Abundance of picophytoplankton in the halocline of a meromictic lake, Lake Suigetsu, Japan

Numerous (0.5 to 4.8 × 10⁵ cells/ml), small phytoplankton (smaller than 0.5–1 × 1–2 μm in cell size, picophytoplankton) were distributed in the halocline (depth 2–12 m, 4–14 practical salinity units) of the saline meromictic lake, Lake Suigetsu (35°35′ N, 135°52′ E), located in the central part of the coast of Wakasa Bay along the Japan Sea in Fukui Prefecture, Japan. Vertical distribution of phytoplankton revealed that the maximum number of picophytoplankton was always observed near or a little deeper than the oxic-anoxic boundary layer (depth 5–6 m); they were dominant phytoplankton in the water layer deeper than the oxic-anoxic boundary from July to late September 2005. Spectral analysis of autofluorescence emitted from the particle fractions smaller than 5 μm measured with a spectrofluorometer and from individual cells measured with a microscope photodiode array detector revealed that the major component of picophytoplankton was phycoerythrin-rich, unicellular cyanobacteria (picocyanobacteria). Eukaryotic phytoplankton about 2.5 μm in diameter were also found, but the numbers were low. Fluorescence intensity of chlorophyll a at 685 nm (room temperature) emitted from the particle fractions smaller than 5 μm was increased by the addition of 3-(3,4-dichlorophenyl)-1,1-dimethylurea. These observations indicated that at least some picophytoplankton had a functional photosystem II in the halocline where sulfide, the potential inhibitor of oxygenic photosynthesis, was always present. The large abundance together with their physiological potency suggest that picophytoplankton are one of the important primary producers in the halocline of Lake Suigetsu. Electronic Supplementary Material Supplementary material is available for this article at and is accessible for authorized users.     

Dissimilatory microbial sulfur and methane metabolism in the water column of a shallow meromictic lake

Lake Harutori is a brackish meromictic lake with a steep physicochemical gradient in shallow water. Anoxic water below the chemocline has been characterized by high concentrations of sulfide (>10 mM) and methane (>1.5 mM). Previously, we reported that uncultured bacteria in the SEEP-SRB1 group were major sulfate reducers in the lake [21], but knowledge of sulfur oxidation and methane metabolism was scarce. In this current study, the Lake Harutori microbial community structure in the mixolimnion (at depths of 1.5 m and 3.0 m), upper chemocline (3.5 m), and monimolimnion (4.5 m) was further investigated by 16S rRNA gene amplicon sequencing and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH). Reads of type I and II methanotrophs were retrieved mainly from 3.5 m and above. Methanotrophic bacteria detected by CARD-FISH accounted for 3.1% of DAPI-stained cells at 3.5 m. Detection frequencies of reads affiliated with the genera Sulfurimonas and Thiomicrorhabdus, which are known to comprise sulfur oxidizers, were relatively high at 3.5 m. Methanogenic archaeal reads were retrieved from the monimolimnion and they affiliated with the genus Methanosaeta. CARD-FISH counts indicated that the cells of Methanosaeta/Methanosarcina/Methanomicrobiales accounted for up to 0.8% of the DAPI-stained cells in the monimolimnion. On the other hand, many of the reads retrieved primarily from the monimolimnion were affiliated with phylogenetically novel uncultured groups.     

Phylogenetic diversity of archaea and bacteria in the anoxic zone of a meromictic lake (Lake Pavin, France)

The compositions of archaeal and bacterial populations at different depths (60 m [mixolimnion-chemocline interface], 70 m [chemocline-subchemocline interface], 90 m, and 92 m [the water-sediment interface]) in the anoxic zone of the water column in Lake Pavin, a freshwater permanently stratified mountain lake in France, were determined. Phylogenetic trees were constructed from sequences to assess archaeal and bacterial diversity at the four sites.     

