Frédéric Maps, Piotr Pasza Storożenko, Jędrzej Świeżewski, Sakina-Dorothée Ayata
{"title":"Automatic estimation of lipid content from in situ images of Arctic copepods using machine learning","authors":"Frédéric Maps, Piotr Pasza Storożenko, Jędrzej Świeżewski, Sakina-Dorothée Ayata","doi":"10.1093/plankt/fbad048","DOIUrl":"https://doi.org/10.1093/plankt/fbad048","url":null,"abstract":"In Arctic marine ecosystems, large planktonic copepods form a crucial hub of matter and energy. Their energy-rich lipid stores play a central role in marine trophic networks and the biological carbon pump. Since the past ~15 years, in situ imaging devices provide images whose resolution allows us to estimate an individual copepod’s lipid sac volume, and this reveals many ecological information inaccessible otherwise. One such device is the Lightframe On-sight Keyspecies Investigation. However, when done manually, weeks of work are needed by trained personnel to obtain such information for only a handful of sampled images. We removed this hurdle by training a machine learning algorithm (a convolutional neural network) to estimate the lipid content of individual Arctic copepods from the in situ images. This algorithm obtains such information at a speed (a few minutes) and a resolution (individuals, over half a meter on the vertical), allowing us to revisit historical datasets of in situ images to better understand the dynamics of lipid production and distribution and to develop efficient monitoring protocols at a moment when marine ecosystems are facing rapid upheavals and increasing threats.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"60 1","pages":""},"PeriodicalIF":2.1,"publicationDate":"2023-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138534383","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nicole Aberle, Charlotte Volpe, Mari-Ann Østensen, Sanna Majaneva
{"title":"Long-term dynamics, population structure and connectivity of the helmet jellyfish <i>Periphylla periphylla</i> in a Norwegian fjord and adjacent waters.","authors":"Nicole Aberle, Charlotte Volpe, Mari-Ann Østensen, Sanna Majaneva","doi":"10.1093/plankt/fbad050","DOIUrl":"10.1093/plankt/fbad050","url":null,"abstract":"<p><p>Mass occurrences of <i>Periphylla periphylla</i> in Norwegian fjords cause major concerns related to potential regime shifts that could affect ecosystem stability. 15 years of trawl data (2006-2015), complemented with comprehensive sampling in different areas and seasons (2018-2021) allowed new insights on the dynamics, structure and connectivity of <i>P. periphylla</i> populations within and beyond Trondheimsfjorden. Despite assumed population bursts, no clear trend on <i>P. periphylla</i> population size in Trondheimsfjorden were identified. Sampling frequency and population size suggest a local reproduction of <i>P. periphylla</i>, especially in the inner part of the fjord where young-of-the-year (YOY) individuals occur. Size variations occurred in relation to sampling month, thus pointing at seasonal patterns in growth and reproduction. No distinct population structure of <i>P. periphylla</i> populations within Trondheimsfjorden and over larger spatial scales (> 100 km) along the Norwegian coast was observed. Such poor geographic population structure provides evidence for a strong dispersal of <i>P. periphylla,</i> potentially triggered by frequent deep-water renewals of the fjords' basins that enable a high gene flow. Data on <i>P. periphylla</i> long-term dynamics, population structure and connectivity provide valuable information for ecosystem state assessments and enable the advancement of ecosystem management approaches, thus accounting for both stakeholder and ecosystem demands.</p>","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"46 1","pages":"59-71"},"PeriodicalIF":1.9,"publicationDate":"2023-11-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10810686/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139570405","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Phytoplankton metabolism in a stratified nearshore ecosystem with recurrent harmful algal blooms (HABs)","authors":"A Regaudie-de-Gioux, L Latorre, G Basterretxea","doi":"10.1093/plankt/fbad039","DOIUrl":"https://doi.org/10.1093/plankt/fbad039","url":null,"abstract":"The coastal ocean is experiencing changes in its physical and chemical properties that strongly affect planktonic metabolism assemblages and, in some cases, favor the occurrence of harmful algal blooms (HABs). Here we analyze the variations in phytoplankton biomass, gross and net primary production (NCP) as well as community respiration (CR) at two nearshore sampling sites (P1 and P2) located at a Mediterranean beach where high biomass HABs are recurrent. At P1, the most exposed site, phytoplankton chlorophyll was