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7,081 results for “Habitats”
R package n2khab: providing preprocessed reference data for Flemish Natura 2000 habitat analyses
The n2khab package is an R package with preprocessing functions and standard reference data, useful for analyses regarding Flemish Natura 2000 habitats and regionally important biotopes (RIBs). URL: <a href="https://inbo.github.io/n2khab">https://inbo.github.io/n2khab</a>.
Habitat Protection Indexes - new monitoring measures for the conservation of threatened marine habitats - Datasets and supporting files
<p>The supporting datasets, scripts, and supplementary information for the manuscript, "Habitat Protection Indexes - new monitoring measures for the conservation of threatened marine habitats," are available within this repository.</p> <p>We conduct an analysis on the coverage of protected areas that cover six threatened marine and coastal and developed two indexes, the Local Proportion of Habitat Protected Index and the Global Proportion of Habitat Protected Index, describing the protection of these habitats locally and globally. The habitats considered are the following: cold corals, warm water corals, knolls and seamounts, mangroves, saltmarshes, and seagrasses.</p> <p>The index scores of each jurisdiction are made available for download in the dataset: <em>habitat_protection_indexes_average.csv</em></p> <p>The habitat specific index scores for each jurisdiction are made available for download in the dataset: <em>habitat_protection_indexes.csv. </em></p> <p>Column name descriptions are available in the text file: <em>Column_name_descriptions_20220301</em></p> <p>The scripts used to run the workflow to calculate the indexes, create figures, and calculate statistics for the manuscript are also included. The script <em>01_Workflow sources</em> the first 9 scripts in the <em>scripts</em> folder to calculate the indexes which relies on the functions script within the functions folder. The rest of the scripts in the folder create the figures and calculate the statistics for the manuscript.</p> <p>A readme pdf file is included here to ease with reproducing the workflow, but we strongly suggest to please visit our github (<a href="https://github.com/jkumagai96/Marine_Habitat_protection">https://github.com/jkumagai96/Marine_Habitat_protection</a>) to reproduce the entire calculation where we provide detailed information on how to run the workflow and package management.</p>
"Agricultural trade and its impacts on cropland use and the global loss of species habitat." - Supplementary data
<p>This dataset and code is part of the following publication:<br> Schwarzmueller, F. & Kastner, T (2022), Agricultural trade and its impact on cropland use<br> and the global loss of species' habitats. Sustainability Science, doi: 10.1007/s11625-022-01138-7<br> </p> <p>There are three zip-folders accompanying this publication:</p> <p>Code.zip contains all the R-Scripts and input files neccessary for the calculation that were written by the authors.</p> <p>Data.zip contains the FAO-input data (as dowloaded in 2021). This exact data is not available anymore from the FAOSTAT website, which is why we included it in this repository.</p> <p>TradeMatrixFeed_import_dry_matter_1986-2013.zip contains the results from the calculation as shown in the paper.</p>
Data from: Understanding the Influence of Check Dam and Season on Habitat Use to Develop Habitat Suitability Criteria for Overwintering Tadpoles of Nanorana spp.
<p>Dataset for the article: Understanding the Influence of Check Dam and Season on Habitat Use to Develop Habitat Suitability Criteria for Overwintering Tadpoles of <em>Nanorana</em> spp.</p> <p>See readme.txt for details.</p>
Range shifts of overwintering birds depend on habitat type, snow conditions and habitat specialization
<p>Data and R code accompanying the publication "Range shifts of overwintering birds depend on habitat type, snow conditions and habitat specialization"</p> <p>Bosco L, Xu Y, Deshpande P, Lehikoinen A</p> <p>2022</p> <p>---------</p> <p>The data and code to calculate range shifts based on the center of gravity are provided here.</p> <p>The RData files contains raw data from the winter bird counts with added average snow depth values downloaded from open source databases (described in the paper), 100x100km grid info (grid ID, centroid coordinates and average (geographical) coordinates).</p> <p>The csv file contains the route lengths from the winter bird count transects per habitat type.</p> <p>The R file contains the R code used to clean the data (see methods in the publication) and calculate the habitat specific center of gravity (based on bird densities) which were used to calculate shift direction and distance.</p>
Orangutan habitat survey in Sebangau National Park, Central Kalimantan, Indonesia
<p>This dataset is used to initialise BORNEO (arBOReal aNimal movEment mOdel), as a part of publication entitled:</p> <p>Assessing the impact of forest structure disturbances on the arboreal movement oforangutans - an agent-based modelling approach.</p> <p>The article manuscript is being prepared to be submitted to Frontiers in Ecology and Evolution</p> <p><strong>Data collection</strong></p> <p>The data is collected in Sebangau, Central Kalimantan, Indonesia. Two 1-ha plots were established, each in unburned and burned forest. </p>
Code and data accompanying Palmeirim et al. (2022) Emergent properties of species-habitat networks in an insular forest landscape. Science Advances
<p>Dataset containing species distribution in insular forest fragments at Balbina and full R code for analyses and figures.</p> <p>For deatails, please see the original publication: "Emergent properties of species-habitat networks in an insular forest landscape". Ana Filipa Palmeirim, Carine Emer, Maíra Benchimol, Danielle Storck-Tonon, Anderson S. Bueno, Carlos A. Peres. Science Advances (2022). 10.1126/sciadv.abm0397.</p> <p> </p>
Data from: Accounting for predator species identity reveals variable relationships between nest predation rate and habitat in a temperate forest songbird
<p><strong>Abstract</strong></p> <p>Nest predation is the primary cause of nest failure in most ground-nesting bird species. Investigations of relationships between nest predation rate and habitat usually pool different predator species. However, such relationships likely depend on the specific predator involved, partly because habitat requirements vary among predator species. Pooling may therefore impair our ability to identify conservation-relevant relationships between nest predation rate and habitat. We investigated predator-specific nest predation rates in the forest-dependent, ground-nesting wood warbler <em>Phylloscopus sibilatrix </em>in relation to forest area and forest edge complexity at two spatial scales, and to the composition of the adjacent habitat matrix. We used camera traps at 559 nests to identify nest predators in five study regions across Europe. When analysing predation data pooled across predator species, nest predation rate was positively related to forest area at the local scale (1,000 m around nest), and higher where proportion of grassland in the adjacent habitat matrix was high but arable land low. Analyses by each predator species revealed variable relationships between nest predation rates and habitat. At the local scale, nest predation by most predators was higher where forest area was large. At the landscape scale (10,000 m around nest), nest predation by buzzards <em>Buteo buteo</em> was high where forest area was small. Predation by pine martens Martes martes was high where edge complexity at the landscape scale was high. Predation by badgers <em>Meles meles </em>was high where the matrix had much grassland but little arable land. Our results suggest that relationships between nest predation rates and habitat can depend on the predator species involved and may differ from analyses disregarding predator identity. Predator-specific nest predation rates, and their relationships to habitat at different spatial scales, should be considered when assessing the impact of habitat change on avian nesting success.</p>
GO-FISH: Geolocated Ocean-Fishery Identified Spawning Habitats
