Appendix A: List of the Ellenberg's Indicator Values. X = Undetermined
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Gene and Transposable Element Expression
Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae) Delphine Giraud, Oscar Lima, Mathieu Rousseau-Gueutin, Armel Salmon, Malika Ainouche To cite this version: Delphine Giraud, Oscar Lima, Mathieu Rousseau-Gueutin, Armel Salmon, Malika Ainouche. Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae). Frontiers in Genetics, 2021, 12, 10.3389/fgene.2021.589160. hal-03216905 HAL Id: hal-03216905 https://hal.archives-ouvertes.fr/hal-03216905 Submitted on 4 May 2021 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. Distributed under a Creative Commons Attribution| 4.0 International License fgene-12-589160 March 19, 2021 Time: 12:36 # 1 ORIGINAL RESEARCH published: 25 March 2021 doi: 10.3389/fgene.2021.589160 Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae) Delphine Giraud1, Oscar Lima1, Mathieu Rousseau-Gueutin2, Armel Salmon1 and Malika Aïnouche1* 1 UMR CNRS 6553 Ecosystèmes, Biodiversité, Evolution (ECOBIO), Université de Rennes 1, Rennes, France, 2 IGEPP, INRAE, Institut Agro, Univ Rennes, Le Rheu, France Gene expression dynamics is a key component of polyploid evolution, varying in nature, intensity, and temporal scales, most particularly in allopolyploids, where two or more sub-genomes from differentiated parental species and different repeat contents are merged. -
The Vascular Plants of Massachusetts
The Vascular Plants of Massachusetts: The Vascular Plants of Massachusetts: A County Checklist • First Revision Melissa Dow Cullina, Bryan Connolly, Bruce Sorrie and Paul Somers Somers Bruce Sorrie and Paul Connolly, Bryan Cullina, Melissa Dow Revision • First A County Checklist Plants of Massachusetts: Vascular The A County Checklist First Revision Melissa Dow Cullina, Bryan Connolly, Bruce Sorrie and Paul Somers Massachusetts Natural Heritage & Endangered Species Program Massachusetts Division of Fisheries and Wildlife Natural Heritage & Endangered Species Program The Natural Heritage & Endangered Species Program (NHESP), part of the Massachusetts Division of Fisheries and Wildlife, is one of the programs forming the Natural Heritage network. NHESP is responsible for the conservation and protection of hundreds of species that are not hunted, fished, trapped, or commercially harvested in the state. The Program's highest priority is protecting the 176 species of vertebrate and invertebrate animals and 259 species of native plants that are officially listed as Endangered, Threatened or of Special Concern in Massachusetts. Endangered species conservation in Massachusetts depends on you! A major source of funding for the protection of rare and endangered species comes from voluntary donations on state income tax forms. Contributions go to the Natural Heritage & Endangered Species Fund, which provides a portion of the operating budget for the Natural Heritage & Endangered Species Program. NHESP protects rare species through biological inventory, -
Molecular Identification of Commercialized Medicinal Plants in Southern Morocco
Molecular Identification of Commercialized Medicinal Plants in Southern Morocco Anneleen Kool1*., Hugo J. de Boer1.,A˚ sa Kru¨ ger2, Anders Rydberg1, Abdelaziz Abbad3, Lars Bjo¨ rk1, Gary Martin4 1 Department of Systematic Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden, 2 Department of Botany, Stockholm University, Stockholm, Sweden, 3 Laboratory of Biotechnology, Protection and Valorisation of Plant Resources, Faculty of Science Semlalia, Cadi Ayyad University, Marrakech, Morocco, 4 Global Diversity Foundation, Dar Ylane, Marrakech, Morocco Abstract Background: Medicinal plant trade is important for local livelihoods. However, many medicinal plants are difficult to identify when they are sold as roots, powders or bark. DNA barcoding involves using a short, agreed-upon region of a genome as a unique identifier for species– ideally, as a global standard. Research Question: What is the functionality, efficacy and accuracy of the use of barcoding for identifying root material, using medicinal plant roots sold by herbalists in Marrakech, Morocco, as a test dataset. Methodology: In total, 111 root samples were sequenced for four proposed barcode regions rpoC1, psbA-trnH, matK and ITS. Sequences were searched against a tailored reference database of Moroccan medicinal plants and their closest relatives using BLAST and Blastclust, and through inference of RAxML phylograms of the aligned market and reference samples. Principal Findings: Sequencing success was high for rpoC1, psbA-trnH, and ITS, but low for matK. Searches using rpoC1 alone resulted in a number of ambiguous identifications, indicating insufficient DNA variation for accurate species-level identification. Combining rpoC1, psbA-trnH and ITS allowed the majority of the market samples to be identified to genus level. -
