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Microbe Ecomorphological Guilds
<p>Ecomorphological guild data for microbial organisms compiled 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>Adl, S.M., Bass, D., Lane, C.E., Lukeš, J., Schoch, C.L., Smirnov, A., Agatha, S., Berney, C., Brown, M.W., Burki, F., Cárdenas, P., Čepička, I., Chistyakova, L., Campo, J. del, Dunthorn, M., Edvardsen, B., Eglit, Y., Guillou, L., Hampl, V., Heiss, A.A., Hoppenrath, M., James, T.Y., Karnkowska, A., Karpov, S., Kim, E., Kolisko, M., Kudryavtsev, A., Lahr, D.J.G., Lara, E., Gall, L.L., Lynn, D.H., Mann, D.G., Massana, R., Mitchell, E.A.D., Morrow, C., Park, J.S., Pawlowski, J.W., Powell, M.J., Richter, D.J., Rueckert, S., Shadwick, L., Shimano, S., Spiegel, F.W., Torruella, G., Youssef, N., Zlatogursky, V., Zhang, Q., 2019. Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes. Journal of Eukaryotic Microbiology 66, 4–119. <a href="https://doi.org/10.1111/jeu.12691" target="_blank" rel="nofollow noopener">https://doi.org/10.1111/jeu.12691</a></p> <p>Anderson, O.R., 2013. Comparative protozoology: ecology, physiology, life history. Springer Science & Business Media.</p> <p>Badewitz, H. (2004). The genus Microcorycia Cockerell, 1911 (Testacealobosia, Rhizopoda, Protozoa). A critical monograph of the genus including a first description of a new species: Microcorycia scutella n. sp. Lauterbornia 50: 111-146.</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>Bell, E.M. and Laybourn‐Parry, J., 2003. Mixotrophy in the antarctic phytoflagellate Pyramimonas gelidicola (Chlorophyta: Prasinophyceae). Journal of Phycology, 39(4), pp.644-649. <a href="https://doi.org/10.1046/j.1529-8817.2003.02152.x" target="_blank" rel="nofollow noopener">https://doi.org/10.1046/j.1529-8817.2003.02152.x</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>Berney, C., Geisen, S., Van Wichelen, J., Nitsche, F., Vanormelingen, P., Bonkowski, M. and Bass, D., 2015. Expansion of the ‘reticulosphere’: diversity of novel branching and network-forming amoebae helps to define Variosea (Amoebozoa). Protist, 166(2):271-295. <a href="https://doi.org/10.1016/j.protis.2015.04.001" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2015.04.001</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>Bovee, E.C. and Sawyer, T.K., 1979. Marine Flora and Fauna of the Northeastern United States: Protozoa, Sarcodina, Amoebae (Vol. 419). Department of Commerce, National Oceanic and Atmospheric Administration, National Marine Fisheries Service.</p> <p>Bovee, E.C., 1953. Oscillosignum nov. gen. proboscidium nov. sp., type form of its genus, family Mayorellidae, order Amoebida. Transactions of the American Microscopical Society, 72(4):328-332. <a href="https://doi.org/10.2307/3223477" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/3223477</a></p> <p>Bovee, E.C., 1985. The lobose amebas: III. Descriptions of nine new conopodous amebas of the genus Vexillifera Schaeffek, 1926, emd. Bovee 1951, 1970, with comments on the genus. Archiv für Protistenkunde, 129(1-4):101-118. <a href="https://doi.org/10.1016/S0003-9365" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/S0003-9365</a>(85)80013-0</p> <p>Brown, M.W., Silberman, J.D. (2013). The Non-dictyostelid Sorocarpic Amoebae. In: Romeralo, M., Baldauf, S., Escalante, R. (eds) Dictyostelids. Springer, Berlin, Heidelberg. <a href="https://doi.org/10.1007/978-3-642-38487-5_12" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-642-38487-5_12</a></p> <p>Brown, M.W., Silberman, J.D., Spiegel, F.W., 2012. A contemporary evaluation of the acrasids (Acrasidae, Heterolobosea, Excavata). Eur J Protistol 48, 103–123. <a href="https://doi.org/10.1016/j.ejop.2011.10.001" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2011.10.001</a></p> <p>Brugerolle, G., Mignot, JP. The cell characters of two Helioflagellates related to the Centrohelidian lineage: Dimorpha and