Peristome Development Pattern in Encalypta Poses
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Flora of New Zealand Mosses
FLORA OF NEW ZEALAND MOSSES FUNARIACEAE A.J. FIFE Fascicle 45 – APRIL 2019 © Landcare Research New Zealand Limited 2019. Unless indicated otherwise for specific items, this copyright work is licensed under the Creative Commons Attribution 4.0 International licence Attribution if redistributing to the public without adaptation: “Source: Manaaki Whenua – Landcare Research” Attribution if making an adaptation or derivative work: “Sourced from Manaaki Whenua – Landcare Research” See Image Information for copyright and licence details for images. CATALOGUING IN PUBLICATION Fife, Allan J. (Allan James), 1951– Flora of New Zealand : mosses. Fascicle 45, Funariaceae / Allan J. Fife. -- Lincoln, N.Z. : Manaaki Whenua Press, 2019. 1 online resource ISBN 978-0-947525-58-3 (pdf) ISBN 978-0-478-34747-0 (set) 1.Mosses -- New Zealand -- Identification. I. Title. II. Manaaki Whenua – Landcare Research New Zealand Ltd. UDC 582.344.55(931) DC 588.20993 DOI: 10.7931/B15MZ6 This work should be cited as: Fife, A.J. 2019: Funariaceae. In: Smissen, R.; Wilton, A.D. Flora of New Zealand – Mosses. Fascicle 45. Manaaki Whenua Press, Lincoln. http://dx.doi.org/10.7931/B15MZ6 Date submitted: 25 Oct 2017; Date accepted: 2 Jul 2018 Cover image: Entosthodon radians, habit with capsule, moist. Drawn by Rebecca Wagstaff from A.J. Fife 5882, CHR 104422. Contents Introduction..............................................................................................................................................1 Typification...............................................................................................................................................1 -
Distribution and Phylogenetic Significance of the 71-Kb Inversion
Annals of Botany 99: 747–753, 2007 doi:10.1093/aob/mcm010, available online at www.aob.oxfordjournals.org Distribution and Phylogenetic Significance of the 71-kb Inversion in the Plastid Genome in Funariidae (Bryophyta) BERNARD GOFFINET1,*, NORMAN J. WICKETT1 , OLAF WERNER2 , ROSA MARIA ROS2 , A. JONATHAN SHAW3 and CYMON J. COX3,† 1Department of Ecology and Evolutionary Biology, 75 North Eagleville Road, University of Connecticut, Storrs, CT 06269-3043, USA, 2Universidad de Murcia, Facultad de Biologı´a, Departamento de Biologı´a Vegetal, Campus de Espinardo, 30100-Murcia, Spain and 3Department of Biology, Duke University, Durham, NC 27708, USA Received: 31 October 2006 Revision requested: 21 November 2006 Accepted: 21 December 2006 Published electronically: 2 March 2007 † Background and Aims The recent assembly of the complete sequence of the plastid genome of the model taxon Physcomitrella patens (Funariaceae, Bryophyta) revealed that a 71-kb fragment, encompassing much of the large single copy region, is inverted. This inversion of 57% of the genome is the largest rearrangement detected in the plastid genomes of plants to date. Although initially considered diagnostic of Physcomitrella patens, the inversion was recently shown to characterize the plastid genome of two species from related genera within Funariaceae, but was lacking in another member of Funariidae. The phylogenetic significance of the inversion has remained ambiguous. † Methods Exemplars of all families included in Funariidae were surveyed. DNA sequences spanning the inversion break ends were amplified, using primers that anneal to genes on either side of the putative end points of the inver- sion. Primer combinations were designed to yield a product for either the inverted or the non-inverted architecture. -
Integrated Phylogenomic Analyses Reveal Recurrent Ancestral Large
