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opencc-by-4.0Aug 2017View details →

IBP-database and environmental IBP sequences for functional analysis of microalgae

Database for analysis of ice binding protein (IBP) sequences (Uhlig et al. (2015)): (1) DUF3494_seqs_Uniprot.fasta: full length sequences with DUF3494 domain used for the calculation of the backbone tree in the phylogenetic placement (2) env_IBPs.fasta: potential IBP sequences from one Arctic and five Antarctic sea ice metatranscriptomes (Sanger or 454) (3) DUF3494_substree_fig2a_UniprotIDs.txt: UniProtIDs for subtree in Fig 2a (4) DUF3494_confirmed_IBPactivity_UniprotIDs.txt: UniProtIDs for sequences with confirmed IBP function of the protein If using this dataset please cite the following publication: Uhlig, C., Kilpert, F., Frickenhaus, S., Kegel, J.U., Krell, A., Mock, T., Valentin, K., Beszteri, B., (2015) The significance of antifreeze proteins for eukaryotic microbial communities of Arctic and Antarctic sea ice, The ISME Journal, 9, 2537–2540, doi:10.1038/ismej.2015.43

opencc-by-4.0Apr 2024View details →

Supp. Data for the article From raw microalgae to bioplastics: conversion of Chlorella vulgaris starch granules into thermoplastic starch

Supplementaty Data (Videos) for the article From raw microalgae to bioplastics: conversion of Chlorella vulgaris starch granules into thermoplastic starch

opencc-by-4.0Nov 2021View details →

Dataset for journal article: Nava et al. (2021) "Microalgae colonization of different microplastic polymers in experimental mesocosms across an environmental gradient"

Dataset and R script for the article "Microalgae colonization of different microplastic polymers in experimental mesocosms across an environmental gradient" by Nava V., Matias M., Castillo-Escrivà A., Messyasz B. and Leoni B. accepted by Global Change Biology.

opencc-by-4.0Apr 2022View details →

DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region

This dataset has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) - Innovative Ecological Assessment and Water Management Strategy for the Protection of Ecosystem Services in Alpine Lakes and Rivers, <a href="https://www.alpine-space.eu/projects/eco-alpswater/en/home">https://www.alpine-space.eu/projects/eco-alpswater/en/home</a> Individual archives include 16S rRNA (cyanobacteria) and 18S rRNA (microalgae) FASTA sequences and associated blastn results obtained from the high throughput sequencing of plankton and biofilm bulk/eDNA samples collected in 2019 in 37 lakes and 22 rivers across the Alpine region. These are supporting files for the paper by Salmaso et al., 2022. DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region. Science of the Total Environment, in press.

openCustomFeb 2023View details →

NEON Biorepository Aquatic Microalgae Collection (Chemical Preservation) (repackaging of occurrences published by the NEON Biorepository Data Portal)

This collection contains subsamples of aquatic microalgae preserved in either glutaraldehyde or a high-iodine Lugol's solution (NEON sample class: ptx_taxonomy_in.preserved). Periphyton and phytoplankton samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Benthic samples are collected using the most appropriate sampler for the habitat and substratum type, including rock scrubs, grab samples, and epiphyton. In wadeable streams, periphyton samples are collected in the two most dominant benthic habitat types (e.g. riffles, runs, pools, step pools), and seston samples were collected from the water column near the S2 sensor (seston samples were discontinued in 2018). In lakes, water-column phytoplankton samples are collected near the buoy and littoral sensors using a Kemmerer sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. In rivers, phytoplankton samples are collected near the buoy and two other deep-water locations using a Kemmerer or Van Dorn sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. All field-collected samples are split into subsamples in the domain support facility, preserved, and shipped to a contracting taxonomy laboratory where samples are further subsampled for analysis and archiving. All samples are archived in 20 mL glass scintillation vials and stored in a temperature (17-18°C) and humidity controlled environment. Phytoplankton and seston samples are preserved in a 2% high-iodine Lugol's solution from 2014-2020 and 0.5% glutaraldehyde starting in 2021. Periphyton samples are preserved in 0.5% glutaraldehyde. See related links below for protocols and NEON related data products.

openCustomFeb 2023View details →

NEON Biorepository Aquatic Microalgae Collection (Freeze-dried) (repackaging of occurrences published by the NEON Biorepository Data Portal)

