Gene and Transposable Element Expression
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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, -
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. -
Eastern Diamondback Rattlesnake (Crotalus Adamanteus) Ambush Site Selection in Coastal Saltwater Marshes
Marshall University Marshall Digital Scholar Theses, Dissertations and Capstones 2020 Eastern Diamondback Rattlesnake (Crotalus adamanteus) Ambush Site Selection in Coastal Saltwater Marshes Emily Rebecca Mausteller [email protected] Follow this and additional works at: https://mds.marshall.edu/etd Part of the Aquaculture and Fisheries Commons, Behavior and Ethology Commons, Other Ecology and Evolutionary Biology Commons, and the Terrestrial and Aquatic Ecology Commons Recommended Citation Mausteller, Emily Rebecca, "Eastern Diamondback Rattlesnake (Crotalus adamanteus) Ambush Site Selection in Coastal Saltwater Marshes" (2020). Theses, Dissertations and Capstones. 1313. https://mds.marshall.edu/etd/1313 This Thesis is brought to you for free and open access by Marshall Digital Scholar. It has been accepted for inclusion in Theses, Dissertations and Capstones by an authorized administrator of Marshall Digital Scholar. For more information, please contact [email protected], [email protected]. EASTERN DIAMONDBACK RATTLESNAKE (CROTALUS ADAMANTEUS) AMBUSH SITE SELECTION IN COASTAL SALTWATER MARSHES A thesis submitted to the Graduate College of Marshall University In partial fulfillment of the requirements for the degree of Master of Science In Biological Sciences by Emily Rebecca Mausteller Approved by Dr. Shane Welch, Committee Chairperson Dr. Jayme Waldron Dr. Anne Axel Marshall University December 2020 i APPROVAL OF THESIS We, the faculty supervising the work of Emily Mausteller, affirm that the thesis, Eastern Diamondback Rattlesnake (Crotalus adamanteus) Ambush Site Selection in Coastal Saltwater Marshes, meets the high academic standards for original scholarship and creative work established by the Biological Sciences Program and the College of Science. This work also conforms to the editorial standards of our discipline and the Graduate College of Marshall University. -
Poaceae) De México Species Richness, Classification and a Checklist of the Grasses (Poaceae) of Mexico
Artículo de investigación Riqueza de especies, clasificación y listado de las gramíneas (Poaceae) de México Species richness, classification and a checklist of the grasses (Poaceae) of Mexico J. Gabriel Sánchez-Ken Resumen: Antecedentes y Objetivos: En 2006 se dio a conocer el catálogo de las gramíneas de México, pero desde entonces tanto la clasificación como la apa- rición de especies nuevas cambiaron las cifras de esta familia en México y en el mundo. El objetivo principal de este estudio fue actualizar la lista de taxa en México, reuniendo el mayor número posible de bases de datos en línea. Otros objetivos incluyeron la comparación de la riqueza de especies de la familia Poaceae entre los países con mayor diversidad, así como analizar la riqueza de sus taxa a nivel estatal y por categorías taxonómicas. Métodos: Se consultaron bases de datos en línea, tanto nacionales como extranjeras, que incluían ejemplares de referencia de México, se descarga- ron y se curaron, además de una confirmación visual de la identidad de un gran porcentaje de ejemplares. Se extrajeron los nombres de las especies, estados donde fueron colectadas y los acrónimos de los herbarios. La base resultante se complementó solo con bibliografía a partir de 2006 y la no incluida en el catálogo que mostraba ejemplares de respaldo. Resultados clave: Se revisaron 227,973 registros que contabilizaron, en total, 1416 taxa, que incluyen 215 géneros, 1312 especies y 214 categorías infraespecíficas. Del total de especies, 1092 se consideran nativas y 224 introducidas (cultivadas y/o malezas). Las especies endémicas de México son 304 (27.83%) o 311 (28.10%) si se consideran categorías inferiores. -
Agronomic and Molecular Characterization of Louisiana Native
