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52 results for “Saccharina”
Fig. 3 in Diel movement patterns of Pacific sugar limpet, Patelloida saccharina (Gastropoda: Patellogastropoda: Lottiidae) in response to semi-diurnal tides of Samal Island, Philippines
Fig. 3. Movement patterns of Patelloida saccharina limpets in Catagman, Samal Island, during various lunar phases. A, New Moon, 27–28 March 2017; B, First Quarter, 4–5 April 2017; C, Full Moon, 9–10 April 2017; D, Last Quarter, 19–20 April 2017. The left and right y-axes correspond to the percentage of moving limpets and tidal height measurements in metres above chart datum (C.D.), respectively. Grey vertical bars represent the percentage of actively moving limpets during each lunar phase. The bar at the bottom corresponds to the day-night cycle: (from left to right) white = daytime, grey = transitioning to sunset, black = night-time, grey = sunrise. Note that the activity of P. saccharina limpets was observed during dark periods only, from sunset to night-time until before sunrise, as long as they were covered by the tide.
Fig. 2 in Diel movement patterns of Pacific sugar limpet, Patelloida saccharina (Gastropoda: Patellogastropoda: Lottiidae) in response to semi-diurnal tides of Samal Island, Philippines
Fig. 2. Patelloida saccharina clamped on: A, bare rock face; B, rock covered with sand and turf algae. C, portion of the 5 × 5 cm grid quadrat laid on a reef patch with three P. saccharina individuals. Apices of limpet shells were painted with nail polish. Photographs by EY Zapanta and MA Fortaleza.
Data from: Seascape genomics of the sugar kelp Saccharina latissima along the North Eastern Atlantic latitudinal gradient
<p>Temperature is one of the most important range-limiting factors for many seaweeds. Driven by the recent climatic changes, rapid northward shifts of species' distribution ranges can potentially modify the phylogeographic signature of Last Glacial Maximum. We explored this question in detail in the cold-tolerant kelp species <i>Saccharina latissima</i>, using microsatellites and double digest restriction site-associated DNA sequencing (ddRAD-seq) derived single nucleotide polymorphisms (SNPs) to analyze the genetic diversity and structure in 11 sites spanning the entire European Atlantic latitudinal range of this species. In addition, we checked for statistical correlation between genetic marker allele frequencies and three environmental proxies (sea surface temperature, salinity, and water turbidity). Our findings revealed that genetic diversity was significantly higher for the northernmost locality (Spitsbergen) compared to the southern ones (Northern Iberia), which we discuss in light of the current state of knowledge on phylogeography of <i>S</i>. <i>latissima</i> and the potential influence of the recent climatic changes on the population structure of this species. Seven SNPs and 12 microsatellite alleles were found to be significantly associated with at least one of the three environmental variables. We speculate on the putative adaptive functions of the genes associated with the outlier markers and the importance of these markers for successful conservation and aquaculture strategies for <i>S. latissima</i> in this age of rapid global change.</p>
Fig. 1 in Simulation modelling as a decision support in developing a sterile insect-inherited sterility release strategy for Eldana saccharina (Lepidoptera: Pyralidae)
Fig. 1. The system designed for simulating pest species dynamics in sugarcane.
Epiphytic common core bacteria in the microbiomes of co-located green (Ulva), brown (Saccharina, Gelidium) and red (Grateloupia) macroalgae
<p>We collected specimens of <em>Ulva </em>sp. (green algae), <em>Saccharina </em>sp. (brown algae), <em>Grateloupia </em>sp., and <em>Gelidium </em>sp. (both red algae) during all four seasons from a coastal reef in Weihai, China, and analyzed their surface-colonizing bacteria in comparison to surrounding seawater and sediment controls. 16S rRNA amplicon sequencing, extensive plate cultivation, sequencing of selected strains, and sequencing of 23 metagenomes were performed in this study. Besides composition, we analyzed the potential of phycosphere bacteria to degrade algal polysaccharides and to produce bioactive secondary metabolites. This comprehensive dataset represents a significant stepping stone towards a better understanding of macroalgal phycosphere bacteria and paves the way to functional studies on representative strains.</p>
Genomic insights into diversification and ecological speciation of three Saccharina species
<p><strong><span>Aim: </span></strong><em><span>Saccharina</span></em><span> is a genus within the brown algae that is of ecological and economic importance and shows rapid adaptive radiation, while the process and genetic mechanism of diversification and speciation remains unclear. In this study, we conducted genome resequencing of three typical <em>Saccharina</em> species, including the four varieties of <em>S. japonica</em>, and its two sister species (<em>S. angustata </em>and<em> S. longissima</em>) to investigate the genetic mechanism of ecological speciation.</span></p> <p><strong><span>Location</span></strong><span>: coast of Japan</span></p> <p><span><strong>Methods</strong>: </span><span>We assess the genomic differentiation and genetic diversity of these <em>Saccharina</em> kelps based on whole-genome resequencing. We applied composite-likelihood approach to identify the ancestral species and reconstruct the evolutionary history. Selective sweep analysis was conducted to detect selective signatures when they adapted to diverse habitat.</span></p> <p><span><strong>Results</strong>: </span><span>The demography suggested that <em>S. angustata, S. longissima </em>and<em> S. japonica</em> var. <em>japonica</em> underwent adaptive speciation early, with <em>S. japonica </em>var<em>. japonica </em>as the oldest variant that diverged into three other varieties. The newly evolved variety SR has the highest genetic diversity, and the variety SD has the lowest genetic diversity. Interspecific hybridization among these congeneric species was low, indicating these species exist in genetic isolation in nature. We detected that some stress response genes (e.g.</span><span> ubiquitin-like protein</span><span>) and growth-related genes (e.g. </span><span>imm</span><span> upregulated 3</span><span>) were under positive selection during the ecological speciation.</span><span> Low linkage disequilibrium decay rate and</span><span> extensive signals of </span><span>selective sweeps are present in these <em>Saccharina</em> species, providing strong support for adaptive differentiation under natural selection as the driving force for its ecological speciation.</span></p> <p><span><strong>Main conclusions</strong>:</span><span> The main driving force of speciation in this genus appears to be not natural hybridization, but genetic isolation and adaptive differentiation by nature selection. The evolutionary history and ecological speciation of <em>Saccharina</em> species allow us to predict how common the species responds to environmental change, and whether they require different management strategies.</span></p>
