Family-Level Relationships of Onagraceae Basedonchloroplastrbcl and Ndhf Data1
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Phylogenetic Models Linking Speciation and Extinction to Chromosome and Mating System Evolution
Phylogenetic Models Linking Speciation and Extinction to Chromosome and Mating System Evolution by William Allen Freyman A dissertation submitted in partial satisfaction of the requirements for the degree of Doctor of Philosophy in Integrative Biology and the Designated Emphasis in Computational and Genomic Biology in the Graduate Division of the University of California, Berkeley Committee in charge: Dr. Bruce G. Baldwin, Chair Dr. John P. Huelsenbeck Dr. Brent D. Mishler Dr. Kipling W. Will Fall 2017 Phylogenetic Models Linking Speciation and Extinction to Chromosome and Mating System Evolution Copyright 2017 by William Allen Freyman Abstract Phylogenetic Models Linking Speciation and Extinction to Chromosome and Mating System Evolution by William Allen Freyman Doctor of Philosophy in Integrative Biology and the Designated Emphasis in Computational and Genomic Biology University of California, Berkeley Dr. Bruce G. Baldwin, Chair Key evolutionary transitions have shaped the tree of life by driving the processes of spe- ciation and extinction. This dissertation aims to advance statistical and computational ap- proaches that model the timing and nature of these transitions over evolutionary trees. These methodological developments in phylogenetic comparative biology enable formal, model- based, statistical examinations of the macroevolutionary consequences of trait evolution. Chapter 1 presents computational tools for data mining the large-scale molecular sequence datasets needed for comparative phylogenetic analyses. I describe a novel metric, the miss- ing sequence decisiveness score (MSDS), which assesses the phylogenetic decisiveness of a matrix given the pattern of missing sequence data. In Chapter 2, I introduce a class of phylogenetic models of chromosome number evolution that accommodate both anagenetic and cladogenetic change. -
The Genus Hauya (Onagraceae) Philip A
Aliso: A Journal of Systematic and Evolutionary Botany Volume 4 | Issue 3 Article 6 1960 The Genus Hauya (Onagraceae) Philip A. Munz Follow this and additional works at: http://scholarship.claremont.edu/aliso Part of the Botany Commons Recommended Citation Munz, Philip A. (1960) "The Genus Hauya (Onagraceae)," Aliso: A Journal of Systematic and Evolutionary Botany: Vol. 4: Iss. 3, Article 6. Available at: http://scholarship.claremont.edu/aliso/vol4/iss3/6 ALISO VoL. 4, No.3, pp. 492-499 APRIL 29, 1960 THE GENUS HAUYA (ONAGRACEAE) PHILIP A. MUNZ The genus Hauya, named in honor of Abbe Rene Just Hai.iy, was described by A. P. de Candolle (Prodromus 3: 36, 1828). The first species described, H. elegans, was based on a drawing by Moc;ifi.o and Sesse, no specimens of the plant being available. The next attention given to the genus was by Hemsley (Diag. Pl. Nov., part 1: 13, 1878 and Bot. Bioi. Centr. Am. 1: 462-3, 1880 and 5: pl. 29). He described two additional species. In this country most of the work on the group has been done by J. Donnell Smith and ]. N. Rose; they published an account (Contr. U.S. Nat. Herb. 16: 288-294, 1913) recognizing eleven species. Hauya arborea (Kellogg) Curran was excluded from the genus by Smith and Rose and used as the type species of a new genus Xylonagra. Certain similarities caused them to keep it in the same tribe Hauyeae. I am in agreement with their disposition. The chief differences between Hauya and Xylonagra as given by them were in size of plant, size of flowers, their number and location, and in the type of seeds. -
Outline of Angiosperm Phylogeny