<p>This dataset represents geocoded spawning regions for 1,045 marine fish species described in the Fishbase (https://www.fishbase.se/) and Science and Conservation of Fish Aggregations (SCRFA, <a href="https://www.scrfa.org/database/">https://www.scrfa.org/database/</a>) datasets. These global databases have painstakingly aggregated the fieldwork of countless biologists and ecologists to summarize our knowledge of fish species. We further constrained geographic locations using AquaMaps (<a href="https://www.aquamaps.org/">https://www.aquamaps.org</a>) to produce 2,931 polygons or groups of polygons, which we call "spawning regions".</p> <p>Reproduction code for the dataset is available at <a href="https://github.com/openmodels/spawning-dataset">https://github.com/openmodels/spawning-dataset</a>, archived at <a href="../records/11098955">https://zenodo.org/records/11098955</a>.</p>
Soil pH, developmental stages and geographical origin differently influence the root metabolomic diversity and root-related microbial diversity of Echium vulgare from native habitats
<p>R Studio codes and ASV table used to analyze the microbiome data of our Echium vulgare microbial ecology experiment. </p>
Row sequcenes data for assessing the risks of potential pathogens and antibiotic resistance genes among heterogeneous habitats in a temperate estuary wetland
<p>The study included 118 usable samples within three different habitats (water, soil, and sediment) across the Liaohe River basin to the Red Beach wetland collected from seven papers, and all of the sequence files were uploaded for availability.</p>
Data and code for: Habitat preference of an herbivore shapes the habitat distribution of its host plant
<p>Initial release of analysis and code for:</p> <p>Alexandre, N. M., P. T. Humphrey, A. D. Gloss, J. Lee, J. Frazier, H. A. Affeldt III, and N. K. Whiteman. 2018. Habitat preference of an herbivore shapes the habitat distribution of its host plant. Ecosphere 00(00):e02372. (full citation pending)</p> <p>Release published to accompany corrected proofs on 2018-Jul-26.</p>
Checklist of the moss of aquatic and riverside habitats of the Komi Republic (European North-East of Russia)
<p>Представленная информация о мхах водных и прибрежно-водных местообитаний Республики Коми является дополнением к статье Г.В. Железновой, Т.П. Шубиной, Б.Ю. Тетерюка «Анализ флоры мхов водных и прибрежно-водных местообитаний Республики Коми», принятой к публикации в журнале «Известия Коми НЦ УрО РАН» в 2019 г.</p> <p>Список включает 275 таксонов мхов из 103 родов и 37 семейств. Он составлен на основе фактического материала, хранящегося в гербарии Института биологии Коми научного центра Уральского отделения Российской академии наук (SYKO) (УНУ «Научный гербарий SYKO Института биологии Коми НЦ УрО РАН») и литературных сведений (Ruprecht, 1850; Zickendrath, 1895, 1900; Поле, 1915; Кильдюшевский, 1956; Куваев, 1970).</p> <p>Исследованиями были охвачены прибрежные и водные местообитания водотоков и озер Республики Коми. На равнинной территории сборы выполнены в пределах тундры (подзона южной тундры), лесотундры, тайги (подзоны северной и средней тайги), в горах – на Полярном, Приполярном и Северном Урале. Полевые бриологические исследования проводились с использованием маршрутного и стационарного методов.</p> <p>Объем семейств, родов и названия видов приведены в основном согласно списку мхов Восточной Европы и Северной Азии (Check-list…, 2006)</p> <p>The checklist provides information about mosses aquatic and riverside habitats of the Komi Republic. It is a supplement to the article by G. V. Zheleznova, T. P. Shubina, B. Yu. Teteryuk "Analysis of the moss flora of aquatic and riverside habitats of the Komi Republic (European North-East of Russia)", accepted for publication in the journal "Proceedings of the Komi Science Center URD RAS" in 2019.</p> <p>The checklist includes 275 moss taxa from 103 genera and 37 families. It is based on the samples preserved in the Herbarium of the Institute of Biology of the Komi Scientific Center of the Ural Branch of the Russian Academy of Sciences (SYKO) and literary data (Ruprecht, 1850; Zickendrath, 1895, 1900; Pole, 1915; Kildyushevsky, 1956; Kuvaev, 1970). The species names were given according to “Checklist of mosses of East Europe and North Asia” (2006).</p> <p>The mosses were collected in aquatic and riverside habitats of the mountains and plain territories of the Komi Republic. The research covered three parts of the Urals mountain range: the Polar Urals, the Subpolar Urals and the Northern Urals. The plain territory was covered within the southern tundra, forest tundra, northern taiga and middle taiga.</p>
Landscape and habitat data for Tetramorium ant species from Cordonnier et al. 2019 Landscape Ecology
<p>This README accompanies the file "data_Cordonnier_LandEcol.txt"</p> <p>Associated publication : </p> <p>Multi-scale impacts of urbanization on species distribution within the genus <br> <em>Tetramorium </em>- Landscape Ecology<br> M. Cordonnier, C. Gibert, A. Bellec, B. Kaufmann, G. Escarguel</p> <p> <br> ********************************** CONTENTS ***********************************<br> The data are in table form with TABs as variables field delimiters so they can <br> be readily imported in any statistical package or spreadsheet program. Please, <br> contact me if you need the file formatted otherwise. </p> <p>This file includes a description of the variables.</p> <p>The individuals described in this file were identified to species and analyzed for climate variables in</p> <p>Cordonnier, M., Bellec, A., Dumet, A., Escarguel, G., & Kaufmann, B. (2019). <br> Range limits in sympatric cryptic species: a case study in Tetramorium pavement <br> ants (Hymenoptera: Formicidae) across a biogeographical boundary. Insect <br> Conservation and Diversity, 12(2), 109-120.<br> </p> <p>*******************************************************************************<br> Variable names and descriptions</p> <p>ID Sample name<br> X Longitude in WGS 84 (World Geodetic System 1984) decimal degrees rounded to 5 decimal places<br> Y Latitude in WGS 84 (World Geodetic System 1984) decimal degrees rounded to 5 decimal places<br> SZ Name of the sampling area sensu Cordonnier et al. (2019)<br> SP Species identification based on mtDNA COI gene<br> PI10 Percentage of impervious surfaces within a 10 m buffer around the sample<br> PI30 Percentage of impervious surfaces within a 30 m buffer around the sample<br> PI500 Percentage of impervious surfaces within a 500 m buffer around the sample<br> MH1 Presence / absence of full soil with vegetation <br> MH2 Presence / absence of pavement <br> MH3 Presence / absence of unstabilized material (sand. gravel. compacted soil <br> with pebbles or small rocks) <br> MH4 Presence / absence of wood or root <br> MH5 Presence / absence of litter (woodchips or dead leaves) <br> MH6 Presence / absence of curb <br> MH7 Presence / absence of building <br> MH8 Presence / absence of feature (p.ex. lamp post. elec. pole. large rock) <br> MH9 Presence / absence of ditch or strong slope</p> <p>********************************* CONTACT **********************************<br> Please contact me at:</p> <p>Marion Cordonnier<br> e-mail: marion.cordonnier@hotmail.com</p> <p>*******************************************************************************<br> </p>
"Effects of forestry on summertime low flows and physical fish habitat in snowmelt-dominant headwater catchments of the Pacific Northwest" -- data sets
<p>These files contain the data used in the analysis and production of graphs reported in a manuscript titled "Effects of forestry on summertime low flows and physical fish habitat in snowmelt-dominant headwater catchments of the Pacific Northwest," by Stefan Gronsdahl, R. Dan Moore, Jordan Rosenfeld, Rich McCleary, Rita Winkler. The paper will be published in the journal Hydrological Processes. The file named "readme.txt" explains the contents of the files.</p>
GRTSmh_diffres: the raster data source GRTSmaster_habitats converted to 9 hierarchical cell address levels at the corresponding lower resolution