Data from: Seascape genomics of the sugar kelp Saccharina latissima along the North Eastern Atlantic latitudinal gradient
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Data from: Fermentation of the sugar kelp (Saccharina latissima) – exploring the potential of the kelp’s native microbiota as starter culture and the microbiological food safety of fermented products
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Data for Saccharina latissima RNA seq experiment
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Genomic insights into diversification and ecological speciation of three Saccharina species
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Supplementary data for "Validation of a quantitative PCR assay for detection of sugar kelp (Saccharina latissima) in coastal marine sediments"
<p>Raw data for a paper in preparation: "Validation of a quantitative PCR assay for detection of sugar kelp (Saccharina latissima) in coastal marine sediments".</p><p>Contains:</p><ol><li>Spreadsheet of curated raw data used to calculated <i>S. latissima</i> COI gene copy number per gram of dry sediment for a biomass spiking experiment to determine how gene copy number correlates with known amounts of added kelp biomass.</li><li>Spreadsheet of curated raw data from a field study looking at <i>S. latissima</i> gene copy numbers in field samples from the Damariscotta River estuary in Maine, from three sites, one under a small kelp farm, one under a site with a single kelp line, and another in a control site with no known influence of kelp farming activity.</li></ol>
Suppl. Table 2: P-values of statistical tests comparing morphometric parameters characterising Saccharina embryos and their cells.
<p>Samuel Boscq Thesis Chapter 2 Supplementary data</p>
A low molecular weight Saccharina japonica polysaccharide suppresses high fat diet-induced obesity and enriches gut bacteria with fucoidan-degrading potential
<p>This dataset contains 16S rRNA gene and metagenomic sequencing raw data involved in this study. Metagenomic data (S21H1887, S21H1888) were obtained from two cecal content samples from the LFD_J2H group due to<em> Akkermansia</em> uncultured bacterium was highly abundant in these samples. In addition, the code for JS divergence analysis is included.</p>
Figure 1 in Comparison of proteomic profiles of the phaeophyte Saccharina japonica thalli proximal to and beneath the front of epiphytic hydrozoan colonies against healthy tissue
Figure 1: Saccharina japonica thallus sections defined as thallus tissue proximal to hydrozoan colonies and tissue at the colony front. The proximal tissues were collected from the 1-cm zone outside the boundary of the colony. The colony-front tissues were obtained from the 1-cm zone under the newly formed front of the colony after removing the hydrozoans. Inset photo shows hydrozoans on the brown alga S. japonica.
Figure 4 in Comparison of proteomic profiles of the phaeophyte Saccharina japonica thalli proximal to and beneath the front of epiphytic hydrozoan colonies against healthy tissue
Figure 4: Sections of two-dimensional gels showing the proteins (arrows) that decreased during hydrozoan colonization. The separated proteins were visualized by silver staining. (A) Distal healthy thallus tissue. (B) Thallus tissue proximal to hydrozoan colonies. (C) Thallus tissue at the colony front.
Figure 3 in Comparison of proteomic profiles of the phaeophyte Saccharina japonica thalli proximal to and beneath the front of epiphytic hydrozoan colonies against healthy tissue
Figure 3: Sections of two-dimensional gels showing the proteins (arrows) that increased most in the thallus tissue proximal to hydrozoan colonies or in the thallus at the colony front, but were not detected in the distal healthy thallus tissue. The separated proteins were visualized by silver staining. (A) Distal healthy thallus tissue. (B) Thallus tissue proximal to hydrozoan colonies. (C) Thallus tissue at the colony front.
Figure 5 in Influences of hydrozoan colonization on proteomic profiles of the brown alga Saccharina japonica
Figure 5: A close-up view of 2-dimensional electrophoresis gels showing the identified down-regulated proteins (indicated by arrows) altered by hydrozoan colonization. (A) Healthy tissues. (B) Hydrozoan-colonized tissues.
Figure 1 in Influences of hydrozoan colonization on proteomic profiles of the brown alga Saccharina japonica
Figure 1: Two-dimensional gel electrophoresis profiles of late-harvested Saccharina japonica. (A) Healthy tissues. (B) Hydrozoan-colonized tissues. The separated proteins were visualized by silver staining.
Figure 3 in Influences of hydrozoan colonization on proteomic profiles of the brown alga Saccharina japonica
Figure 3: A close-up view of 2-dimensional electrophoresis gels showing the identified up-regulated proteins (indicated by arrows) altered by hydrozoan colonization. (A) Healthy tissues. (B) Hydrozoan-colonized tissues.
Figure 4 in Influences of hydrozoan colonization on proteomic profiles of the brown alga Saccharina japonica
Figure 4: A close-up view of 2-dimensional electrophoresis gels showing the identified down-regulated proteins (indicated by arrows) found mostly in healthy tissues but rare in hydrozoancolonized tissues. (A) Healthy tissues. (B) Hydrozoan-colonized tissues.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.