bioRxiv preprint doi: https://doi.org/10.1101/603191; this version posted April 10, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Integrated phylogenomic analyses reveal recurrent ancestral large-scale 2 duplication events in mosses 3 4 Bei Gao1,2, Moxian Chen2,3, Xiaoshuang Li4, Yuqing Liang4,5, Daoyuan Zhang4, Andrew J. Wood6, Melvin J. Oliver7*, 5 Jianhua Zhang2,3,8* 6 7 1School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China. 8 2State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Hong Kong, China. 9 3Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, China. 10 4Key Laboratory of Biogeography and Bioresources, Xinjiang Institute of Ecology and Geography, Chinese Academy of 11 Sciences, Urumqi 830011, China. 12 5University of Chinese Academy of Sciences, Beijing 100049, China. 13 6Department of Plant Biology, Southern Illinois University-Carbondale, Carbondale, IL 62901-6509, USA. 14 7USDA-ARS-Plant Genetic Research Unit, University of Missouri, Columbia, MO 65211, USA. 15 8Department of Biology, Faculty of Science, Hong Kong Baptist University, Hong Kong, China. 16 17 *Correspondence: Jianhua Zhang: [email protected] and Melvin J. Oliver: [email protected] 18 19 20 Summary 21 • Mosses (Bryophyta) are a key group occupying important phylogenetic position for understanding land plant 22 (embryophyte) evolution. The class Bryopsida represents the most diversified lineage and contains more than 95% of the 23 modern mosses, whereas the other classes are by nature species-poor. -
О Систематическом Положении Рода Discelium (Bryophyta) Michael S
Arctoa (2016) 25: 278–284 doi: 10.15298/arctoa.25.21 ON THE SYSTEMATIC POSITION OF DISCELIUM (BRYOPHYTA) О СИСТЕМАТИЧЕСКОМ ПОЛОЖЕНИИ РОДА DISCELIUM (BRYOPHYTA) MICHAEL S. IGNATOV1,2, VLADIMIR E. FEDOSOV1, ALINA V. F EDOROVA3 & ELENA A. IGNATOVA1 МИХАИЛ С. ИГНАТОВ1,2, ВЛАДИМИР Э. ФЕДОСОВ1, АЛИНА В. ФЕДОРОВА3, ЕЛЕНА А. ИГНАТОВА1 Abstract Results of molecular phylogenetic analysis support the position of the genus Discelium in the group of diplolepideous opposite mosses, Funariidae; however, its affinity is stronger with Encalyptales than with Funariales, where it is currently placed. A number of neglected morphological characters also indicate that Discelium is related to Funariales no closer than to Encalyptales, and thus new order Disceliales is proposed. Within the Encalyptaceae a case of strong sporophyte reduction is revealed. Bryobartramia appeared to be nested in Encalypta sect. Rhabdotheca, thus this genus is synonymized with Encalypta. Резюме Молекулярно-филогенетический анализ подтвердил положение рода Discelium в группе диплолепидных мхов с перистомом с супротивным расположением его элементов, или подклассе Funariidae, однако указал на родство с порядком Encalyptales, а не с Funariales, в который его обычно относили. Ряд редко учитываемых морфологических признаков также свидетельствует в пользу лишь отдаленного родства с Funariaceae. Предложено выделение Discelium в отдельный порядок Disceliales. В Encalyptaceae выявлен случай сильной редукции спорофита. Выявлено положение Bryobartramia в пределах рода Encalypta, в котором он имеет близкое родство с терминальными группами видов с гетерополярными спорами. Таким образом, Bryobartramia отнесена в синонимы к роду Encalypta. KEYWORDS: mosses, taxonomy, molecular phylogenetics, new order INTRODUCTION observation revealed the peristomial formula of Discelium The genus Discelium Brid. represents a small moss is 4:2(–4):4 with opposite position of exostome and with a strongly reduced gametophore. -
Molecular Phylogenetics of Mosses and Relatives
MOLECULAR PHYLOGENETICS OF MOSSES AND RELATIVES! by! Ying Chang! ! ! A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF ! DOCTOR OF PHILOSOPHY! in! The Faculty of Graduate Studies! (Botany)! ! ! THE UNIVERSITY OF BRITISH COLUMBIA! (Vancouver)! July 2011! © Ying Chang, 2011 ! ABSTRACT! Substantial ambiguities still remain concerning the broad backbone of moss phylogeny. I surveyed 17 slowly evolving plastid genes from representative taxa to reconstruct phylogenetic relationships among the major lineages of mosses in the overall context of land-plant phylogeny. I first designed 78 bryophyte-specific primers and demonstrated that they permit straightforward amplification and sequencing of 14 core genes across a broad range of bryophytes (three of the 17 genes required more effort). In combination, these genes can generate sturdy and well- resolved phylogenetic inferences of higher-order moss phylogeny, with little evidence of conflict among different data partitions or analyses. Liverworts are strongly supported as the sister group of the remaining land plants, and hornworts as sister to vascular plants. Within mosses, besides confirming some previously published findings based on other markers, my results substantially improve support for major branching patterns that were ambiguous before. The monogeneric classes Takakiopsida and Sphagnopsida likely represent the first and second split within moss phylogeny, respectively. However, this result is shown to be sensitive to the strategy used to estimate DNA substitution model parameter values and to different data partitioning methods. Regarding the placement of remaining nonperistomate lineages, the [[[Andreaeobryopsida, Andreaeopsida], Oedipodiopsida], peristomate mosses] arrangement receives moderate to strong support. Among peristomate mosses, relationships among Polytrichopsida, Tetraphidopsida and Bryopsida remain unclear, as do the earliest splits within sublcass Bryidae. -