Outline of angiosperm phylogeny: orders, families, and representative genera with emphasis on Oregon native plants Priscilla Spears December 2013 The following listing gives an introduction to the phylogenetic classification of the flowering plants that has emerged in recent decades, and which is based on nucleic acid sequences as well as morphological and developmental data. This listing emphasizes temperate families of the Northern Hemisphere and is meant as an overview with examples of Oregon native plants. It includes many exotic genera that are grown in Oregon as ornamentals plus other plants of interest worldwide. The genera that are Oregon natives are printed in a blue font. Genera that are exotics are shown in black, however genera in blue may also contain non-native species. Names separated by a slash are alternatives or else the nomenclature is in flux. When several genera have the same common name, the names are separated by commas. The order of the family names is from the linear listing of families in the APG III report. For further information, see the references on the last page. Basal Angiosperms (ANITA grade) Amborellales Amborellaceae, sole family, the earliest branch of flowering plants, a shrub native to New Caledonia – Amborella Nymphaeales Hydatellaceae – aquatics from Australasia, previously classified as a grass Cabombaceae (water shield – Brasenia, fanwort – Cabomba) Nymphaeaceae (water lilies – Nymphaea; pond lilies – Nuphar) Austrobaileyales Schisandraceae (wild sarsaparilla, star vine – Schisandra; Japanese -
Publications of Peter H. Raven
Peter H. Raven LIST OF PUBLICATIONS 1950 1. 1950 Base Camp botany. Pp. 1-19 in Base Camp 1950, (mimeographed Sierra Club report of trip). [Upper basin of Middle Fork of Bishop Creek, Inyo Co., CA]. 1951 2. The plant list interpreted for the botanical low-brow. Pp. 54-56 in Base Camp 1951, (mimeographed Sierra Club report of trip). 3. Natural science. An integral part of Base Camp. Pp. 51-52 in Base Camp 1951, (mimeographed Sierra Club report of trip). 4. Ediza entomology. Pp. 52-54 in Base Camp 1951, (mimeographed Sierra Club report of trip). 5. 1951 Base Camp botany. Pp. 51-56 in Base Camp 1951, (mimeographed Sierra Club report of trip). [Devils Postpile-Minaret Region, Madera and Mono Counties, CA]. 1952 6. Parsley for Marin County. Leafl. West. Bot. 6: 204. 7. Plant notes from San Francisco, California. Leafl. West. Bot. 6: 208-211. 8. 1952 Base Camp bird list. Pp. 46-48 in Base Camp 1952, (mimeographed Sierra Club report of trip). 9. Charybdis. Pp. 163-165 in Base Camp 1952, (mimeographed Sierra Club report of trip). 10. 1952 Base Camp botany. Pp. 1-30 in Base Camp 1952, (mimeographed Sierra Club report of trip). [Evolution Country - Blaney Meadows - Florence Lake, Fresno, CA]. 11. Natural science report. Pp. 38-39 in Base Camp 1952, (mimeographed Sierra Club report of trip). 1953 12. 1953 Base Camp botany. Pp. 1-26 in Base Camp 1953, (mimeographed Sierra Club report of trip). [Mono Recesses, Fresno Co., CA]. 13. Ecology of the Mono Recesses. Pp. 109-116 in Base Camp 1953, (illustrated by M. -
Fort Ord Natural Reserve Plant List
UCSC Fort Ord Natural Reserve Plants Below is the most recently updated plant list for UCSC Fort Ord Natural Reserve. * non-native taxon ? presence in question Listed Species Information: CNPS Listed - as designated by the California Rare Plant Ranks (formerly known as CNPS Lists). More information at http://www.cnps.org/cnps/rareplants/ranking.php Cal IPC Listed - an inventory that categorizes exotic and invasive plants as High, Moderate, or Limited, reflecting the level of each species' negative ecological impact in California. More information at http://www.cal-ipc.org More information about Federal and State threatened and endangered species listings can be found at https://www.fws.gov/endangered/ (US) and http://www.dfg.ca.gov/wildlife/nongame/ t_e_spp/ (CA). FAMILY NAME SCIENTIFIC NAME COMMON NAME LISTED Ferns AZOLLACEAE - Mosquito Fern American water fern, mosquito fern, Family Azolla filiculoides ? Mosquito fern, Pacific mosquitofern DENNSTAEDTIACEAE - Bracken Hairy brackenfern, Western bracken Family Pteridium aquilinum var. pubescens fern DRYOPTERIDACEAE - Shield or California wood fern, Coastal wood wood fern family Dryopteris arguta fern, Shield fern Common horsetail rush, Common horsetail, field horsetail, Field EQUISETACEAE - Horsetail Family Equisetum arvense horsetail Equisetum telmateia ssp. braunii Giant horse tail, Giant horsetail Pentagramma triangularis ssp. PTERIDACEAE - Brake Family triangularis Gold back fern Gymnosperms CUPRESSACEAE - Cypress Family Hesperocyparis macrocarpa Monterey cypress CNPS - 1B.2, Cal IPC -
