Correspondance Analysis to Identify a Microhabitat Preference

Total Page:16

File Type:pdf, Size:1020Kb

Correspondance Analysis to Identify a Microhabitat Preference 46 · “PROTIST–2016” correspondance analysis to identify a microhabitat two species that also infect orthopterans belonging preference. Except for the head, pleopods and telson, to the same suborder (Ensifera) but different lagenophryid ciliates were attached to 2-9 amphipod families and infraorder (Gryllidea) and belonging body regions, and greatest prevalence was found on to the Old World. These species of Leidyana also coxae, followed by pereiopods. For Cuitzeo Lake possess epimerites resembling the ones found of individuals the total L. patina loricae abundance Leidyana sp. The three species measurements was from 617-1165, being the coxae with the highest comparison was made using a one-way ANOVA values (626), and for Xochimilco Lake L. patina and a correspondence analysis (n=20 each sample). showed a highly significative preference for coxae We found significative differences in the epimerite for their attachment (X2=1752.01, P<0.0001); we length and width, considered as an important also obtained the same highly significant result for character for the eugregarines taxonomy to genus Cuitzeo Lake symbiotic system (with X2=1317.8, P and species level identification. Additionally we < 0.0001). These results could be explained by the show the first record of a species of genus Leidyana shape and function of appendages of amphipods, parasitizing the gut lumen of an orthopteran of the providing the water flow derived by host movements infraorder Tettigoniidea, family Tettigonidae, as and swimming, carrying food and oxygen for sym- well for Mexico. Key words: eugregarines, Mexico, biotic ciliate. Leidyana. Acknowledgements. To Programa de Apoyo a Acknowledgments: To Biol. Margarita Reyes Santos Proyectos de Investigación e Innovación Tecnoló- for her advice in the stain techniques. gica (PAPIIT-DGAPA-UNAM), for the funds to project IN229811 for Cuitzeo Lake samples SOME NOTES ON THE MORPHOLOGY, GEO- collection. To all participants of PAPIIT IN229811 GRAPHIC DISTRIBUTION AND 18S rRNA project for their support in samples collection, GENE SEQUENCE OF A FRESHWATER OXY- especially to Biól. M. Reyes and M. C. Maricela TRICHID CILIATE (HYPOTRICHIA: OXY- Vicencio, Facultad de Ciencias, UNAM, for TRICHIDAE) FROM MEXICO technical procedures. Méndez-Sánchez Daniel1, Mayén-Estrada Rosa- ura1, Hu Xiaozhong2, Luo Xiaotian2, Song Weibo2 COMPARATIVE MORPHOMETRY OF LEIDY- 1 - Laboratorio de Protozoología, Facultad de Ci- ANA SP. (EUGREGARINORIDA) AND ITS encias, Universidad Nacional Autónoma de México, FIRST RECORD IN CONOCEPHALUS IC- Av. Universidad 3000 Ciudad Universitaria, 04510 TUS (ORTHOPTERA: ENSIFERA: TETTIGO- Coyoacán, Ciudad de México, México NIIDAE) FROM MEXICO 2 - Laboratory of Protozoology, Institute of Evolution Medina-Durán J.H.1, Mayén-Estrada R.1, Mariño- and Marine Biodiversity, Ocean University of China, Pérez R.2, Song H.2 Qingdao 266003, China 1 - Laboratorio de Protozoología, Departamento [email protected] de Biología Comparada, Facultad de Ciencias, Species of genus Oxytricha are characterized by 18 Universidad Nacional Autónoma de México, Circuito frontal-ventral-transverse cirri, one right and one Exterior S/N, Ciudad Universitaria, Av. Universidad left row of marginal cirri, undulating membranes 3000, C.P. 04510, Ciudad de México, México and dorsal kineties usually in Oxytricha-pattern, 2 - Department of Entomology, Texas A&M University, and also the presence of caudal cirri. We collected College Station, Texas, USA some samples from a Mexican freshwater lake [email protected] and we isolated Oxytricha granulifera (Foissner & Leidyana is a genus of apicomplexan eugregarine Adam, 1981). Our individuals presented six dorsal inhabiting the digestive tract of insects, mainly kineties compared with the Austrian population