Picoeukaryotes are a taxonomically diverse group of organisms less than 2 micrometers in diameter. Photosynthetic marine picoeukaryotes in the genus Micromonas thrive in ecosystems ranging from tropical to polar and could serve as sentinel organisms for biogeochemical fluxes of modern oceans during climate change. These broadly distributed primary producers belong to an anciently diverged sister clade to land plants. Although Micromonas isolates have high 18 S ribosomal RNA gene identity, we found that genomes from two isolates shared only 90% of their predicted genes. Their independent evolutionary paths were emphasized by distinct riboswitch arrangements as well as the discovery of intronic repeat elements in one isolate, and in metagenomic data, but not in other genomes. Divergence appears to have been facilitated by selection and acquisition processes that actively shape the repertoire of genes that are mutually exclusive between the two isolates differently than the core genes. Analyses of the Micromonas genomes offer valuable insights into ecological differentiation and the dynamic nature of early plant evolution.

Mesoscale eddies may play a critical role in ocean biogeochemistry by increasing nutrient supply, primary production, and efficiency of the biological pump, that is, the ratio of carbon export to primary production in otherwise nutrient-deficient waters. We examined a diatom bloom within a cold-core cyclonic eddy off Hawaii. Eddy primary production, community biomass, and size composition were markedly enhanced but had little effect on the carbon export ratio. Instead, the system functioned as a selective silica pump. Strong trophic coupling and inefficient organic export may be general characteristics of community perturbation responses in the warm waters of the Pacific Ocean.

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Spliceosomal introns are a hallmark of eukaryotic genes that are hypothesized to play important roles in genome evolution but have poorly understood origins. Although most introns lack sequence homology to each other, new families of spliceosomal introns that are repeated hundreds of times in individual genomes have recently been discovered in a few organisms. The prevalence and conservation of these introner elements (IEs) or introner-like elements in other taxa, as well as their evolutionary relationships to regular spliceosomal introns, are still unknown. Here, we systematically investigate introns in the widespread marine green alga Micromonas and report new families of IEs, numerous intron presence–absence polymorphisms, and potential intron insertion hot-spots. The new families enabled identification of conserved IE secondary structure features and establishment of a novel general model for repetitive intron proliferation across genomes. Despite shared secondary structure, the IE families from each Micromonas lineage bear no obvious sequence similarity to those in the other lineages, suggesting that their appearance is intimately linked with the process of speciation. Two of the new IE families come from an Arctic culture (Micromonas Clade E2) isolated from a polar region where abundance of this alga is increasing due to climate induced changes. The same two families were detected in metagenomic data from Antarctica—a system where Micromonas has never before been reported. Strikingly high identity between the Arctic isolate and Antarctic coding sequences that flank the IEs suggests connectivity between populations in the two polar systems that we postulate occurs through deep-sea currents. Recovery of Clade E2 sequences in North Atlantic Deep Waters beneath the Gulf Stream supports this hypothesis. Our research illuminates the dynamic relationships between an unusual class of repetitive introns, genome evolution, speciation, and global distribution of this sentinel marine alga.

Eukaryotic algae within the picoplankton size class (<2 m in diameter) are important marine primary producers, but their spatial and ecological distributions are not well characterized. Here, we studied three picoeukaryotic prasinophyte genera and their cyanobacterial counterparts, Prochlorococcus and Synechococcus, during two cruises along a North Pacific transect characterized by different ecological regimes. Picoeukaryotes and Synechococcus reached maximum abundances of 1.44 ؋ 10 5 and 3.37 ؋ 10 5 cells · ml ؊1 , respectively, in mesotrophic waters, while Prochlorococcus reached 1.95 ؋ 10 5 cells · ml ؊1 in the oligotrophic ocean. Of the picoeukaryotes, Bathycoccus was present at all stations in both cruises, reaching 21,368 ؎ 327 18S rRNA gene copies · ml ؊1 . Micromonas and Ostreococcus clade OI were detected only in mesotrophic and coastal waters and Ostreococcus clade OII only in the oligotrophic ocean. To resolve proposed Bathycoccus ecotypes, we established genetic distances for 1,104 marker genes using targeted metagenomes and the Bathycoccus prasinos genome. The analysis was anchored in comparative genome analysis of three Ostreococcus species for which physiological and environmental data are available to facilitate data interpretation. We established that two Bathycoccus ecotypes exist, named here BI (represented by coastal isolate Bathycoccus prasinos) and BII. These share 82% ؎ 6% nucleotide identity across homologs, while the Ostreococcus spp. share 75% ؎ 8%. We developed and applied an analysis of ecomarkers to metatranscriptomes sequenced here and published -omics data from the same region. The results indicated that the Bathycoccus ecotypes cooccur more often than Ostreococcus clades OI and OII do. Exploratory analyses of relative transcript abundances suggest that Bathycoccus NRT2.1 and AMT2.2 are high-affinity NO 3 ؊ and low-affinity NH 4 ؉ transporters, respectively, with close homologs in multiple picoprasinophytes. Additionally, in the open ocean, where dissolved iron concentrations were low (0.08 nM), there appeared to be a shift to the use of nickel superoxide dismutases (SODs) from Mn/Fe/Cu SODs closer inshore. Our study documents the distribution of picophytoplankton along a North Pacific ecological gradient and offers new concepts and techniques for investigating their biogeography.

