On the Distribution of Utah's Hanging Gardens
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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. -
December 2012 Number 1
Calochortiana December 2012 Number 1 December 2012 Number 1 CONTENTS Proceedings of the Fifth South- western Rare and Endangered Plant Conference Calochortiana, a new publication of the Utah Native Plant Society . 3 The Fifth Southwestern Rare and En- dangered Plant Conference, Salt Lake City, Utah, March 2009 . 3 Abstracts of presentations and posters not submitted for the proceedings . 4 Southwestern cienegas: Rare habitats for endangered wetland plants. Robert Sivinski . 17 A new look at ranking plant rarity for conservation purposes, with an em- phasis on the flora of the American Southwest. John R. Spence . 25 The contribution of Cedar Breaks Na- tional Monument to the conservation of vascular plant diversity in Utah. Walter Fertig and Douglas N. Rey- nolds . 35 Studying the seed bank dynamics of rare plants. Susan Meyer . 46 East meets west: Rare desert Alliums in Arizona. John L. Anderson . 56 Calochortus nuttallii (Sego lily), Spatial patterns of endemic plant spe- state flower of Utah. By Kaye cies of the Colorado Plateau. Crystal Thorne. Krause . 63 Continued on page 2 Copyright 2012 Utah Native Plant Society. All Rights Reserved. Utah Native Plant Society Utah Native Plant Society, PO Box 520041, Salt Lake Copyright 2012 Utah Native Plant Society. All Rights City, Utah, 84152-0041. www.unps.org Reserved. Calochortiana is a publication of the Utah Native Plant Society, a 501(c)(3) not-for-profit organi- Editor: Walter Fertig ([email protected]), zation dedicated to conserving and promoting steward- Editorial Committee: Walter Fertig, Mindy Wheeler, ship of our native plants. Leila Shultz, and Susan Meyer CONTENTS, continued Biogeography of rare plants of the Ash Meadows National Wildlife Refuge, Nevada. -
How Old Is Old? (.Pdf)
How Old is Old? Purpose: This lesson will help students visualize the geologic time scale and identify when and where regional features were formed in the Rogue Valley. Objectives: Time Required: 1.5 hours (can be Students will: broken into 2 class periods) Identify the point in time when their assigned Appropriate grades: 6th-8th geological formation was formed by calculating NGSS and Common Core Standards: how many centimeters from the end of the MS-ESS2-2: Construct an explanation based ribbon their tag should be placed. on evidence for how geoscience processes Teach the class about their assigned geological have changed Earth's surface at varying time formations by conducting research about when and spatial scales. they were formed, how they were formed, CCSS.ELA-LITERACY.SL.6-8.4: Present claims where they are located, and what they are made and findings, emphasizing salient points in a of, and preparing visual presentations in small focused, coherent manner with pertinent groups. descriptions, facts, details, and examples; use appropriate eye contact, adequate Materials: volume, and clear pronunciation. CCSS.ELA-LITERACY.SL.6-8.5: Include Time scale ribbon (1) multimedia components and visual displays Time period tags (19) in presentations to clarify claims and “Geology of Jackson County, Oregon” booklets findings and emphasize salient points. (5) Geological formation half sheets (1 for each group with the name of their formation on it) Poster boards (not provided) Markers (not provided) Activity: Introduction Prep: cut the geological formation half sheets along the solid line in the middle of the page. Each group of students will get a half sheet with the name of their geological formation. -
Geological Formation Educational Hand Sample Collection Content Last Updated 06/30/2010
CT Geological Survey Geological Formation Educational Hand Sample Collection Content last updated 06/30/2010 TOWN Sample Numer Geological Description Formation Barkhamsted 19-9-1 Єh Cambrian "Waramaug Formation", Hoosac Schist, West Hill Road, New Hartford, 2 samples. Quartzplagioclase- biotite schist and gneissic schist. Bethel 92-4-1 Og Collected from Huntington State Park, site of large tourmaline 76-9-1 OCs Inwood? Marble from W side of stream just below Cameron's Line 76-9-2 Or Sheared Hartland? from E side of stream just above Cameron's Line Bozrah 71-5 Otay Collected from intersection of South and Bishop Rds, Bozrah Branford 97-1 Zsc & Pn Stony Creek Quarry Granite 97-6 Zp, Zsc & Pn From Red Hill Quarry, Stony Creek Preserve, Branford Bridgeport 109-1 Ohb Collected in Beardsley Park, Bridgeport Burlington 35-5-1 DSt Straits Schist, collected on road cut for entrance of side road on W side of Maine Rd Canterbury 57-6-1 Dc Canterbury Gneiss, Note Muskovite and garnet? 57-6-2 SOh Meta siltstone/Hornfels? Mapped as hCS on GQ 392, Collected just W of pond, low outcrops Canterbury is just to the W of the outcrop, inclusions of this rock and a very fine grained biotite schist are found in Canterbury. This rock is quite massive with n Chester 84-7 Dc In woods SW of Chester Elementary School, Ridge Rd, Chester 84-1 b SOh Biotite Gneiss and schist, E side of northbound entrance ramp intersection of Rt 9 and 148 84-1 c SOh Biotite Gneiss and schist, E side of northbound entrance ramp intersection of Rt 9 and 148 84-1 a SOh Biotite Gneiss -