Tetradimorpha. Origins Life Evol Biosphere 13, 305–314 (1984). <a href="https://doi.org/10.1007/BF00927179" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/BF00927179</a></p> <p>Burki, F., Roger, A.J., Brown, M.W., Simpson, A.G.B., 2020. The New Tree of Eukaryotes. Trends in Ecology & Evolution 35, 43–55. <a href="https://doi.org/10.1016/j.tree.2019.08.008" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.tree.2019.08.008</a></p> <p>Bursa, A.S., 1970. Din Amoebidwm Coloradense Spec. Nov. and Katodinium Auratum Spec. Nov. in Como Creek, Boulder County, Colorado. Arctic and Alpine Research, 2(2), pp.145-151. <a href="https://doi.org/10.2307/1550349" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/1550349</a></p> <p>Cavalier-Smith, T., Chao, E.E., Lewis, R., 2015. Multiple origins of Heliozoa from flagellate ancestors: New cryptist subphylum Corbihelia, superclass Corbistoma, and monophyly of Haptista, Cryptista, Hacrobia and Chromista. Molecular Phylogenetics and Evolution 93, 331–362. <a href="https://doi.org/10.1016/j.ympev.2015.07.004" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ympev.2015.07.004</a></p> <p>Cavalier-Smith, T., Chao, E.E., Lewis, R., 2016. 187-gene phylogeny of protozoan phylum Amoebozoa reveals a new class (Cutosea) of deep-branching, ultrastructurally unique, enveloped marine Lobosa and clarifies amoeba evolution. Molecular Phylogenetics and Evolution 99, 275–296. <a href="https://doi.org/10.1016/j.ympev.2016.03.023" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ympev.2016.03.023</a></p> <p>Cavalier-Smith, T., Chao, E.E., Lewis, R., 2018. Multigene phylogeny and cell evolution of chromist infrakingdom Rhizaria: contrasting cell organisation of sister phyla Cercozoa and Retaria. Protoplasma 255, 1517–1574. <a href="https://doi.org/10.1007/s00709-018-1241-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/s00709-018-1241-1</a></p> <p>Čepička I., Dolan M.F., Gile G.H. (2016) Parabasalia. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_9-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_9-1</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>Chardez D., Beyens L. (1988). Centropyxis gasparella sp.nov. and Parmulina louisi sp.nov., new testate amoebae from the Canadian High Arctic (Devon Island, NWT). Arch. Protistenkd. 136:337–344. <a href="https://doi.org/10.1016/S0003-9365" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/S0003-9365</a>(88)80014-9</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>Dick, M.W., 2013. Straminipilous Fungi: systematics of the Peronosporomycetes including accounts of the marine straminipilous protists, the plasmodiophorids and similar organisms. Springer Science & Business Media.</p> <p>Domozych, D., Popper, Z., Sorensen, I., 2016. Charophytes: Evolutionary Giants and Emerging Model Organisms. Frontiers in Plant Science 7:1470. <a href="https://doi.org/10.3389/fpls.2016.01470" target="_blank" rel="nofollow noopener">https://doi.org/10.3389/fpls.2016.01470</a></p> <p>Dyková, I., Kostka, M. and Pecková, H., 2010. Grellamoeba robusta gen. n., sp. n., a possible member of the family Acramoebidae Smirnov, Nassonova et Cavalier-Smith, 2008. European Journal of Protistology, 46(2), pp.77-85. <a href="https://doi.org/10.1016/j.ejop.2009.10.004" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2009.10.004</a></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>Febvre-Chevalier, C. & Febvre, J. 1984. Axonemal microtubule pattern of Cienkowskya mereschkovskyi and a revision of heliozoan taxonomy. Origins of Life 13:315–338. <a href="https://doi.org/10.1007/BF00927180" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/BF00927180</a></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>Frankovich, T.A., Ashworth, M.P., Sullivan, M.J., Theriot, E.C., Stacy, N.I., 2018. Epizoic and Apochlorotic Tursiocola species (Bacillariophyta) from the Skin of Florida Manatees (Trichechus manatus