Species succession and the development of a lacustrine fish community in an ephemeral lake

Here, we present a gillnet survey of Lake Liambezi a 370 km² shallow ephemeral floodplain lake situated in north-eastern Namibia, which is fed irregularly by the upper Zambezi and Kwando Rivers during years of high flooding. The lake dried up in 1985 and, with the exception of sporadic minor annual inundation events, remained dry until 2007. We describe the temporal succession of fish species over an 8 year period from initial inundation 2007 to maturation in 2014. The succession of the fish community did not follow the typical pattern of opportunistic strategists during colonisation, to periodic strategists that are eventually succeeded by equilibrium strategists. Instead, the evolution of the fish community was characterised by three distinct phases. The first phase involved the inundation and colonisation of the lake in 2007, followed by its decline until the floods that filled the lake in 2009. During this phase the lake was colonised by fishes from the adjacent upper Zambezi and Chobe River floodplains. Fish communities predominantly comprised floodplain specialists including the barbs Enteromius paludinosus and Enteromius poechii, the mormyrid Marcusenius altisambesi and catfishes Schilbe intermedius and Clarias gariepinus. The filling of the lake in the March 2009 floods marked the beginning of the second, successional phase. The barbs declined in abundance and the alestid Rhabdalestes maunensis underwent explosive population growth between 2009 and 2010, but populations crashed equally rapidly and were replaced by Brycinus lateralis which, together with S. intermedius went on to dominate the fish community 2011–2014. Larger, slower growing tilapiine cichlids increased steadily in abundance and became the dominant components in a 2700 t y^–1 artisanal fishery that developed on the lake. The fish community in the ephemeral Lake Liambezi is clearly influenced by numerous factors including connectivity, lake level fluctuations, competition and the effects of fishing, which may disrupt typical succession processes in floodplain ecosystems.     

Paleoecological reconstruction of changes in the productivity of a small,meromictic lake in Southern Ontario,Canada

Some aspects of the paleoproductivity of meromictic Crawford Lake, near Toronto, are inferred from a study of its sedimentary pigments, and diatoms. Several stages of lake development are observed over the 35 cm-deep sediment core removed from the center of Crawford Lake. Evidence of changes in lake productivity during the last 300 years was reflected by significant stratigraphic sediment pigment changes which were associated with European settlement in the Crawford Lake watershed and recent alterations associated with the area's operation by the Conservation Authority (1969 — present). One of the most important factors correlated with paleoproductivity was land clearance (mainly logging of white oak and pine). Deforestation during the last century is correlated with an increase in the amount of algal pigments deposited in the lake's sediments during the 1800's. During the last 10 years a striking increase in the accumulation of chlorophyll derivatives was observed. This is correlated with a dramatic increase in the number of visitors to the lake.Stratigraphic changes in the ratio of cyanobacterial to phototrophic bacterial pigment accumulation are used to infer changes which occurred during the shift from mesotrophy to eutrophy in Crawford Lake.     

大洋最小含氧带生物地球化学循环及微生物多样性研究进展

大洋的最小含氧带(oxygen minimum zones,OMZs)具有特殊的水动力和氧含量特征,该区域是氮流失的主要场所,也是各类生化反应发生的重要区域.OMZs的存在会对浮游生物的丰度、多样性、分布模式及呼吸方式产生较大影响.大洋OMZs中存在广泛的反硝化、厌氧氨氧化、甲烷厌氧氧化和隐性厌氧硫氧化作用等都是海洋物...     

Consequences of changes in thermal regime for plankton diversity and trait composition in a polymictic lake: a matter of temporal scale

1. Changes in plankton species diversity and community structure as a result of global warming are of growing concern in ecological studies, as these properties contribute substantially to key ecosystem processes. 2. We analysed the effect of short‐term temperature rise and changes in the thermal regime during summer on plankton diversity of the eutrophic and polymictic Müggelsee in Germany, from 26 years of summer records (1982–2007). We tested for changes in community properties, such as species richness, evenness and population size of phyto‐ and zooplankton, during alternating periods of thermal stratification and mixing, which were between 2 and 8 weeks long. Moreover, we tested for overall long‐term temporal trends in annual averages of the community properties during stratified and mixed events. 3. We found that the overall number of stratification events increased significantly across the study period. When the lake was stratified, consistently higher surface water temperatures and lower epilimnetic nutrient concentrations were found. As the length of thermal stratification increased, the phytoplankton shifted towards a higher proportion of buoyant cyanobacteria capable of N‐fixation (Aphanizomenon, Anabaena). Diatoms were at a disadvantage because of high temperature, exceeding their upper lethal limit and sedimentation losses. Zooplankton species with high thermal tolerances (i.e. Thermocyclops oithonoides, Thermocyclops crassus) and/or those that grow quickly at high temperatures (i.e. rotifers) became more common. 4. During periods of continuous mixing, the community remained largely unchanged, except for some minor increase in the biomass of diatoms. 5. While a noticeable shift towards N‐fixing cyanobacteria was observed with increasing length of stratified events, and rotifers and copepods became the main predators, there were minimal changes in diversity, except for an increase in cyclopoid copepods and a decrease in diatom diversity. As for cyanobacteria, the net short‐term effect on their diversity was neutral as a result of species replacements. In the long term, however, the diversity of cyanobacteria and cladocerans declined while that of rotifers increased. 6. Overall, our study presents a cautionary example of how we might fail to foresee the impact of climate‐induced changes on ecosystem processes if we restrict our studies to seasonal or yearly temporal scales, thus neglecting the impact of substantial changes operating at smaller temporal scales.     