generally low, whereas dinoflagellates outbreaks of the genus Gymnodinium and Alexandrium were recurrent during summer at P2 spanning for 10–20 days. During bloom episodes, NCP increased up to 10-fold (&gt;80 mmol O2 m−3 day−1). Contrastingly, variation in CR only reached an average of 1.8-fold the rates of non-bloom conditions. Remarkably, although the enhanced NCP:CR ratio suggests net autotrophic population growth, production per unit biomass at P1 and P2 was not significantly different. Our results indicate that although summer conditions favor the necessary primary production enhancement leading to HAB occurrences, the short-term dynamics driving high biomass episodes are not driven by metabolic variations but instead are governed by subtle accumulative processes of some flagellate species in the nutrient-rich nearshore environment.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"2 1","pages":""},"PeriodicalIF":2.1,"publicationDate":"2023-11-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138534382","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Vittoria Roncalli, Lauren N Block, Jeanette L Niestroy, Matthew C Cieslak, Ann M Castelfranco, Daniel K Hartline, Petra H Lenz
{"title":"Experimental analysis of development, lipid accumulation and gene expression in a high-latitude marine copepod","authors":"Vittoria Roncalli, Lauren N Block, Jeanette L Niestroy, Matthew C Cieslak, Ann M Castelfranco, Daniel K Hartline, Petra H Lenz","doi":"10.1093/plankt/fbad045","DOIUrl":"https://doi.org/10.1093/plankt/fbad045","url":null,"abstract":"Abstract The high-latitude copepod Neocalanus flemingeri exploits the spring phytoplankton bloom to accumulate lipids for survival during food-limited periods and to fuel reproduction. At some point during development, lipid-accumulation ends and pre-adults molt into adults, descend to depth and enter a state of dormancy termed \"diapause.\" How and when they determine to make this transition is still unresolved. According to one hypothesis, the trigger is their attaining a threshold amount of \"lipid fullness.\" Alternatively, they might follow a genetic program, entering diapause within a narrow developmental window. To better understand the decision, a 5-week laboratory experiment was conducted to assess the effect of food quantity and type on lipid accumulation, biomass and gene expression in N. flemingeri copepodite stage CV. In fed individuals, the initial rate of lipid accumulation slowed by week 5, as a portion of CVs began to molt into adults. While changes in gene expression common to all fed individuals between weeks 1 and 3 were consistent with a developmental program, the duration of the CV stage was variable. Unfed individuals maintained lipid stores initially, suggesting physiological acclimatization to conserve energy. A comparison with gene expression profiles of field-collected individuals suggests similar responses to resources in the environment.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"5 2","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135086973","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Bottom-up effects of variable winter weather conditions on phytoplankton dynamics in an enclosed bay: implications for ecological responses to climate change","authors":"Keita W Suzuki, Hanh T Dinh","doi":"10.1093/plankt/fbad046","DOIUrl":"https://doi.org/10.1093/plankt/fbad046","url":null,"abstract":"Abstract To investigate phytoplankton dynamics in response to variable winter weather conditions along the Sea of Japan, we conducted daily sampling in enclosed Maizuru Bay in five winters and found distinctive differences between 2016/2017 and 2018/2019. A clear diatom bloom occurred through the water column in moderately cold/snowy 2016/2017, whereas in exceptionally warm/snow-free 2018/2019 a small peak of dinoflagellates occurred only in the subsurface. Nutrient concentrations changed drastically depending on freshwater discharge and diatom growth in 2016/2017, showing a contrast with constant nutrient concentrations in 2018/2019. Copepod densities were ~10 times higher in 2016/2017 than in 2018/2019, indicating bottom-up effects in 2016/2017. As the absence of a diatom bloom from 2018/2019 can be attributed neither to nutrient limitation nor to grazing pressure, we hypothesize that wind mixing is a key factor triggering a diatom bloom. Within the five winters, clear diatom blooms were found only after strong winds and heavy precipitation including snowfall. Wind mixing would possibly promote the germination/rejuvenation of viable resting stage cells as inocula for a diatom bloom, while the growth and maintenance are supported by nutrient supply through freshwater discharge. In Maizuru Bay, winter production is likely activated by harsh weather conditions characteristic of this region.