lepidopterans and orthopterans. Its classification (with five dorsal kineties) collected in a terrestrial is mainly based on the shape of their epimerite, environment. All available records of O. granulifera protomerite, deuteromerite and oocyst, and also were plotted and obtained a broad geographic dis- on their gametocyst dehiscence. Nevertheless, tribution. Considering the 18S rRNA gene sequence, morphometrical data of the species belonging to our species grouped with other O. granulifera strains this genus have been also considered in order to and populations available in GenBank. Due to the establish reliable descriptions but is not a main number of dorsal kineties we propose that Mexican criterion for its identification. In the present population could be considered like a subspecies of work we compared the morphometric attributes O. granulifera. of Leidyana sp. a parasite of Conocephalus ictus Acknowledgements: To Posgrado en Ciencias collected in Tlanchinol, Hidalgo, Mexico, with Biológica UNAM and CONACyT for the grant to Protistology · 47 D. Méndez-Sánchez. To IRCN-BC for the grant to [email protected] D. Méndez-Sánchez for a short stay at Laboratory Cryptosporidium spp. display a number of unusual of Protozoology OUC. Special thanks to Miss traits, distinct from other apicomplexans; notably Chundi Wang and Mr. Zhishuai Qu (Laboratory of a smaller genome and the absence of an essential Protozoology, OUC) for their technical assistance organelle, the apicoplast. There are also intra-species in the molecular procedures and staining protocols differences, such as a reduced mitochondrion in respectively. We thankful to people from Tziscao, C. parvum and C. hominis, in size and functions. Chiapas, who allowed us recollected samples. Studying these organisms holds great potential for our understanding of how the apicomplexans DIVERSITY OF THECAMOEBID AMOEBAE diverged. Studies of Cryptosporidium are inhibited (AMOEBOZOA: DISCOSEA: THECAMOE- by a limited selection of in-vitro culturing systems, BIDAE) with short lifespans and production volumes. Using Mezentsev Y.S. a novel cell line for propagation we have seen a Saint-Peterburg State University significant increase in parasite production volume [email protected] as well as a longer lifespan, which have enabled Amoebae of the family Thecamoebidae are widely the development of many new techniques for distributed in the different environments: salt and studying Cryptosporidium and its cell biology and fresh water and soil. These protists are relatively biochemistry. Amongst these new techniques is easy to isolate and cultivate. They are relatively the development of NMR and Mass spectrometry easy determining to genus, or even to species, thus protocols, which have been optimised to examine representing a convenient object for many kinds of the metabolic flux of the parasite, as well as studies. The frequency of occurrence of species is investigating the role of the mitosome. We have very different: there are rather common ones like also acquired many electron microscopy (EM) Thecamoeba quadrilineata, T. similis and T. orbis as images of the parasite during its life cycle, identifying well as numerous species known from few findings details of structures at levels previously unseen in or never re- isolated since initial description. Many the literature. Furthermore, using Immuno-EM of these species were studied only at the light- we have shown the first experimental evidence of microscopic level and require investigation with the function of the mitosome in C. parvum, with modern methods, including electron microscopy the localisation of iron sulphur cluster biosynthesis and molecular studies (this especially concerns the proteins. genus Thecamoeba and genera of unclear systematic position like Pseudothecamoeba and Thecochaos). DIVERSITY AND TEMPORAL DYNAMICS Our studies show that “hotspot” of Thecamoeba OF CRYPTOMYCOTA AND APHELIDA, TWO