Diversity of Wisconsin Rosids
Diversity of Wisconsin Rosids . oaks, birches, evening primroses . a major group of the woody plants (trees/shrubs) present at your sites The Wind Pollinated Trees • Alternate leaved tree families • Wind pollinated with ament/catkin inflorescences • Nut fruits = 1 seeded, unilocular, indehiscent (example - acorn) *Juglandaceae - walnut family Well known family containing walnuts, hickories, and pecans Only 7 genera and ca. 50 species worldwide, with only 2 genera and 4 species in Wisconsin Carya ovata Juglans cinera shagbark hickory Butternut, white walnut *Juglandaceae - walnut family Leaves pinnately compound, alternate (walnuts have smallest leaflets at tip) Leaves often aromatic from resinous peltate glands; allelopathic to other plants Carya ovata Juglans cinera shagbark hickory Butternut, white walnut *Juglandaceae - walnut family The chambered pith in center of young stems in Juglans (walnuts) separates it from un- chambered pith in Carya (hickories) Juglans regia English walnut *Juglandaceae - walnut family Trees are monoecious Wind pollinated Female flower Male inflorescence Juglans nigra Black walnut *Juglandaceae - walnut family Male flowers apetalous and arranged in pendulous (drooping) catkins or aments on last year’s woody growth Calyx small; each flower with a bract CA 3-6 CO 0 A 3-∞ G 0 Juglans cinera Butternut, white walnut *Juglandaceae - walnut family Female flowers apetalous and terminal Calyx cup-shaped and persistant; 2 stigma feathery; bracted CA (4) CO 0 A 0 G (2-3) Juglans cinera Juglans nigra Butternut, white -
Vestured Pits in Wood of Onagraceae: Correlations with Ecology, Habit, and Phylogeny1
VESTURED PITS IN WOOD OF Sherwin Carlquist2 and Peter H. Raven3 ONAGRACEAE: CORRELATIONS WITH ECOLOGY, HABIT, AND PHYLOGENY1 ABSTRACT All Onagraceae for which data are available have vestured pits on vessel-to-vessel pit pairs. Vestures may also be present in some species on the vessel side of vessel-to-ray pit pairs. Herbaceous Onagraceae do not have fewer vestures, although woods with lower density (Circaea L. and Oenothera L.) have fewer vestures. Some Onagraceae from drier areas tend to have smaller vessel pits, and on that account may have fewer vestures (Epilobium L. and Megacorax S. Gonz´alez & W. L. Wagner). Pit apertures as seen on the lumen side of vessel walls are elliptical, occasionally oval, throughout the family. Vestures are predominantly attached to pit aperture margins. As seen from the outer surfaces of vessels, vestures may extend across the pit cavities. Vestures are usually absent or smaller on the distal portions of pit borders (except for Ludwigia L., which grows consistently in wet areas). Distinctive vesture patterns were observed in the several species of Lopezia Cav. and in Xylonagra Donn. Sm. & Rose. Vestures spread onto the lumen-facing vessel walls of Ludwigia octovalvis (Jacq.) P. H. Raven. Although the genera are presented here in the sequence of a recent molecular phylogeny of Onagraceae, ecology and growth forms are more important than evolutionary relationships with respect to abundance, degree of grouping, and morphology of vestured pits. Designation of vesture types is not warranted based on the distribution of named types in Onagraceae and descriptive adjectives seem more useful, although more data on vesturing in the family are needed before patterns of diversity and their extent can be fully ascertained. -
Ventura County Planning Division 2018 Locally Important Plant List