<p>The <code>GRTSmh_diffres</code> data source file is a file collection, composed of nine monolayered GeoTIFF files of the <code>INT4S</code> datatype plus a GeoPackage with six polygon layers:</p> <ul> <li> <p>The polygon layers in the GeoPackage are the dissolved, polygonized versions of levels 4 to 9 of the <code>GRTSmh_brick</code> data source (<a href="https://doi.org/10.5281/zenodo.3354403">link</a>). This means that they provide the decimal (i.e. base 10) integer values of these <em>higher hierarchical levels</em> of the GRTS cell addresses of the raw data source <code>GRTSmaster_habitats</code> (<a href="https://doi.org/10.5281/zenodo.2682323">link</a>). Hence, the polygons are typically squares that correspond to the GRTS cell at the specified hierarchical level. The polygon layer is however restricted to the non-<code>NA</code> cells of the original <code>GRTSmaster_habitats</code> raster. Consequently, a part of the polygons is clipped along the Flemish border. Levels 1 to 3 are not provided for the whole of Flanders, because this would inflate the GPKG file. You can look at the <a href="https://github.com/inbo/n2khab-preprocessing/tree/ecadaf5">source code</a> to do such things.</p> </li> <li> <p>The GeoTIFF files provide the respective levels 1 to 9 of the <code>GRTSmh_brick</code> data source in a raster format, at the resolution that corresponds to the GRTS cell at the specified hierarchical level. The presence of <code>NA</code> cells around Flanders at level 0 implies that, with decreasing resolution, the raster's extent increases and larger areas outside Flanders are covered by non-<code>NA</code> cells along the border.</p> </li> </ul> <p>The higher-level ranking numbers (compared to the original level 0) allow spatially balanced samples at lower spatial resolution than that of 32 m, and can also be used for aggregation purposes.</p> <p>See R-code in the GitHub repository <a href="https://github.com/inbo/n2khab-preprocessing/tree/ecadaf54d4a5aa662d0d18fbfe59788732bb7182/src/generate_GRTS_30_GRTSmh_diffres">'n2khab-preprocessing' at commit ecadaf5</a> for the creation from the <code>GRTSmh_brick</code> data source.</p> <p>A reading function to return the data source in a standardized way into the R environment is provided by the R-package <a href="https://inbo.github.io/n2khab/">n2khab</a>.</p> <p>Beware that not all GRTS ranking numbers at the specified level are provided, as the original GRTS raster has been clipped with the Flemish outer borders (i.e., not excluding the Brussels Capital Region).</p>
GRTSmh_brick: the raster data source GRTSmaster_habitats converted to 10 hierarchical cell address levels at the original resolution
<p>The data source file is a 10-layered GeoTIFF file, derived from the raster data source <code>GRTSmaster_habitats</code> (<a href="https://doi.org/10.5281/zenodo.2682323">link</a>). Both GeoTIFFs (<code>GRTSmaster_habitats</code>, <code>GRTSmh_brick</code>) use the <code>INT4S</code> datatype. The <code>GRTSmh_brick</code> data source (resolution 32 m) holds the decimal integer ranking numbers of 10 hierarchical levels of the GRTS cell addresses, including the one from <code>GRTSmaster_habitats</code> (with GRTS cell addresses at the resolution level).</p> <p>See R-code in the GitHub repository <a href="https://github.com/inbo/n2khab-preprocessing/tree/ecadaf54d4a5aa662d0d18fbfe59788732bb7182/src/generate_GRTS_20_GRTSmh_brick">'n2khab-preprocessing' at commit ecadaf5</a> for its creation from the <code>GRTSmaster_habitats</code> data source.</p> <p>A reading function to return the data source in a standardized way into the R environment is provided by the R-package <a href="https://inbo.github.io/n2khab/">n2khab</a>.</p> <p>The higher-level ranking numbers of the RasterBrick allow spatially balanced samples at lower spatial resolution than that of 32 m, and can also be used for aggregation purposes. The provided hierarchical levels correspond to the resolutions vector <code>32 * 2^(0:9)</code> (minimum: 32 meters, maximum: 16384 meters).</p> <p>Beware that not all GRTS ranking numbers are present in the data source, as the original GRTS raster has been clipped with the Flemish outer borders (i.e., not excluding the Brussels Capital Region).</p>
Data and Code for: Multiscale habitat mediates pest reduction by birds in an intensive agricultural region
<p>Associated data and analyses code for<em> </em>the publication:</p> <p><strong>Heath, Sacha K. and R. F. Long. 2019. Multiscale habitat mediates pest reduction by birds in an intensive agricultural region. Ecosphere 10(10):ecs2.2884. DOI: 10.1002/ecs2.2884</strong></p> <p>The home directory folder <em>Heath_Long_2019_data_code</em> contains a metadata.txt file describing entire contents and an Rstudio Project (<em>Heath_Long_2019_data_code</em>)<em> </em>comprised of four Rstudio Notebooks. Each notebook refers to data and output files from its associated folder(s):<br> <em>./appendix_s1_tabs2_tabs4.Rmd<br> ./pca_data/ <br> ./bird_analyses.Rmd<br> ./bird_data/<br> ./predation_analyses.Rmd<br> ./predation_data/<br> ./predation_data/predation_models/<br> ./predation_analyses_nocage.Rmd <br> ./predation_data/<br> . /predation_data/uncaged_predation_models/</em></p> <p> </p>
Habitat data for microbial organisms
<p>Data on habitats of microbial organisms derived from the following sources:</p> <p>Adam, R.D., 2017. Diplomonadida, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–28. <a href="https://doi.org/10.1007/978-3-319-32669-6_1-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_1-1</a></p> <p>Agatha S (2011) Global Diversity of Aloricate Oligotrichea (Protista, Ciliophora, Spirotricha) in Marine and Brackish Sea Water. PLoS ONE 6(8): e22466. <a href="https://doi.org/10.1371/journal.pone.0022466" target="_blank" rel="nofollow noopener">https://doi.org/10.1371/journal.pone.0022466</a></p> <p>Alker AP, Smith GW, Kim K. 2001. Characterization of Aspergillus sydowii (Thom et Church), a fungal pathogen of Caribbean sea fan corals. Hydrobiologia 460:105–11.</p> <p>Baldauf S.L., Strassmann J.E. (2017) Dictyostelia. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_14-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_14-1</a></p> <p>Baumgartner, M., Eberhardt, S., De Jonckheere, J. F., & Stetter, K. O. (2009). Tetramitus thermacidophilus n. sp., an amoeboflagellate from acidic hot springs. Journal of Eukaryotic Microbiology 56:201–206. <a href="https://doi.org/10.1111/j.1550-7408.2009.00390.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1550-7408.2009.00390.x</a></p> <p>Beakes G.W., Thines M. (2016) Hyphochytriomycota and Oomycota. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_26-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_26-1</a></p> <p>Bennett R.M., Honda D., Beakes G.W., Thines M. (2017) Labyrinthulomycota. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_25-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_25-1</a></p> <p>Bernard, Catherine, Alastair G. B. Simpson & David J. Patterson (2000) Some free-living flagellates (protista) from anoxic habitats Ophelia 52(2):113-142. <a href="https://doi.org/10.1080/00785236.1999.10409422" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00785236.1999.10409422</a></p> <p>Bigelow, D. M., Olsen, M. W., & Gilbertson, R. L. (2005). Labyrinthula terrestris sp. nov., a new pathogen of turf grass. Mycologia 97:185–190. <a href="https://doi.org/10.1080/15572536.2006.11832852" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/15572536.2006.11832852</a></p> <p>Bishop, A. (1935). Observations upon a “Trichomonas” from pond water. Parasitology 27:246–256. <a href="https://doi.org/10.1017/S0031182000015110" target="_blank" rel="nofollow noopener">https://doi.org/10.1017/S0031182000015110</a></p> <p>Boltovskoy D., Anderson O.R., Correa N.M. (2017) Radiolaria and Phaeodaria. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_19-2" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_19-2</a></p> <p>Borodina, A.S., Mylnikov, A.P., Janouškovec, J., Keeling, P.J. and Tikhonenkov, D.V., 2021. The Morphology, Ultrastructure and Molecular Phylogeny of a New Freshwater Heterolobose Amoeba Parafumarolamoeba stagnalis n. sp.(Vahlkampfiidae; Heterolobosea). Diversity, 13(9), p.433. <a href="https://doi.org/10.3390/d13090433" target="_blank" rel="nofollow noopener">https://doi.org/10.3390/d13090433</a></p> <p>Bourland, W. A. & Struder-Kypke, M. C. 2010. Agolohymena aspidocauda nov. gen., nov. spec., a histophagous freshwater tetrahymenid ciliate in the family Deltopylidae (Ciliophora, Hymenostomatia), from Idaho (northwest USA): morphology, ontogenesis and molecular phylogeny. Eur. J. Protistol. 46:221–242. <a href="https://doi.org/10.1016/j.ejop.2010.04.