Design a Database of Italian Vascular Alimurgic Flora (Alimurgita): Preliminary Results
plants Article Design a Database of Italian Vascular Alimurgic Flora (AlimurgITA): Preliminary Results Bruno Paura 1,*, Piera Di Marzio 2 , Giovanni Salerno 3, Elisabetta Brugiapaglia 1 and Annarita Bufano 1 1 Department of Agricultural, Environmental and Food Sciences University of Molise, 86100 Campobasso, Italy; [email protected] (E.B.); [email protected] (A.B.) 2 Department of Bioscience and Territory, University of Molise, 86090 Pesche, Italy; [email protected] 3 Graduate Department of Environmental Biology, University “La Sapienza”, 00100 Roma, Italy; [email protected] * Correspondence: [email protected] Abstract: Despite the large number of data published in Italy on WEPs, there is no database providing a complete knowledge framework. Hence the need to design a database of the Italian alimurgic flora: AlimurgITA. Only strictly alimurgic taxa were chosen, excluding casual alien and cultivated ones. The collected data come from an archive of 358 texts (books and scientific articles) from 1918 to date, chosen with appropriate criteria. For each taxon, the part of the plant used, the method of use, the chorotype, the biological form and the regional distribution in Italy were considered. The 1103 taxa of edible flora already entered in the database equal 13.09% of Italian flora. The most widespread family is that of the Asteraceae (20.22%); the most widely used taxa are Cichorium intybus and Borago officinalis. The not homogeneous regional distribution of WEPs (maximum in the south and minimum in the north) has been interpreted. Texts published reached its peak during the 2001–2010 decade. A database for Italian WEPs is important to have a synthesis and to represent the richness and Citation: Paura, B.; Di Marzio, P.; complexity of this knowledge, also in light of its potential for cultural enhancement, as well as its Salerno, G.; Brugiapaglia, E.; Bufano, applications for the agri-food system. -
Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae)
fgene-12-589160 March 19, 2021 Time: 12:36 # 1 ORIGINAL RESEARCH published: 25 March 2021 doi: 10.3389/fgene.2021.589160 Gene and Transposable Element Expression Evolution Following Recent and Past Polyploidy Events in Spartina (Poaceae) Delphine Giraud1, Oscar Lima1, Mathieu Rousseau-Gueutin2, Armel Salmon1 and Malika Aïnouche1* 1 UMR CNRS 6553 Ecosystèmes, Biodiversité, Evolution (ECOBIO), Université de Rennes 1, Rennes, France, 2 IGEPP, INRAE, Institut Agro, Univ Rennes, Le Rheu, France Gene expression dynamics is a key component of polyploid evolution, varying in nature, intensity, and temporal scales, most particularly in allopolyploids, where two or more sub-genomes from differentiated parental species and different repeat contents are merged. Here, we investigated transcriptome evolution at different evolutionary time scales among tetraploid, hexaploid, and neododecaploid Spartina species (Poaceae, Chloridoideae) that successively diverged in the last 6–10 my, Edited by: at the origin of differential phenotypic and ecological traits. Of particular interest Yves Van de Peer, are the recent (19th century) hybridizations between the two hexaploids Spartina Ghent University, Belgium alterniflora (2n = 6x = 62) and S. maritima (2n = 6x = 60) that resulted in Reviewed by: Pamela Soltis, two sterile F1 hybrids: Spartina × townsendii (2n = 6x = 62) in England and University of Florida, United States Spartina × neyrautii (2n = 6x = 62) in France. Whole genome duplication of Clayton J. Visger, S. × townsendii gave rise to the invasive neo-allododecaploid species Spartina anglica California State University, Sacramento, United States (2n = 12x = 124). New transcriptome assemblies and annotations for tetraploids and *Correspondence: the enrichment of previously published reference transcriptomes for hexaploids and Malika Aïnouche the allododecaploid allowed identifying 42,423 clusters of orthologs and distinguishing [email protected] 21 transcribed transposable element (TE) lineages across the seven investigated Specialty section: Spartina species. -