latirostris). Protist 169, 539–568. <a href="https://doi.org/10.1016/j.protis.2018.04.002" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2018.04.002</a></p> <p>Galindo, L.J., Torruella, G., Moreira, D., Eglit, Y., Simpson, A.G., Völcker, E., Clauß, S. and López-García, P., 2019. Combined cultivation and single-cell approaches to the phylogenomics of nucleariid amoebae, close relatives of fungi. Philosophical Transactions of the Royal Society B, 374(1786), p.20190094. <a href="https://doi.org/10.1098/rstb.2019.0094" target="_blank" rel="nofollow noopener">https://doi.org/10.1098/rstb.2019.0094</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>Gibson W. (2016) Kinetoplastea. In: Archibald J. et al. (eds) Handbook of the Protists. Springer, Cham. <a href="https://doi.org/10.1007/978-3-319-32669-6_7-1" target="_blank" rel="nofollow noopener">https://doi.org/10.1007/978-3-319-32669-6_7-1</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>Gómez, F., Artigas, L.F. and Gast, R.J., 2019. Molecular phylogeny of the parasitic dinoflagellate Syltodinium listii (Gymnodiniales, Dinophyceae) and generic transfer of Syltodinium undulans comb. nov.(= Gyrodinium undulans). European Journal of Protistology, 71, p.125636. <a href="https://doi.org/10.1016/j.ejop.2019.125636" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.ejop.2019.125636</a></p> <p>Grell, K.G. (1966). Amöben der Familie Stereomyxidae. Arch.Protistenk. 109, 147-154.</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>Harding, T., Brown, M., Plotnikov, A., Selivanova, E., Park, J.S., Gunderson, J., Baumgartner, M., Silberman, J., Roger, A., Simpson, A., 2012. Amoeba Stages in the Deepest Branching Heteroloboseans, Including Pharyngomonas: Evolutionary and Systematic Implications. Protist 164(2):272-286. <a href="https://doi.org/10.1016/j.protis.2012.08.002" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2012.08.002</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>Hertel L. A.; Bayne C. J.; Loker, E. S. (2002), The symbiont Capsaspora owczarzaki, nov. gen. nov. sp., isolated from three strains of the pulmonate snail Biomphalaria glabrata is related to members of the Mesomycetozoea. International Journal for Parasitology, 32 (9):1183–91. <a href="https://doi.org/10.1016/S0020-7519" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/S0020-7519</a>(02)00066-8</p> <p>Hess, S. & Melkonian, M. 2013. The mystery of clade X: Orciraptor gen. nov. and Viridiraptor gen. nov. are highly specialised, algivorous amoeboflagellates (Glissomonadida, Cercozoa). Protist, 164:706-747. <a href="https://doi.org/10.1016/j.protis.2013.07.003" target="_blank" rel="nofollow noopener">https://doi.org/10.1016/j.protis.2013.07.003</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>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. 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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>Wenrich, DH. (1924) Studies on Euglenamorpha hegneri n. g., n. sp., a euglenoid flagellate found in tadpoles. Biol. Bull. (Woods Hole) 47:149–175. <a href="https://doi.org/10.2307/1536494" target="_blank" rel="nofollow noopener">https://doi.org/10.2307/1536494</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>Wujek, D., & Saha, L. (1995). The genus Paraphysomonas from Indian rivers, lakes, ponds and tanks. In C. Sandgren, J. Smol, & J. Kristiansen (Eds.), Chrysophyte Algae: Ecology, Phylogeny and Development (pp. 373-384). Cambridge: Cambridge University Press. <a href="https://doi.org/10.1017/CBO9780511752292.018" target="_blank" rel="nofollow noopener">https://doi.org/10.1017/CBO9780511752292.018</a></p>
Ecomorphology of Bos remains, Los Castillejos (Fuente de Cantos, Badajoz)