This collection contains freeze-dried subsamples of aquatic microalgae (NEON sample class: ptx_taxonomy_in.freezeDried). Periphyton and phytoplankton samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Benthic samples are collected using the most appropriate sampler for the habitat and substratum type, including rock scrubs, grab samples, and epiphyton. In wadeable streams, periphyton samples are collected in the two most dominant benthic habitat types (e.g. riffles, runs, pools, step pools), and seston samples were collected from the water column near the S2 sensor (seston samples were discontinued in 2018). In lakes, water-column phytoplankton samples are collected near the buoy and littoral sensors using a Kemmerer sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. In rivers, phytoplankton samples are collected near the buoy and two other deep-water locations using a Kemmerer or Van Dorn sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. All field-collected samples are split into subsamples in the domain support facility, preserved, and shipped to a contracting taxonomy laboratory where samples are further subsampled for analysis and archiving. Freeze dried subsamples contained cleaned, freeze dried diatoms. Samples are archived in 20 mL glass scintillation vials and stored at room temperature. See related links below for protocols and NEON related data products.

openCustomFeb 2023View details →

NEON Biorepository Aquatic Microalgae Collection (Microscope Slides) (repackaging of occurrences published by the NEON Biorepository Data Portal)

This collection contains slide-mounted subsamples of aquatic microalgae (NEON sample class: ptx_taxonomy_in.slideID). Periphyton and phytoplankton samples are collected three times per year at wadeable stream, river, and lake sites during aquatic biology bout windows, roughly in spring, summer, and fall. Benthic samples are collected using the most appropriate sampler for the habitat and substratum type, including rock scrubs, grab samples, and epiphyton. In wadeable streams, periphyton samples are collected in the two most dominant benthic habitat types (e.g. riffles, runs, pools, step pools), and seston samples were collected from the water column near the S2 sensor (seston samples were discontinued in 2018). In lakes, water-column phytoplankton samples are collected near the buoy and littoral sensors using a Kemmerer sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. In rivers, phytoplankton samples are collected near the buoy and two other deep-water locations using a Kemmerer or Van Dorn sampler, and in littoral areas using the best benthic sampling method for the dominant substratum type. All field-collected samples are split into subsamples in the domain support facility, preserved, and shipped to a contracting taxonomy laboratory where samples are further subsampled for analysis and archiving. Algae specimens in this collection contain cleaned diatom subsamples that have been mounted on glass microscope slides and are archived at room temperature. See related links below for protocols and NEON related data products.

openOpenMar 2021View details →

Effects of nutrients and organic carbon on the relative proportion of primary producers (microalgae) and heterotrophic decomposers (bacteria and fungi) during aquatic biofilm development in boreal peatland located near Fairbanks Alaska - 2018

1. Producer-decomposer interactions within aquatic biofilms can range from mutualistic associations to competition depending on available resources. The outcomes of such interactions have implications for biogeochemical cycling, and as such, may be especially important in northern peatlands, which are a global carbon sink and are expected to experience changes in resource availability with climate change. The purpose of this study was to evaluate the effects of nutrients and organic carbon on the relative proportion of primary producers (microalgae) and heterotrophic decomposers (bacteria and fungi) during aquatic biofilm development in a boreal peatland. Given that decomposers are often better competitors for nutrients than primary producers in aquatic ecosystems, we predicted that labile carbon subsidies would shift the biofilm composition towards heterotrophy owing to the ability of decomposers to outcompete primary producers for available nutrients in the absence of carbon limitation. 2. We manipulated nutrients (nitrate and phosphate) and organic carbon (glucose) in a full factorial design using nutrient-diffusing substrates in an Alaskan fen. 3. Heterotrophic bacteria were limited by organic carbon and algae were limited by inorganic nutrients. However, the outcomes of competitive interactions depended on background nutrient levels. Heterotrophic bacteria were able to outcompete algae for available nutrients when organic carbon was elevated and nutrient levels remained low, but not when organic carbon and nutrients were both elevated through enrichment. 4. Fungal biomass was significantly lower in the presence of glucose alone, possibly owing to antagonistic interactions with heterotrophic bacteria. In contrast to bacteria, fungi were stimulated along with algae following nutrient enrichment. 5. The decoupling of algae and heterotrophic bacteria in the presence of glucose alone shifted the biofilm trophic status towards heterotrophy. This effect was overturned

opencc-by-4.0Mar 2021View details →

Metadata of "Incorporating a molecular antenna in diatom microalgae cells enhances photosynthesis"