Exploration of Ellsworth Subglacial Lake: a concept paper on the development, organisation and execution of an experiment to explore, measure and sample the environment of a West Antarctic subglacial lake

Antarctic subglacial lakes have, over the past few years, been hypothesised to house unique forms of life and hold detailed sedimentary records of past climate change. Testing this hypothesis requires in situ examinations. The direct measurement of subglacial lakes has been considered ever since the largest and best-known lake, named Lake Vostok, was identified as having a deep water-column. The Subglacial Antarctic Lake Environments (SALE) programme, set up by the Scientific Committee on Antarctic Research (SCAR) to oversee subglacial lakes research, state that prior exploration of smaller lakes would be a “prudent way forward”. Over 145 subglacial lakes are known to exist in Antarctica, but one lake in West Antarctica, officially named Ellsworth Subglacial Lake (referred to hereafter as Lake Ellsworth), stands out as a candidate for early exploration. A consortium of over 20 scientists from seven countries and 14 institutions has been assembled to plan the exploration of Lake Ellsworth. An eight-year programme is envisaged: 3 years for a geophysical survey, 2 years for equipment development and testing, 1 year for field planning and operation, and 2 years for sample analysis and data interpretation. The science experiment is simple in concept but complex in execution. Lake Ellsworth will be accessed using hot water drilling. Once lake access is achieved, a probe will be lowered down the borehole and into the lake. The probe will contain a series of instruments to measure biological, chemical and physical characteristics of the lake water and sediments, and will utilise a tether to the ice surface through which power, communication and data will be transmitted. The probe will pass through the water column to the lake floor. The probe will then be pulled up and out of the lake, measuring its environment continually as this is done. Once at the ice surface, any water samples collected will be taken from the probe for laboratory analysis (to take place over subsequent years). The duration of the science mission, from deployment of the probe to its retrieval, is likely to take between 24 and 36 h. Measurements to be taken by the probe will provide data about the following: depth, pressure, conductivity and temperature; pH levels; biomolecules (using life marker chips); anions (using a chemical analyzer); visualisation of the environment (using cameras and light sources); dissolved gases (using chromatography); and morphology of the lake floor and sediment structures (using sonar). After the probe has been retrieved, a sediment corer may be dropped into the lake to recover material from the lake floor. Finally, if time permits, a thermistor string may be left in the lake water to take time-dependent measurements of the lake’s water column over subsequent years. Given that the comprehensive geophysical survey of the lake will take place in two seasons during 2007–2009, a two-year instrument and logistic development phase from 2008 (after the lake’s bathymetry has been assessed) makes it possible that the exploration of Lake Ellsworth could take place at the beginning of the next decade.     

Nutrient metabolism (C,N, P,and Si) in the trophogenic zone of a meromictic lake

The dynamics of seston and dissolved elements in a meromictic lake with high concentrations of manganese and iron in the monimolimnion were studied through an annual cycle. This publication presents results for assimilation, sedimentation and recovery of nutrients (C, N, P, and Si) in the trophogenic zone. Phosphorus deficiency kept the productivity of the diatom dominated phytoplankton at an oligotrophic level. High concentrations of iron in influent streams and redistribution followed by precipitation of iron during periods of partial turnover removed phosphorus from the water. High concentrations of manganese and sulfate did not have the anticipated fertilizing effect, and recovery of nutrients from the depth of the lake was negligible. Mass balance calculations indicate that liberation of phosphorus from the sediments in the trophogenic zone was most important for the maintenance of primary production. 75% of carbon, 80% of nitrogen and 25% of phosphorus assimilated by the phytoplankton was mineralized in the trophogenic zone. Silica was effectively regenerated from the littoral zone during the decline of diatom blooms. Nitrogen and silica retention was 45% of the external load compared to 66% for phosphorus.Dept. of Limnology University of Oslo     

Vascular plant diversity and climate change in the alpine zone of the Snowy Mountains,Australia