(Dr. Sc. Nat.) Vorgelegt Der Mathematisch-Naturwissenschaftl
Zurich Open Repository and Archive University of Zurich Main Library Strickhofstrasse 39 CH-8057 Zurich www.zora.uzh.ch Year: 2012 Flowers, sex, and diversity: Reproductive-ecological and macro-evolutionary aspects of floral variation in the Primrose family, Primulaceae de Vos, Jurriaan Michiel Posted at the Zurich Open Repository and Archive, University of Zurich ZORA URL: https://doi.org/10.5167/uzh-88785 Dissertation Originally published at: de Vos, Jurriaan Michiel. Flowers, sex, and diversity: Reproductive-ecological and macro-evolutionary aspects of floral variation in the Primrose family, Primulaceae. 2012, University of Zurich, Facultyof Science. FLOWERS, SEX, AND DIVERSITY. REPRODUCTIVE-ECOLOGICAL AND MACRO-EVOLUTIONARY ASPECTS OF FLORAL VARIATION IN THE PRIMROSE FAMILY, PRIMULACEAE Dissertation zur Erlangung der naturwissenschaftlichen Doktorwürde (Dr. sc. nat.) vorgelegt der Mathematisch-naturwissenschaftliche Fakultät der Universität Zürich von Jurriaan Michiel de Vos aus den Niederlanden Promotionskomitee Prof. Dr. Elena Conti (Vorsitz) Prof. Dr. Antony B. Wilson Dr. Colin E. Hughes Zürich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s ist ein zentrales Ziel in der Evolutionsbiologie, die Muster der Vielfalt und die Prozesse, die sie erzeugen, zu verstehen. -
Springs and Springs-Dependent Taxa of the Colorado River Basin, Southwestern North America: Geography, Ecology and Human Impacts
water Article Springs and Springs-Dependent Taxa of the Colorado River Basin, Southwestern North America: Geography, Ecology and Human Impacts Lawrence E. Stevens * , Jeffrey Jenness and Jeri D. Ledbetter Springs Stewardship Institute, Museum of Northern Arizona, 3101 N. Ft. Valley Rd., Flagstaff, AZ 86001, USA; Jeff@SpringStewardship.org (J.J.); [email protected] (J.D.L.) * Correspondence: [email protected] Received: 27 April 2020; Accepted: 12 May 2020; Published: 24 May 2020 Abstract: The Colorado River basin (CRB), the primary water source for southwestern North America, is divided into the 283,384 km2, water-exporting Upper CRB (UCRB) in the Colorado Plateau geologic province, and the 344,440 km2, water-receiving Lower CRB (LCRB) in the Basin and Range geologic province. Long-regarded as a snowmelt-fed river system, approximately half of the river’s baseflow is derived from groundwater, much of it through springs. CRB springs are important for biota, culture, and the economy, but are highly threatened by a wide array of anthropogenic factors. We used existing literature, available databases, and field data to synthesize information on the distribution, ecohydrology, biodiversity, status, and potential socio-economic impacts of 20,872 reported CRB springs in relation to permanent stream distribution, human population growth, and climate change. CRB springs are patchily distributed, with highest density in montane and cliff-dominated landscapes. Mapping data quality is highly variable and many springs remain undocumented. Most CRB springs-influenced habitats are small, with a highly variable mean area of 2200 m2, generating an estimated total springs habitat area of 45.4 km2 (0.007% of the total CRB land area). -
Annotated Checklist of Vascular Flora, Bryce
National Park Service U.S. Department of the Interior Natural Resource Program Center Annotated Checklist of Vascular Flora Bryce Canyon National Park Natural Resource Technical Report NPS/NCPN/NRTR–2009/153 ON THE COVER Matted prickly-phlox (Leptodactylon caespitosum), Bryce Canyon National Park, Utah. Photograph by Walter Fertig. Annotated Checklist of Vascular Flora Bryce Canyon National Park Natural Resource Technical Report NPS/NCPN/NRTR–2009/153 Author Walter Fertig Moenave Botanical Consulting 1117 W. Grand Canyon Dr. Kanab, UT 84741 Sarah Topp Northern Colorado Plateau Network P.O. Box 848 Moab, UT 84532 Editing and Design Alice Wondrak Biel Northern Colorado Plateau Network P.O. Box 848 Moab, UT 84532 January 2009 U.S. Department of the Interior National Park Service Natural Resource Program Center Fort Collins, Colorado The Natural Resource Publication series addresses natural resource topics that are of interest and applicability to a broad readership in the National Park Service and to others in the management of natural resources, including the scientifi c community, the public, and the NPS conservation and environmental constituencies. Manuscripts are peer-reviewed to ensure that the information is scientifi cally credible, technically accurate, appropriately written for the intended audience, and is designed and published in a professional manner. The Natural Resource Technical Report series is used to disseminate the peer-reviewed results of scientifi c studies in the physical, biological, and social sciences for both the advancement of science and the achievement of the National Park Service’s mission. The reports provide contributors with a forum for displaying comprehensive data that are often deleted from journals because of page limitations. -