A Bryophyte Species List for Denali National Park and Preserve, Alaska, with Comments on Several New and Noteworthy Records Author(S): Sarah E
A Bryophyte Species List for Denali National Park and Preserve, Alaska, with Comments on Several New and Noteworthy Records Author(s): Sarah E. Stehn , James K. Walton , Carl A. Roland Source: Evansia, 30(1):31-45. 2013. Published By: The American Bryological and Lichenological Society, Inc. DOI: http://dx.doi.org/10.1639/079.030.0105 URL: http://www.bioone.org/doi/full/10.1639/079.030.0105 BioOne (www.bioone.org) is a nonprofit, online aggregation of core research in the biological, ecological, and environmental sciences. BioOne provides a sustainable online platform for over 170 journals and books published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Web site, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/page/ terms_of_use. Usage of BioOne content is strictly limited to personal, educational, and non-commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Evansia 30(1) 31 A bryophyte species list for Denali National Park and Preserve, Alaska, with comments on several new and noteworthy records Sarah E. Stehn Denali National Park and Preserve and Central Alaska Network National Park Service, P.O. Box 9, Denali Park, AK 99755 E-mail: [email protected] James K. Walton Southwest Alaska Network National Park Service, 240 West 5th Avenue, Anchorage, AK 99501 E-mail: [email protected] Carl A. -
Flora of New Zealand Mosses
FLORA OF NEW ZEALAND MOSSES ENCALYPTACEAE A.J. FIFE Fascicle 2 – JUNE 2014 © Landcare Research New Zealand Limited 2014. This copyright work is licensed under the Creative Commons Attribution 3.0 New Zealand license. Attribution if redistributing to the public without adaptation: “Source: Landcare Research" Attribution if making an adaptation or derivative work: “Sourced from Landcare Research" CATALOGUING IN PUBLICATION Fife, Allan J. (Allan James), 1951- Flora of New Zealand [electronic resource] : mosses. Fascicle 2, Encalyptaceae / Allan J. Fife. -- Lincoln, N.Z. : Manaaki Whenua Press, 2014. 1 online resource ISBN 978-0-478-34748-7 (pdf) ISBN 978-0-478-34747-0 (set) 1.Mosses -- New Zealand -- Identification. I. Title. II. Manaaki Whenua-Landcare Research New Zealand Ltd. DOI: 10.7931/J2057CVW This work should be cited as: Fife, A.J. 2014: Encalyptaceae. In: Heenan, P.B.; Breitwieser, I.; Wilton, A.D. Flora of New Zealand - Mosses. Fascicle 2. Manaaki Whenua Press, Lincoln. http://dx.doi.org/10.7931/J2057CVW Cover image: Encalypta rhaptocarpa, habit with capsule. Drawn by Rebecca Wagstaff from A.J. Fife 10283, CHR 483503. Contents Introduction..............................................................................................................................................1 Typification...............................................................................................................................................1 Taxa Encalyptaceae ................................................................................................................................. -
Supplementary Information 1. Supplementary Methods