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2010.04.003</a></p> <p>Bradley, S.G. and Marciano-Cabral, F., 1996. Diversity of free-living ‘naked’amoeboid organisms. Journal of industrial microbiology and biotechnology, 17(3-4):314-321. <a href="https://doi.org/10.1007/BF01574706" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/BF01574706</a></p> <p>Buaya, A. T., Ploch, S., Inaba, S., & Thines, M. (2019). Holocarpic oomycete parasitoids of red algae are not Olpidiopsis. Fungal systematics and evolution 4:21–31. <a href="https://doi.org/10.3114/fuse.2019.04.03" target="_blank" rel="nofollow noopener">https://doi.org/10.3114/fuse.2019.04.03</a></p> <p>Bulman S., Neuhauser S. (2016) Phytomyxea. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_24-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_24-1</a></p> <p>Cavalier-Smith, T., Chao, E.E.-Y., 2006. Phylogeny and megasystematics of phagotrophic heterokonts (kingdom Chromista). J. Mol. Evol. 62, 388–420. <a href="https://doi.org/10.1007/s00239-004-0353-8" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s00239-004-0353-8</a></p> <p>Cavalier-Smith, Thomas & Ema E. Chao. (2012) Oxnerella micra sp. n. (Oxnerellidae fam. n.), a Tiny Naked Centrohelid, and the Diversity and Evolution of Heliozoa. Protist 163(4):574-601. <a href="https://doi.org/10.1016/j.protis.2011.12.005" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2011.12.005</a></p> <p>Cepicka, I., Hampl, V., Kulda, J., 2010. Critical Taxonomic Revision of Parabasalids with Description of one New Genus and three New Species. Protist 161:400–433. <a href="https://doi.org/10.1016/j.protis.2009.11.005" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2009.11.005</a></p> <p>Cho, Anna, Denis V. Tikhonenkov, Elisabeth Hehenberger, Anna Karnkowska, Alexander P. Mylnikov, and Patrick J. Keeling. 2022. Monophyly of Diverse Bigyromonadea and their Impact on Phylogenomic Relationships Within Stramenopiles. Molecular Phylogenetics and Evolution 171: 107468. <a href="https://doi.org/10.1016/j.ympev.2022.107468" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ympev.2022.107468</a></p> <p>Clarke, A., 2014. The thermal limits to life on Earth. International Journal of Astrobiology 13, 141–154. <a href="https://doi.org/10.1017/S147355041300043" target="_blank" rel="nofollow noopener">https://doi.org/10.1017/S147355041300043</a></p> <p>Cook, M.E., Graham, L.E., 2016. Chlorokybophyceae, Klebsormidiophyceae, Coleochaetophyceae, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–20. <a href="https://doi.org/10.1007/978-3-319-32669-6_36-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_36-1</a></p> <p>D’Amico, S., Collins, T., Marx, J.-C., Feller, G., Gerday, C., 2006. Psychrophilic microorganisms: challenges for life. EMBO Rep 7, 385–389. <a href="https://doi.org/10.1038/sj.embor.7400662" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/sj.embor.7400662</a></p> <p>Darienko T, Rad-Menéndez C, Campbell CN, Pröschold T. 2021. Molecular Phylogeny of Unicellular Marine Coccoid Green Algae Revealed New Insights into the Systematics of the Ulvophyceae (Chlorophyta). Microorganisms 9(8):1586. <a href="https://doi.org/10.3390/microorganisms9081586" target="_blank" rel="nofollow noopener">https://doi.org/10.3390/microorganisms9081586</a></p> <p>De Jonckheere, J.F., Baumgartner, M., Opperdoes, F.R. and Stetter, K.O., 2009. Marinamoeba thermophila, a new marine heterolobosean amoeba growing at 50° C. European journal of protistology, 45(3), pp.231-236. <a href="https://doi.org/10.1016/j.ejop.2009.01.001" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2009.01.001</a></p> <p>Dee, J.M., Mollicone, M., Longcore, J.E., Roberson, R.W., Berbee, M.L., 2015. Cytology and molecular phylogenetics of Monoblepharidomycetes provide evidence for multiple independent origins of the hyphal habit in the Fungi. Mycologia 107, 710–728. <a href="https://doi.org/10.3852/14-275" target="_blank" rel="nofollow noopener">https://doi.org/10.3852/14-275</a></p> <p>Dewel, R. A., J. D. Joines, and J. J. Bond. 1985. A new chytridiomycete parasitizing the tardigrade Milnesium tardigradum. Canad. J. Bot. 63:1525- 1534. <a href="https://doi.org/10.1139/b85-211" target="_blank" rel="nofollow noopener">https://doi.org/10.1139/b85-211</a></p> <p>Dykstra M, Olive L. 1975. An unusual sorocarp-producing Protist. Mycologia 67 (4):873–879. <a href="https://doi.org/10.1080/00275514.1975.12019815" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00275514.1975.12019815</a></p> <p>Dykstra, M. J. Porter, D. 1984. Diplophrys marina, a New Scale-Forming Marine Protist with Labyrinthulid Affinities. Mycologia 76(4):626. <a href="https://doi.org/10.2307/3793219" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/3793219</a></p> <p>Eikrem W. et al. (2017) Haptophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_38-2" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_38-2</a></p> <p>Eliáš, M., Amaral, R., Fawley, K.P., Fawley, M.W., Němcová, Y., Neustupa, J., Přibyl, P., Santos, L.M.A., Ševčíková, T., 2017. Eustigmatophyceae, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–39. <a href="https://doi.org/10.1007/978-3-319-32669-6_39-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_39-1</a></p> <p>Embree, R.W. and Indoh, H., 1967. Aquamortierella, a new genus in the Mucorales. Bulletin of the Torrey Botanical Club, pp.464-467. <a href="https://doi.org/10.2307/2483563" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/2483563</a></p> <p>Emerson, R., & Natvig, D. O. (1981). Adaptation of fungi to stagnant waters. In D. T. Wicklow & G. C. Carroll (Eds.), The fungal community, its organization and role in the ecosystem (pp. 109–128). New York: Marcel Dekker.</p> <p>Farmer, M. A. (1993). Ultrastructure of Ditrichomonas honigbergii n. g., n. sp. (Parabasalia) and its relationships to amitochondrial protists. The Journal of Eukaryotic Microbiology 40:619–626. <a href="https://doi.org/10.1111/j.1550-7408.1993.tb06119.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1550-7408.1993.tb06119.x</a></p> <p>Fawley, K.P., Fawley, M.W., 2007. Observations on the diversity and ecology of freshwater Nannochloropsis (Eustigmatophyceae), with descriptions of new taxa. Protist 158(3): 325-336. <a href="https://doi.org/10.1016/j.protis.2007.03.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2007.03.003</a></p> <p>Fawley, M.W., Jameson, I., Fawley, K.P., 2015. The phylogeny of the genus Nannochloropsis (Monodopsidaceae, Eustigmatophyceae), with descriptions of N. australis sp. nov. and Microchloropsis gen. nov. Phycologia 54(5): 545-552. <a href="https://doi.org/10.2216/15-60.1" target="_blank" rel="nofollow noopener">https://doi.org/10.2216/15-60.1</a></p> <p>Fell, J.W., Statzell, A.C., Hunter, I.L. and Phaff, H.J., 1969. Leucosporidium gen. n., the heterobasidiomycetous stage of several yeasts of the genus Candida. Antonie van Leeuwenhoek, 35(1), pp.433-462.</p> <p>Figueroa‐Martinez, F., Nedelcu, A.M., Smith, D.R., Reyes‐Prieto, A., 2015. When the lights go out: the evolutionary fate of free‐living colorless green algae. New Phytol 206, 972–982. <a href="https://doi.org/10.1111/nph.13279" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/nph.13279</a></p> <p>Foissner, W., 2000. A compilation of soil and moss ciliates (Protozoa, Ciliophora) from Germany, with new records and descriptions of new and insufficiently known species. European Journal of Protistology 36:253–283. <a href="https://doi.org/10.1016/S0932-4739" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/S0932-4739</a>(00)80003-6</p> <p>Fritsch, F.E., 1944. Cladophorella calcicola nov. gen. et sp., a terrestrial member of the Cladophorales. Annals of Botany, 8(30/31), pp.157-171. <a href="https://www.jstor.org/stable/42908460" target="_blank" rel="nofollow noopener">https://www.jstor.org/stable/42908460</a></p> <p>Gao, F., Warren, A., Zhang, Q., Gong, J., Miao, M., Sun, P., Xu, D., Huang, J., Yi, Z., Song, W., 2016. The All-Data-Based Evolutionary Hypothesis of Ciliated Protists with a Revised Classification of the Phylum Ciliophora (Eukaryota, Alveolata). Scientific Reports 6:24874. <a href="https://doi.org/10.1038/srep24874" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/srep24874</a></p> <p>Garstecki, T., Brown, S., & De Jonckheere, J. F. (2005). Description of Vahlkampfia signyensis n. sp. (Heterolobosea), based on morphological, ultrastructural and molecular characteristics. European Journal of Protistology 41:119–127. <a href="https://doi.org/10.1016/j.ejop.2005.01.