BUSCADOR RECOLECTA

File containing time series of daily values of coastal winds, upwelling index (offshore Ekman transport), continental runoff, solar irradiance and sea surface temperature for selected sites in the NW Galician coast (NW Spain). These data can be freely downloaded from the web sites of the Galician Meteorological Agency MeteoGalicia (http://www.meteogalicia.es), the Instituto Español de Oceanografía (http://www.indicedeafloramiento.ieo.es) and ICOADS (http://icoads.noaa.gov). We just put them together in a single file. The file includes metadata indicating units, the position of the selected stations and the origin of the data, European Commission: ClimeFish - Co-creating a decision support framework to ensure sustainable fish production in Europe under climate change (677039), Peer reviewed

Flesh yield of commercial mussels cultured in the Ría de Ares-Betanzos (A Coruña, NW Spain). The flesh yield is calculated as the percentage of the total weight of 1 kg of live mussels > 50 mm collected in a mussel raft that is meat weight after opening the valves with water vapour. Flesh yield data have been aggregated monthly and the seasonal cycle of each year has been adjusted to the following harmonic function: FY (%) = A1 + A2* cosine (2*Pi*t/12 + A3) where A1 is the seasonal average value of FY, A2 is half the amplitude of the seasonal cycle of FY; and A3 is the month of the year when FY is halfway between the seasonal minimum and the seasonal maximum. The values of A1, A2 and A3 for years 2002 to 2012 are reported for the two mussel cultivation areas of the Ría de Ares-Betanzos (Arnela and Lorbé) These data have been published in X.A. Álvarez-Salgado, U. Labarta, V. Vinseiro and M.J. Fernández Reiriz (2017). Environmental drivers of mussels flesh yield in a coastal upwelling system. Ecological Indicators 79, 323-329., Peer reviewed

Number of days per month that the mussel cultivation areas of the Ría de Areas-Betanzos (A Coruña, NW Spain), Arnela and Lorbé, have been closed to mussel extraction. The toxicity causing the closures (ASP, DSP and PSP) is also indicated. Data covers the period from 2000 to 2007. The Technological Institute for the Monitoring of the Marine Environment in Galicia (INTECMAR) announces the closures and their causes (ASP, DSP, PSP) on a daily basis through the web page http://www.intecmar.org. However, previous daily reports are not freely available in the web page. This data has been published in X.A. Alvarez-Salgado, F.G. Figueiras, M.J. Fernandez-Reiriz, U. Labarta, L. Peteiro and S. Piedracoba (2011). Control of lipophilic shellfish poisoning outbreaks by seasonal upwelling and continental runoff. Harmful Algae 10, 121-129., Peer reviewed

This dataset contains the results of the characterisation of the prokaryotic community by flow cytometry and tritiated leucine incorporation from the MAFIA cruise (Migrants and Active Flux In the Atlantic ocean). Samples were collected in the tropical and subtropical Atlantic during the MAFIA cruise (April 2015) on board the BIO Hespérides. Seawater samples were collected at 13 stations (from the Brazilian coast to the Canary Islands), from the surface down to 3500 m, using a General Oceanics oceanographic rosette equipped with 24 l PVC Niskin bottles. Abundance and cell characteristics (high nucleic acid content fraction, cell volume, viability) were based on measurements performed with a FACSCalibur (Becton-Dickinson) flow cytometer. Leucine incorporation rates were estimated with tritiated leucine (Kirchman et al. 1985) using centrifugation and filtration methods (Smith and Azam 1992). The aim of this dataset was to estimate the influence of surface productivity on the standing stock, characteristics and activity (as leucine incorporation) of prokaryotes across the water column, Horizon 2020 (H2020), grant/award no. 817806: Sustainable management of mesopelagic resources Ministerio de Ciencia e Innovación (MICINN), grant/award no. CTM2012-39587-C04: Migrants and Active Flux In the Atlantic Ocean; Ministerio de Ciencia e Innovación (MICINN), grant/award no. CTM2015-69392-C3: Constraining organic carbon fluxes in an eastern boundary upwelling ecosystem (NW Africa): the role of non-sinking carbon in the context of the biological pump; Ministerio de Ciencia e Innovación (MICINN), grant/award no. CTM2017-83362-R: INTERES: Papel de las interacciones fitoplancton-bacterias en la respuesta del plancton microbiano a la entrada de nutrientes alóctonos; Ministerio de Ciencia e Innovación (MICINN), grant/award no. PID2019-109084RB-C21: Biogeochemical impact of mesoscale and sub-mesoscale processes along the life history of cyclonic and anticyclonic eddies: plankton variability and productivity, Peer reviewed

pbio.3002315.t002 - Lineage tracing identifies heterogeneous hepatoblast contribution to cell lineages and postembryonic organ growth dynamics, Peer reviewed

(A) Schematic depicting key stages in postembryonic zebrafish liver development. (B) Experimental schematics of long-term lineage tracing experiments using fraeppli-nls embryos, inducing recombination by heat shock at 26 hpf to label hepatoblasts. At 120 hpf, embryos were screened by live imaging at the confocal microscope, and only sparsely labelled embryos were raised and fixed in either juvenile or adult stages. (C-H) Recombined livers showed different cluster topologies: clusters along central veins (C-C’) (n = 9 livers), proximal–distal stripes (D) (n = 23 livers) or giant clusters in the ventral lobe in adult (F-G’) (n = 3 livers). Large clusters in the ventral lobe can originate from one single-labelled cell at 5 dpf (n = 1 liver) (E). (F) Stereomicroscope image showing the spatial location of the giant clone originating from a single recombined cell (H). Recombined livers show a range of cluster sizes from small (H’) to medium (H”). (I) Schematics of characteristic cluster topologies in recombined livers. Red lines indicate the blood vessel orientation in the liver. (C-H) Total numbers are (N = 9, n = 79 livers). A, anterior; P, posterior; R, right; L, left; RL, right lobe; LL, left lobe; VL, ventral lobe., Peer reviewed

