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Analysis of Paralogs in Target Enrichment Data Pinpoints Multiple Ancient Polyploidy Events
bioRxiv preprint doi: https://doi.org/10.1101/2020.08.21.261925; this version posted August 23, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity.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-NC-ND 4.0 International license. 1 1 Analysis of paralogs in target enrichment data pinpoints multiple ancient polyploidy events 2 in Alchemilla s.l. (Rosaceae). 3 4 Diego F. Morales-Briones1.2,*, Berit Gehrke3, Chien-Hsun Huang4, Aaron Liston5, Hong Ma6, 5 Hannah E. Marx7, David C. Tank2, Ya Yang1 6 7 1Department of Plant and Microbial Biology, University of Minnesota-Twin Cities, 1445 Gortner 8 Avenue, St. Paul, MN 55108, USA 9 2Department of Biological Sciences and Institute for Bioinformatics and Evolutionary Studies, 10 University of Idaho, 875 Perimeter Drive MS 3051, Moscow, ID 83844, USA 11 3University Gardens, University Museum, University of Bergen, Mildeveien 240, 5259 12 Hjellestad, Norway 13 4State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics 14 and Development, Ministry of Education Key Laboratory of Biodiversity and Ecological 15 Engineering, Institute of Plant Biology, Center of Evolutionary Biology, School of Life Sciences, 16 Fudan University, Shanghai 200433, China 17 5Department of Botany and Plant Pathology, Oregon State University, 2082 Cordley Hall, 18 Corvallis, OR 97331, USA 19 6Department of Biology, the Huck Institute of the Life Sciences, the Pennsylvania State 20 University, 510D Mueller Laboratory, University Park, PA 16802 USA 21 7Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 22 48109-1048, USA 23 bioRxiv preprint doi: https://doi.org/10.1101/2020.08.21.261925; this version posted August 23, 2020. -
Checklists of Protected and Threatened Species in Ireland
ISSN 1393 – 6670 N A T I O N A L P A R K S A N D W I L D L I F E S ERVICE CHECKLISTS OF PROTECTED AND THREATENED SPECIES IN IRELAND Brian Nelson, Sinéad Cummins, Loraine Fay, Rebecca Jeffrey, Seán Kelly, Naomi Kingston, Neil Lockhart, Ferdia Marnell, David Tierney and Mike Wyse Jackson I R I S H W I L D L I F E M ANUAL S 116 National Parks and Wildlife Service (NPWS) commissions a range of reports from external contractors to provide scientific evidence and advice to assist it in its duties. The Irish Wildlife Manuals series serves as a record of work carried out or commissioned by NPWS, and is one means by which it disseminates scientific information. Others include scientific publications in peer reviewed journals. The views and recommendations presented in this report are not necessarily those of NPWS and should, therefore, not be attributed to NPWS. Front cover, small photographs from top row: Coastal heath, Howth Head, Co. Dublin, Maurice Eakin; Red Squirrel Sciurus vulgaris, Eddie Dunne, NPWS Image Library; Marsh Fritillary Euphydryas aurinia, Brian Nelson; Puffin Fratercula arctica, Mike Brown, NPWS Image Library; Long Range and Upper Lake, Killarney National Park, NPWS Image Library; Limestone pavement, Bricklieve Mountains, Co. Sligo, Andy Bleasdale; Meadow Saffron Colchicum autumnale, Lorcan Scott; Barn Owl Tyto alba, Mike Brown, NPWS Image Library; A deep water fly trap anemone Phelliactis sp., Yvonne Leahy; Violet Crystalwort Riccia huebeneriana, Robert Thompson Main photograph: Short-beaked Common Dolphin Delphinus delphis, -
A New Approach to an Old Conundrumdna Barcoding Sheds
Molecular Ecology Resources (2010) doi: 10.1111/j.1755-0998.2010.02937.x DNA BARCODING A new approach to an old conundrum—DNA barcoding sheds new light on phenotypic plasticity and morphological stasis in microsnails (Gastropoda, Pulmonata, Carychiidae) ALEXANDER M. WEIGAND,* ADRIENNE JOCHUM,* MARKUS PFENNINGER,† DIRK STEINKE‡ and ANNETTE KLUSSMANN-KOLB*,† *Institute for Ecology, Evolution and Diversity, Siesmayerstrasse 70, Goethe-University, 60323 Frankfurt am Main, Germany, †Research Centre Biodiversity and Climate, Siesmayerstrasse 70, 60323 Frankfurt am Main, Germany, ‡Biodiversity Institute of Ontario, University of Guelph, 50 Stone Road West, Guelph, ON N1G 2V7, Canada Abstract The identification of microsnail taxa based on morphological characters is often a time-consuming and inconclusive process. Aspects such as morphological stasis and