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2005.01.003</a></p> <p>Gast, R.J., 2017. Centrohelida and Other Heliozoan-Like Protists, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–17. <a href="https://doi.org/10.1007/978-3-319-32669-6_28-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_28-1</a></p> <p>Geisen, S., Bonkowski, M., Zhang, J. and De Jonckheere, J.F., 2015. Heterogeneity in the genus Allovahlkampfia and the description of the new genus Parafumarolamoeba (Vahlkampfiidae; Heterolobosea). European Journal of Protistology, 51(4), pp.335-349. <a href="https://doi.org/10.1016/j.ejop.2015.05.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2015.05.003</a></p> <p>Glockling, S.L., Marshall, W.L., Gleason, F.H., 2013. Phylogenetic interpretations and ecological potentials of the Mesomycetozoea (Ichthyosporea). Fungal Ecology 6, 237–247. <a href="https://doi.org/10.1016/j.funeco.2013.03.005" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.funeco.2013.03.005</a></p> <p>Glücksman, E., Snell, E.A., Berney, C., Chao, E.E., Bass, D. and Cavalier-Smith, T., 2011. The novel marine gliding zooflagellate genus Mantamonas (Mantamonadida ord. n.: Apusozoa). Protist, 162(2), pp.207-221. <a href="https://doi.org/10.1016/j.protis.2010.06.004" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2010.06.004</a></p> <p>Gomaa F, Mitchell EAD, Lara E. 2013. Amphitremida (Poche, 1913) Is a New Major, Ubiquitous Labyrinthulomycete Clade. PLoS ONE 8(1): e53046. <a href="https://doi.org/10.1371/journal.pone.0053046" target="_blank" rel="nofollow noopener">https://doi.org/10.1371/journal.pone.0053046</a></p> <p>Gong, S., Li, Z., Zhang, F., Xiao, Y. and Cheng, H., 2018. Symbiochlorum hainanensis gen. et sp. nov.(Ulvophyceae, Chlorophyta) isolated from bleached corals living in the South China Sea. Journal of phycology, 54(6), pp.811-817. <a href="https://doi.org/10.1111/jpy.12779" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.12779</a></p> <p>Graf, L., Yang, E.C., Boo, G.H., Andersen, R.A., Yoon, H.S., 2020. Further investigations on the PHAEOTHAMNIOPHYCEAE using a multigene phylogeny, with descriptions of five new species. Journal of Phycology 56, 358–379. <a href="https://doi.org/10.1111/jpy.12950" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.12950</a></p> <p>Hall J.D., McCourt R. (2017) Zygnematophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_41-2" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_41-2</a></p> <p>Hampl V. (2016) Preaxostyla. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_8-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_8-1</a></p> <p>Hehenberger, E., Tikhonenkov, D.V., Kolisko, M., Del Campo, J., Esaulov, A.S., Mylnikov, A.P. and Keeling, P.J., 2017. Novel predators reshape holozoan phylogeny and reveal the presence of a two-component signaling system in the ancestor of animals. Current Biology, 27(13), pp.2043-2050. <a href="https://doi.org/10.1016/j.cub.2017.06.006" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.cub.2017.06.006</a></p> <p>Heiss, A.A., Brown, M.W., Simpson, A.G.B., 2016. Apusomonadida, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–27. <a href="https://doi.org/10.1007/978-3-319-32669-6_15-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_15-1</a></p> <p>Ho, H. H., & Jong, S. C. (1990). Halophytophthora gen. nov., a new member of the family Pythiaceae. Mycotaxon 19:377–382.</p> <p>Hoef-Emden, K., 2005. Multiple Independent Losses of Photosynthesis and Differing EvolutionaryRates in the Genus Cryptomonas (Cryptophyceae): Combined Phylogenetic Analyses of DNA Sequences of the Nuclear and the Nucleomorph Ribosomal Operons. J Mol Evol 60, 183–195. <a href="https://doi.org/10.1007/s00239-004-0089-5" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s00239-004-0089-5</a></p> <p>Hoef-Emden, K., Archibald, J.M., 2016. Cryptophyta (Cryptomonads), in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–41. <a href="https://doi.org/10.1007/978-3-319-32669-6_35-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_35-1</a></p> <p>Holzinger, A., Lütz, C., & Karsten, U. (2011). Desiccation stress causes structural and ultrastructural alterations in the aeroterrestrial green alga Klebsormidium crenulatum (Klebsormidiophyceae, Streptophyta) isolated from an alpine soil crust. Journal of Phycology, 47, 591–602. <a href="https://doi.org/10.1111/j.1529-8817.2011.00980.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1529-8817.2011.00980.x</a></p> <p>Horiguchi T. (2016) Raphidophyceae (Raphidophyta). In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_37-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_37-1</a></p> <p>Howe, A.T., Bass, D., Scoble, J.M., Lewis, R., Vickerman, K., Arndt, H., Cavalier-Smith, T., 2011. Novel Cultured Protists Identify Deep-branching Environmental DNA Clades of Cercozoa: New Genera Tremula, Micrometopion, Minimassisteria, Nudifila, Peregrinia. Protist 162, 332–372. <a href="https://doi.org/10.1016/j.protis.2010.10.002" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2010.10.002</a></p> <p>Huang, J.-H., Chen, C.-Y., Lin, Y.-H., Ann, P.-J., Huang, H.-C., & Chung, W.-H. (2012). Six new species of Pythiogeton in Taiwan, with an account of the molecular phylogeny of this genus. Mycoscience, 54:130–147. <a href="https://doi.org/10.1016/j.myc.2012.09.007" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.myc.2012.09.007</a></p> <p>Ichinomiya, M., dos Santos, A.L., Gourvil, P., Yoshikawa, S., Kamiya, M., Ohki, K., Audic, S., de Vargas, C., Noël, M.-H., Vaulot, D., Kuwata, A., 2016. Diversity and oceanic distribution of the Parmales (Bolidophyceae), a picoplanktonic group closely related to diatoms. ISME J 10, 2419–2434. <a href="https://doi.org/10.1038/ismej.2016.38" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/ismej.2016.38</a></p> <p>Jaške, K., Barcytė, D., Pánek, T., Ševčíková, T., Eliášová, A., Eliáš, M., 2022. The net-like heterotrophic amoeba Leukarachnion salinum sp. nov. (Ochrophyta, Stramenopiles) has a cryptic plastid. bioRxiv.\ <a href="https://doi.org/10.1101/2022.04.05.487141" target="_blank" rel="nofollow noopener">https://doi.org/10.1101/2022.04.05.487141</a></p> <p>Jee HJ, Ho HH, Cho WD, 2000. Pythiogeton zeae sp. nov. causing root and basal stalk rot of corn in Korea. Mycologia 92: 522e527. <a href="https://doi.org/10.1080/00275514.2000.12061188" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00275514.2000.12061188</a></p> <p>Kachalkin, A.V., 2014. Yeasts of the White Sea intertidal zone and description of Glaciozyma litorale sp. nov. Antonie van Leeuwenhoek, 105(6), pp.1073-1083. <a href="https://doi.org/10.1007/s10482-014-0165-9" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s10482-014-0165-9</a></p> <p>Kai, A., Yoshii, Y., Nakayama, T. and Inouye, I., 2008. Aurearenophyceae classis nova, a new class of Heterokontophyta based on a new marine unicellular alga Aurearena cruciata gen. et sp. nov. inhabiting sandy beaches. Protist, 159(3), pp.435-457. <a href="https://doi.org/10.1016/j.protis.2007.12.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2007.12.003</a></p> <p>Kawai H., Henry E.C. (2016) Phaeophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_31-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_31-1</a> <a href="https://doi.org/10.1007/978-3-319-32669-6_31-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_31-1</a></p> <p>Keeling, P.J., 2016. Chlorarachniophytes, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–17. <a href="https://doi.org/10.1007/978-3-319-32669-6_34-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_34-1</a></p> <p>Kirill A. Mikrjukov & Irina Milyutina (2001) Heliozoa as a component of marine Microbenthos: A study of heliozoa of the White Sea, Ophelia 54(1):51-73. <a href="https://doi.org/10.1080/00785326.2001.10409455" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00785326.2001.10409455</a></p> <p>Kostygov, A.Y., Karnkowska, A., Votýpka, J., Tashyreva, D., Maciszewski, K., Yurchenko, V., Luke, J., 2021. Euglenozoa: taxonomy, diversity and ecology, symbioses and viruses. Open Biology 11:200407. <a href="https://doi.org/10.1098/rsob.200407" target="_blank" rel="nofollow noopener">https://doi.org/10.1098/rsob.200407</a></p> <p>Kristiansen, J., Škaloud, P., 2016. Chrysophyta, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–38. <a href="https://doi.org/10.1007/978-3-319-32669-6_43-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_43-1</a></p> <p>Kubanek J, Jensen PR, Keifer PA, Sullards MC, Collins DO, Fenical W. 2003. Seaweed resistance to microbial attack: a targeted chemical defence against marine fungi. Proc. Natl. Acad. Sci. USA 100: 6916–21. <a href="https://doi.org/10.1073/pnas.1131855100" target="_blank" rel="nofollow noopener">https://doi.org/10.1073/pnas.1131855100</a></p> <p>Kulda J., Nohýnková E., Čepička I. (2016) Retortamonadida (with Notes on Carpediemonas-Like Organisms and Caviomonadidae). In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_3-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_3-1</a></p> <p>Küpper FC, Maier I, Müller DG, Loiseaux-de Goer S, Guillou L. 2006. Phylogenetic affinities of two eukaryotic pathogens of marine macroalgae, Eurychasma dicksonii (Wright) Magnus and Chytridium polysiphoniae Cohn. Cryptogam. Algol. 