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":" 498","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135186633","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"RNA/DNA ratios as estimate of metabolic and functional traits in diatom species from the northwestern Adriatic Sea","authors":"Silvia Casabianca, Samuela Capellacci, Fabio Ricci, Giorgia Ravera, Geraldina Signa, Michele Scardi, Antonella Penna","doi":"10.1093/plankt/fbad042","DOIUrl":"https://doi.org/10.1093/plankt/fbad042","url":null,"abstract":"Different phytoplankton biomass estimations can provide information about abundance variation, but they are not able to describe the metabolic activity of species or groups within assemblages. Conversely, molecular traits are key for the metabolic dynamics in pelagic ecosystems. To investigate if the RNA/DNA and taxon-specific 18S ribosomal RNA (rRNA)/ribosomal DNA (rDNA) ratios could be used to assess and be indicators of metabolic activity in marine phytoplankton species, two Adriatic diatom species, Chaetoceros socialis and Skeletonema marinoi, were studied. Significant correlations between abundance, chlorophyll a, carbon content and proteins were found in individual and co-cultured growth experiments (from rs = 0.570 to rs = 0.986, P < 0.001). The biomass trend followed a logistic curve without providing additional information regarding diatom metabolic activity. In both experiments, the RNA/DNA and taxon-specific 18S rRNA/rDNA ratios of C. socialis and S. marinoi showed maximum values at the beginning of the growth phase, i.e as 23.2 ± 1.5 and 15.3 ± 0.8, and 16.2 ± 1.6 and 30.1 ± 5.4 after 2 and 6 days, respectively, in individual cultures, with a subsequent significant decrease in these values for both species in individual and co-culture experiments. Our results showed that these molecular rRNA/rDNA ratios expressed an activation of metabolism before the abundance increases, even in the presence of interspecific interaction between C. socialis and S. marinoi.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"49 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136014831","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Abundance and biomass of copepods and cladocerans in Atlantic and Arctic domains of the Barents Sea ecosystem","authors":"Hein Rune Skjoldal, Johanna Myrseth Aarflot","doi":"10.1093/plankt/fbad043","DOIUrl":"https://doi.org/10.1093/plankt/fbad043","url":null,"abstract":"Abstract Zooplankton in the Barents Sea have been monitored annually with a standard procedure with determination of size-fractioned biomass since the mid-1980s. Biomass of copepods and cladocerans was estimated based on measured abundance and individual weights taken from literature. Calanus species were dominant, making up ~85% of the estimated biomass of copepods. The second most important taxon was Oithona spp. (~0.5 g dry weight (dw) m−2, ~10%), followed by Metridia spp. (~0.15 g dw m−2, 2–3%) and Pseudocalanus spp. (0.10–0.15 g dw m−2, 1–5%). Estimated biomass of cladoceran taxa (Evadne and Podon) was low (0.01 g dw m−2). Calanus spp. contributed most of the biomass of the medium size fraction (1–2 mm), whereas small copepod species (Oithona, Pseudocalanus and others) contributed to the small size fraction (&lt;1 mm). Estimated biomass of Calanus spp. and of the sum of small copepod species were both positively correlated with measured total zooplankton biomass (R2 = 0.72 and 0.34, respectively). The biomass ratio of small copepod species to Calanus was similar in Atlantic and Arctic water masses (~0.15–0.2) but tended to increase with decreasing total biomass. This suggests a shift to relatively larger roles of small copepods as Calanus and total biomass decrease.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"55 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136015701","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Global gradients in species richness of marine plankton functional groups","authors":"Fabio Benedetti, Nicolas Gruber, Meike Vogt","doi":"10.1093/plankt/fbad044","DOIUrl":"https://doi.org/10.1093/plankt/fbad044","url":null,"abstract":"Abstract The patterns of species diversity of plankton functional groups (PFGs) remain poorly understood although they matter greatly for marine ecosystem functioning. Here, we use an ensemble of empirical species distribution models for 845 plankton species to estimate the global species richness of three phytoplankton and 11 zooplankton functional groups as a function of objectively selected environmental predictors. The annual mean species richness of all PFGs decreases from the low to the high latitudes, but the steepness and the shape of this decrease vary significantly across PFGs. Pteropods, small copepods (Oithonids and Poecilostomatoids) and Salps