance. Mayfly larvae and leeches dominated in the Suran River by biomass, as well as molluscs and caddisflies – in the Mytets River. The maximum quantitative characteristics were noted on the reaches of both rivers. The development of benthos was much poorer on the riffles. Three rare species from the orders of mayflies, stoneflies and dragonflies were identified. Zooplankton in the small tributaries of the Kobra River was studied using standard methods: in the Suran River on the early June and in the Mytets River – on the end of the July 2021. Plankton fauna was represented by 28 taxa, rotifers and copepods prevailed. Plankton species diversity, abundance and biomass were lower in the Suran River (the beginning of the vegetation season), which indicated the processes of zooplankton formation. The above indicators were higher in the middle of the summer season in the Mytets River, and indicated the stability of plankton communities. The presented data significantly expand the understanding of the biodiversity of aquatic ecosystems in the southern taiga zone.

Identification of plankton habitats in the North Sea.

The definition of an ecological niche makes it possible to anticipate the responses of a species to changing environmental conditions. Broad tolerance limits and a paucity of readily observable niches in the pelagic zone make it difficult to anticipate responses of the plankton community related to anthropogenic or environmental changes. Plankton distributions are closely linked to climate change and shape the seascape for higher trophic levels, so monitoring plankton distributions and defining ecological niches will help to understand and predict ecosystem responses. Here we apply a machine learning autoencoder and a density-based clustering algorithm to high-frequency datasets sampled with a ROTV Triaxus in the North Sea. The results indicate that in this highly dynamic environment, local hydrography prevents niche-based separation of plankton species at the sub-mesoscale, despite the availability of different habitats. Plankton patches were associated with naturally occurring frontal systems and anthropogenically induced upwelling-downwelling dipoles in the vicinity of offshore wind farms (OWFs).

Structure of Plankton and Bentos Communities in Bahorok River in Bahorok District, Langkat Regency, North Sumatra

This study analyzed the diversity and abundance of plankton and benthos in the Bahorok River, Bukit Lawang, Langkat Regency, North Sumatra Province. This study was conducted on May 25, 2024. Sampling was done by collecting filtered water using a plankton net and substrate using a surber net to collect benthos from two points in the river. Identification of plankton and benthos using a microscope and laboratory analysis for physicochemical parameters. The value of plankton diversity in the Bahorok River was indexed well with a value of 3.01 as well as good evenness with a value of 0.95 however, benthos diversity was indexed low with a value of 0.68 and evenness was indexed moderate with a value of 0.62. The highest type of plankton is Raphidiopsis raciborskii. The highest type of benthos is Progomphus sp.

Differences in seasonal dynamics, ecological driving factors and assembly mechanisms of planktonic and periphytic algae in the highly urban Fenhe River

BackgroundAlgae play important roles in urban river ecosystems and are the cornerstones of most water quality monitoring programs. Thus, a better understanding of algal community dynamics is needed to support sustainable management of water resources in urban rivers.ResultsIn this study, we quantified the seasonal variations in planktonic and periphytic algal community structure in the highly urban Fenhe River and identified environmental factors affecting algal community structure and diversity. We monitored planktonic (drifting) and periphytic (attached) algal communities in the Taiyuan section of the Fenhe River over one year. The results indicated that Cyanophyta was the dominant phylum in both communities, followed by Bacillariophyta and Chlorophyta. Significant differences were observed in the composition of the planktonic and periphytic algal communities. In particular, the periphytic algal community was more diverse than the planktonic community. Water temperature and pH were the main environmental factors affecting planktonic and periphytic algal community structure, respectively, while nutrients were the most significant factor affecting planktonic and periphytic algal diversity. Ecological modeling indicated that the variations in the algal communities of the Fenhe River are mainly driven by stochastic processes. A co-occurrence network developed for the communities displayed positive interactions between the planktonic and periphytic algae.ConclusionsThese findings deepen our understanding of the seasonal interaction between planktonic and periphytic algae and the driving factors affecting community structure in the Fenhe River. They also provide a theoretical basis for the managing and protecting water resources in urban river ecosystems.

Comparison of water quality, planktonic community, and volatile organic compounds in the seawater from five cage culture areas of large yellow croaker