Annotated Checklist of the Birds of Glen Canyon National Recreation Area, Utah and Arizona
ANNOTATED CHECKLIST OF THE BIRDS OF GLEN CANYON NATIONAL RECREATION AREA, UTAH AND ARIZONA John. R. Spence1, Charles T. LaRue2, John D. Grahame3 1Resource Management Division, Glen Canyon National Recreation Area, PO Box 1507, Page AZ 86040 23515 West Lois Lane, Flagstaff, AZ 86001 3Center for Suistanable Enviroments, Northern Arizona University, Flagstaff, AZ 86001 10 Ocotber 2005 Spence et al. – Annotated Checklist of the Birds of GLCA ANNOTATED CHECKLIST OF THE BIRDS OF GLEN CANYON NATIONAL RECREATION AREA This annotated checklist is based on ca. 4,000 bird records maintained in an Access database in the Division of Resource Management, Glen Canyon National Recreation Area, as well as numerous studies, most recently an inventory program from 1998-2000 funded by the NPS Inventory & Monitoring Program, WASO. In addition to the many observers that have filled out wildlife observation cards going back to 1962, additional data from the original survey reports was also included (see Historical Review). The checklist follows the American Ornithologist’s Union format, 7th Edition (AOU 1998). Order GAVIIFORMES Family GAVIDAE Pacific Loon (Gavia pacifica). A restricted and sparse winter resident and migrant (always as singles) on Lake Powell and the Colorado River (three records). There are about 20 records from 21 September (1995 in Wahweap Bay-J. Spence) to 18 April (1997 in Wahweap Bay-C. LaRue et al.). Three records from the Colorado River, all at Lee's Ferry on 7 January, 9 March and 16 March 1994, are probably of the same bird (J. Spence, M. Sogge). Another bird was seen there on 12 February 2000 (J. -
A Fossil Locality Predictive Model for the Early Cretaceous Cedar Mountain Formation, Utah, Usa
A FOSSIL LOCALITY PREDICTIVE MODEL FOR THE EARLY CRETACEOUS CEDAR MOUNTAIN FORMATION, UTAH, USA A THESIS PRESENTED TO THE DEPARTMENT OF HUMANITIES AND SOCIAL SCIENCE IN CANDIDACY FOR THE DEGREE OF MASTER OF SCIENCE By DANIEL BURK NORTHWEST MISSOURI STATE UNIVERSITY MARYVILLE, MISSOURI OCTOBER, 2014 FOSSIL LOCALITY PREDICTIVE MODEL A Fossil Locality Predictive Model for the Early Cretaceous Cedar Mountain Formation, Utah, USA Daniel Burk Northwest Missouri State University THESIS APPROVED Thesis Advisor, Dr. Yi-Hwa Wu Date Dr. Ming-Chih Hung Date Dr. John P. Pope Date Dean of Graduate School Date A Fossil Locality Predictive Model for the Early Cretaceous Cedar Mountain Formation, Utah, USA Abstract Hard work and chance are nearly always among the deciding factors in finding new, important, and productive paleontological localities. Fossil locality predictive models have the potential to reduce unproductive field time and maximize hard work thus increasing the chances researchers have to find important localities. This study uses remotely sensed data to design and test a fossil locality predictive model for the Early Cretaceous Cedar Mountain Formation. Landsat 8 OLI/TIRS data from known localities were summarized, reclassified and used in a weighted suitability analysis to categorize fossil locality potential of the study area. Field work was conducted to test model functionality. Field observations were used to refine the weighted suitability analysis. Landsat 8 OLI/TIRS data alone offers a less accurate prescription of fossil locality potential. Additional physical and environmental factors play a role in determining the chance of finding fossils. Slope degree and aspect data from known localities were summarized and analyzed to further refine the model. -
El Vado De Los Padres From: Utah Place Names