Flora Mediterranea 26
FLORA MEDITERRANEA 26 Published under the auspices of OPTIMA by the Herbarium Mediterraneum Panormitanum Palermo – 2016 FLORA MEDITERRANEA Edited on behalf of the International Foundation pro Herbario Mediterraneo by Francesco M. Raimondo, Werner Greuter & Gianniantonio Domina Editorial board G. Domina (Palermo), F. Garbari (Pisa), W. Greuter (Berlin), S. L. Jury (Reading), G. Kamari (Patras), P. Mazzola (Palermo), S. Pignatti (Roma), F. M. Raimondo (Palermo), C. Salmeri (Palermo), B. Valdés (Sevilla), G. Venturella (Palermo). Advisory Committee P. V. Arrigoni (Firenze) P. Küpfer (Neuchatel) H. M. Burdet (Genève) J. Mathez (Montpellier) A. Carapezza (Palermo) G. Moggi (Firenze) C. D. K. Cook (Zurich) E. Nardi (Firenze) R. Courtecuisse (Lille) P. L. Nimis (Trieste) V. Demoulin (Liège) D. Phitos (Patras) F. Ehrendorfer (Wien) L. Poldini (Trieste) M. Erben (Munchen) R. M. Ros Espín (Murcia) G. Giaccone (Catania) A. Strid (Copenhagen) V. H. Heywood (Reading) B. Zimmer (Berlin) Editorial Office Editorial assistance: A. M. Mannino Editorial secretariat: V. Spadaro & P. Campisi Layout & Tecnical editing: E. Di Gristina & F. La Sorte Design: V. Magro & L. C. Raimondo Redazione di "Flora Mediterranea" Herbarium Mediterraneum Panormitanum, Università di Palermo Via Lincoln, 2 I-90133 Palermo, Italy [email protected] Printed by Luxograph s.r.l., Piazza Bartolomeo da Messina, 2/E - Palermo Registration at Tribunale di Palermo, no. 27 of 12 July 1991 ISSN: 1120-4052 printed, 2240-4538 online DOI: 10.7320/FlMedit26.001 Copyright © by International Foundation pro Herbario Mediterraneo, Palermo Contents V. Hugonnot & L. Chavoutier: A modern record of one of the rarest European mosses, Ptychomitrium incurvum (Ptychomitriaceae), in Eastern Pyrenees, France . 5 P. Chène, M. -
Desktop Biodiversity Report
Desktop Biodiversity Report Land at Balcombe Parish ESD/14/747 Prepared for Katherine Daniel (Balcombe Parish Council) 13th February 2014 This report is not to be passed on to third parties without prior permission of the Sussex Biodiversity Record Centre. Please be aware that printing maps from this report requires an appropriate OS licence. Sussex Biodiversity Record Centre report regarding land at Balcombe Parish 13/02/2014 Prepared for Katherine Daniel Balcombe Parish Council ESD/14/74 The following information is included in this report: Maps Sussex Protected Species Register Sussex Bat Inventory Sussex Bird Inventory UK BAP Species Inventory Sussex Rare Species Inventory Sussex Invasive Alien Species Full Species List Environmental Survey Directory SNCI M12 - Sedgy & Scott's Gills; M22 - Balcombe Lake & associated woodlands; M35 - Balcombe Marsh; M39 - Balcombe Estate Rocks; M40 - Ardingly Reservior & Loder Valley Nature Reserve; M42 - Rowhill & Station Pastures. SSSI Worth Forest. Other Designations/Ownership Area of Outstanding Natural Beauty; Environmental Stewardship Agreement; Local Nature Reserve; National Trust Property. Habitats Ancient tree; Ancient woodland; Ghyll woodland; Lowland calcareous grassland; Lowland fen; Lowland heathland; Traditional orchard. Important information regarding this report It must not be assumed that this report contains the definitive species information for the site concerned. The species data held by the Sussex Biodiversity Record Centre (SxBRC) is collated from the biological recording community in Sussex. However, there are many areas of Sussex where the records held are limited, either spatially or taxonomically. A desktop biodiversity report from SxBRC will give the user a clear indication of what biological recording has taken place within the area of their enquiry. -
Comparative Analyses of Saprotrophy in Salisapilia Sapeloensis and Diverse Plant Pathogenic Oomycetes Reveal Lifestyle-Specific