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Background: The dolphinfish, Coryphaena hippurus, is a fast-swimming, predatory fish exhibiting relatively fast growth and early maturation among marine teleosts. It is an important, potentially renewable resource throughout its global subtropical-to-tropical range. Understanding the ecology of this wide-ranging fish is critical to proper fisheries management, but studies have historically depended heavily upon aggregated catch data reported by fisheries. This study uses tagging data to explore finer scale dolphinfish movements in two subregions of the Eastern Pacific Ocean (EPO)-the west coasts of Baja California Peninsula (WBC) and Oaxaca (OAX), Mexico. Results: Adult dolphinfish (fork length 66-129 cm) were tagged with conventional (n = 132 tags) and electronic tags (n = 30 tags, miniPAT) between 2010 and 2014. Recapture rate of conventional tags was 4.5% with a maximum days of liberty of 141 days (mean = 56 d); 20 electronic tags reported but all did so prior to programmed release dates, with days at liberty ranging from 4 to 62 (mean = 24 d). Fish remained within the region they were tagged except for six fish tagged in WBC and one in OAX. Latitudinal (WBC) and longitudinal (OAX) extensions of observed fish movements (determined via a novel analytical approach) increased with days at liberty. Despite occasional deep dives (max 262 m), fish remained surface oriented with short excursions below the isothermal layer but larger OAX fish (fork length [103 cm, 120 cm]) inhabiting warmer waters (sea surface temperatures (SST) > ~ 26 °C) spent more time below the isothermal layer than smaller fish (fork length [90 cm, 112 cm]) inhabiting colder WBC surface waters (SST > ~ 22 °C). Conclusions: This study reveals movements of dolphinfish that infer regional differences in thermal habitat utilization and displacement over time. This inference evokes questions important to fisheries management regarding the three-dimensional extent of the dolphinfish's realized thermal niche, its population structure, and the spatiotemporal connectivity of its habitats within the multinational EPO. With improved tag retention, longer deployments should capture increasing displacements along observed axes (N/S vs. E/W); the orientation of seasonal displacement axes suggest longer-distance movements would provide opportunities for reproductive mixing via trans-national migrations.

Background Dolphinfish, Coryphaena hippurus , are fast-swimming, predatory fish that exhibit fast growth and early maturation. It is an important and potentially renewable recreational and commercial resource throughout their global subtropical to tropical range. While understanding habitat utilization and migratory behavior in these wide-ranging fish is critical to proper regional and international fisheries management, studies have historically relied heavily upon fisheries reported data. This study uses tagging data to explore the vertical and horizontal movements of dolphinfish, focusing on two regions in the Eastern Pacific Ocean (EPO) - west coast of Baja California Peninsula (WBC) and Oaxaca (OAX) coasts of Mexico. Results Adult dolphinfish (fork length 66 cm - 129 cm) were tagged with conventional (n = 132 tags) and electronic tags (n = 30 tags, miniPAT) between 2010 and 2014. Total recapture rate was 3.7%, and greater for males (5.1%) than females (2.4%). Twenty of 30 deployed electronic tags reported, but all did so before the programmed release date, with days at liberty ranging from 3 to 74 (mean = 42 d). Fish remained within their tagging region with the exception of one fish tagged in WBC which exhibited a large southerly displacement, and one fish tagged in OAX which was recovered to the north. Latitudinal (N-S) and longitudinal (E-W) extents of fish movements increased with days at liberty. In general, fish remained near the surface with short excursions below the isothermal layer but larger OAX fish inhabiting warm waters (sea surface temperatures (SST) > ~26 °C) spent more time below the isothermal layer than smaller fish inhabiting colder waters in WBC (SST > ~22 °C). Conclusions This study examines the dynamics of the vertical and horizontal movements of dolphinfish. These movements evoke questions about the size-structure of the dolphinfish’s realized thermal niche, its population stock structure, and its spatiotemporal connectivity patterns in the multinational EPO. Longer tag deployments could show larger displacements and observed differences in orientation of seasonal displacement patterns suggest such long-distance movements would provide opportunities for reproductive mixing through trans-national migrations.