Ventura County Planning Division 2018 Locally Important Plant List Number of Scientific Name Common Name Habit Family Federal/State Status Occurrences in Source Ventura County Abronia turbinata Torr. ex S. Consortium of California Turbinate Sand-verbena A/PH Nyctaginaceae 2 Watson Herbaria Acanthoscyphus parishii var. abramsii (E.A. McGregor) Consortium of California Abrams' Oxytheca AH Polygonaceae CRPR 1B.2 4-5 Reveal [synonym: Oxytheca Herbaria parishii var. abramsii] Acanthoscyphus parishii Consortium of California Parish Oxytheca AH Polygonaceae CRPR 4.2 1 (Parry) Small var. parishii Herbaria Acmispon glaber var. Consortium of California brevialatus (Ottley) Brouillet Short Deerweed PH Fabaceae 1 Herbaria Acmispon heermannii Heermann Lotus or Consortium of California (Durand & Hilg.) Brouillet var. PH Fabaceae 4 Hosackia Herbaria heermannii Acmispon heermannii var. Roundleaf Heermann Consortium of California PH Fabaceae 1 orbicularis (A. Gray) Brouillet Lotus or Hosackia Herbaria Acmispon junceus (Bentham) Consortium of California Rush Hosackia AH Fabaceae 2 Brouillet var. junceus Herbaria 1 Locally Important Plant List- Dec. 2018 Number of Scientific Name Common Name Habit Family Federal/State Status Occurrences in Source Ventura County Acmispon micranthus (Torrey Consortium of California Grab Hosackia or Lotus AH Fabaceae 3 & A. Gray) Brouillet Herbaria Acmispon parviflorus Consortium of California Tiny Lotus AH Fabaceae 2 (Bentham) D.D. Sokoloff Herbaria Consortium of California Agrostis hallii Vasey Hall's Bentgrass PG Poaceae 1 Herbaria Common or Broadleaf Consortium of California Alisma plantago-aquaticum L. PH Alismataceae 4 Water-plantain Herbaria Consortium of California Allium amplectens Torrey Narrowleaf Onion PG Alliaceae 1 Herbaria Allium denticulatum (Traub) Consortium of California Dentate Fringed Onion PG Alliaceae 1 D. -
Vascular Plants and a Brief History of the Kiowa and Rita Blanca National Grasslands
United States Department of Agriculture Vascular Plants and a Brief Forest Service Rocky Mountain History of the Kiowa and Rita Research Station General Technical Report Blanca National Grasslands RMRS-GTR-233 December 2009 Donald L. Hazlett, Michael H. Schiebout, and Paulette L. Ford Hazlett, Donald L.; Schiebout, Michael H.; and Ford, Paulette L. 2009. Vascular plants and a brief history of the Kiowa and Rita Blanca National Grasslands. Gen. Tech. Rep. RMRS- GTR-233. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 44 p. Abstract Administered by the USDA Forest Service, the Kiowa and Rita Blanca National Grasslands occupy 230,000 acres of public land extending from northeastern New Mexico into the panhandles of Oklahoma and Texas. A mosaic of topographic features including canyons, plateaus, rolling grasslands and outcrops supports a diverse flora. Eight hundred twenty six (826) species of vascular plant species representing 81 plant families are known to occur on or near these public lands. This report includes a history of the area; ethnobotanical information; an introductory overview of the area including its climate, geology, vegetation, habitats, fauna, and ecological history; and a plant survey and information about the rare, poisonous, and exotic species from the area. A vascular plant checklist of 816 vascular plant taxa in the appendix includes scientific and common names, habitat types, and general distribution data for each species. This list is based on extensive plant collections and available herbarium collections. Authors Donald L. Hazlett is an ethnobotanist, Director of New World Plants and People consulting, and a research associate at the Denver Botanic Gardens, Denver, CO. -
Complete Iowa Plant Species List
!PLANTCO FLORISTIC QUALITY ASSESSMENT TECHNIQUE: IOWA DATABASE This list has been modified from it's origional version which can be found on the following website: http://www.public.iastate.edu/~herbarium/Cofcons.xls IA CofC SCIENTIFIC NAME COMMON NAME PHYSIOGNOMY W Wet 9 Abies balsamea Balsam fir TREE FACW * ABUTILON THEOPHRASTI Buttonweed A-FORB 4 FACU- 4 Acalypha gracilens Slender three-seeded mercury A-FORB 5 UPL 3 Acalypha ostryifolia Three-seeded mercury A-FORB 5 UPL 6 Acalypha rhomboidea Three-seeded mercury A-FORB 3 FACU 0 Acalypha virginica Three-seeded mercury A-FORB 3 FACU * ACER GINNALA Amur maple TREE 5 UPL 0 Acer negundo Box elder TREE -2 FACW- 