Supplementary Information 1. Supplementary Methods Phylogenetic and age justifications for fossil calibrations The justifications for each fossil calibration are presented here for the ‘hornworts-sister’ topology (summarised in Table S2). For variations of fossil calibrations for the other hypothetical topologies, see Supplementary Tables S1-S7. Node 104: Viridiplantae; Chlorophyta – Streptophyta: 469 Ma – 1891 Ma. Fossil taxon and specimen: Tetrahedraletes cf. medinensis [palynological sample 7999: Paleopalynology Unit, IANIGLA, CCT CONICET, Mendoza, Argentina], from the Zanjón - Labrado Formations, Dapinigian Stage (Middle Ordovician), at Rio Capillas, Central Andean Basin, northwest Argentina [1]. Phylogenetic justification: Permanently fused tetrahedral tetrads and dyads found in palynomorph assemblages from the Middle Ordovician onwards are considered to be of embryophyte affinity [2-4], based on their similarities with permanent tetrads and dyads found in some extant bryophytes [5-7] and the separating tetrads within most extant cryptogams. Wellman [8] provides further justification for land plant affinities of cryptospores (sensu stricto Steemans [9]) based on: assemblages of permanent tetrads found in deposits that are interpreted as fully terrestrial in origin; similarities in the regular arrangement of spore bodies and size to extant land plant spores; possession of thick, resistant walls that are chemically similar to extant embryophyte spores [10]; some cryptospore taxa possess multilaminate walls similar to extant liverwort spores [11]; in situ cryptospores within Late Silurian to Early Devonian bryophytic-grade plants with some tracheophytic characters [12,13]. The oldest possible record of a permanent tetrahedral tetrad is a spore assigned to Tetrahedraletes cf. medinensis from an assemblage of cryptospores, chitinozoa and acritarchs collected from a locality in the Rio Capillas, part of the Sierra de Zapla of the Sierras Subandinas, Central Andean Basin, north-western Argentina [1]. -
Hypnales, Brachytheciaceae) Denis V
The mitochondrial genome of moss Brachythecium rivulare B.S.G. (Hypnales, Brachytheciaceae) Denis V. Goryunov, Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia [email protected] Maria D. Logacheva Belozersky Institute of Physico-Chemical Biology and Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia [email protected] Michail S. Ignatov Main Botanical Garden RAS, Moscow, Russia [email protected] Alexey V. Troitsky Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia [email protected] The liverworts and mosses (bryophytes sensu lato) are the basal groups of higher plants diverged more than 450 million years ago (myr). The primary terrestrial biotopes formed by bryophytes were an important spots for subsequent invasion on land of other plants. To date there is no comprehensive scenario of this crucial step of plants evolution. Now, one possible way to clarify some evolution obscurities is a comparative genomics approach. However, until now bryophyte genomics is on some initial stage of its progress especially in comparison with other groups of plants. To date, the nuclear genome sequence as two scaffolds available for a single moss species - Physcomitrella patens, and for two species plastid genomes are known. Mitochondrial genomes also from only two moss species from different subclasses Bryidae and Funariidae are deposited in NCBI GenBank: Anomodon rugelii (Hypnales, Anomodontaceae) and P. patens (Funariales, Funariaceae). Taking into account the great diversity of bryophytes (in number of species, they are not inferior angiosperms) from one hand and scanty bryophyte mitochondrial genome data on the other hand, we sequenced and annotated mitochondrial genome of Brachythecium rivulare (as a part of whole genome sequencing project for this species). -
Bryophyte Biology Second Edition
This page intentionally left blank Bryophyte Biology Second Edition Bryophyte Biology provides a comprehensive yet succinct overview of the hornworts, liverworts, and mosses: diverse groups of land plants that occupy a great variety of habitats throughout the world. This new edition covers essential aspects of bryophyte biology, from morphology, physiological ecology and conservation, to speciation and genomics. Revised classifications incorporate contributions from recent phylogenetic studies. Six new chapters complement fully updated chapters from the original book to provide a completely up-to-date resource. New chapters focus on the contributions of Physcomitrella to plant genomic research, population ecology of bryophytes, mechanisms of drought tolerance, a phylogenomic perspective on land plant evolution, and problems and progress of bryophyte speciation and conservation. Written by leaders in the field, this book offers an authoritative treatment of bryophyte biology, with rich citation of the current literature, suitable for advanced students and researchers. BERNARD