diversity is terrestrial habitats – soil, grass, dry leaves OVERLOOKED GROUPS OF PARASITES IN and surface of trees. During our studies we isolated FRESHWATER ECOSYSTEMS 20 strains of Thecamoeba; some were identified as Moreira D.1, Jardillier L.1, Bertolino P.1, Karpov known species (Thecamoeba aesculea, T. similis, T. S.A.2, Lopez-Garcia P.1 quadrilineata and T. terricola) and 6 strains, which 1 - Ecologie Systématique Evolution, CNRS - Uni- represent new species of the genus Thecamoeba. We versity Paris-Sud, Orsay, France have found two new strains of amoebae belonging 2 - Zoological Institute, Russian Academy of Sciences, to the genus Sappinia. In contrast, amoebae of the St. Petersburg, Russian Federation genus Stenamoeba were never found in terrestrial [email protected] samples. Our data shows that species diversity Basal-branching fungi, especially chytrids, are of thecamoebid amoebae remains considerably important heterotrophic members of aquatic underexplored. microbial food chains, especially in freshwater. Supported with Russian Science Foundation grant More recently, two additional groups very distantly 14-14-00474. related to fungi, Cryptomycota (or Rozellomycota) and Aphelida, have also been found to be ubiquitous ESTABLISHING CRYPTOSPORIDIUM AS A members of freshwater microbial communities. MODEL FOR STUDYING THE BIOLOGY Together with the Microsporidia, they form the AND EVOLUTION OF APICOMPLEXANS recently described superphylum Opisthosporidia. AND UNIQUE ORGANELLES All known opisthosporidian species are parasites Miller C., Brown I., Howard M., Michaelis M., of very diverse eukaryotic hosts. Remarkably, both Tsaousis A. cryptomycetes and aphelids are able to feed by University of Kent, UK phagotrophy, a chief difference with microsporidia .
Recommended publications
  • Protistology Molecular Phylogeny of Aphelidium Arduennense Sp. Nov
    Protistology 13 (4), 192–198 (2019) Protistology Molecular phylogeny of Aphelidium arduennense sp. nov. – new representative of Aphelida (Opis- thosporidia) Victoria S. Tcvetkova1, Natalia A. Zorina1, Maria A. Mamkaeva1 and Sergey A. Karpov1,2 1 St. Petersburg State University, St. Petersburg 199034, Russia 2 Zoological Institute, Russian Academy of Sciences, St. Petersburg 199034, Russia | Submitted November 14, 2019 | Accepted December 2, 2019 | Summary Aphelids (Aphelida) are poorly known parasitoids of algae that have raised considerable interest because of their phylogenetic position as phagotrophic protists sister to Fungi. Together with Rozellida and Microsporidia they have been classified in the Opisthosporidia but seem to be more closely related to the Fungi rather than to the Cryptomycota and Microsporidia, the other members of the Opisthosporidia. Molecular environmental studies have revealed high genetic diversity within the aphelids, but only four genera have been described: Aphelidium, Amoeboaphelidium, Paraphelidium and Pseudaphelidium. Here, we describe the life cycle of a new species of Aphelidium, Aph. arduennense. Molecular phylogenetic analysis of its 18S rRNA indicates that Aph. arduennense is sister to Aph. tribonematis, and together with Aph. melosirae they form a monophyletic cluster. Within the aphelids, this cluster is distantly related to Paraphelidium and Amoeboaphelidium. Key words: aphelids, Holomycota, Opisthosporidia, Rozellosporidia, taxonomy Introduction Rozellosporidia (Cryptomycota) formed the super- phylum Opisthosporidia, the deepest branch Aphelids are a divergent group of intracellular of the Holomycota lineage, separated from the parasitoids of green, yellow-green and diatom algae Fungi (Karpov et al., 2014a; Letcher et al., 2015; (Gromov, 2000; Karpov et al., 2014a). The four 2017; Torruella et al., 2015). Several biological known genera have different ecological preferences: peculiarities of the aphelids do not conform the Aphelidium, Amoeboaphelidium and Paraphelidium classical definition of the Fungi.