This study examines vascular plant species richness along an altitudinal gradient in alpine Australia. Vascular plant composition and soil temperature records were obtained for five summits (from 1729 m to 2114 m a.s.l.) using sampling protocols from the Global Observation Research Initiative in Alpine Environments program. Species richness was examined against altitude, aspect and climatic variables at different spatial scales (10 × 10 cm quadrats, 1 m² quadrats, clusters of 4 * 1 m² quadrats, for the summit area above a line 5 m altitudinally below the summit (the −5 m isoline), for the extended summit down to the −10 m isoline). About 75 taxa (70 species, 5 graminoid genera) were recorded, 9 of which are endemic to the small alpine area of ∼100 km². There were significant linear relationships between species richness and altitude and climatic variables for the top to −5 isolines on the summits. However, there was no consistent pattern for species richness at other spatial scales, altitude, aspect or climatic variables. The proportion of species for the whole summits with localised distributions (local endemics) increased with altitude. Predicted increasing temperatures and reduced snowcover is likely to result in an increase in species richness as shrubs, herbs and introduced weeds become more common at higher altitude. Because Australian alpine areas occur in narrow altitudinal bands with no nival zone, there are no higher altitudinal refuges available for alpine species. Therefore many of these species are likely to be at risk of extinction from climate change.     

Seasonal changes in the chemistry and biology of a meromictic lake (Big Soda Lake,Nevada, U.S.A.)

Big Soda Lake is an alkaline, saline lake with a permanent chemocline at 34.5 m and a mixolimnion that undergoes seasonal changes in temperature structure. During the period of thermal stratification, from summer through fall, the epilimnion has low concentrations of dissolved inorganic nutrients (N, Si) and CH₄, and low biomass of phytoplankton (chlorophyll a ca. 1 mgm ^-3). Dissolved oxygen disappears near the compensation depth for algal photosynthesis (ca. 20 m). Surface water is transparent so that light is present in the anoxic hypolimnion, and a dense plate of purple sulfur photosynthetic bacteria (Ectothiorhodospira vacuolata) is present just below 20 m (Bchl a ca. 200 mgm^-3). Concentrations of N H₄ ⁺, Si, and CH₄ are higher in the hypolimnion than in the epilimnion. As the mixolimnion becomes isothermal in winter, oxygen is mixed down to 28 m. Nutrients (NH₄ ⁺, Si) and CH₄ are released from the hypolimnion and mix to the surface, and a diatom bloom develops in the upper 20 m (chlorophyll a > 40 mgm^-3). The deeper mixing of oxygen and enhanced light attenuation by phytoplankton uncouple the anoxic zone and photic zone, and the plate of photosynthetic bacteria disappears (Bchl a ca.10mgm^-3). Hence, seasonal changes in temperature distribution and mixing create conditions such that the primary producer community is alternately dominated by phytoplankton and photosynthetic bacteria: the phytoplankton may be nutrient-limited during periods of stratification and the photosynthetic bacteria are light-limited during periods of mixing.     

The effects of CO2 on sestonic stoichiometry and community structure of crustacean zooplankton in a eutrophic lake: Increased competitive ability of Bosmina

To explore the effects of CO₂ concentration on the sestonic stoichiometric values and the community structure of crustacean zooplankton in a eutrophic lake, in situ microcosm experiments were conducted at the Lake Taihu Ecosystem Station in spring and summer of 2012. The experimental treatments were three concentrations of CO₂, 270, 380 and 750 ppm, which represented preindustrial and present levels and the level predicted for the end of this century, respectively. The elevated atmospheric CO₂ concentration increased the sestonic C:P ratio, particularly in the spring when the C:P ratio was two-fold greater at the high level of CO₂ than at the low level of CO₂. As a result, the contribution of Bosmina to total crustacean zooplankton abundance increased, most likely because of the low phosphorus content and high adaptability to foods with large elemental ratio variation. The other dominant crustacean zooplankton genera, including Daphnia, Ceriodaphnia, Diaphanosoma and Sinocalanus, had no response to the change in pCO₂ during the microcosm experiments. The shift in crustacean zooplankton community structure between two seasons was primarily due to the transition of the phytoplankton community.     