Louisiana State University LSU Digital Commons LSU Doctoral Dissertations Graduate School 2003 Agronomic and molecular characterization of Louisiana native Spartina alterniflora accessions Alicia Beatriz Ryan Louisiana State University and Agricultural and Mechanical College, [email protected] Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_dissertations Part of the Accounting Commons Recommended Citation Ryan, Alicia Beatriz, "Agronomic and molecular characterization of Louisiana native Spartina alterniflora accessions" (2003). LSU Doctoral Dissertations. 2001. https://digitalcommons.lsu.edu/gradschool_dissertations/2001 This Dissertation is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Doctoral Dissertations by an authorized graduate school editor of LSU Digital Commons. For more information, please [email protected]. AGRONOMIC AND MOLECULAR CHARACTERIZATION OF LOUISIANA NATIVE SPARTINA ALTERNIFLORA ACCESSIONS A Dissertation Submitted to the Graduate Faculty of the Louisiana State University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Doctor of Philosophy In The Department of Agronomy By Alicia Beatriz Ryan B.S., National University of Cordoba, Cordoba Argentina. 1992 M.S., International Center for Advanced Mediterranean Agronomic Studies Institute, Zaragoza Spain. 1997 December 2003 ACKNOWLEDGMENTS The author would like to express her heartfelt gratitude and sincere thanks to her major advisors, Drs. Bradley Venuto and Stephen Harrison, for their leadership, guidance, assistance, encouragement and patience throughout the completion of the work and the preparation of the manuscript. She feels very honored to have worked with them for the last five years. She is grateful to his graduate committee composed of Dr. -
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. -
Supporting Spartina
Running Head: Supporting Spartina Supporting Spartina: Interdisciplinary perspective shows Spartina as a distinct solid genus Alejandro Bortolus1,38, Paul Adam2, Janine B. Adams3, Malika L. Ainouche4, Debra Ayres5, Mark D. Bertness6, Tjeerd J. Bouma7, John F. Bruno8, Isabel Caçador9, James T. Carlton10, Jesus M. Castillo11, Cesar S.B. Costa12, Anthony J. Davy13, Linda Deegan14, Bernardo Duarte9, Enrique Figueroa11, Joel Gerwein15, Alan J. Gray16, Edwin D. Grosholz17, Sally D. Hacker18, A. Randall Hughes19, Enrique Mateos-Naranjo11, Irving A. Mendelssohn20, James T. Morris21, Adolfo F. Muñoz-Rodríguez22, Francisco J.J. Nieva22, Lisa A. Levin23, Bo Li24, Wenwen Liu25, Steven C. Article Pennings26, Andrea Pickart27, Susana Redondo-Gómez11, David M. Richardson28, Armel Salmon4, Evangelina Schwindt29, Brian R. Silliman30, Erik E. Sotka31, Clive Stace32, Mark Sytsma33, Stijn Temmerman34, R. Eugene Turner20, Ivan Valiela35, Michael P. Weinstein36, Judith S. Weis37 1 Grupo de Ecología en Ambientes Costeros (GEAC), Instituto Patagónico para el Estudio de los Ecosistemas Continentales (IPEEC), CONICET, Blvd. Brown 2915, Puerto Madryn (U9120ACD), Chubut, Argentina 2School of Biological, Earth and Environmental Science, University of New South Wales, Sydney, New South Wales, Australia 3Department of Botany, Nelson Mandela University, Port Elizabeth, South Africa This article has been accepted for publication and undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process, which may lead to -
Tidal Marsh Stressors
Tidal Marsh Stressors Lack of oxygen (anoxia) Salt Irradiation Temperature What is Necessary for Plant Growth? - pH (~4 to 8); - water - structural support - minerals and nutrients Macronutrients (C HOPKNS CaFe Mg) (Nutrients must be in a chemical form that plants can use.) - Cation exchange capacity pH (~4 to 8) Amount of H+ available in soils (think acid-base. Higher the number, the more H + present and the more BASIC solution is. Lower are more ACIDIC.) Most microbes cannot tolerate extremes. High or low pH kills most microbes and plants. Water - provides nutrients that is absorbed by hair roots - cools plant and may remove toxic chemicals such as Na. - provides H+ ion needed for PS. Macronutrients (C HOPKNS CaFe Mg) C= main organic building block H= PS and also part of organic building block O= important in PS (main electron acceptor) Phosphate (P), Potasium (K) and Nitrogen (N) = important growth nutrients. (Note: N is limited nutrient in salt marshes, P in tidal freshwater.) Macronutrients (S CaFe Mg) S= Formation of chlorophyll, protein production, and activation of enzymes (toxic in reduced form!) Ca= responsible for holding together the cell walls of plants Fe= involved in the synthesis of chlorophyll and maintanence of chloroplast structure (toxic in reduced form!) Mg=central atom of the chlorophyll molecule Remember, ALL nutrients must be in a chemical form that plants can use.) Unfortunately, in both terrestrial systems and marshes, most of the nutrients are not in usable forms! Fortunately, however, microbes can use the forms that are “unusable’ by plants and “remineralize” these nutrients into usable forms. -
Dimethylsulfoniopropionate