phenotypic plasticity further complicate their taxonomic designation. In this study, we demonstrate that the application of DNA barcoding can alleviate these problems within the Carychiidae (Gastro- poda, Pulmonata). These microsnails are a taxon of the pulmonate lineage and most likely migrated onto land indepen- dently of the Stylommatophora clade. Their taxonomical classification is currently based on conchological and anatomical characters only. Despite much confusion about historic species assignments, the Carychiidae can be unambiguously subdi- vided into two taxa: (i) Zospeum species, which are restricted to karst caves, and (ii) Carychium species, which occur in a broad range of environmental conditions. The implementation of discrete molecular data (COI marker) enabled us to cor- rectly designate 90% of the carychiid microsnails. The remaining cases were probably cryptic Zospeum and Carychium taxa and incipient species, which require further investigation into their species status. Because conventional reliance upon mostly continuous (i.e. -
The Molluscs and Crustaceans of Glasgow Botanic Gardens, Scotland
The Glasgow Naturalist (online 2020) Volume 27, Part 3, 93-95 https://doi.org/10.37208/tgn27317 *Melanoides tuberculata (O.F. Müller, 1774). Red-rimmed melania. In a tropical pond in the Lily The molluscs and crustaceans of House (TW). There were thin and truncated Melanoides specimens found in the same pond and in the pond in the Glasgow Botanic Gardens, Scotland Orchid House (TW), but it is safe to assume that they too are M. tuberculata as it is a very variable species R.B. Weddle (BR) Arionidae 89 Novar Drive, Glasgow G12 9SS Arion owenii Davies, 1979. Tawny soil slug (AS). Arion rufus (Linnaeus, 1758). Large red slug (AS). E-mail: [email protected] Arion subfuscus (Draparnaud, 1805). Dusky slug. Main Gardens and North Kelvin area (AS; J. Dempster, 2018). Carychiinae This note focuses on mollusc and crustacean species that Carychium minimum O.F. Müller, 1774. Short- are additional to those listed as present in Glasgow toothed herald snail. Kibble Palace (TW). Botanic Gardens by Hancock (1999). Helicidae Cepaea hortensis (O.F. Müller, 1774). White-lipped MOLLUSCA snail. Arboretum (AS); Main Gardens (A. Malcolm, Since Hancock’s original On the Wildside account 2015). (Hancock, 1999) there have been several visits to the Cepaea nemoralis (Linnaeus, 1758). Brown-lipped Gardens, particularly to the glasshouses, by specialist snail. North Kelvin area (R.B. Weddle, 2011); Main conchologists, and several bioblitzes. This note Gardens summarises the recent findings and reviews one of the (A. Malcolm, 2018) historical records mentioned by Hancock. The absence of both Cepaea species from Hancock’s list is puzzling since there are records in Glasgow generally Nineteen species have been added to Hancock’s list, since the late 19th century (Glasgow Museums BRC). -
Lamiales Newsletter
LAMIALES NEWSLETTER LAMIALES Issue number 4 February 1996 ISSN 1358-2305 EDITORIAL CONTENTS R.M. Harley & A. Paton Editorial 1 Herbarium, Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3AE, UK The Lavender Bag 1 Welcome to the fourth Lamiales Universitaria, Coyoacan 04510, Newsletter. As usual, we still Mexico D.F. Mexico. Tel: Lamiaceae research in require articles for inclusion in the +5256224448. Fax: +525616 22 17. Hungary 1 next edition. If you would like to e-mail: [email protected] receive this or future Newsletters and T.P. Ramamoorthy, 412 Heart- Alien Salvia in Ethiopia 3 and are not already on our mailing wood Dr., Austin, TX 78745, USA. list, or wish to contribute an article, They are anxious to hear from any- Pollination ecology of please do not hesitate to contact us. one willing to help organise the con- Labiatae in Mediterranean 4 The editors’ e-mail addresses are: ference or who have ideas for sym- [email protected] or posium content. Studies on the genus Thymus 6 [email protected]. As reported in the last Newsletter the This edition of the Newsletter and Relationships of Subfamily Instituto de Quimica (UNAM, Mexi- the third edition (October 1994) will Pogostemonoideae 8 co City) have agreed to sponsor the shortly be available on the world Controversies over the next Lamiales conference. Due to wide web (http://www.rbgkew.org. Satureja complex 10 the current economic conditions in uk/science/lamiales). Mexico and to allow potential partici- This also gives a summary of what Obituary - Silvia Botta pants to plan ahead, it has been the Lamiales are and some of their de Miconi 11 decided to delay the conference until uses, details of Lamiales research at November 1998. -