(A) Frequency of manually assigned pure hepatocyte clone sizes (N = 6, n = 190 clones). (B) Distribution of the corresponding number of cell divisions for each pure hepatocyte clone (N = 6, n = 190 clones). (A, B) Clone colours are plotted in blue (TagBFP), turquoise (mTFP1), magenta (mKate2), and orange (E2-Orange); the mean of all colours is represented in black. (C) Whole-mount of a 100-hpf liver showing several clones, including a mKate2+ 1-cell clone (N = 6, n = 15 livers). (D) Liver with a medium size 12-cell mTFP1+ clone (N = 6, n = 7 livers). (E) Whole-mount of a 100-hpf liver with a large 33-cell TagBFP+ clone (N = 1, n = 1 livers). (C-E) Labelled cells are represented as segmented nuclei, and an overall segmentation of the whole liver tissue is shown in transparent grey. The numerical values that were used to generate the graphs in (A, B) can be found in S1 Data., Peer reviewed

(A) Schematic of FRaeppli-NLS cassette including attB and attP sites for PhiC31-mediated recombination and the 4 FRaeppli FPs: TagBFP, mTFP1, mKate2, and E2-Orange. Recombination is induced by combining fraeppli-nls with hsp70l:phiC31; prox1a:kalTA4; see S3A Fig. (B) Key steps of liver development in zebrafish: After hepatoblast specification, the differentiation into BECs and hepatocytes is initiated at around 42 hpf. Differentiated cells acquire polarity and form a functional architecture by 120 hpf. (C) Experimental strategy for tracing progeny of individual hepatoblasts using fraeppli-nls: Heat shock at 26 hpf controls PhiC31 expression followed by attB-attP recombination. Embryos were fixed at 100 hpf for analysis. (D-F) Whole-mount livers at 100 hpf showing (D) mixed clone composed of hepatocytes and BECs (D’) (N = 6, n = 23 clones); (E) clones formed by pure hepatocytes (E’-E”) (N = 6, n = 190 clones); and (F) example of pure BEC clone coexpressing TagBFP and mTFP1 (white, coexpressing cells were manually segmented and masked). (F’) (N = 2, n = 2 clones). (D-F) An overall segmentation of the whole liver tissue is shown in transparent grey. (G) Pie charts showing the total number of labelled embryos and clones with manually assigned lineage contributions (N = 6, n = 214 clones; in 2 of the 6 experiments, nuclear shape indicated BEC fate). The numerical values that were used to generate the graphs in (G) can be found in S1 Data. BEC, biliary epithelial cell; FP, fluorescent protein; hpf, hours post fertilization., Peer reviewed

(A) Approximately 5 μm projection of a 72-hpf liver expressing tp1:H2B-mCherry (BEC), stained for Hnf4a (hepatocytes) and EdU (proliferating cells). Yellow and white arrowheads highlight proliferating BECs and hepatocytes, respectively (N = 2, n = 10 livers). (B) Graph showing the proportion of EdU+ proliferating hepatocytes and BECs over time (N = 2, n ≥ 8). (C, D) Graph showing hepatocyte (C) and BEC (D) cell numbers during development (N = 4, n ≥ 12 livers). (E) Quantification of total liver volume during development determined in embryos in BABB (N = 4, n ≥ 12 livers). (F) Maximum projection (20 μm z-stacks) of a 48-hpf liver expressing tp1:H2B-mCherry (BEC) and stained for Hnf4ɑ (hepatocyte). (G) Relative distribution of BECs and hepatocytes during development from 48 to 144 hpf (N = 4, n ≥ 12 livers). (B-E) Different shape data points indicate different experiments. The numerical values that were used to generate the graphs in (B-E, G) can be found in S1 Data. BEC, biliary epithelial cell; EdU, 5-ethynyl-2′-deoxyuridine; hpf, hours post fertilization., Peer reviewed

(A) Schematic of a 5-dpf liver, highlighting the biliary network. (B-B’) Maximum projection (200 μm z-stack) of a 120-hpf liver expressing tp1:H2B-mCherry (BEC) and stained for Hnf4ɑ (hepatocyte). Autofluorescent blood cells appear in bright white. (N = 4, n ≥ 12 livers) (C) Relative distribution of BECs and hepatocytes at 120 hpf (N = 4, n ≥ 12 livers). (D-F) Mathematical models simulating hepatoblast differentiation employing different parameter combinations: proliferation rates of differentiated cell types is equal (D, F) or slower in BECs (E). Hepatoblasts either are all bipotent (D, E) or represent a heterogeneous population with mixed probabilities for uni-or bipotent differentiation (F). Plots showing the simulated cell proportions over simulation time (n = 10) and the final cell type ratio in bar graphs. The numerical values that were used to generate the graphs in (C-F) can be found in S1 Data. BEC, biliary epithelial cell; dpf, day postfertilization; Hb, hepatoblast; Hc, hepatocyte; hpf, hours post fertilization., Peer reviewed