FEMS Microbiology Ecology, 96, 2020, fiaa184 doi: 10.1093/femsec/fiaa184 Advance Access Publication Date: 12 September 2020 Research Article RESEARCH ARTICLE Comparative analyses of saprotrophy in Salisapilia sapeloensis and diverse plant pathogenic oomycetes reveal lifestyle-specific gene expression Sophie de Vries1,*,†, Jan de Vries1,2,3,4,5,‡, John M. Archibald1,§ and Claudio H. Slamovits1,# 1Department of Biochemistry and Molecular Biology, Dalhousie University, 5850 College Street, Halifax, NS B3H 4R2 Canada, 2Institute of Microbiology, Technische Universitat¨ Braunschweig, Spielmannstr. 7, 38106 Braunschweig, Germany, 3Department of Applied Bioinformatics, Institute for Microbiology and Genetics, University of Goettingen, Goldschmidtstr. 1, 37077 Goettingen, Germany, 4Goettingen Center for Molecular Biosciences (GZMB), University of Goettingen, Justus-von-Liebig-Weg 11, 37077 Goettingen, Germany and 5Campus Institute Data Science (CIDAS), University of Goettingen, Goldschmidtstr. 1, 37077 Goettingen, Germany ∗Corresponding authors: Department of Biochemistry and Molecular Biology, Dalhousie University, 5850 College Street, Halifax, NS B3H 4R2 Canada. Tel: +1-902-494-7894; E-mail: [email protected] One sentence summary: Comparative analyses between the saprotrophic oomycete Salisapilia sapeloensis and its pathogenic relatives indicate that distinct gene expression patterns underpin the different lifestyles in oomycetes. Editor: Angela Sessitsch †Sophie de Vries, http://orcid.org/0000-0002-5267-8935 ‡Jan de Vries, http://orcid.org/0000-0003-3507-5195 -
Expanded Understanding of Eleusine Diversity and Evolution
Expanded Understanding of Eleusine Diversity and Evolution by Hui Zhang A dissertation submitted to the Graduate Faculty of Auburn University in partial fulfillment of the requirements for the Degree of Doctor of Philosophy Auburn, Alabama August 4, 2018 Key words: Next-generation sequencing, Illumina, Genome, Transcriptome, Phylogenetic, Goosegrass Copyright 2018 by Hui Zhang Approved by J. Scott McElroy, Chair, Professor of Crop, Soil and Environmental Sciences Charles Y. Chen, Professor of Crop, Soil and Environmental Sciences Leslie R. Goertzen, Associate Professor of Biological Sciences Eric Peatman, Associate Professor of Fisheries, Aquaculture, and Aquatic Sciences i Abstract Eleusine, including 9 to 12 species, is a small genus of annual and perennial grass species within the Eragrosteae tribe and Chloridoideae subfamily. There are very few genomic information about this genus. The primary goal of this dissertation research is to expand understanding of Eleusine diversity and evolution. The dissertation opens with a brief literature review regarding the motivation for this research. In chapter 2 we report a draft assembly of approximately 498 Mb whole-genome sequences of goosegrass obtained by de novo assembly of paired-end and mate-paired reads generated by Illumina sequencing of total genomic DNA. From around 88 GB of the clean data, the genome was assembled into 24,063 scaffolds with N50 = 233,823 bp. The nuclear genome assembly contains 25,467 predicted unique protein-coding genes. Sixteen target herbicide resistant genes and four non-target herbicide resistant gene families were obtained from this draft genome. Chapter 3 presents a complete plastid genome sequence of goosegrass obtained by de novo assembly of paired-end and mate-paired reads obtained in chapter 2. -
Diversification Into Novel Habitats in the Africa Clade of Dioscorea (Dioscoreaceae): Erect Habit and Elephant’S Foot Tubers Olivier Maurin1,2, A
Maurin et al. BMC Evolutionary Biology (2016) 16:238 DOI 10.1186/s12862-016-0812-z RESEARCHARTICLE Open Access Diversification into novel habitats in the Africa clade of Dioscorea (Dioscoreaceae): erect habit and elephant’s foot tubers Olivier Maurin1,2, A. Muthama Muasya3*, Pilar Catalan4,5, Eugene Z. Shongwe1, Juan Viruel 6,7, Paul Wilkin 2 and Michelle van der Bank1 Abstract Background: Dioscorea is a widely distributed and highly diversified genus in tropical regions where it is represented by ten main clades, one of which diversified exclusively in Africa. In southern Africa it is characterised by a distinct group of species with a pachycaul or “elephant’sfoot” structure that is partially to fully exposed above the substrate. In contrast to African representatives of the genus from other clades, occurring mainly in forest or woodland, the pachycaul taxa and their southern African relatives occur in diverse habitats ranging from woodland to open vegetation. Here we investigate patterns