Conserving Europe's Threatened Plants
Conserving Europe’s threatened plants Progress towards Target 8 of the Global Strategy for Plant Conservation Conserving Europe’s threatened plants Progress towards Target 8 of the Global Strategy for Plant Conservation By Suzanne Sharrock and Meirion Jones May 2009 Recommended citation: Sharrock, S. and Jones, M., 2009. Conserving Europe’s threatened plants: Progress towards Target 8 of the Global Strategy for Plant Conservation Botanic Gardens Conservation International, Richmond, UK ISBN 978-1-905164-30-1 Published by Botanic Gardens Conservation International Descanso House, 199 Kew Road, Richmond, Surrey, TW9 3BW, UK Design: John Morgan, [email protected] Acknowledgements The work of establishing a consolidated list of threatened Photo credits European plants was first initiated by Hugh Synge who developed the original database on which this report is based. All images are credited to BGCI with the exceptions of: We are most grateful to Hugh for providing this database to page 5, Nikos Krigas; page 8. Christophe Libert; page 10, BGCI and advising on further development of the list. The Pawel Kos; page 12 (upper), Nikos Krigas; page 14: James exacting task of inputting data from national Red Lists was Hitchmough; page 16 (lower), Jože Bavcon; page 17 (upper), carried out by Chris Cockel and without his dedicated work, the Nkos Krigas; page 20 (upper), Anca Sarbu; page 21, Nikos list would not have been completed. Thank you for your efforts Krigas; page 22 (upper) Simon Williams; page 22 (lower), RBG Chris. We are grateful to all the members of the European Kew; page 23 (upper), Jo Packet; page 23 (lower), Sandrine Botanic Gardens Consortium and other colleagues from Europe Godefroid; page 24 (upper) Jože Bavcon; page 24 (lower), Frank who provided essential advice, guidance and supplementary Scumacher; page 25 (upper) Michael Burkart; page 25, (lower) information on the species included in the database. -
Volume of Abstracts
INQUA–SEQS 2002 Conference INQUA–SEQS ‘02 UPPER PLIOCENE AND PLEISTOCENE OF THE SOUTHERN URALS REGION AND ITS SIGNIFICANCE FOR CORRELATION OF THE EASTERN AND WESTERN PARTS OF EUROPE Volume of Abstracts Ufa – 2002 INTERNATIONAL UNION FOR QUATERNARY RESEARCH INQUA COMMISSION ON STRATIGRAPHY INQUA SUBCOMISSION ON EUROPEAN QUATERNARY STRATIGRAPHY RUSSIAN ACADEMY OF SCIENCES UFIMIAN SCIENTIFIC CENTRE INSTITUTE OF GEOLOGY STATE GEOLOGICAL DEPARTMENT OF THE BASHKORTOSTAN REPUBLIC RUSSIAN SCIENCE FOUNDATION FOR BASIC RESEARCH ACADEMY OF SCIENCES OF THE BASHKORTOSTAN REPUBLIC OIL COMPANY “BASHNEFT” BASHKIR STATE UNIVERSITY INQUA–SEQS 2002 Conference 30 June – 7 July, 2002, Ufa (Russia) UPPER PLIOCENE AND PLEISTOCENE OF THE SOUTHERN URALS REGION AND ITS SIGNIFICANCE FOR CORRELATION OF THE EASTERN AND WESTERN PARTS OF EUROPE Volume Of Abstracts Ufa–2002 ББК УДК 551.79+550.384 Volume of Abstracts of the INQUA SEQS – 2002 conference, 30 June – 7 July, 2002, Ufa (Russia). Ufa, 2002. 95 pp. ISBN The information on The Upper Pliocene – Pleistocene different geological aspects of the Europe and adjacent areas presented in the Volume of abstracts of the INQUA SEQS – 2002 conference, 30 June – 7 July, 2002, Ufa (Russia). Abstracts have been published after the insignificant correcting. ISBN © Institute of Geology Ufimian Scientific Centre RAS, 2002 Organisers: Institute of Geology – Ufimian Scientific Centre – Russian Academy of Sciences INQUA, International Union for Quaternary Research INQUA – Commission on Stratigraphy INQUA – Subcommission on European Quaternary Stratigraphy (SEQS) SEQS – EuroMam and EuroMal Academy of Sciences of the Bashkortostan Republic State Geological Department of the Bashkortostan Republic Oil Company “Bashneft” Russian Science Foundation for Basic Research Bashkir State University Scientific Committee: Dr. -
The Insect Fauna Associated with Horehound (Marrubium Vulgare L