    [Show full text]
  • Protistology an International Journal Vol
    Protistology An International Journal Vol. 10, Number 2, 2016 ___________________________________________________________________________________ CONTENTS INTERNATIONAL SCIENTIFIC FORUM «PROTIST–2016» Yuri Mazei (Vice-Chairman) Welcome Address 2 Organizing Committee 3 Organizers and Sponsors 4 Abstracts 5 Author Index 94 Forum “PROTIST-2016” June 6–10, 2016 Moscow, Russia Website: http://onlinereg.ru/protist-2016 WELCOME ADDRESS Dear colleagues! Republic) entitled “Diplonemids – new kids on the block”. The third lecture will be given by Alexey The Forum “PROTIST–2016” aims at gathering Smirnov (Saint Petersburg State University, Russia): the researchers in all protistological fields, from “Phylogeny, diversity, and evolution of Amoebozoa: molecular biology to ecology, to stimulate cross- new findings and new problems”. Then Sandra disciplinary interactions and establish long-term Baldauf (Uppsala University, Sweden) will make a international scientific cooperation. The conference plenary presentation “The search for the eukaryote will cover a wide range of fundamental and applied root, now you see it now you don’t”, and the fifth topics in Protistology, with the major focus on plenary lecture “Protist-based methods for assessing evolution and phylogeny, taxonomy, systematics and marine water quality” will be made by Alan Warren DNA barcoding, genomics and molecular biology, (Natural History Museum, United Kingdom). cell biology, organismal biology, parasitology, diversity and biogeography, ecology of soil and There will be two symposia sponsored by ISoP: aquatic protists, bioindicators and palaeoecology. “Integrative co-evolution between mitochondria and their hosts” organized by Sergio A. Muñoz- The Forum is organized jointly by the International Gómez, Claudio H. Slamovits, and Andrew J. Society of Protistologists (ISoP), International Roger, and “Protists of Marine Sediments” orga- Society for Evolutionary Protistology (ISEP), nized by Jun Gong and Virginia Edgcomb.
    [Show full text]
  • S41467-021-25308-W.Pdf
    ARTICLE https://doi.org/10.1038/s41467-021-25308-w OPEN Phylogenomics of a new fungal phylum reveals multiple waves of reductive evolution across Holomycota ✉ ✉ Luis Javier Galindo 1 , Purificación López-García 1, Guifré Torruella1, Sergey Karpov2,3 & David Moreira 1 Compared to multicellular fungi and unicellular yeasts, unicellular fungi with free-living fla- gellated stages (zoospores) remain poorly known and their phylogenetic position is often 1234567890():,; unresolved. Recently, rRNA gene phylogenetic analyses of two atypical parasitic fungi with amoeboid zoospores and long kinetosomes, the sanchytrids Amoeboradix gromovi and San- chytrium tribonematis, showed that they formed a monophyletic group without close affinity with known fungal clades. Here, we sequence single-cell genomes for both species to assess their phylogenetic position and evolution. Phylogenomic analyses using different protein datasets and a comprehensive taxon sampling result in an almost fully-resolved fungal tree, with Chytridiomycota as sister to all other fungi, and sanchytrids forming a well-supported, fast-evolving clade sister to Blastocladiomycota. Comparative genomic analyses across fungi and their allies (Holomycota) reveal an atypically reduced metabolic repertoire for sanchy- trids. We infer three main independent flagellum losses from the distribution of over 60 flagellum-specific proteins across Holomycota. Based on sanchytrids’ phylogenetic position and unique traits, we propose the designation of a novel phylum, Sanchytriomycota. In addition, our results indicate that most of the hyphal morphogenesis gene repertoire of multicellular fungi had already evolved in early holomycotan lineages. 1 Ecologie Systématique Evolution, CNRS, Université Paris-Saclay, AgroParisTech, Orsay, France. 2 Zoological Institute, Russian Academy of Sciences, St. ✉ Petersburg, Russia. 3 St.