<p>Ecomorphological (following De Gusta & Vrba, 2003; 2005) and Cortical measurements of Bos remains, excavated from Los Castillejos (Fuente de Cantos, Badajoz). The remains include the first phalanx (FA1), second phalanx (FA2), talus (TA), humerus (HU), radius (RA) and femur (FE). </p> <p> </p> <p>- De Gusta & Vrba, 2003. A method for inferring paleohabitats from the functional morphology of bovid astragali.</p> <p>- De Gusta & Vrba, 2005. Methods for inferring paleohabitats from the functional morphology of bovid phalanges.</p>
Fungi ecomorphological trait data
<p>Ecomorphological trait data for fungi derived from the following sources:</p> <p>Bodensteiner, P., Binder, M., Moncalvo, J.M., Agerer, R. and Hibbett, D.S., 2004. Phylogenetic relationships of cyphelloid homobasidiomycetes. Molecular Phylogenetics and Evolution, 33(2), pp.501-515. <a href="https://doi.org/10.1016/j.ympev.2004.06.007">https://doi.org/10.1016/j.ympev.2004.06.007 </a></p> <p>Diederich, P., Lawrey, J.D., Ertz, D., 2018. The 2018 classification and checklist of lichenicolous fungi, with 2000 non-lichenized, obligately lichenicolous taxa. The Bryologist 121, 340–425. <a href="https://doi.org/10.1639/0007-2745-121.3.340">https://doi.org/10.1639/0007-2745-121.3.340 </a></p> <p>Hassett, B., Vonnahme, T., Peng, X., Jones, E. and Heuzé, C. (2020) Global diversity and geography of planktonic marine fungi. Botanica Marina, Vol. 63 (Issue 2), pp. 121-139. <a href="https://doi.org/10.1515/bot-2018-0113">https://doi.org/10.1515/bot-2018-0113 </a></p> <p>He, M.-Q., Zhao, R.-L., Hyde, K.D., Begerow, D., Kemler, M., Yurkov, A., McKenzie, E.H.C., Raspé, O., Kakishima, M., Sánchez-Ramírez, S., Vellinga, E.C., Halling, R., Papp, V., Zmitrovich, I.V., Buyck, B., Ertz, D., Wijayawardene, N.N., Cui, B.-K., Schoutteten, N., Liu, X.-Z., Li, T.-H., Yao, Y.-J., Zhu, X.-Y., Liu, A.-Q., Li, G.-J., Zhang, M.-Z., Ling, Z.-L., Cao, B., Antonín, V., Boekhout, T., da Silva, B.D.B., De Crop, E., Decock, C., Dima, B., Dutta, A.K., Fell, J.W., Geml, J., Ghobad-Nejhad, M., Giachini, A.J., Gibertoni, T.B., Gorjón, S.P., Haelewaters, D., He, S.-H., Hodkinson, B.P., Horak, E., Hoshino, T., Justo, A., Lim, Y.W., Menolli, N., Mešić, A., Moncalvo, J.-M., Mueller, G.M., Nagy, L.G., Nilsson, R.H., Noordeloos, M., Nuytinck, J., Orihara, T., Ratchadawan, C., Rajchenberg, M., Silva-Filho, A.G.S., Sulzbacher, M.A., Tkalčec, Z., Valenzuela, R., Verbeken, A., Vizzini, A., Wartchow, F., Wei, T.-Z., Weiß, M., Zhao, C.-L., Kirk, P.M., 2019. Notes, outline and divergence times of Basidiomycota. Fungal Diversity 99, 105–367. <a href="https://doi.org/10.1007/s13225-019-00435-4">https://doi.org/10.1007/s13225-019-00435-4 </a></p> <p>Hosaka, K., Bates, S.T., Beever, R.E., Castellano, M.A., Colgan III, W., Domínguez, L.S., Nouhra, E.R., Geml, J., Giachini, A.J., Kenney, S.R. and Simpson, N.B., 2006. Molecular phylogenetics of the gomphoid-phalloid fungi with an establishment of the new subclass Phallomycetidae and two new orders. Mycologia, 98(6), pp.949-959. <a href="https://doi.org/10.1080/15572536.2006.11832624">https://doi.org/10.1080/15572536.2006.11832624</a></p> <p>Riccioni C, Belfiori B, Rubini A, Bucci G, Ianigro M (2024). Dataset of endophytic and forest fungi (IBBR-CNR-FABI-01). Consiglio Nazionale delle Ricerche, Istituto di Bioscienze e BioRisorse (CNR-IBBR). Occurrence dataset <a href="https://doi.org/10.15468/arjsuy">https://doi.org/10.15468/arjsuy</a> accessed via GBIF.org on 2025-01-14.</p> <p>Wijayawardene, N.N., Hyde, K.D., Rajeshkumar, K.C., Hawksworth, D.L., Madrid, H., Kirk, P.M., Braun, U., Singh, R.V., Crous, P.W., Kukwa, M., Lücking, R., Kurtzman, C.P., Yurkov, A., Haelewaters, D., Aptroot, A., Lumbsch, H.T., Timdal, E., Ertz, D., Etayo, J., Phillips, A.J.L., Groenewald, J.Z., Papizadeh, M., Selbmann, L., Dayarathne, M.C., Weerakoon, G., Jones, E.B.G., Suetrong, S., Tian, Q., Castañeda-Ruiz, R.F., Bahkali, A.H., Pang, K.