Plant Protection Quarterly Vol.15(1) 2000 21 belonging to eight orders were found feeding on the plant (Figure 2, Table 2). The insect fauna associated with horehound The insects included 12 polyphagous spe- (Marrubium vulgare L.) in western Mediterranean cies (44%), 8 oligophagous species (30%) and 7 monophagous species (26%). At the Europe and Morocco: potential for biological control larval stage, there were five root-feeding in Australia species (22%), one stem-boring species (4%), nine leaf-feeding species (39%), eight flower, ovary or seed feeding species A Jean-Louis Sagliocco , Keith Turnbull Research Institute, Victorian (34%). Based on adult feeding behaviour Department of Natural Resources and Environment, CRC for Weed there was one root-boring species (74%), Management Systems, PO Box 48, Frankston, Victoria 3199, Australia. six leaf-feeding species (40%) and eight A Previous address: CSIRO European Laboratory, Campus International de species feeding on flowers or ovaries or Baillarguet, 34980 Montferrier sur Lez, Cedex, France. seeds (53%). Wheeleria spilodactylus (Curtis) Summary were preserved. Immature stages were (Lepidoptera: Pterophoridae) Marrubium vulgare L. (Lamiaceae) was kept with fresh plant material until the Wheeleria spilodactylus was abundant at surveyed in western Mediterranean Eu- adult stage for identification. Insects most sites in France and Spain, and had rope and Morocco to identify the phy- were observed either in the field or the been recorded feeding on M. vulgare tophagous insect fauna associated with laboratory to confirm that they fed on the (Gielis 1996) and Ballota nigra (Bigot and this weed and to select species having plant. Insects were sent to museum spe- Picard 1983). -
The Antinociceptive Effects of Hydroalcoholic Extract of Bryonia
Avicenna J Neuro Psych Physio. 2015 February; 2(1): e25761. DOI: 10.17795/ajnpp-25761 Published online 2015 February 20. Research Article The Antinociceptive Effects of Hydroalcoholic Extract ofBryonia dioica in Male Rats Mohammad Zarei 1,2; Saeed Mohammadi 3,*; Nasreen Abolhassani 4; Mahtab Asgari Nematian 5 1Neurophysiology Research Center, Hamadan University of Medical Sciences, Hamadan, IR Iran 2Department of Physiology, Hamadan University of Medical Sciences, Hamadan, IR Iran 3Department of Biology, Faculty of Basic Sciences, Islamic Azad University, Hamadan, IR Iran 4Department of Biology, Faculty of Basic Sciences, Science and Research Branch, Islamic Azad University, Tehran, IR Iran 5Department of Biology, Hamadan Branch, Payam-noor University, Hamadan, IR Iran *Corresponding author: Saeed Mohammadi, Professor Mussivand Blvd, Hamadan Branch, Islamic Azad University, Hamadan, IR Iran. Tel: +98-8134494000, Fax: +98-8134494026, E-mail: [email protected] Received: December 1, 2014; Revised: January 2, 2015; Accepted: January 8, 2015 Background: Side effects of synthetic analgesic drugs in the clinical practice have drawn researchers’ attention on developing the herbal medicine as more appropriate analgesic agents. Objectives: This study aimed to investigate the antinociceptive effect of hydroalcoholic leaf extract of Bryonia dioica (HEBD) on male rats. Materials and Methods: In this experimental study, 42 adult male rats were divided into 7 groups: control, HEBD (80, 100, and 300 mg/ kg, ip), morphine (1 mg/kg, ip), indomethacin (1 mg/kg, ip), and naloxone (1 mg/kg ip). In order to assess the analgesic effects of the extract, writhing, tail-flick, and formalin tests were used. Also, Tukey post hoc and 1-way analysis of variance (ANOVA) tests were used to analyze the data. -
Passive Citizen Science: the Role of Social Media in Wildlife Observations
Passive citizen science: the role of social media in wildlife observations 1Y* 1Y 1Y Thomas Edwards , Christopher B. Jones , Sarah E. Perkins2, Padraig Corcoran 1 School Of Computer Science and Informatics, Cardiff University, Cardiff, UK 2 School of Biosciences, Cardiff University, Cardiff, CF10 3AX YThese authors contributed equally to this work. * [email protected] Abstract Citizen science plays an important role in observing the natural environment. While conventional citizen science consists of organized campaigns to observe a particular phenomenon or species there are also many ad hoc observations of the environment in social media. These data constitute a valuable resource for `passive citizen science' - the use of social media that are unconnected to any particular citizen science program, but