    [Show full text]
  • Complex Communities of Small Protists and Unexpected Occurrence Of
    Complex communities of small protists and unexpected occurrence of typical marine lineages in shallow freshwater systems Marianne Simon, Ludwig Jardillier, Philippe Deschamps, David Moreira, Gwendal Restoux, Paola Bertolino, Purificación López-García To cite this version: Marianne Simon, Ludwig Jardillier, Philippe Deschamps, David Moreira, Gwendal Restoux, et al.. Complex communities of small protists and unexpected occurrence of typical marine lineages in shal- low freshwater systems. Environmental Microbiology, Society for Applied Microbiology and Wiley- Blackwell, 2015, 17 (10), pp.3610-3627. 10.1111/1462-2920.12591. hal-03022575 HAL Id: hal-03022575 https://hal.archives-ouvertes.fr/hal-03022575 Submitted on 24 Nov 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Europe PMC Funders Group Author Manuscript Environ Microbiol. Author manuscript; available in PMC 2015 October 26. Published in final edited form as: Environ Microbiol. 2015 October ; 17(10): 3610–3627. doi:10.1111/1462-2920.12591. Europe PMC Funders Author Manuscripts Complex communities of small protists and unexpected occurrence of typical marine lineages in shallow freshwater systems Marianne Simon, Ludwig Jardillier, Philippe Deschamps, David Moreira, Gwendal Restoux, Paola Bertolino, and Purificación López-García* Unité d’Ecologie, Systématique et Evolution, CNRS UMR 8079, Université Paris-Sud, 91405 Orsay, France Summary Although inland water bodies are more heterogeneous and sensitive to environmental variation than oceans, the diversity of small protists in these ecosystems is much less well-known.
    [Show full text]
  • Proposal for Practical Multi-Kingdom Classification of Eukaryotes Based on Monophyly 2 and Comparable Divergence Time Criteria
    bioRxiv preprint doi: https://doi.org/10.1101/240929; this version posted December 29, 2017. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 1 Proposal for practical multi-kingdom classification of eukaryotes based on monophyly 2 and comparable divergence time criteria 3 Leho Tedersoo 4 Natural History Museum, University of Tartu, 14a Ravila, 50411 Tartu, Estonia 5 Contact: email: [email protected], tel: +372 56654986, twitter: @tedersoo 6 7 Key words: Taxonomy, Eukaryotes, subdomain, phylum, phylogenetic classification, 8 monophyletic groups, divergence time 9 Summary 10 Much of the ecological, taxonomic and biodiversity research relies on understanding of 11 phylogenetic relationships among organisms. There are multiple available classification 12 systems that all suffer from differences in naming, incompleteness, presence of multiple non- 13 monophyletic entities and poor correspondence of divergence times. These issues render 14 taxonomic comparisons across the main groups of eukaryotes and all life in general difficult 15 at best. By using the monophyly criterion, roughly comparable time of divergence and 16 information from multiple phylogenetic reconstructions, I propose an alternative 17 classification system for the domain Eukarya to improve hierarchical taxonomical 18 comparability for animals, plants, fungi and multiple protist groups. Following this rationale, 19 I propose 32 kingdoms of eukaryotes that are treated in 10 subdomains. These kingdoms are 20 further separated into 43, 115, 140 and 353 taxa at the level of subkingdom, phylum, 21 subphylum and class, respectively (http://dx.doi.org/10.15156/BIO/587483).
    [Show full text]
  • The Aphelids, Intracellular Parasitoids of Algae, Consume the Host Cytoplasm “From the Inside”
    Protistology 14 (4), 258–263 (2020) Protistology The aphelids, intracellular parasitoids of algae, consume the host cytoplasm “from the inside” Sergey A. Karpov1,2,3 and Gita G. Paskerova2 1 Zoological Institute, Russian Academy of Sciences, St. Petersburg, Russia 2 St. Petersburg State University, St. Petersburg, Russia 3 Kashkin Research Institute of Medical Mycology of North-Western State Medical University named after I.I. Mechnikov, St. Petersburg, Russia | Submitted November 2, 2020 | Accepted December 15, 2020 | Summary In this discussion, we are clarifying the interface between the aphelid trophont and the host in different life cycle stages from the invasion until zoospore maturation. As a result, we consider that the aphelid trophont does not consume host cytoplasm from outside, as it has been suggested earlier, but from inside, i.e., in the same manner as Rozella. Key words: Apicomplexa, Microsporidia, parasitoid/host interface, rozellids, ultrastructure Introduction Previous investigations of phagocytic process have shown the differences between rozellids and The aphelids and rozellids (genus Rozella) belong aphelids: “In contrast to Rozella, however, the to the superphylum Opisthosporidia and represent unwalled protoplasts of aphelids do not directly enter the parasitoids of algae and zoosporic fungi with into the host cytoplasm. With aphelids, the mode of a phagotrophic intracellular stage (Karpov et al., infection only requires penetration of the host cell 2014a). They both have a life cycle somewhat similar wall. As a consequence, the aphelid endoparasite to that of chytrids, but after zoospore encystment on does not have to cross the host plasma membrane the host surface they form a penetration tube into the (PM) in the infection process (Karpov et al., 2014a, host.