-L., Tanaka, K., Dai, D.Q., Sakayaroj, J., Hujslová, M., Lombard, L., Shenoy, B.D., Suija, A., Maharachchikumbura, S.S.N., Thambugala, K.M., Wanasinghe, D.N., Sharma, B.O., Gaikwad, S., Pandit, G., Zucconi, L., Onofri, S., Egidi, E., Raja, H.A., Kodsueb, R., Cáceres, M.E.S., Pérez-Ortega, S., Fiuza, P.O., Monteiro, J.S., Vasilyeva, L.N., Shivas, R.G., Prieto, M., Wedin, M., Olariaga, I., Lateef, A.A., Agrawal, Y., Fazeli, S.A.S., Amoozegar, M.A., Zhao, G.Z., Pfliegler, W.P., Sharma, G., Oset, M., Abdel-Wahab, M.A., Takamatsu, S., Bensch, K., de Silva, N.I., De Kesel, A., Karunarathna, A., Boonmee, S., Pfister, D.H., Lu, Y.-Z., Luo, Z.-L., Boonyuen, N., Daranagama, D.A., Senanayake, I.C., Jayasiri, S.C., Samarakoon, M.C., Zeng, X.-Y., Doilom, M., Quijada, L., Rampadarath, S., Heredia, G., Dissanayake, A.J., Jayawardana, R.S., Perera, R.H., Tang, L.Z., Phukhamsakda, C., Hernández-Restrepo, M., Ma, X., Tibpromma, S., Gusmao, L.F.P., Weerahewa, D., Karunarathna, S.C., 2017. Notes for genera: Ascomycota. Fungal Diversity 86, 1–594. <a href="https://doi.org/10.1007/s13225-017-0386-0">https://doi.org/10.1007/s13225-017-0386-0</a></p>
Spreadsheet Template for Fungi Ecomorphological Trait Data
<p>Spreadsheet template for <a href="https://doi.org/10.5281/zenodo.14647411">Fungi ecomorphological trait data</a></p>
Data associated with: Global ecomorphological restructuring of dominant marine reptiles prior to the K/Pg mass extinction
<p>Mosasaurid squamates were the dominant amniote predators in marine ecosystems during most of the Late Cretaceous. Here, we use a suite of biomechanically rooted, functionally descriptive ratios in a framework adapted from population ecology to investigate how the morphofunctional disparity of mosasaurids evolved prior to the Cretaceous-Paleogene (K/Pg) mass extinction. Our results suggest that taxonomic turnover in mosasaurid community composition from Campanian to Maastrichtian is reflected by a notable global increase in morphofunctional disparity, especially driven the North American record. Ecomorphospace occupation becomes polarised during the Late Maastrichtian, with morphofunctional disparity plateauing in the Southern Hemisphere and decreasing in the Northern Hemisphere. We show that these changes are not strongly associated with mosasaurid size, but rather with the functional capacities of their skulls. Our novel approach indicates that mosasaurid morphofunctional disparity was in decline in multiple provincial communities before the K-Pg mass extinction, highlighting region-specific patterns of disparity evolution and the importance of assessing vertebrate extinctions both globally and locally. Ecomorphological differentiation in mosasaurid communities, coupled with declines in other formerly abundant marine reptile groups, indicates widespread restructuring of higher trophic levels in marine food webs was well underway when the K/Pg mass extinction took place.</p>
Data from: Periodic environmental disturbance drives repeated ecomorphological diversification in an adaptive radiation of Antarctic fishes
<p><span>The ecological theory of adaptive radiation has profoundly shaped our conceptualization of the rules that govern diversification. However, while many radiations follow classic early burst patterns of diversification as they fill ecological space, the longer-term fates of these radiations depend on many factors, such as climatic stability. In systems with periodic disturbances, species-rich clades can contain nested adaptive radiations of subclades with their own distinct diversification histories, and how adaptive radiation theory applies in these cases is less clear. Here, we investigated patterns of ecological and phenotypic diversification within two iterative adaptive radiations of cryonotothenioid fishes in Antarctica's Southern Ocean: crocodile icefishes and notoperches. For both clades, we observe evidence of repeated diversification into disparate regions of trait space between closely related taxa and into overlapping regions of trait space between distantly related taxa. We additionally find little evidence that patterns of ecological divergence are correlated with evolution of morphological disparity, suggesting that these axes of divergence may not be tightly linked. Finally, we reveal evidence of repeated convergence in sympatry that suggests niche complementarity. These findings reflect the dynamic history of Antarctic marine habitats, and may guide hypotheses of diversification dynamics in environments characterized by periodic disturbance.</span></p>