Metadata of "Incorporating a molecular antenna in diatom microalgae cells enhances photosynthesis"

opencc-by-4.0Apr 2021View details →

Metadata of "Light-Emitting Biosilica by In Vivo Functionalization of Phaeodactylum tricornutum Diatom Microalgae with Organometallic Complexes"

Metadata of "Light-Emitting Biosilica by In Vivo Functionalization of Phaeodactylum tricornutum Diatom Microalgae with Organometallic Complexes"

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Species-specific effects and the ecological role of Programmed cell Death in the microalgae Ankistrodesmus (Sphaeropleales, Selenastraceae)

Reports of programmed cell death (PCD) in phytoplankton raise questions about the ecological evolutionary role of cell death in these organisms. We induced PCD by nitrogen deprivation and unregulated cell death (non-PCD) in one strain of the green microalga Ankistrodesmus densus and investigated the effects of the cell death supernatants on phylogenetically related co-occurring organisms using growth rates and maximum biomass as proxies of fitness. PCD-released materials from A. densus CCMA-UFSCar-3 significantly increased growth rates of two conspecific strains compared to healthy culture (HC) supernatants and improved the maximum biomass of all A. densus strains compared to related species. Although growth rates of non-A. densus with PCD supernatants were not statistically different from HC treatment, biomass gain was significantly reduced. Thus, the organic substances released by PCD, possibly nitrogenous compounds, could promote conspecific growth. These results support the argument that PCD may differentiate species or subtypes and increases inclusive fitness in this model unicellular chlorophyte. Further research, however, is needed to identify the responsible molecules and how they interact with cells to provide the PCD benefits.

opencc-zeroOct 2022View details →

FIG. 7. — A in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 7. — A, geographical distribution of cyanobacterial strains isolated around the world; B, strains isolated in the different administrative districts of France (metropolitan and overseas). Number of cyanobacterial strains in black, number of eukaryotic strains in blue. Strains isolated in France represent 58.0 % and 98.4 % of cyanobacterial and eukaryotic strains, respectively, in the collection.

FIG. 10 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 10. — Culture of Onychonema filiforme (MNHN-ALCP-0000-086.1): A, from the 1948 catalogue of the algotheca (photo: R. Lami); B, the same culture observed in 2021 (photo: M. Jarno).

FIG. 5 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 5. — Relative abundances of the different orders among the 1010 live strains represented in the cyanobacteria collection (left) and of the different phyla among the 345 live strains represented in the eukaryotic microalgae collection (right).

FIG. 6 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 6. — Morphological diversity of cyanobacterial strains:A, B, Pseudochroococcus couteii (MNHN-PMC-2014-885); C, D, Planktothrix agardhii (MNHN-PMC-2002-75); E, F, Aphanizomenon gracile (MNHN-PMC-2010-627); G, H, Haloleptolyngbya elongata (MNHN-PMC-2015-895). Abbreviations: ae, aerotope; cc, cross-walls; cy, cyanophycin granules; cw, cell wall; mu, mucilage; r, reserves; s, sheath; tz, transparent zone; t, thylakoids. A, C, E, G: light microscopy; B, D, F, H: TEM micrographs. Scale bars: A, C, E, G, 10 µm; B, D, F, H, 500 nm.

FIG. 4 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 4. — Emission spectra produced by Cool Daylight FLUO MAZDA (red) and White LEDs SLV (blue), both at a 85 μmol.m-2.s-1 (PAR) irradiance.

FIG. 1 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 1. — From left to right: Pierre Allorge (1891-1944), Marcel Lefèvre (1897-1975) & Pierre Bourrelly (1910-1995).

FIG. 2 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 2. — The "algothèque" in the Cryptogamy laboratory of the French National Museum of Natural History in Paris in 1935 and in 2021.

FIG. 3 in The culture collection of cyanobacteria and microalgae at the French National Museum of Natural History: a century old but still alive and kicking! Including in memoriam: Professor Alain Couté

FIG. 3. — Phylogeny of the 265 cyanobacterial strains for which a 16S rRNA sequence was obtained (see Appendix 1 for Genbank accession numbers and PMC identifiers). Phylogenetic reconstruction was based on Maximum likelihood with a GTR+G+I Model (5 categories and invariants) based on 1284 nucleotide positions, values at nodes were based on 100 bootstrap replicates. The number of strains (OTUs) is added when more than a single strain is available.