The rapid development of marine fish cage farming has led to ecological damage, adversely affecting fish quality. Significant regional quality differences in large yellow croaker under similar farming conditions suggest that the water environment plays a crucial role in fish quality. Using full-length18s/16 s rRNA sequencing with bacterial absolute quantity and headspace solid-phase microextraction coupled with gas chromatography mass spectrometry (HS-SPME-GC–MS), we investigated the planktonic community and volatile organic compounds (VOCs) in seawater from cages housing large yellow croaker at five major mariculture sites in China, including ND (26.627°E, 119.638°N), NJ (27.479°E, 121.052°N), DT (27.981°E, 121.196°N), NC (28.470°E, 121.907°N), and DJ (30.198°E, 122.698°N). Notably, three dominant ciliates, Mesodinium rubrum, Strombidium sp., and Pseudotontonia simplicidens, were identified in NJ as bioindicators for water quality. Additionally, NJ cages had the highest bacterial biomass with 54 % Synechococcus CC9902, and the lowest abundance of bacteria with pathogenic activities. These may explain NJ's optimal water quality parameters and the highest eukaryotic biodiversity. In contrast, DT and DC contained only the core ciliate M. rubrum, with no dominant ciliate in ND. Styela gibbsii, a filter feeder, predominated in ND cages, adhering to the net. The occurrence of red tide-causing species and pathogenic bacteria or fungi was notable in DJ, DC, DT, and ND, including Akashiwo sanguinea, an unclassified Dinophyceae, Gyrodinium fusiforme, Pirum gemmate, Candida parapsilosis, Hortaea werneckii, and Pseudomonas juntendi. Bacterial functional analysis showed that ND cages harbored unique strains linked to ureolysis and various pathogenic activities. Co-association networks suggested that 2,4-Di-tert-butylphenol and pentadecane might play roles in communication within plankton communities. A rise in pleasant VOCs such as acetyl valeryl, pentadecane, butyl butyrate, tetradecane, and 5-butyldihydro-2(3H)-furanone was observed in DJ, DC, DT, and NJ, compared to ND. The results provide valuable insights for improving aquaculture practices and mitigating environmental impacts. The results provide valuable bioindicators for monitoring water quality using microbial communities and VOC profiles.

Sardines in hot water: Unravelling plastic fibre ingestion and feeding behaviour effects

Small pelagics are small fish species often schooling that mainly feed on planktonic organisms and are foraging species of larger animals. These species have experienced important declines in their wild populations during the last decades. For instance, the decrease of the European sardine (Sardina pilchardus) body condition has had a detrimental impact on its landings, leaving their commercial fishing unprofitable in some Mediterranean areas. The causes for this decline are not clearly established but seems to be mainly related to changes with planktonic communities inducing a switch in their foraging behaviour from particulate-feeding to filter-feeding. Moreover, it has been highlighted that sardines ingest plastic fibres throughout their natural spatial distribution, suggesting this additional pollution as a possible new threat affecting their populations’ health. In this study we developped an experimental setup allowing us to maintain wild fish in captive controlled conditions in order to test the possible factors affecting plastic fibres ingestion in sardines. We demonstrate that sardines ingest fibres from water, and the amount of fibres ingested is highly impacted by their feeding behaviour. Sardines feeding by filtration ingest less food but more plastic fibres (mean = 4.95 fibres/ind; SD = 3.43), compared to sardines that feed by particulate-feeding (mean = 0.6 fibres/ind; SD = 1.04). Moreover, a decrease in sardine body condition factor was detected for filter-feeding individuals, mostly linked to the lower amount of food they ingested rather than to the fibre ingestion itself. Nonetheless, higher water temperature seems to accelerate the pattern of fibre expulsion in filter-feeding sardines. Alltogether, it is suggested that plastic fibres pollution and phytoplanctonic changes under global change, might synergistically act at disturbing the health of this species in wild populations.

Community organization and network complexity and stability: contrasting strategies of prokaryotic versus eukaryotic microbiomes in the Bohai Sea and Yellow Sea.

Unraveling the effects of spatial gradients on microbiome assembly and association is a challenging topic that remains understudied in the coastal ecosystem. Here, we aimed to investigate the effects of spatial variation on the network complexity and stability of plankton microbiomes in the Bohai Sea and Yellow Sea. These seas serve as spawning and nursery grounds for economically important fisheries valued at billions of dollars annually. Environmental heterogeneity structures microbial communities into distinct spatial patterns, leading to complex direct/indirect relationships and broader ecological niches of bacterioplankton compared to microeukaryotic communities. Interestingly, salinity gradients positively influenced the richness of rare subgroups of bacterioplankton, while the rare microeukaryotic subgroups showed an opposite trend. Abundant subgroups of prokaryotic/eukaryotic microbiomes exhibited greater environmental niche breadth and lower phylogenetic distance compared to the rare subgroups. Stochastic processes contributed greatly to microbiome dynamics, and deterministic processes governed the bacterioplankton organization with a lower phylogenetic turnover rate. Compared to microeukaryotes, bacterioplankton exhibit higher network modularity, complexity, and robustness and lower fragmentation, and vulnerability. These observations offer vital insights into the anti-interference ability and resistance of plankton microbiomes in response to environmental gradients in terms of organization and survival strategy as well as their adaptability to environmental disturbances.IMPORTANCEAn in-depth understanding of community organization and stability of coastal microbiomes is crucial to determining the sustainability of marine ecosystems, such as the Bohai Sea and Yellow Sea. Distinct responses between prokaryotic and eukaryotic microbiomes to spatial heterogeneity were observed in terms of geographical distribution, phylogenetic distance, niche breadth, and community assembly process. Environmental variations are significantly correlated with the dynamics of rare eukaryotic plankton subcommunities compared to prokaryotic plankton subcommunities. Deterministic processes shaped prokaryotic plankton community organization with a lower phylogenic turnover rate. Rare subgroups had noticeably higher phylogenetic distance and lower niche breadth than the corresponding abundant subgroups. Prokaryotic microbiomes had higher molecular network complexity and stability compared to microeukaryotes. Results presented here show how environmental gradients alter both the geographical characteristics of the microbial organization in coastal seas and also their co-occurrence network complexity and stability and thus have critical implications for nutrient and energy cycling.