El Vado De Los Padres from: Utah Place Names VADO DE LOS PADRES, EL (Kane County, San Juan County). See The Crossing of the Fathers below. CROSSING OF THE FATHERS (Kane County, San Juan County). This famous crossing is now buried under several hundred feet of Lake Powell waters. It was here in November 1776 that the Domínguez and Escalante party finally found a way to cross the Colorado River on their return to New Mexico. The Indians called it Ute Ford and the Spaniards called it El Vado de los Padres. Padre Bay of Lake Powell, which now covers the crossing, was named to honor what used to be the mouth of Padre Creek. >T43S,R5E,SLM. Bibliography: Powell, J. W. The Exploration of the Colorado River and Its Canyons. New York: Dover Publications, Inc., 1961. Warner, Ted J., ed. Dominguez-Escalante Journal. Translated by Fray Angelico Chavez. Provo, UT: Brigham Young University Press, 1976. EXPLANATION OF SYMBOLS... 1. An asterisk (*) following a place name indicates past or present inhabitation. 2. When a series of letters and numbers are present towards the end of an entry after the ">" symbol, the first group indicates section/township/range as closely as can be pinpointed (i.e., S12,T3S,R4W,SLM, or USM). A section equals approximately one square mile, reflecting U.S. Geological Survey topographic map sections. Because Utah is not completely mapped, some entries are incomplete. In this case, whatever information is available will be provided. The second group, when present, is altitude in feet followed by meters in parentheses [i.e., 6,000' (1,829m)]. -
Lithostratigraphic Units in the Drava Depression (Croatian and Hungarian Parts) – a Correlation
Lithostratigraphic units in the Drava Depression (Croatian and Hungarian parts) – a correlation T. Malviæ and M. Cvetkoviæ ORIGINAL SCIENTIFIC PAPER The lithostratigraphic division and correlation is one of the most common stratigraphic divisions. It is strictly connected with lithological content of the rocks or deposits. Sometimes lithostratigraphic units, especially in rank of formations and members, can be approximately correlated with particular chronostratigraphic units in range of stages or sub-stages, i.e. lithosratigraphic units have synchronous borders. In other cases, the borders are asynchronous. Croatian and Hungarian lithostratigraphic units in the Drava Depression are analysed here as well as the possibility of their correlation. Such correlation scheme can be useful in comparison of different units, especially because the Croatian part is based on approximately synchronous, and Hungarian on asynchronous borders between units. Moreover, the Drava Depression in this region is an important hydrocarbon production province where lithostratigraphic correlation is widely used, even across state borders. The presented lithostratigraphic scheme, it's lithological descriptions and correlation could help in any geological research or evaluation in the entire analysed depression. Key words: lithostratigraphy, Drava Depression, Croatia, Hungary 1. Introduction The analysed chronostratigraphic and lithostrati- The entire Drava Depression covers the surface area of graphic units of the Drava Depression are based on nu- about 12 000 square km, where approximately 9 100 be- merous well and seismic data. There are several regional long to the Croatia (Figure 1). Generally, the Neogene and papers where ranks and lithostratigraphic units are de- Quaternary rocks and deposits defined the subsurface fined. In Croatian part the most famous source is ref.43 volume known as the Drava Depression. -
Docketed 08-Afc-13C
November 2, 2010 California Energy Commission Chris Otahal DOCKETED Wildlife Biologist 08-AFC-13C Bureau of Land Management TN # Barstow Field Office 66131 2601 Barstow Road JUL 06 2012 Barstow, CA 92311 Subject: Late Season 2010 Botanical Survey of the Calico Solar Project Site URS Project No. 27658189.70013 Dear Mr. Otahal: INTRODUCTION This letter report presents the results of the late season floristic surveys for the Calico Solar Project (Project), a proposed renewable solar energy facility located approximately 37 miles east of Barstow, California. The purpose of this study was to identify late season plant species that only respond to late summer/early fall monsoonal rains and to satisfy the California Energy Commission (CEC) Supplemental Staff Assessment BIO-12 Special-status Plant Impact Avoidance and Minimization, requirements B and C (CEC 2010). Botanical surveys were conducted for the Project site in 2007 and 2008. In response to above average rainfall events that have occurred during 2010, including a late season rainfall event on August 17, 2010 totaling 0.49 inch1, additional botanical surveys were conducted by URS Corporation (URS) for the Project site. These surveys incorporated survey protocols published by the Bureau of Land Management (BLM) (BLM 1996a, BLM 1996b, BLM 2001, and BLM 2009). BLM and CEC staff were given the opportunity to comment on the survey protocol prior to the commencement of botanical surveys on the site. The 2010 late season survey was conducted from September 20 through September 24, 2010. The surveys encompassed the 1,876-acre Phase 1 portion of the Project site; select areas in the main, western area of Phase 2; a 250-foot buffer area outside the site perimeter; and a proposed transmission line, which begins at the Pisgah substation, heads northeast following the aerial transmission line, follows the Burlington Northern Santa Fe (BNSF) railroad on the north side, and ends in survey cell 24 (ID#24, Figure 1).