Natural acidification changes the timing and rate of succession,alters community structure,and increases homogeneity in marine biofouling communities

Ocean acidification may have far‐reaching consequences for marine community and ecosystem dynamics, but its full impacts remain poorly understood due to the difficulty of manipulating pCO₂ at the ecosystem level to mimic realistic fluctuations that occur on a number of different timescales. It is especially unclear how quickly communities at various stages of development respond to intermediate‐scale pCO₂ change and, if high pCO₂ is relieved mid‐succession, whether past acidification effects persist, are reversed by alleviation of pCO₂ stress, or are worsened by departures from prior high pCO₂ conditions to which organisms had acclimatized. Here, we used reciprocal transplant experiments along a shallow water volcanic pCO₂ gradient to assess the importance of the timing and duration of high pCO₂ exposure (i.e., discrete events at different stages of successional development vs. continuous exposure) on patterns of colonization and succession in a benthic fouling community. We show that succession at the acidified site was initially delayed (less community change by 8 weeks) but then caught up over the next 4 weeks. These changes in succession led to homogenization of communities maintained in or transplanted to acidified conditions, and altered community structure in ways that reflected both short‐ and longer‐term acidification history. These community shifts are likely a result of interspecific variability in response to increased pCO₂ and changes in species interactions. High pCO₂ altered biofilm development, allowing serpulids to do best at the acidified site by the end of the experiment, although early (pretransplant) negative effects of pCO₂ on recruitment of these worms were still detectable. The ascidians Diplosoma sp. and Botryllus sp. settled later and were more tolerant to acidification. Overall, transient and persistent acidification‐driven changes in the biofouling community, via both past and more recent exposure, could have important implications for ecosystem function and food web dynamics.     

Bacterial diversity and community composition in the chemocline of the meromictic alpine Lake Cadagno as revealed by 16S rDNA analysis

Using different techniques of molecular biology we investigated the bacterial diversity of the chemocline of the meromictic Lake Cadagno. Cloning of a total community 16S rDNA PCR product and subsequent screening with a combination of amplified ribosomal DNA restriction analysis and temporal temperature gradient gel electrophoresis (TTGE) analysis revealed that 30 of 47 randomly selected clones were unique. Partial sequencing and comparative analysis indicated a high bacterial diversity dominated by the gamma-Proteobacteria (33.3%). Most of these rDNA clone sequences were not closely related to any 16S rDNA sequence in the database. In a second approach, the TTGE pattern from an environmental sample was compared with the migration of the cloned 16S rDNA fragments. Four clone types were identified on the environmental pattern by excising and sequencing comigrating bands, three of which were well represented in the library: two Chromatiaceae species and one sequence affiliated with the Desulfobulbus assemblage. Using the fluorescent in situ hybridization technique we essentially confirmed the results of the cloning experiments and the TTGE analysis.     

In a comfort zone and beyond—Ecological plasticity of key marine mediators

Copepods of the genus Calanus are the key components of zooplankton. Understanding their response to a changing climate is crucial to predict the functioning of future warmer high‐latitude ecosystems. Although specific Calanus species are morphologically very similar, they have different life strategies and roles in ecosystems. In this study, C. finmarchicus and C. glacialis were thoroughly studied with regard to their plasticity in morphology and ecology both in their preferred original water mass (Atlantic vs. Arctic side of the Polar Front) and in suboptimal conditions (due to, e.g., temperature, turbidity, and competition in Hornsund fjord). Our observations show that “at the same place and time,” both species can reach different sizes, take on different pigmentation, be in different states of population development, utilize different reproductive versus lipid accumulation strategies, and thrive on different foods. Size was proven to be a very mutable morphological trait, especially with regard to reduced length of C. glacialis. Both species exhibited pronounced red pigmentation when inhabiting their preferred water mass. In other domains, C. finmarchicus individuals tended to be paler than C. glacialis individuals. Gonad maturation and population development indicated mixed reproductive strategies, although a surprisingly similar population age structure of the two co‐occurring species in the fjord was observed. Lipid accumulation was high and not species‐specific, and its variability was due to diet differences of the populations. According to the stable isotope composition, both species had a more herbivorous diatom‐based diet in their original water masses. While the diet of C. glacialis was rather consistent among the domains studied, C. finmarchicus exhibited much higher variability in its feeding history (based on lipid composition). Our results show that the plasticity of both Calanus species is indeed impressive and may be regulated differently, depending on whether they live in their “comfort zone” or beyond it.     