Mechanisms regulating trophic transfer in the Humboldt Upwelling System differ across time scales

Abstract The Humboldt Upwelling System hosts a highly productive ecosystem with central importance for global fisheries, yet with strong seasonal and interannual variability in the planktonic base of the food chain ultimately affecting fish yield. Understanding the variability in energy transfer within the plankton community in the contemporary climate can provide valuable insights for future projections of planktonic dynamics. Therefore, we use a regional physical-biogeochemical ocean model simulation (CROCO-BioEBUS) from 1990 to 2010 to investigate the underlying mechanisms of seasonal and interannual variability of the trophic transfer. Our model simulations suggest that, on an interannual scale, variations in trophic transfer are governed by variations in the offshore surface flow that modulate the plankton cross-shore distribution. Weak offshore surface flow, as simulated during the El Niño period, allows the zooplankton to stay relatively close to the shore, leading to more efficient grazing and trophic transfer compared to years with strong offshore flow. This mechanism differs from the seasonal one, where the mixed layer depth is the primary driver of variations in plankton dynamics, including trophic transfer. Our results highlight that mechanisms controlling plankton trophic transfer differ across time scales, and thus stress that extrapolating solely from seasonal findings to understand long-term trophic transfer changes in the context of climate change may be insufficient.

Status of planktonic community in the Kanewal Community reservoir in central Gujarat, India

A two-years study (March 2021 to February 2023) was carried out at the Kanewal Community Reservoir, an important water storage reservoir in central Gujarat, to assess the diversity and seasonal variation of the planktonic community. During the study period, a total of 60 phytoplankton species were recorded, belonging to 9 classes, 25 orders and 39 families. Class-wise percentage composition of phytoplankton showed a diverse array during the study period. The species gradient of phytoplankton was as follows: Bacillariophyceae (20) > Zygnematophyceae (14) > Cyanophyceae (10) > Chlorophyceae (9) > Euglenophyceae (2) > Trebouxiophyceae (2) > Dinophyceae (1) > Klebsormidiophyceae (1) > Ulvophyceae (1). Thirty (30) different zooplankton species were recorded during this study, belonging to 11 classes, 14 orders and 19 families. The number of abundant species remained constant throughout the study period. The recorded number of common zooplanktonic species also remained steady (14). However, the number of rare species slightly increased to two (2), which indicates a slight increase in the occurrence of less prevalent species. The highest density of zooplankton was observed during the summer, and the lowest in the monsoon season. Overall, it was found that KCR (Kanewal Community Reservoir) contains a higher number of phytoplankton species (60) compared to zooplankton (30), which could be a consequence of the voluminous hydrological regime with abundant occurrence of macrophyte elements.

PSVI-6 Genomic determinants of the rumen microbiome and metabolome in Angus steers

Abstract The rumen microbiome provides approximately 70% of energy required for the ruminant host through fermentation byproducts. Due to microbial impacts on host health and productivity, several studies have associated microbiome and metabolome variation with important sustainability phenotypes, such as feed efficiency and methane emissions. Recent studies have indicated the microbial communities present in rumen fluid are under low-to-moderate host genetic control. However, microorganisms present on the rumen wall have been underrepresented in research, negating their unique role in host-microbiome interactions. Current studies investigating heritability of the rumen planktonic microorganisms are plagued by small sample sizes, high management and breed heterogeneity, and low resolution for classifying microbial communities. To determine the heritability of the rumen fluid and epithelium-associated microbiome and metabolome, Angus steers (n = 350) were enrolled in a 70-d feed efficiency trial, where real-time dry matter intake was measured. Body weights were collected throughout the trial to calculate average daily gain and residual feed intake. Mid-trial, a novel surgery method was used to swab the rumen wall to capture epithelium-associated microorganisms. On d 70, 50 mL of rumen fluid was obtained from steers using orogastric tubing for collection of planktonic microbial communities. Metagenomic DNA extracted from both rumen fluid and epimural samples was used for reduced representation sequencing to predict microbial features such as diversity, composition, and putative function. Genomic DNA isolated from whole blood was used to perform low-pass whole genome sequencing for use in downstream heritability estimates and variant association analyses. Many core microbial abundances are under low-to-moderate host genetic control (h2 > 0.15; P < 0.05); however, many microorganisms had low heritability estimates (h2 < 0.10). Preliminary genome-wide associations studies are vastly underpowered to detect host genetic variants associated with microbial features, but data generated using the total number of animals will better refine these polymorphisms. Several key heritable metabolites were identified in amino acid metabolism pathways in rumen fluid (P < 0.05). The rumen microbiome appears to act as a complex polygenic trait and incorporating microbial features into prediction models may improve feed efficiency estimations. Understanding host genetic control of the rumen microbiome and metabolome may empower downstream applications to enhance genomic and phenotypic predictions for feed efficiency and other sustainability traits in beef cattle.