27:165–84</p> <p>Leliaert, F., Smith, D.R., Moreau, H., Herron, M.D., Verbruggen, H., Delwiche, C.F., De Clerck, O., 2012. Phylogeny and Molecular Evolution of the Green Algae. Critical Reviews in Plant Sciences 31:1–46. <a href="https://doi.org/10.1080/07352689.2011.615705" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/07352689.2011.615705</a></p> <p>Lepelletier, F., Karpov, S. A., Alacid, E., LePanse, S., Bigeard, E., Garces, E., Jeanthon, C., & Guillou, L. 2014. Dinomyces arenysensis gen. et sp. nov. (Rhizophydiales, Dinomycetaceae fam. nov.), a chytrid infecting marine dinoflagellates. Protist 165:230–244. <a href="https://doi.org/10.1016/j.protis.2014.02.004" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2014.02.004</a></p> <p>Lester R.J.G., Hine P.M. (2017) Paramyxida. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_21-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_21-1</a></p> <p>Lhee, D., Ha, J. S., Kim, S., Park, M. G., Bhattacharya, D., & Yoon, H. S. (2019). Evolutionary dynamics of the chromatophore genome in three photosynthetic Paulinella species. Scientific reports, 9(1), 2560. <a href="https://doi.org/10.1038/s41598-019-38621-8" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/s41598-019-38621-8</a></p> <p>Li, S., Tan, H., Liu, B., Zhu, H., Hu, Z., Liu, G., 2021. Watanabeales ord. nov. and twelve novel species of Trebouxiophyceae (Chlorophyta). Journal of Phycology 57, 1167–1186. <a href="https://doi.org/10.1111/jpy.13165" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.13165</a></p> <p>Lobban, C.S., Honda, D., Chihara, M. and Schefter, M., 1995. Chrysocystis fragilis gen. nov., sp. nov.(Chrysophyceae, Sarcinochrysidales), with Notes on Other Macroscopic. Micronesica, 28(1), pp.91-102.</p> <p>Lokhorst, G.M., Star, W. and Lukešová, A., 2000. The new species Hormidiella attenuata (Klebsormidiales), notes on morphology and reproduction. Algological Studies/Archiv für Hydrobiologie, Supplement Volumes, pp.11-27. <a href="https://doi.org/10.1127/algol_stud/100/2000/11" target="_blank" rel="nofollow noopener">https://doi.org/10.1127/algol_stud/100/2000/11</a></p> <p>Lukešová S, Karlicki M, Tomečková Hadariová L, Szabová J, Karnkowska A, Hampl V. 2020. Analyses of environmental sequences and two regions of chloroplast genomes revealed the presence of new clades of photosynthetic euglenids in marine environments. Environ. Microbiol. Rep. 12:78–91. <a href="https://doi.org/10.1111/17582229.12817" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/17582229.12817</a></p> <p>Maistro S., Broady P., Andreoli C., Negrisolo E. (2016) Xanthophyceae. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_30-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_30-1</a></p> <p>McCauley, L.A.R., Wehr, J.D., 2007. Taxonomic reappraisal of the freshwater brown algae Bodanella, Ectocarpus, Heribaudiella, and Pleurocladia (Phaeophyceae) on the basis of rbcL sequences and morphological characters. Phycologia 46, 429–439. <a href="https://doi.org/10.2216/05-08.1" target="_blank" rel="nofollow noopener">https://doi.org/10.2216/05-08.1</a></p> <p>McCauley, Linda Anne Roy. (2002) Phylogenetic Relationships of Freshwater Brown Algae (Phaeophycean) Based on Rubisco Large Subunit and Ribosomal DNA Sequences. ETD Collection for Fordham University. AAI13853687. <a href="https://research.library.fordham.edu/dissertations/AAI13853687" target="_blank" rel="nofollow noopener">https://research.library.fordham.edu/dissertations/AAI13853687</a></p> <p>McCourt, R.M., Karol, K.G., Hall, J.D., Casanova, M.T., Grant, M.C., 2017. Charophyceae (Charales), in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–19. <a href="https://doi.org/10.1007/978-3-319-32669-6_40-2" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_40-2</a></p> <p>Mikhailyuk TI, Sluiman HJ, Massalski A, Mudimu O, Demchenko EM, Kondratyuk SY, Friedl T. 2008. New streptophyte green algae from terrestrial habitats and an assessment of the genus Interfilum (Klebsormidiophyceae, Streptophyta). J Phycol. 44(6):1586-603. <a href="https://doi.org/10.1111/j.1529-8817.2008.00606.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1529-8817.2008.00606.x</a></p> <p>Mikhailyuk, T., Lukešová, A., Glaser, K., Holzinger, A., Obwegeser, S., Nyporko, S., Friedl, T., & Karsten, U. (2018). New Taxa of Streptophyte Algae (Streptophyta) from Terrestrial Habitats Revealed Using an Integrative Approach. Protist, 169(3), 406–431. <a href="https://doi.org/10.1016/j.protis.2018.03.002" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2018.03.002</a></p> <p>Mikrjukov, K. A. & Patterson, D. J. 2001. Taxonomy and phylogeny of Heliozoa. III. Actinophryids. Acta. Protozool. 40: 3–25.</p> <p>Mikrujkov, K. A. 1999. Taxonomic revision of scale-bearing heliozoon-like amoebae (Pompholyxophryidae, Rotosphaerida). Acta Protozoologica 38:119-131.</p> <p>Murtagh, G. J., Dyer, P. S., Rogerson, A., Nash, G. V. & Laybourn-Parry, J. 2002. A new species of Tetramitus in the benthos of a saline antarctic lake. Eur. J. Protistol. 37:437–443. <a href="https://doi.org/10.1078/0932-4739-00836" target="_blank" rel="nofollow noopener">https://doi.org/10.1078/0932-4739-00836</a></p> <p>Nagahama T, Hamamoto M, Nakase T, Takaki Y, Horikoshi K. 2003. Cryptococcus surugaensis sp. nov., a novel yeast species from sediment collected on the deep-sea floor of Suruga Bay. Int J Syst Evol Microbiol. 53 (Pt 6):2095-8. <a href="http://doi.org/10.1099/ijs.0.02712-0" target="_blank" rel="nofollow noopener">http://doi.org/10.1099/ijs.0.02712-0</a></p> <p>Nakayama, T., 2015. Biology, Diversity and Ecology of Free-Living Heterotrophic Flagellates, in: Ohtsuka, S., Suzaki, T., Horiguchi, T., Suzuki, N., Not, F. (Eds.), Marine Protists. Springer Japan, Tokyo, pp. 63–87. <a href="https://doi.org/10.1007/978-4-431-55130-0_4" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-4-431-55130-0_4</a></p> <p>Nan, F., Feng, J., Lv, J. et al. Origin and evolutionary history of freshwater Rhodophyta: further insights based on phylogenomic evidence. Sci Rep 7, 2934 (2017). <a href="https://doi.org/10.1038/s41598-017-03235-5" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/s41598-017-03235-5</a></p> <p>Newell, S. Y., Cefalu, R., & Fell, J. W. (1977). Myzocytium, Haptoglossa, and Gonimochaete (fungi) in littoral marine nematodes. Bulletin of Marine Science 27:177–207.</p> <p>Nitsche, F. (2014). Stephanoeca arndti spec. nov. - First cultivation success including molecular and autecological data from a freshwater acanthoecid choanoflagellate from Samoa. European Journal of Protistology, 50, 412–421. <a href="https://doi.org/10.1016/j.ejop.2014.03.004" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2014.03.004</a></p> <p>Nyvall, P., Pedersén, M., & Longcore, J. E. 1999. Thalassochytrium gracilariopsidis (Chytridiomycota), gen. et sp. nov., endosymbiotic in Gracilariopsis sp. (Rhodophyceae). Journal of Phycology 35:176–185. <a href="https://doi.org/10.1046/j.1529-8817.1999.3510176.