5 Acer nigrum Black maple TREE 5 UPL * Acer rubrum Red maple TREE 0 FAC 1 Acer saccharinum Silver maple TREE -3 FACW 5 Acer saccharum Sugar maple TREE 3 FACU 10 Acer spicatum Mountain maple TREE FACU* 0 Achillea millefolium lanulosa Western yarrow P-FORB 3 FACU 10 Aconitum noveboracense Northern wild monkshood P-FORB 8 Acorus calamus Sweetflag P-FORB -5 OBL 7 Actaea pachypoda White baneberry P-FORB 5 UPL 7 Actaea rubra Red baneberry P-FORB 5 UPL 7 Adiantum pedatum Northern maidenhair fern FERN 1 FAC- * ADLUMIA FUNGOSA Allegheny vine B-FORB 5 UPL 10 Adoxa moschatellina Moschatel P-FORB 0 FAC * AEGILOPS CYLINDRICA Goat grass A-GRASS 5 UPL 4 Aesculus glabra Ohio buckeye TREE -1 FAC+ * AESCULUS HIPPOCASTANUM Horse chestnut TREE 5 UPL 10 Agalinis aspera Rough false foxglove A-FORB 5 UPL 10 Agalinis gattingeri Round-stemmed false foxglove A-FORB 5 UPL 8 Agalinis paupercula False foxglove -
Lake Accotink Park Rough Avens Habitat Evaluation and Search
Lake Accotink Park Fairfax County, Virginia WSSI #22647.01 Rough Avens (Geum laciniatum) Habitat Evaluation and Search September 8, 2015 Prepared for: Burgess & Niple 12700 Black Forest Lane Woodbridge, VA 22192 Prepared by: 5300 Wellington Branch Drive, Suite 100 Gainesville, Virginia 20155 Tel: 703-679-5600 Email: [email protected] www.wetlandstudies.com Rough Avens (Geum laciniatum) Habitat Evaluation and Search Lake Accotink Park Fairfax County, Virginia WSSI #22647.01 Executive Summary Wetland Studies and Solutions, Inc. (WSSI) has conducted a habitat evaluation and search for the rough avens (Geum laciniatum) in Lake Accotink Park in Fairfax County, Virginia. This habitat evaluation and search was undertaken at the request of Fairfax County, because the rough avens had been recorded in the vicinity of Lake Accotink in the past. This report discusses the distribution and habitat associations of the rough avens, details the methodology of our habitat evaluation and search, and presents our findings and conclusions. Although habitat for this species is present within the study area, no rough avens were found during this search. General Distribution and Habitat Associations of the Rough Avens The rough avens is considered a rare species and is typically found in wet areas such as fens and meadows in the northern Piedmont and mountains of Virginia. It is usually found growing in calcareous or mafic soils, which are found in these regions of Virginia. In Virginia, it is known from six counties, including Augusta, Bath, Bland, Fairfax, Fauquier, and Tazewell (Harvill, et al, 1992; Virginia Botanical Associates, 2015). The rough avens has been recorded in 27 eastern and Midwestern states, and in Ontario, Quebec, New Brunswick, and Nova Scotia, Canada. -
How Does Genome Size Affect the Evolution of Pollen Tube Growth Rate, a Haploid Performance Trait?
Manuscript bioRxiv preprint doi: https://doi.org/10.1101/462663; this version postedClick April here18, 2019. to The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv aaccess/download;Manuscript;PTGR.genome.evolution.15April20 license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Effects of genome size on pollen performance 2 3 4 5 How does genome size affect the evolution of pollen tube growth rate, a haploid 6 performance trait? 7 8 9 10 11 John B. Reese1,2 and Joseph H. Williams2 12 Department of Ecology and Evolutionary Biology, University of Tennessee, Knoxville, TN 13 37996, U.S.A. 14 15 16 17 1Author for correspondence: 18 John B. Reese 19 Tel: 865 974 9371 20 Email: [email protected] 21 1 bioRxiv preprint doi: https://doi.org/10.1101/462663; this version posted April 18, 2019. 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. 22 ABSTRACT 23 Premise of the Study – Male gametophytes of most seed plants deliver sperm to eggs via a 24 pollen tube. Pollen tube growth rates (PTGRs) of angiosperms are exceptionally rapid, a pattern 25 attributed to more effective haploid selection under stronger pollen competition. Paradoxically, 26 whole genome duplication (WGD) has been common in angiosperms but rare in gymnosperms.