Fig. 5 in Unappreciated Cenozoic ecomorphological diversification of stem gars revealed by a new large species
Fig. 5. Phylogeny and biogeography of Cuneatus maximus sp. nov. A. Strict consensus phylogeny generated from parsimony analysis of the 105 character, 32 taxon matrix (Grande 2010; Brito et al. 2017) in TNT v. 1.5 (Goloboff and Catalano 2016). B. Occurrences of Cuneatus maximus sp. nov. and the other two named cuneatins. Grey labels denote collapsed clades that include additional species (see the Appendix 2)
Fig. 3 in Unappreciated Cenozoic ecomorphological diversification of stem gars revealed by a new large species
Fig. 3. Palatal and mandibular anatomy of the cuneatin fish Cuneatus maximus sp. nov. (YPM VPPU.018063), from Upper Paleocene to lower Eocene Willwood Formation of Wyoming, USA; ventral view (A1), detail of the anterior palate (A2), toothed ectopterygoid (A3).
Fig. 2 in Unappreciated Cenozoic ecomorphological diversification of stem gars revealed by a new large species
Fig. 2. Cranial anatomy of the skull of the cuneatin fish Cuneatus maximus sp. nov. (YPM VPPU.018063), from Upper Paleocene to lower Eocene Willwood Formation of Wyoming, USA; dorsal view (A1), detail of the dermal skull roof ornamentation (A2), left (A3) and right (A4) lateral views, detail of the anterior rostrum and dentition in left lateral view (A5), anterior view (A6).
Fig. 1 in Unappreciated Cenozoic ecomorphological diversification of stem gars revealed by a new large species
Fig. 1. Holotype of the cuneatin fish Cuneatus maximus sp. nov. (YPM VPPU.018063), from Upper Paleocene to lower Eocene Willwood Formation of Wyoming, USA; dorsal (A1) and ventral (A2) views. Note the ganoid scales characteristic of lepisosteiform fishes and relatives.
Fig. 7 in Ecomorphology and bone microstructure of Proterochampsia from the Chañares Formation
Fig. 7. Phylogenetic interrelationships of Proterochampsia and other archosauriforms showing the histological features in different taxa. Erytrosuchus rib; proterochampsids femur; Euparkeria humerus, Phytosauria femur; Luperosuchus large long bone; Aetosauria humerus; Lewisuchus tibia; Herrerasaurus tibia (modified from Ricqlès et al. 2003, 2008; Garcia Marsà et al. 2017).
Fig. 6 in Ecomorphology and bone microstructure of Proterochampsia from the Chañares Formation
Fig. 6. Fibula microstructure of Proterochampsia indet. from the early Carnian Chañares Formation at the Río Gualo locality. A. PULR-V 117, in anterior view; photograph of proximal part (A2), explanatory drawing A1); lines indicate the position of the cross-sections (redrawn from Romer 1972). B. PULR-V 117, cross-section in general view (B1); details (B2, B3), photomicrographs in plane-polarized light; note the fibrolamellar bone (fbl) with primary osteons (po) on the anteromedial surface; secondary osteons (so) and resorption cavities in the mid- to inner cortical region. Abbreviations: a, anterior; l, lateral; p, posterior.
Fig. 1. A in Ecomorphology and bone microstructure of Proterochampsia from the Chañares Formation
Fig. 1. A. Geographic location of the studied basins. B. Map showing location of Ischigualasto-Villa Union Basin (Argentina) and Paraná Basin (Brazil) and presence of the proterochampsids taxa. Satellite image taken from Google Earth.
Fig. 3 in Ecomorphology and bone microstructure of Proterochampsia from the Chañares Formation
Fig. 3. Reconstruction of the skeleton of Chanaresuchus Romer, 1971 (modified from Mancuso et al. 2014).