GOFFINET is an Associate Professor in Ecology and Evolutionary Biology at the University of Connecticut and has contributed to nearly 80 publications. His current research spans from chloroplast genome evolution in liverworts and the phylogeny of mosses, to the systematics of lichen-forming fungi. A. JONATHAN SHAW is a Professor at the Biology Department at Duke University, an Associate Editor for several scientific journals, and Chairman for the Board of Directors, Highlands Biological Station. He has published over 130 scientific papers and book chapters. His research interests include the systematics and phylogenetics of mosses and liverworts and population genetics of peat mosses. Bryophyte Biology Second Edition BERNARD GOFFINET University of Connecticut, USA AND A. -
Phylogenetic Study of Grimmia (Grimmiaceae) Based on Plastid DNA Sequences (Trnl-Trnf and Rps4) and on Morphological Characters
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Serveur académique lausannois Phylogenetic study of Grimmia (Grimmiaceae) based on plastid DNA sequences (trnL-trnF and rps4) and on morphological characters ANNE STREIFF Conservatoire et Jardin botaniques de la Ville de Gene`ve, Ch. de l’Impe´ratrice 1, CH-1292 Chambe´sy, Switzerland University of Lausanne, DEE, CH-1015 Lausanne, Switzerland e-mail: [email protected] ABSTRACT. This work investigates the phylogenetic relationships within Grimmia Hedw. using 33 species of Grimmia and ten outgroup species from the Funariidae and the Dicranidae using a combination of two molecular markers and 52 morphological and anatomical characters. Plastid (trnL-trnF and rps4) DNA sequences were used to reconstruct the molecular phylogeny of Grimmia. The 33 chosen Grimmia species represented the majority of those found in Europe and Asia. An analysis using rps4 and trnL-trnF with six outgroup species supported the monophyly of the Grimmiaceae. The combined analysis of both plastid markers and morphological characters also resolved the Grimmiaceae as monophyletic. The results indicate that Grimmia, as currently defined, is paraphyletic. Two main clades were present, one that contained the species traditionally placed in the subgenus Rhabdogrimmia Limpr. and one that contained the remaining Grimmia species. KEYWORDS. Grimmia, molecular characters, morphology, paraphyly, phylogeny, rps4, trnL-trnF. ^^^ The genus Grimmia Hedw. belongs to a monophyletic Maier & Geissler 1995, Mun˜oz 1998a, b, 1999;), group of mosses called the Haplolepidae (or Dicra- providing a good foundation for phylogenetic re- nidae). Grimmia contains 71 recognized species from search. -
Checklist and Country Status of European Bryophytes – Towards a New Red List for Europe
ISSN 1393 – 6670 Checklist and country status of European bryophytes – towards a new Red List for Europe Cover image, outlined in Department Green Irish Wildlife Manuals No. 84 Checklist and country status of European bryophytes – towards a new Red List for Europe N.G. Hodgetts Citation: Hodgetts, N.G. (2015) Checklist and country status of European bryophytes – towards a new Red List for Europe. Irish Wildlife Manuals, No. 84. National Parks and Wildlife Service, Department of Arts, Heritage and the Gaeltacht, Ireland. Keywords: Bryophytes, mosses, liverworts, checklist, threat status, Red List, Europe, ECCB, IUCN Swedish Speices Information Centre Cover photograph: Hepatic mat bryophytes, Mayo, Ireland © Neil Lockhart The NPWS Project Officer for this report was: [email protected] Irish Wildlife Manuals Series Editors: F. Marnell & R. Jeffrey © National Parks and Wildlife Service 2015 Contents (this will automatically update) PrefaceContents ......................................................................................................................................................... 1 1 ExecutivePreface ................................ Summary ............................................................................................................................ 2 2 Acknowledgements 2 Executive Summary ....................................................................................................................................... 3 Introduction 3 Acknowledgements ......................................................................................................................................