represent an untapped dataset of ecological value. We explore the value of passive citizen science, by evaluating species distributions using the photo sharing site Flickr. The data are evaluated relative to those submitted to the National Biodiversity Network (NBN) Atlas, the largest collection of species distribution data in the UK. Our study focuses on the 1500 best represented species on NBN, and common invasive species within UK, and compares the spatial and temporal distribution with NBN data. We also introduce an innovative image verification technique that uses the Google Cloud Vision API in combination with species taxonomic data to determine the likelihood that a mention of a species on Flickr represents a given species. The spatial and temporal analyses for our case studies suggest that the Flickr dataset best reflects the NBN dataset when considering a purely spatial distribution with no time constraints. -
Ballota Nigral. – an Overview of Pharmacological Effects And
International journal edited by the Institute of Natural Fibres and Medicinal Plants Vol. 66 No. 3 2020 Received: 2020-09-02 DOI: 10.2478/hepo-2020-0014 Accepted: 2020-09-22 Available online: 2020-09-30 EXPERIMENTALREVIEW PAPER PAPER Ballota nigra L. – an overview of pharmacological effects and traditional uses FILIP PRZERWA1 , ARNOLD KUKOWKA1 , IZABELA UZAR2* 1Student Science Club Department of General Pharmacology and Pharmacoeconomics Pomeranian Medical University in Szczecin Żołnierska 48 71-210 Szczecin, Poland 2Department of General Pharmacology and Pharmacoeconomics Pomeranian Medical University in Szczecin Żołnierska 48 71-210 Szczecin, Poland * corresponding author: e-mail: [email protected] Summary Ballota nigra, also known as black horehound is a common medical herb used in folk medicine around the world. First reported mentions of its medical properties and use goes as far as the 13th century. The use of black horehound depends on regions and countries. It is used mostly to treat e.g. mild sleep disorders, nervousness, upset stomach, wound healing. It can be used as an anti-inflammatory, antibacterial, antipro- tozoal, antifungal drug. Moreover, it has been reported as a potential cancer drug. This extensive usage is particularly interesting for us. The aim of this review is to present available data on B. nigra pharmacological effects and known traditional uses gathered from a wide range of scientific articles published in 1997–2020. Key words: Ballota nigra L., black horehound, pharmacology, medical herb Słowa kluczowe: Ballota nigra L., mierznica czarna, farmakologia, roślina lecznicza Herba Pol 2020; 66(3): 56-65 Ballota nigra L. – an overview of pharmacological effects and traditional uses 57 INTRODUCTION responsible for a given effect. -
Programs and Field Trips
CONTENTS Welcome from Kathy Martin, NAOC-V Conference Chair ………………………….………………..…...…..………………..….…… 2 Conference Organizers & Committees …………………………………………………………………..…...…………..……………….. 3 - 6 NAOC-V General Information ……………………………………………………………………………………………….…..………….. 6 - 11 Registration & Information .. Council & Business Meetings ……………………………………….……………………..……….………………………………………………………………………………………………………………….…………………………………..…..……...….. 11 6 Workshops ……………………….………….……...………………………………………………………………………………..………..………... 12 Symposia ………………………………….……...……………………………………………………………………………………………………..... 13 Abstracts – Online login information …………………………..……...………….………………………………………….……..……... 13 Presentation Guidelines for Oral and Poster Presentations …...………...………………………………………...……….…... 14 Instructions for Session Chairs .. 15 Additional Social & Special Events…………… ……………………………..………………….………...………………………...…………………………………………………..…………………………………………………….……….……... 15 Student Travel Awards …………………………………………..………...……………….………………………………..…...………... 18 - 20 Postdoctoral Travel Awardees …………………………………..………...………………………………..……………………….………... 20 Student Presentation Award Information ……………………...………...……………………………………..……………………..... 20 Function Schedule …………………………………………………………………………………………..……………………..…………. 22 – 26 Sunday, 12 August Tuesday, 14 August .. .. .. 22 Wednesday, 15 August– ………………………………...…… ………………………………………… ……………..... Thursday, 16 August ……………………………………….…………..………………………………………………………………… …... 23 Friday, 17 August ………………………………………….…………...………………………………………………………………………..... 24 Saturday,