of diversification in the African clade, time of transition from forest to more open habitat, and morphological traits associated with each habitat and evaluate if such transitions have led to modification of reproductive organs and mode of dispersal. Results: The Africa clade originated in the Oligocene and comprises four subclades. The Dioscorea buchananii subclade (southeastern tropical Africa and South Africa) is sister to the East African subclade, which is respectively sister to the recently evolved sister South African (e. g., Cape and Pachycaul) subclades. The Cape and Pachycaul subclades diversified in the east of the Cape Peninsula in the mid Miocene, in an area with complex geomorphology and climate, where the fynbos, thicket, succulent karoo and forest biomes meet. -
Desktop Biodiversity Report
Desktop Biodiversity Report Lindfield Rural and Urban Parishes ESD/14/65 Prepared for Terry Oliver 10th February 2014 This report is not to be passed on to third parties without prior permission of the Sussex Biodiversity Record Centre. Please be aware that printing maps from this report requires an appropriate OS licence. Sussex Biodiversity Record Centre report regarding land at Lindfield Rural and Urban Parishes 10/02/2014 Prepared for Terry Oliver ESD/14/65 The following information is enclosed within this report: Maps Sussex Protected Species Register Sussex Bat Inventory Sussex Bird Inventory UK BAP Species Inventory Sussex Rare Species Inventory Sussex Invasive Alien Species Full Species List Environmental Survey Directory SNCI L61 - Waspbourne Wood; M08 - Costells, Henfield & Nashgill Woods; M10 - Scaynes Hill Common; M18 - Walstead Cemetery; M25 - Scrase Valley Local Nature Reserve; M49 - Wickham Woods. SSSI Chailey Common. Other Designations/Ownership Area of Outstanding Natural Beauty; Environmental Stewardship Agreement; Local Nature Reserve; Notable Road Verge; Woodland Trust Site. Habitats Ancient tree; Ancient woodland; Coastal and floodplain grazing marsh; Ghyll woodland; Traditional orchard. Important information regarding this report It must not be assumed that this report contains the definitive species information for the site concerned. The species data held by the Sussex Biodiversity Record Centre (SxBRC) is collated from the biological recording community in Sussex. However, there are many areas of Sussex where the records held are limited, either spatially or taxonomically. A desktop biodiversity report from the SxBRC will give the user a clear indication of what biological recording has taken place within the area of their enquiry. -
Black Bryony, Called by Some in the Common Tongue Bryonia and Others Cheironios Ambelos
Dioscorides’s bruonia melaina is Bryonia alba , not Tamus communis , and an illustration labeled bruonia melaina in the Codex Vindobonensis is Humulus lupulus not Bryonia dioica 1 S.S. Renner 1*, J. Scarborough 2, H. Schaefer 1, H.S. Paris 3, and J. Janick 4 1 Department of Biology, University Munich, Menzinger Strasse 67, D-80638 Munich, Germany 2 School of Pharmacy and Departments of History and Classics, University of Wisconsin, 777 Highland Drive, Madison, Wisconsin 53705, USA 3 Department of Vegetable Crops and Plant Genetics, Agricultural Research Organization, Newe Ya’ar Research center, PO Box 1021, Ramat Yishay 30-095, Israel 4 Department of Horticulture and Landscape Architecture, Purdue University, 625 Agriculture Mall Drive, West Lafayette, Indiana 47907-2010, USA * Corresponding author e-mail: [email protected] Keywords: Botanical illustration, European Cucurbitaceae , medicinal plants, pharmaceutical uses, Pliny the Elder Abstract The Cucurbitaceae genus Bryonia contains ten species that are distributed throughout the Mediterranean to North Africa and from central Europe to Kazakhstan. References to the medicinal uses of species of Bryonia span two millennia, including two passages in Dioscorides’s De Materia Medica , written in about 65 CE. An illustrated copy of this text, known as the Codex Vindobonensis and dated 512 CE, is enriched with illustrations, including two labeled as bru ōnia or bryonia. Here we argue that while Dioscorides’s text clearly concerns the black- fruited B. alba and a red-fruited species, perhaps B. cretica or B. dioica , only one of the plates in the Codex shows a species of Bryonia , while the other shows Humulus lupulus .