The past and future of phytoplankton in the UK's largest lake,Lough Neagh

Lough Neagh is the largest lake in the UK and has been extensively monitored since 1974. It has suffered from considerable eutrophication and toxic algal blooms. The lake continues to endure many of the symptoms of nutrient enrichment despite improvements in nutrient management throughout the catchment, in particular a permanently dominant crop of the cyanobacterium Planktothrix agardhii. This study examines the historical changes in the Lough, and uses the PROTECH lake model to predict how the phytoplankton community may adapt in response to potential future changes in air temperature and nutrient load. PROTECH was calibrated against 2008 observations, with a restriction on the maximum simulated mixed depth to reflect the shallow nature of the lake and the addition of sediment released phosphorus throughout the mixed water column between 1 May and 1 October (with an equivalent in-lake concentration of 2.0 mg m⁻³). The historical analysis showed that phytoplankton biomass (total chlorophyll a) experienced a steady decline since the mid-1990s. During the same period the key nutrients for phytoplankton growth in the lake have shown contrasting trends, with increases in phosphorus concentrations and declines in nitrate concentrations. The modelled future scenarios which simulated a temperature increase of up to 3 °C showed a continuation of those trends, i.e. total chlorophyll a and nitrate concentrations declined in the surface water, while phosphorus concentrations increased and P. agardhii dominated. However, scenarios which simulated a 4 °C increase in air temperature showed a switch in dominance to the cyanobacteria, Dolichospermum spp. (formerly Anabaena spp.). This change was caused by a temperature related increase in growth driving nutrient consumption to a point where nitrate was limiting, allowing the nitrogen-fixing Dolichospermum spp. to gain sufficient advantage. These results suggest that in the long term, one nuisance cyanobacteria bloom may only be replaced by another unless the in-lake phosphorus concentration can be greatly reduced.     

Distribution and population dynamics of ostracodes (Crustacea,Ostracoda) in a karstic lake: Lake Banyoles (Catalonia,Spain)

Qualitative and quantitative benthic samples were collected monthly between December 1986 and December 1987 from several stations at various depths and basins in the karstic Lake Banyoles (Catalonia, Spain), to study the spatial distribution and seasonality of ostracodes. A total of eight ostracode species were found in the lake. Of these, Candona neglecta Sars, Isocypris beauchampi Paris and Cypria ophtalmica Jurine were the most common ostracodes at all depth stations. Darwinula stevensoni Brady & Robertson, Ilyocypris species (I. bradyi Sars and I. gibba (Ramdohr)), Cyprideis torosa (Jones) and Cyclocypris ovum Jurine, on the other hand, were confined to sublittoral and littoral areas of the lake.Substrate and organic matter content appeared to be relevant factors determining the distribution of ostracode species at the different stations. The highest abundance of ostracodes were in the sublittoral (Basin IV–7 m and Basin I-5 m) where the substrate was coarse and sediment had a high organic matter content (>35% LOI). Low oxygen levels in the hypolimnetic waters (i.e. < 1 mg l^–1) may explain the absence of ostracodes at deeper zones in stations where the anoxic period lasts more than four months. On the other hand, low temperatures seem to favour the development of C. neglecta and D. stevensoni, while with higher temperatures I. beauchampi, C. torosa and C. ovum increased their abundances. However, no clear pattern can be observed, so ostracode species in Lake Banyoles, apparently, have non-seasonal life histories.     

Climate shifts the interaction web of a marine plankton community

Climatic effects in the ocean at the community level are poorly described, yet accurate predictions about ecosystem responses to changing environmental conditions rely on understanding biotic responses in a food‐web context to support knowledge about direct biotic responses to the physical environment. Here we conduct time‐series analyses with multivariate autoregressive (MAR) models of marine zooplankton abundance in the Northern California Current from 1996 to 2009 to determine the influence of climate variables on zooplankton community interactions. Autoregressive models showed different community interactions during warm vs. cool ocean climate conditions. Negative ecological interactions among zooplankton groups characterized the major warm phase during the time series, whereas during the major cool phase, ocean transport largely structured zooplankton communities. Local environmental conditions (sea temperature) and large‐scale climate indices (El Niño/Southern Oscillation) were associated with changes in zooplankton abundance across the full time series. Secondary environmental correlates of zooplankton abundance varied with ocean climate phase, with most support during the warm phase for upwelling as a covariate, and most support during the cool phase for salinity. Through simultaneous quantitation of community interactions and environmental covariates, we show that marine zooplankton community structure varies with climate, suggesting that predictions about ecosystem responses to future climate scenarios in the Northern California Current should include potential changes to the base of the pelagic food.