FIGURE 1 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 1. Phylogenetic tree of our extant comparative sample generated using TimeTree (www.timetree.org; Kumar et al., 2017).
FIGURE 2 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 2. Boxplots of Dirichlet normal energy (DNE), relief index (RFI), and orientation patch count rotated (OPCR) across extant mammals classified by diet and a subset of fossil groups. Abbreviations for diet categories: ado = animal-dominated omnivore; carn = carnivore; frug = frugivore; inv = invertivore; pdo = plant-dominated omnivore; sis = soft-invertebrate specialist. Abbreviations for fossil groups: Alph. = Alphadontidae; Herpet. = Herpetotheriidae; Ped. = Pediomyidae.
FIGURE 6 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 6. Patterns of taxonomic diversity and dietary diversity of NALK metatherians. Top: Known taxonomic diversity (gray squares and line) of NALK metatherians and the metatherian diversity sampled in this study (black circles and line). Middle: Dietary diversity of NALK metatherians through time (out of six dietary categories). Judithian diversity count is based on our DFA classification of Iugomortiferum thoringtoni as a carnivore. Bottom: Hypothesized phylogenetic relationships of NALK metatherians sampled in this study (the deltatheriid Atokatheridium boreni was removed). The phylogeny is modified from Williamson et al. (2014), Wilson et al. (2016), and Cohen et al. (2020). Thick horizontal bars represent the known temporal range of each species. Bar colors represent the dietary categories assigned to each taxon in this study. For cases in which specimens of the same species were classified differently, we include both classifications in this figure, with the exception of Iugomortiferum thoringtoni and Didelphodon vorax. Our DFA classification for Iugomortiferum thoringtoni (carn) contradicts additional lines of evidence that suggests it is a plant-dominated omnivore (see Discussion), and thus we classify it here as 'carn/pdo.' Our DFA classifies the two Didelphodon vorax specimens as an animal-dominated omnivore and an invertivore, but additional lines of evidence suggest that it is an animal-dominated omnivore (see Discussion). Abbreviations for diet categories: ado = animaldominated omnivore; carn = carnivore; frug = frugivore; inv = invertivore; pdo = plant-dominated omnivore; sis = softinvertebrate specialist. Abbreviations for NALMAs: Aquil = Aquilan; La = Lancian.
FIGURE 5 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 5. Morphological disparity of NALK metatherians during different time bins (top) and in two major subclasses (bottom). We calculated disparity as the variance of each DTA metric and the sum of variances. The 95% confidence intervals were generated using a custom bootstrapping function with 1,000 replicates. Top row: all-metatherian disparity for each time bin. Sample size for each time bin is shown in parentheses at the bottom of the far-left plot: pre-Aquilan (preA) = 7; Aquilan = 8; Judithian = 18; Lancian = 18. Bottom row: disparity of alphadontids vs. disparity of pediomyids. Sample size for each taxon is shown in parentheses at the bottom of the far-left plot: Alphadontidae = 19 and Pediomyidae = 8. See Table 11 for P-values.
FIGURE 4 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 4. Bivariate scatter plots of log-transformed Dirichlet normal energy (lnDNE), relief index (lnRFI), and orientation patch count rotated (lnOPCR) values, and a 3D scatterplot of all three DTA metrics (bottom right) for our fossil sample. Colored polygons are regions of the morphospace occupied by extant mammals in our dietary categories. Shapes correspond to fossil groups. See Table 3 for taxonomic names. Abbreviations for diet categories: ado = animal-dominated omnivore; carn = carnivore; frug = frugivore; inv = invertivore; pdo = plant-dominated omnivore; sis = soft-invertebrate specialist.
FIGURE 7 in Dental ecomorphology and macroevolutionary patterns of North American Late Cretaceous metatherians
FIGURE 7. Scatterplots of lnDNE versus lnRFI of NALK metatherians through time. Points represent species averages for each DTA metric. Time proceeds upward with the oldest time bin (pre-Aquilan) at the bottom and the youngest time bin (Lancian) at the top. Colored polygons are regions of the morphospace occupied by extant mammals in our dietary categories. Markers correspond to fossil groups. Abbreviations for diet categories: ado = animal-dominated omnivore; carn = carnivore; frug = frugivore; inv = invertivore; pdo = plant-dominated omnivore; sis = soft-invertebrate specialist.
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Allen Brain Atlas
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Annotated Behaviour and Observability Dataset (ABODe)
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