Evolution of DMSP (dimethylsulfoniopropionate) biosynthesis pathway: Origin and phylogenetic distribution in polyploid Spartina (Poaceae, Chloridoideae) Hélène Rousseau, Mathieu Rousseau-Gueutin, Xavier Dauvergne, Julien Boutte, Gaëlle Simon, Nathalie Marnet, Alain Bouchereau, Solene Guiheneuf, Jean-Pierre Bazureau, Jérôme Morice, et al. To cite this version: Hélène Rousseau, Mathieu Rousseau-Gueutin, Xavier Dauvergne, Julien Boutte, Gaëlle Simon, et al.. Evolution of DMSP (dimethylsulfoniopropionate) biosynthesis pathway: Origin and phylogenetic distribution in polyploid Spartina (Poaceae, Chloridoideae). Molecular Phylogenetics and Evolution, Elsevier, 2017, 114, pp.401-414. 10.1016/j.ympev.2017.07.003. hal-01579439 HAL Id: hal-01579439 https://hal-univ-rennes1.archives-ouvertes.fr/hal-01579439 Submitted on 31 Aug 2017 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. Evolution of DMSP (dimethylsulfoniopropionate) biosynthesis pathway: Origin and phylogenetic distribution in polyploid Spartina (Poaceae, Chloridoideae) Hélène Rousseau 1, Mathieu Rousseau-Gueutin 2, Xavier Dauvergne 3, Julien Boutte 1, Gaëlle Simon 4, Nathalie Marnet5, Alain Bouchereau 2, Solène Guiheneuf 6, Jean-Pierre Bazureau 6, Jérôme Morice 2, Stéphane Ravanel 7, Francisco Cabello-Hurtado 1, Abdelkader Ainouche 1, Armel Salmon 1, Jonathan F. Wendel 8, Malika L. Ainouche 1 1: UMR CNRS 6553 Ecobio. -
Consortia of Plant-Growth-Promoting Rhizobacteria Isolated from Halophytes Improve Response of Eight Crops to Soil Salinization and Climate Change Conditions
agronomy Article Consortia of Plant-Growth-Promoting Rhizobacteria Isolated from Halophytes Improve Response of Eight Crops to Soil Salinization and Climate Change Conditions Susana Redondo-Gómez 1,* , Jennifer Mesa-Marín 1 , Jesús A. Pérez-Romero 1, Javier López-Jurado 1, Jesús V. García-López 2, Vicente Mariscal 3 , Fernando P. Molina-Heredia 3,4 , Eloisa Pajuelo 5 , Ignacio D. Rodríguez-Llorente 5 , Timothy J. Flowers 6 and Enrique Mateos-Naranjo 1 1 Departamento de Biología Vegetal y Ecología, Facultad de Biología, Universidad de Sevilla, 41012 Seville, Spain; [email protected] (J.M.-M.); [email protected] (J.A.P.-R.); [email protected] (J.L.-J.); [email protected] (E.M.-N.) 2 Servicio General de Invernadero, Centro de Investigación, Tecnología e Innovación (CITIUS), Universidad de Sevilla, 41012 Seville, Spain; [email protected] 3 Instituto de Bioquímica Vegetal y Fotosíntesis, cicCartuja, Universidad de Sevilla and CSIC, 41092 Seville, Spain; [email protected] (V.M.); [email protected] (F.P.M.-H.) 4 Departamento de Bioquímica Vegetal y Biología Molecular, Universidad de Sevilla, 41012 Seville, Spain 5 Departamento de Microbiología y Parasitología, Facultad de Farmacia, Universidad de Sevilla, Citation: Redondo-Gómez, S.; 41012 Seville, Spain; [email protected] (E.P.); [email protected] (I.D.R.-L.) 6 Mesa-Marín, J.; Pérez-Romero, J.A.; Department of Evolution Behaviour and Environment, School of Life Sciences, University of Sussex, Falmer, López-Jurado, J.; García-López, J.V.; Brighton BN1 9QG, UK; t.j.fl[email protected] * Correspondence: [email protected] Mariscal, V.; Molina-Heredia, F.P.; Pajuelo, E.; Rodríguez-Llorente, I.D.; Flowers, T.J.; et al. -
Systematics and Management of Natural Resources: the Case of Spartina Species on European Shores
Biologia 66/6: 1011—1018, 2011 Section Botany DOI: 10.2478/s11756-011-0109-z Systematics and management of natural resources: the case of Spartina species on European shores José Antonio Fernández Prieto1*, Eduardo Cires1*, Teresa Sánchez Corominas2 &VíctorM.Vázquez 3 1Área de Botánica. Universidad de Oviedo, Departamento de Biología de Organismos y Sistemas, Catedrático Rodrigo Uría s/n, 33071 Oviedo, Spain; e-mail: [email protected] 2Consejería de Medio Ambiente, Ordenación del Territorio e Infraestructuras, Principado de Asturias, Coronel Aranda 2, 33005, Oviedo, Spain 3Real Instituto de Estudios Asturianos, Plaza de Porlier 9, 33003 Oviedo, Spain Abstract: Discrepancies in the identification of some plants and, in consequence on their autochthonous or allochthonous character, can lead to the adoption of inappropriate habit management strategies such as conservation, control, elimination, etc. A clear illustration of this is the case of a plant with an evident expansive behaviour located on the North Atlantic coast of the Iberian Peninsula, which has been considered by some authors as Spartina versicolor, a native of the European coasts. However, other authors have identified this plant as Spartina patens, originally from the North American Atlantic coasts, but introduced on both the Atlantic and Mediterranean coasts of Europe. This species shows an invading behaviour, playing a clear and evident role in the transformation of the habitats that it colonizes. In this work, results based on the use of sequences of the internal transcribed spacer (ITS) region of nrDNA, widely used in taxonomy and molecular phylogeny between closely related species, is reported. These data indicate that the identity of those plants growing on the European littoral is similar to those native to the North American Atlantic coasts.