    [Show full text]
  • Morphology, Ultrastructure, and Molecular Phylogeny of Rozella Multimorpha, a New Species in Cryptomycota
    DR. PETER LETCHER (Orcid ID : 0000-0003-4455-9992) Article type : Original Article Letcher et al.---A New Rozella From Pythium Morphology, Ultrastructure, and Molecular Phylogeny of Rozella multimorpha, a New Species in Cryptomycota Peter M. Letchera, Joyce E. Longcoreb, Timothy Y. Jamesc, Domingos S. Leited, D. Rabern Simmonsc, Martha J. Powella a Department of Biological Sciences, The University of Alabama, Tuscaloosa, 35487, Alabama, USA b School of Biology and Ecology, University of Maine, Orono, 04469, Maine, USA c Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, 48109, Michigan, USA d Departamento de Genética, Evolução e Bioagentes, Universidade Estadual de Campinas, Campinas, SP, 13082-862, Brazil Corresponding author: P. M. Letcher, Department of Biological Sciences, The University of Alabama, 1332 SEC, Box 870344, 300 Hackberry Lane, Tuscaloosa, Alabama 35487, USA, telephone number:Author Manuscript +1 205-348-8208; FAX number: +1 205-348-1786; e-mail: [email protected] This is the author manuscript accepted for publication and has undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process, which may lead to differences between this version and the Version of Record. Please cite this article as doi: 10.1111/jeu.12452-4996 This article is protected by copyright. All rights reserved ABSTRACT Increasing numbers of sequences of basal fungi from environmental DNA studies are being deposited in public databases. Many of these sequences remain unclassified below the phylum level because sequence information from identified species is sparse. Lack of basic biological knowledge due to a dearth of identified species is extreme in Cryptomycota, a new phylum widespread in the environment and phylogenetically basal within the fungal lineage.
    [Show full text]
  • Genera of the World: an Overview and Estimates Based on the March 2020 Release of the Interim Register of Marine and Nonmarine Genera (IRMNG)
    Megataxa 001 (2): 123–140 ISSN 2703-3082 (print edition) https://www.mapress.com/j/mt/ MEGATAXA Copyright © 2020 Magnolia Press Article ISSN 2703-3090 (online edition) https://doi.org/10.11646/megataxa.1.2.3 http://zoobank.org/urn:lsid:zoobank.org:pub:F4A52C97-BAD0-4FD5-839F-1A61EA40A7A3 All genera of the world: an overview and estimates based on the March 2020 release of the Interim Register of Marine and Nonmarine Genera (IRMNG) TONY REES 1, LEEN VANDEPITTE 2, 3, BART VANHOORNE 2, 4 & WIM DECOCK 2, 5 1 Private address, New South Wales, Australia. [email protected]; http://orcid.org/0000-0003-1887-5211 2 Flanders Marine Institute/Vlaams Instituut Voor De Zee (VLIZ), Wandelaarkaai 7, 8400 Ostend, Belgium. 3 [email protected]; http://orcid.org/0000-0002-8160-7941 4 [email protected]; https://orcid.org/0000-0002-6642-4725 5 [email protected]; https://orcid.org/0000-0002-2168-9471 Abstract Introduction We give estimated counts of known accepted genera of the The concept of a series of papers addressing portions of world (297,930±65,840, of which approximately 21% are the question of “all genera of the world” is a valuable one, fossil), of a total 492,620 genus names presently held for which can benefit from as much preliminary scoping as “all life”, based on the March 2020 release of the Interim may be currently available. To date, synoptic surveys of Register of Marine and Nonmarine Genera (IRMNG). A fur- biodiversity have been attempted mainly at the level of ther c.