have the steepest latitudinal gradients, whereas Amphipods and the three phytoplankton groups have the weakest ones. Temperature, irradiance and nutrient concentration are the first-order control on the latitudinal richness patterns, whilst the environmental conditions associated to upwelling systems, boundary currents and oxygen minimum zones modulate the position of the peaks and troughs in richness. The species richness of all PFGs increases with net primary production but decreases with particles size and the efficiency of the biological carbon pump. Our study puts forward emergent biodiversity–ecosystem functioning relationships and hypotheses about their underlying drivers for future field-based and modelling research.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"21 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"136015703","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Patricia Nogueira, Ana B Barbosa, Rita B Domingues
{"title":"Impacts of sample storage time on estimates of phytoplankton abundance: how long is too long?","authors":"Patricia Nogueira, Ana B Barbosa, Rita B Domingues","doi":"10.1093/plankt/fbad041","DOIUrl":"https://doi.org/10.1093/plankt/fbad041","url":null,"abstract":"Abstract Phytoplankton play a key role in marine ecosystems, making the accurate quantification of functional groups/species, using standardized microscopy techniques, essential in many research efforts. In this study we aimed to evaluate the effects of (a) storage time on the abundance of microphytoplankton in samples fixed with acid Lugol’s solution; (b) storage time on the abundance of pico- and nanophytoplankton in frozen microscopy slides; (c) storage time on the abundance of pico- and nanophytoplankton in fixed refrigerated samples and (d) storage protocol (refrigerated versus frozen) on the abundance of pico- and nanophytoplankton. Microphytoplankton were analyzed using inverted microscopy, and pico- and nanophytoplankton using epifluorescence microscopy. Results indicate storage time negatively impacted the abundances of all phytoplankton size classes; however, effects were group-specific. For accurate abundance estimates, we suggest that samples fixed with acid Lugol’s should be analyzed within 30 and 180 days, for dinoflagellates/total microphytoplankton and diatoms, respectively. For picoeukaryotes, glutaraldehyde fixed samples should be kept refrigerated for up to 4 days, and slides should be prepared immediately before observation. It is recommended that authors specify the exact lag times between sample collection, fixation and analysis, to allow the comparability of phytoplankton datasets across different studies and/or monitoring programs.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"3 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-10-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135689980","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Composition patterns of surface mesozooplankton in the zonal fronts of Drake Passage","authors":"Octavio Esquivel-Garrote, Erik Muxagata","doi":"10.1093/plankt/fbad040","DOIUrl":"https://doi.org/10.1093/plankt/fbad040","url":null,"abstract":"Abstract Zooplankton is the main food source for higher trophic levels in marine environments. In the Southern Ocean, the distribution of zooplankton is related to the physical gradient of the Antarctic Circumpolar Current (ACC) fronts. Our objective was to determinate the distribution of mesozooplankton in relation to the ACC fronts in the Drake Passage. Samples were collected with the Continuous Plankton Recorder in two transects. Mesozooplankton was associated with environmental variables. High mesozooplankton abundances were recorded in the Subantarctic Front in 2017 and in the Antarctic Zone in 2016. A total of 81 taxa and 23 species in 2016 and 31 in 2017 were identified. Copepoda was the most abundant group (89%), and Centropages brachiatus (3 872 ind. m−3) and Oithona spp. (2 916 ind. m−3) were the most abundant copepod taxa. Mesozooplankton abundance and composition were influenced by front variability. Taxa were contracted northward on 2016 and displaced southward in 2017 and linked to chlorophyll a (Chl a) values recorded in the coastal shelf of South America. Chl a values registered close to Antarctic Peninsula were not linked to mesozooplankton abundance. Changes in abundances of certain taxa may reflect distinct climate events. These changes may impact the availability of prey for higher trophic levels, either through displacement for food or food availability.","PeriodicalId":16800,"journal":{"name":"Journal of Plankton Research","volume":"75 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135477832","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"环境科学与生态学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}