Habitat data for microbial organisms
Data on habitats of microbial organisms derived from the following sources:
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Agatha S (2011) Global Diversity of Aloricate Oligotrichea (Protista, Ciliophora, Spirotricha) in Marine and Brackish Sea Water. PLoS ONE 6(8): e22466. https://doi.org/10.1371/journal.pone.0022466
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.
Baldauf S.L., Strassmann J.E. (2017) Dictyostelia. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_14-1
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. https://doi.org/10.1111/j.1550-7408.2009.00390.x
Beakes G.W., Thines M. (2016) Hyphochytriomycota and Oomycota. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_26-1
Bennett R.M., Honda D., Beakes G.W., Thines M. (2017) Labyrinthulomycota. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_25-1
Bernard, Catherine, Alastair G. B. Simpson & David J. Patterson (2000) Some free-living flagellates (protista) from anoxic habitats Ophelia 52(2):113-142. https://doi.org/10.1080/00785236.1999.10409422
Bigelow, D. M., Olsen, M. W., & Gilbertson, R. L. (2005). Labyrinthula terrestris sp. nov., a new pathogen of turf grass. Mycologia 97:185–190. https://doi.org/10.1080/15572536.2006.11832852
Bishop, A. (1935). Observations upon a “Trichomonas” from pond water. Parasitology 27:246–256. https://doi.org/10.1017/S0031182000015110
Boltovskoy D., Anderson O.R., Correa N.M. (2017) Radiolaria and Phaeodaria. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_19-2
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. https://doi.org/10.3390/d13090433
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. https://doi.org/10.1016/j.ejop.2010.04.003
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. https://doi.org/10.1007/BF01574706
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. https://doi.org/10.3114/fuse.2019.04.03
Bulman S., Neuhauser S. (2016) Phytomyxea. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_24-1
Cavalier-Smith, T., Chao, E.E.-Y., 2006. Phylogeny and megasystematics of phagotrophic heterokonts (kingdom Chromista). J. Mol. Evol. 62, 388–420. https://doi.org/10.1007/s00239-004-0353-8
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. https://doi.org/10.1016/j.protis.2011.12.005
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. https://doi.org/10.1016/j.protis.2009.11.005
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. https://doi.org/10.1016/j.ympev.2022.107468
Clarke, A., 2014. The thermal limits to life on Earth. International Journal of Astrobiology 13, 141–154. https://doi.org/10.1017/S147355041300043
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. https://doi.org/10.1007/978-3-319-32669-6_36-1
D’Amico, S., Collins, T., Marx, J.-C., Feller, G., Gerday, C., 2006. Psychrophilic microorganisms: challenges for life. EMBO Rep 7, 385–389. https://doi.org/10.1038/sj.embor.7400662
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. https://doi.org/10.3390/microorganisms9081586
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. https://doi.org/10.1016/j.ejop.2009.01.001
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. https://doi.org/10.3852/14-275
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. https://doi.org/10.1139/b85-211
Dykstra M, Olive L. 1975. An unusual sorocarp-producing Protist. Mycologia 67 (4):873–879. https://doi.org/10.1080/00275514.1975.12019815
Dykstra, M. J. Porter, D. 1984. Diplophrys marina, a New Scale-Forming Marine Protist with Labyrinthulid Affinities. Mycologia 76(4):626. https://doi.org/10.2307/3793219
Eikrem W. et al. (2017) Haptophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_38-2
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. https://doi.org/10.1007/978-3-319-32669-6_39-1
Embree, R.W. and Indoh, H., 1967. Aquamortierella, a new genus in the Mucorales. Bulletin of the Torrey Botanical Club, pp.464-467. https://doi.org/10.2307/2483563
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.
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. https://doi.org/10.1111/j.1550-7408.1993.tb06119.x
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. https://doi.org/10.1016/j.protis.2007.03.003
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. https://doi.org/10.2216/15-60.1
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.
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. https://doi.org/10.1111/nph.13279
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. https://doi.org/10.1016/S0932-4739(00)80003-6
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. https://www.jstor.org/stable/42908460
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. https://doi.org/10.1038/srep24874
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. https://doi.org/10.1016/j.ejop.2005.01.003
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. https://doi.org/10.1007/978-3-319-32669-6_28-1
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. https://doi.org/10.1016/j.ejop.2015.05.003
Glockling, S.L., Marshall, W.L., Gleason, F.H., 2013. Phylogenetic interpretations and ecological potentials of the Mesomycetozoea (Ichthyosporea). Fungal Ecology 6, 237–247. https://doi.org/10.1016/j.funeco.2013.03.005
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. https://doi.org/10.1016/j.protis.2010.06.004
Gomaa F, Mitchell EAD, Lara E. 2013. Amphitremida (Poche, 1913) Is a New Major, Ubiquitous Labyrinthulomycete Clade. PLoS ONE 8(1): e53046. https://doi.org/10.1371/journal.pone.0053046
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. https://doi.org/10.1111/jpy.12779
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. https://doi.org/10.1111/jpy.12950
Hall J.D., McCourt R. (2017) Zygnematophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_41-2
Hampl V. (2016) Preaxostyla. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_8-1
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. https://doi.org/10.1016/j.cub.2017.06.006
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Ho, H. H., & Jong, S. C. (1990). Halophytophthora gen. nov., a new member of the family Pythiaceae. Mycotaxon 19:377–382.
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. https://doi.org/10.1007/s00239-004-0089-5
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. https://doi.org/10.1007/978-3-319-32669-6_35-1
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. https://doi.org/10.1111/j.1529-8817.2011.00980.x
Horiguchi T. (2016) Raphidophyceae (Raphidophyta). In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_37-1
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. https://doi.org/10.1016/j.protis.2010.10.002
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. https://doi.org/10.1016/j.myc.2012.09.007
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. https://doi.org/10.1038/ismej.2016.38
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.\ https://doi.org/10.1101/2022.04.05.487141
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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. https://doi.org/10.1016/j.protis.2007.12.003
Kawai H., Henry E.C. (2016) Phaeophyta. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. https://doi.org/10.1007/978-3-319-32669-6_31-1 https://doi.org/10.1007/978-3-319-32669-6_31-1
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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. https://doi.org/10.1080/00785326.2001.10409455
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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. https://doi.org/10.1007/978-3-319-32669-6_40-2
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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. https://doi.org/10.1016/j.protis.2018.03.002
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