    [Show full text]
  • Our Biased Perspective of Eukaryotic Genomes
    Opinion The others: our biased perspective of eukaryotic genomes 1,2 3 4 2 Javier del Campo , Michael E. Sieracki , Robert Molestina , Patrick Keeling , 5 1,6,7 Ramon Massana , and In˜ aki Ruiz-Trillo 1 Institut de Biologia Evolutiva, CSIC-Universitat Pompeu Fabra, Barcelona, Catalonia, Spain 2 University of British Columbia, Vancouver, BC, Canada 3 Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, USA 4 American Type Culture Collection, Manassas, VA, USA 5 Institut de Cie` ncies del Mar, CSIC, Barcelona, Catalonia, Spain 6 Departament de Gene` tica, Universitat de Barcelona, Barcelona, Catalonia, Spain 7 Institucio´ Catalana de Recerca i Estudis Avanc¸ats (ICREA), Barcelona, Catalonia, Spain Understanding the origin and evolution of the eukaryotic what eukaryotes even are, as well as their role in the cell and the full diversity of eukaryotes is relevant to environment. This bias is simple and widely recognized: many biological disciplines. However, our current under- most genomics focuses on multicellular eukaryotes and standing of eukaryotic genomes is extremely biased, their parasites. The problem is not exclusive to eukaryotes. leading to a skewed view of eukaryotic biology. We The launching of the so-called ‘Genomic Encyclopedia of argue that a phylogeny-driven initiative to cover the full Bacteria and Archaea’ [2] has begun to reverse a similar eukaryotic diversity is needed to overcome this bias. We bias within prokaryotes, but there is currently no equiva- encourage the community: (i) to sequence a representa- lent for eukaryotes. Targeted efforts have recently been tive of the neglected groups available at public culture initiated to increase the breadth of our genomic knowledge collections, (ii) to increase our culturing efforts, and (iii) for several specific eukaryotic groups, but again these tend to embrace single cell genomics to access organisms to focus on animals [3], plants [4], fungi [5], their parasites refractory to propagation in culture.
    [Show full text]
  • High-Level Classification of the Fungi and a Tool for Evolutionary Ecological Analyses
    Fungal Diversity (2018) 90:135–159 https://doi.org/10.1007/s13225-018-0401-0 (0123456789().,-volV)(0123456789().,-volV) High-level classification of the Fungi and a tool for evolutionary ecological analyses 1,2,3 4 1,2 3,5 Leho Tedersoo • Santiago Sa´nchez-Ramı´rez • Urmas Ko˜ ljalg • Mohammad Bahram • 6 6,7 8 5 1 Markus Do¨ ring • Dmitry Schigel • Tom May • Martin Ryberg • Kessy Abarenkov Received: 22 February 2018 / Accepted: 1 May 2018 / Published online: 16 May 2018 Ó The Author(s) 2018 Abstract High-throughput sequencing studies generate vast amounts of taxonomic data. Evolutionary ecological hypotheses of the recovered taxa and Species Hypotheses are difficult to test due to problems with alignments and the lack of a phylogenetic backbone. We propose an updated phylum- and class-level fungal classification accounting for monophyly and divergence time so that the main taxonomic ranks are more informative. Based on phylogenies and divergence time estimates, we adopt phylum rank to Aphelidiomycota, Basidiobolomycota, Calcarisporiellomycota, Glomeromycota, Entomoph- thoromycota, Entorrhizomycota, Kickxellomycota, Monoblepharomycota, Mortierellomycota and Olpidiomycota. We accept nine subkingdoms to accommodate these 18 phyla. We consider the kingdom Nucleariae (phyla Nuclearida and Fonticulida) as a sister group to the Fungi. We also introduce a perl script and a newick-formatted classification backbone for assigning Species Hypotheses into a hierarchical taxonomic framework, using this or any other classification system. We provide an example