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1046/j.1529-8817.1999.3510176.x</a></p> <p>Oborník, M., Modrý, D., Lukeš, M., Černotíková-Stříbrná, E., Cihlář, J., Tesařová, M., ... & Lukeš, J. (2012). Morphology, ultrastructure and life cycle of Vitrella brassicaformis n. sp., n. gen., a novel chromerid from the Great Barrier Reef. Protist, 163(2), 306-323. <a href="http://doi.org/10.1016/j.protis.2011.09.001" target="_blank" rel="nofollow noopener">http://doi.org/10.1016/j.protis.2011.09.001</a></p> <p>Okamura, T. and Kondo, R., 2015. Suigetsumonas clinomigrationis gen. et sp. nov., a novel facultative anaerobic nanoflagellate isolated from the meromictic Lake Suigetsu, Japan. Protist, 166(4), pp.409-421. <a href="https://doi.org/0.1016/j.protis.2015.06.003" target="_blank" rel="nofollow noopener">https://doi.org/0.1016/j.protis.2015.06.003</a></p> <p>Olive, L. S. 1980. Caulochytrium protostelioides sp. nov., a New Chytrid with Aerial Sporangia. American Journal of Botany 67(4):568-574. <a href="https://doi.org/10.2307/2442298" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/2442298</a></p> <p>Pánek T., Simpson A.G.B., Brown M.W., Dexter Dyer B. (2016) Heterolobosea. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_10-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_10-1</a></p> <p>Pánek, T., Ptáčková, E., Čepička, I., 2014. Survey on diversity of marine/saline anaerobic Heterolobosea (Excavata: Discoba) with description of seven new species. International Journal of Systematic and Evolutionary Microbiology 64:2280–2304. <a href="https://doi.org/10.1099/ijs.0.063487-0" target="_blank" rel="nofollow noopener">https://doi.org/10.1099/ijs.0.063487-0</a></p> <p>Pánek, T., Simpson, A. G. B., Hampl, V., & Čepička, I. (2014). Creneis carolina gen. et sp. nov. (Heterolobosea), a novel marine anaerobic protist with strikingly derived morphology and life cycle. Protist 165:542–567. <a href="https://doi.org/10.1016/j.protis.2014.05.005" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2014.05.005</a></p> <p>Parkinson, P., 2002. Ontogeny v. Phylogeny: the strange case of the silicoflagellates. Constancea, 83(18), pp.1-42.</p> <p>Paul, M. 2012. Acanthocorbis mongolica nov. spec.: Description of the first freshwater loricate choanoflagellate (Acanthoecida) from a Mongolian lake. European Journal of Protistology, 48, 1–8. <a href="https://doi.org/10.1016/j.ejop.2011.07.001" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2011.07.001</a></p> <p>Peters, M.C., Andersen, R.A., 1993. The fine structure and scale formation of Chrysolepidomonas dendrolepidota gen. et sp. nov. (Chrysolepidomonadaceae fam. nov., Chrysophyceae). J. Phycol. 29, 469–475. <a href="https://doi.org/10.1111/j.1529-8817.1993.tb00148.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1529-8817.1993.tb00148.x</a></p> <p>Powell M.J. (2016) Blastocladiomycota. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_17-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_17-1</a></p> <p>Powell M.J. 1993. Looking at Mycology with a Janus Face: A Glimpse at Chytridiomycetes Active in the Environment. Mycologia 85:1-20. <a href="https://doi.org/10.1080/00275514.1993.12026239" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00275514.1993.12026239</a></p> <p>Price D.C., Steiner J.M., Yoon H.S., Bhattacharya D., Löffelhardt W. (2016) Glaucophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_42-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_42-1</a></p> <p>Raghukumar, S. (1987). Occurrence of the Thraustochytrid, Corallochytrium limacisporum gen. et sp. nov. in the coral reef lagoons of the Lakshadweep Islands in the Arabian Sea. Bot. Mar. 30, 83–89. <a href="https://doi.org/10.1515/botm.1987.30.1.83" target="_blank" rel="nofollow noopener">https://doi.org/10.1515/botm.1987.30.1.83</a></p> <p>Redhead, S.A., 1977. The genus Neolecta (Neolectaceae fam. nov., Lecanorales, Ascomycetes) in Canada. Canadian Journal of Botany, 55(3), pp.301-306. <a href="https://doi.org/10.1139/b77-041" target="_blank" rel="nofollow noopener">https://doi.org/10.1139/b77-041</a></p> <p>Richter, D.J., Nitsche, F., 2016. Choanoflagellatea, in: Archibald, J.M., Simpson, A.G.B., Slamovits, C.H., Margulis, L., Melkonian, M., Chapman, D.J., Corliss, J.O. (Eds.), Handbook of the Protists. Springer International Publishing, Cham, pp. 1–19. <a href="https://doi.org/10.1007/978-3-319-32669-6_5-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_5-1</a></p> <p>Rindi, F., Lopez-Bautista, J.M., Sherwood, A.R. and Guiry, M.D., 2006. Morphology and phylogenetic position of Spongiochrysis hawaiiensis gen. et sp. nov., the first known terrestrial member of the order Cladophorales (Ulvophyceae, Chlorophyta). International Journal of Systematic and Evolutionary Microbiology, 56(4), pp.913-922. <a href="https://doi.org/10.1099/ijs.0.63977-0" target="_blank" rel="nofollow noopener">https://doi.org/10.1099/ijs.0.63977-0</a></p> <p>Sawyer, T. K. 1980. Marine Amebae from Clean and Stressed Bottom Sediments of the Atlantic Ocean Gulf of Mexico. J.Protozool. 27(1):13-32.</p> <p>Schnepf E. 1994. Light and electron microscopical observations in Rhynchopus coscinodiscivorus spec. nov., a colorless, phagotrophic euglenozoon with concealed flagella. Arch. Protistenk. 144:63–74. <a href="https://doi.org/10.1016/S0003-9365(11)80225-3">https://doi.org/10.1016/S0003-9365(11)80225-3</a></p> <p>Sebastian Hess. 2017. Hunting for agile prey: trophic specialisation in leptophryid amoebae (Vampyrellida, Rhizaria) revealed by two novel predators of planktonic algae, FEMS Microbiology Ecology 93(9):fix104. <a href="https://doi.org/10.1093/femsec/fix104" target="_blank" rel="nofollow noopener">https://doi.org/10.1093/femsec/fix104</a></p> <p>Shiratori, T., & Ishida, K.-I. (2016). Entamoeba marina n. sp.; a new species of Entamoeba isolated from tidal flat sediment of Iriomote Island, Okinawa, Japan. Journal of Eukaryotic Microbiology 63:280–286. <a href="https://doi.org/10.1111/jeu.12276" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jeu.12276</a></p> <p>Shubert, E. and Gärtner, G., 2015. Nonmotile Coccoid and Colonial Green Algae. Freshwater Algae of North America, pp.315-373. <a href="https://doi.org/10.1016/B978-0-12-385876-4.00007-4" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/B978-0-12-385876-4.00007-4</a></p> <p>Siemensma F. J. (1991). Klasse Heliozoa Haeckel, 1866. - In F.C. Page & FJ. Siemensma (eds.). Nackte Rhizopoda und Heliozoea. Protozoenfauna 2, pp. 171-297. Gustav Fischer Verlag, Stuttgart.</p> <p>Simpson A.G.B. (2016) Jakobida. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_6-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_6-1</a></p> <p>Simpson, A. G., & Patterson, D. J. (1996). Ultrastructure and identification of the predatory flagellate Colpodella pugnax Cienkowski (Apicomplexa) with a description of Colpodella turpis n. sp. and a review of the genus. Systematic Parasitology 33(3):187-198.</p> <p>Škaloud, P., Kalina, T., Nemjová, K., De Clerck, O. and Leliaert, F., 2013. Morphology and phylogenetic position of the freshwater green microalgae Chlorochytrium (Chlorophyceae) and Scotinosphaera (Scotinosphaerales, ord. nov., Ulvophyceae). Journal of Phycology, 49(1), pp.115-129. <a href="https://doi.org/10.1111/jpy.12021" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.12021</a></p> <p>Stephenson S.L., Schnittler M. (2016) Myxomycetes. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_44-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_44-1</a></p> <p>Takahashi Y, Yoshida M, Inouye I, Watanabe MM. 2014. Diplophrys mutabilis sp. nov., a new member of Labyrinthulomycetes from freshwater habitats. Protist 165(1):50-65. <a href="http://doi.org/10.1016/j.protis.2013.10.001" target="_blank" rel="nofollow noopener">http://doi.org/10.1016/j.protis.2013.10.001</a></p> <p>Takishita, K., Kakizoe, N., Yoshida, T., & Maruyama, T. 2010. Molecular evidence that phylogenetically diverged ciliates are active in microbial mats of deep‐sea cold‐seep sediment. Journal of Eukaryotic Microbiology 57(1):76-86. <a href="http://doi.org/10.1111/j.1550-7408.2009.00457.x" target="_blank" rel="nofollow noopener">http://doi.org/10.1111/j.1550-7408.2009.00457.x</a></p> <p>Tashyreva, D., Simpson, A., Prokopchuk, G., Škodová-Sveráková, I., Butenko, A., Hammond, M., George, E.E., Flegontova, O., Záhonová, K., Faktorová, D. and Yabuki, A., 2022. Diplonemids–A Review on “New “Flagellates on the Oceanic Block. Protist 173:125868. <a href="https://doi.org/10.1016/j.protis.2022.125868" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2022.125868</a></p> <p>Temraleeva, A., Moskalenko, S., Mincheva, E., Bukin, Y. and Sinetova, M., 2018. Spongiosarcinopsis terrestris gen. et sp. nov.