    [Show full text]
  • Blastocladiomycota) and Rozella Allomycis (Cryptomycota)
    fungal biology 121 (2017) 561e572 journal homepage: www.elsevier.com/locate/funbio Ultrastructural characterization of the hosteparasite interface between Allomyces anomalus (Blastocladiomycota) and Rozella allomycis (Cryptomycota) Martha J. POWELLa, Peter M. LETCHERa,*, Timothy Y. JAMESb aDepartment of Biological Sciences, The University of Alabama, Tuscaloosa, AL 35487, USA bDepartment of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109, USA article info abstract Article history: Rozella allomycis is an obligate endoparasite of the water mold Allomyces and a member of Received 16 December 2016 a clade (¼ Opisthosporidia) sister to the traditional Fungi. Gaining insights into Rozella’s de- Received in revised form velopment as a phylogenetically pivotal endoparasite can aid our understanding of struc- 8 March 2017 tural adaptations and evolution of the Opisthosporidia clade, especially within the context Accepted 13 March 2017 of genomic information. The purpose of this study is to characterize the interface between Available online 21 March 2017 R. allomycis and Allomyces anomalus. Electron microscopy of developing plasmodia of R. al- Corresponding Editor: lomycis in host hyphae shows that the interface consists of three-membrane layers, inter- Gordon William Beakes preted as the parasite’s plasma membrane (inner one layer) and a host cisterna (outer two layers). As sporangial and resting spore plasmodia develop, host mitochondria typically Keywords: cluster at the surface of the parasite and eventually align parallel to the three-membrane Evolution layered interface. The parasite’s mitochondria have only a few cristae and the mitochon- Interface drial matrix is sparse, clearly distinguishing parasite mitochondria from those of the Mitochondrial recruitment host. Consistent with the expected organellar topology if the parasite plasmodia phagocy- Parasitism tize host cytoplasm, phagocytic vacuoles are at first bounded by three-membrane layers Phagocytosis with host-type mitochondria lining the inner membrane.
    [Show full text]
  • Phylogeny and Evolutionary Perspective of Opisthokonta Protists
    Phylogeny and evolutionary perspective of Opisthokonta protists Guifré Torruella i Cortés ADVERTIMENT. La consulta d’aquesta tesi queda condicionada a l’acceptació de les següents condicions d'ús: La difusió d’aquesta tesi per mitjà del servei TDX (www.tdx.cat) i a través del Dipòsit Digital de la UB (diposit.ub.edu) ha estat autoritzada pels titulars dels drets de propietat intel·lectual únicament per a usos privats emmarcats en activitats d’investigació i docència. No s’autoritza la seva reproducció amb finalitats de lucre ni la seva difusió i posada a disposició des d’un lloc aliè al servei TDX ni al Dipòsit Digital de la UB. No s’autoritza la presentació del seu contingut en una finestra o marc aliè a TDX o al Dipòsit Digital de la UB (framing). Aquesta reserva de drets afecta tant al resum de presentació de la tesi com als seus continguts. En la utilització o cita de parts de la tesi és obligat indicar el nom de la persona autora. ADVERTENCIA. La consulta de esta tesis queda condicionada a la aceptación de las siguientes condiciones de uso: La difusión de esta tesis por medio del servicio TDR (www.tdx.cat) y a través del Repositorio Digital de la UB (diposit.ub.edu) ha sido autorizada por los titulares de los derechos de propiedad intelectual únicamente para usos privados enmarcados en actividades de investigación y docencia. No se autoriza su reproducción con finalidades de lucro ni su difusión y puesta a disposición desde un sitio ajeno al servicio TDR o al Repositorio Digital de la UB.
    [Show full text]