(Chlorophyta, Chlorophyceae): a new genus of green algae from gray forest soil, Russia. Phytotaxa, 376(6), pp.291-300. <a href="http://dx.doi.org/10.11646/phytotaxa.376.6.4" target="_blank" rel="nofollow noopener">http://dx.doi.org/10.11646/phytotaxa.376.6.4</a></p> <p>Tragin, M., Vaulot, D. Novel diversity within marine Mamiellophyceae (Chlorophyta) unveiled by metabarcoding. Sci Rep 9, 5190 (2019). <a href="https://doi.org/10.1038/s41598-019-41680-6" target="_blank" rel="nofollow noopener">https://doi.org/10.1038/s41598-019-41680-6</a></p> <p>Turchetti, B., Thomas Hall, S.R., Connell, L.B., Branda, E., Buzzini, P., Theelen, B., Müller, W.H. and Boekhout, T., 2011. Psychrophilic yeasts from Antarctica and European glaciers: description of Glaciozyma gen. nov., Glaciozyma martinii sp. nov. and Glaciozyma watsonii sp. nov. Extremophiles, 15(5), pp.573-586. <a href="https://doi.org/10.1007/s00792-011-0388-x" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s00792-011-0388-x</a></p> <p>Van Oye, P., 1956. On the Thecamoeban fauna of New Zealand with description of four new species. Hydrobiologia 8:16–37.</p> <p>Visnovsky, G. & P. M. Novis, 2012. Novel alpine algae from New Zealand: Chlorophyta. Phytotaxa 39, 1-30. <a href="https://doi.org/10.11646/phytotaxa.39.1.1" target="_blank" rel="nofollow noopener">https://doi.org/10.11646/phytotaxa.39.1.1</a></p> <p>von der Heyden, Sophie, Ema Chao & Thomas Cavalier-Smith (2004) Genetic diversity of goniomonads: an ancient divergence between marine and freshwater species. European Journal of Phycology 39(4):343-350. <a href="https://doi.org/10.1080/09670260400005567" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/09670260400005567</a></p> <p>Voos, J. R. & L. S. Olive. 1968. A new chytrid with aerial sporangia. Myco/ogia 60:730-733. <a href="https://doi.org/10.1080/00275514.1968.12018631" target="_blank" rel="nofollow noopener">https://doi.org/10.1080/00275514.1968.12018631</a></p> <p>Votýpka J., Modrý D., Oborník M., Šlapeta J., Lukeš J. (2016) Apicomplexa. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_20-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_20-1</a></p> <p>Walker G., Zadrobílková E., Čepička I. (2017) Archamoebae. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_11-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_11-1</a></p> <p>Watanabe, S., Fučíková, K., Lewis, L.A. and Lewis, P.O., 2016. Hiding in plain sight: Koshicola spirodelophila gen. et sp. nov.(Chaetopeltidales, Chlorophyceae), a novel green alga associated with the aquatic angiosperm Spirodela polyrhiza. American Journal of Botany, 103(5), pp.865-875. <a href="https://doi.org/10.3732/ajb.1500481" target="_blank" rel="nofollow noopener">https://doi.org/10.3732/ajb.1500481</a></p> <p>Wehr, J., 2015. Brown Algae, in: Freshwater Algae of North America: Ecology and Classification. pp. 851–871. <a href="https://doi.org/10.1016/B978-0-12-385876-4.00019-0" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/B978-0-12-385876-4.00019-0</a></p> <p>Wehr, J., Sheath, R., Kociolek, J.P. (Eds.), 2015. Freshwater Algae of North America - 2nd Edition. Academic Press.</p> <p>Wetherbee, R., Bringloe, T.T., Costa, J.F., van de Meene, A., Andersen, R.A. and Verbruggen, H., 2021. New pelagophytes show a novel mode of algal colony development and reveal a perforated theca that may define the class. Journal of Phycology, 57(2), pp.396-411. <a href="https://doi.org/10.1111/jpy.13074-20-137" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.13074-20-137</a></p> <p>Wetherbee, R., Jackson, C.J., Repetti, S.I., Clementson, L.A., Costa, J.F., van de Meene, A., Crawford, S. and Verbruggen, H., 2019. The golden paradox–a new heterokont lineage with chloroplasts surrounded by two membranes. Journal of phycology, 55(2), pp.257-278. <a href="https://doi.org/10.1111/jpy.12822" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jpy.12822</a></p> <p>Wolf, M., Buchheim, M., Hegewald, E., Krienitz, L. and Hepperle, D., 2002. Phylogenetic position of the Sphaeropleaceae (Chlorophyta). Plant Systematics and Evolution, 230(3), pp.161-171. <a href="https://doi.org/10.1007/s006060200002" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s006060200002</a></p> <p>Wujek DE, Pershon LE, Kadiri MO (2008) Description of new freshwater species of Thaumatomastix (Protista, Thaumatomonadida) from Nigeria, West Africa. Trop Freshwater Biol 17:13–20. <a href="https://doi.org/10.4314/tfb.v17i2.45810" target="_blank" rel="nofollow noopener">https://doi.org/10.4314/tfb.v17i2.45810</a></p> <p>Yoon H.S. et al. (2016) Rhodophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_33-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_33-1</a></p> <p>Yubuki, N., Céza, V., Cepicka, I., Yabuki, A., Inagaki, Y., Nakayama, T., Inouye, I., & Leander, B. S. (2010). Cryptic diversity of free-living parabasalids, Pseudotrichomonas keilini and Lacusteria cypriaca n. g., n. sp., as inferred from small subunit rDNA sequences. Journal of Eukaryotic Microbiology 57:554–561. <a href="https://doi.org/10.1111/j.1550-7408.2010.00509.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/j.1550-7408.2010.00509.x</a></p> <p>Yubuki, N., Zadrobílková, E., Čepička, I. (2016). Ultrastructure and molecular phylogeny of Iotanema spirale gen. nov. et sp. nov., a new lineage of endobiotic Fornicata with strikingly simplified ultrastructure. Journal of Eukaryotic Microbiology. <a href="https://doi.org/0.1111/jeu.12376" target="_blank" rel="nofollow noopener">https://doi.org/0.1111/jeu.12376</a>.</p>
Data from "Robust sensory traits across light habitats: Visual signals but not receptors vary in centrarchids inhabiting distinct photic environments"
<p>Visual communication in fish is often shaped by the light environment they inhabit, influencing both sensory (e.g., eye size, opsin gene expression), and signaling traits (e.g., body reflectance). This study explores the phenotypic variation in the visual communication traits of six species of centrarchids (Centrarchidae) inhabiting two contrasting light environments. We measured morphological, molecular, and signaling traits to determine their responses to photic conditions. Our findings reveal significant interspecific variation in sensory traits but no consistent phenotypic variation between light environments. Centrarchids showed robust visual systems with red-green dichromatic vision, which was largely unaffected by the different light habitats. We also found significant molecular evolution in the visual opsin genes, although these changes were not associated with environmental conditions. However, body reflectance displayed species-specific responses to environmental conditions, suggesting that signaling traits may be more flexible than sensory traits. Overall, our results challenge the generality of the current paradigm in visual ecology, which portrays visual systems in fish as highly tunable owing to photic conditions. Our study highlights the potential evolutionary or developmental constraints on centrarchid visual systems and their implications for adaptability to various habitats and novel environmental threats.</p> <p>This dataset includes underwater light measurements, retinal transcriptomics, eye morphology, and spectral reflectance data to assess the effects of environment and species identity on eye size, opsin gene expression, chromophore usage, and body reflectance of centrarchids. Furthermore, we test for signatures of molecular evolution on the amino acid sequence of visual opsin genes across species and populations. By combining data on the visual ecology of different species from two distinct light environments, we ask i) do the visual traits of centrarchids vary across photic environments? and ii) are phenotypic responses to light conditions shared among species or are they species-specific? Overall, we found robust visual systems across species (no environmental effect) but variable body reflectance across species and environments (genotype-by-environment interaction, G × E). This suggests that divergent species-specific responses in signaling might help offset the lack of fine-tuning in the visual system of centrarchids. </p> <p>For more information see ReadMe file.</p>
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