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Edna Assay Development
Environmental DNA assays available for species detection via qPCR analysis at the U.S.D.A Forest Service National Genomics Center for Wildlife and Fish Conservation (NGC). Asterisks indicate the assay was designed at the NGC. This list was last updated in June 2021 and is subject to change. Please contact [email protected] with questions. Family Species Common name Ready for use? Mustelidae Martes americana, Martes caurina American and Pacific marten* Y Castoridae Castor canadensis American beaver Y Ranidae Lithobates catesbeianus American bullfrog Y Cinclidae Cinclus mexicanus American dipper* N Anguillidae Anguilla rostrata American eel Y Soricidae Sorex palustris American water shrew* N Salmonidae Oncorhynchus clarkii ssp Any cutthroat trout* N Petromyzontidae Lampetra spp. Any Lampetra* Y Salmonidae Salmonidae Any salmonid* Y Cottidae Cottidae Any sculpin* Y Salmonidae Thymallus arcticus Arctic grayling* Y Cyrenidae Corbicula fluminea Asian clam* N Salmonidae Salmo salar Atlantic Salmon Y Lymnaeidae Radix auricularia Big-eared radix* N Cyprinidae Mylopharyngodon piceus Black carp N Ictaluridae Ameiurus melas Black Bullhead* N Catostomidae Cycleptus elongatus Blue Sucker* N Cichlidae Oreochromis aureus Blue tilapia* N Catostomidae Catostomus discobolus Bluehead sucker* N Catostomidae Catostomus virescens Bluehead sucker* Y Felidae Lynx rufus Bobcat* Y Hylidae Pseudocris maculata Boreal chorus frog N Hydrocharitaceae Egeria densa Brazilian elodea N Salmonidae Salvelinus fontinalis Brook trout* Y Colubridae Boiga irregularis Brown tree snake* -
Umpqua Bibliography by Groups I. Possible
Umpqua Bibliography by Groups Introduction This bibliography is about the Umpqua River Basin, particularly its hydrology and its fisheries. Some films, photographs and archival materials are included along with books, articles, maps and web pages. The bibliography was built using local, regional and national library catalogs, major online databases, theses and dissertations, watershed assessments and Federal endangered species reports. Its historical coverage begins with Joel Palmer’s 1847 Journal of Travels over the Rocky Mountains and ends in early 2008. I have attempted to cover major physical features of the Umpqua Basin, as well as important aquatic species and critical issues facing the area. Trying to build a comprehensive collection of references on any subject in the age of information is, to use an image Joel Palmer would understand, like trying to catch a greased pig. It is ever squirming out of your grasp. This collection of references is necessarily incomplete, but I’d be grateful to learn of any major omissions. --Susan Gilmont Updated September, 2008 I. Possible Candidates for Digitization: Grey Literature, Important Or Uncataloged Reports on the Umpqua River (Sorted by Date) Roth, A. R. A survey of the waters of the South Umpqua Ranger District : Umpqua National Forest . Portland, Or.: USDA Forest Service, Pacific Northwest Region; 1937. Call Number: OSU Libraries: Valley SH35.O7 U65 Notes: Baseline temperature data for the Umpqua Oregon State Game Commission. Lower Umpqua River Study : Summary : Annual Report. 1949. Call Number: Available from NMFS Environmental and Technical Svcs. Division, 525 NE Oregon St. Portland, OR 97232 (? dated reference). State Library or StreamNet should have this. -
Species Status Assessment (SSA) Report for the Ozark Chub (Erimystax Harryi) Version 1.2
Species Status Assessment (SSA) Report for the Ozark Chub (Erimystax harryi) Version 1.2 Ozark chub (Photo credit: Dustin Lynch, Arkansas Natural Heritage Commission) August 2019 U.S. Fish and Wildlife Service - Arkansas Ecological Services Field Office This document was prepared by Alyssa Bangs (U. S. Fish and Wildlife Service (USFWS) – Arkansas Ecological Services Field Office), Bryan Simmons (USFWS—Missouri Ecological Services Field Office), and Brian Evans (USFWS –Southeast Regional Office). We greatly appreciate the assistance of Jeff Quinn (Arkansas Game and Fish Commission), Brian Wagner (Arkansas Game and Fish Commission), and Jacob Westhoff (Missouri Department of Conservation) who provided helpful information and review of the draft document. We also thank the peer reviewers, who provided helpful comments. Suggested reference: U.S. Fish and Wildlife Service. 2019. Species status assessment report for the Ozark chub (Erimystax harryi). Version 1.2. August 2019. Atlanta, GA. CONTENTS Chapter 1: Executive Summary 1 1.1 Background 1 1.2 Analytical Framework 1 CHAPTER 2 – Species Information 4 2.1 Taxonomy and Genetics 4 2.2 Species Description 5 2.3 Range 6 Historical Range and Distribution 6 Current Range and Distribution 8 2.4 Life History Habitat 9 Growth and Longevity 9 Reproduction 9 Feeding 10 CHAPTER 3 –Factors Influencing Viability and Current Condition Analysis 12 3.1 Factors Influencing Viability 12 Sedimentation 12 Water Temperature and Flow 14 Impoundments 15 Water Chemistry 16 Habitat Fragmentation 17 3.2 Model 17 Analytical -
Endangered Species
FEATURE: ENDANGERED SPECIES Conservation Status of Imperiled North American Freshwater and Diadromous Fishes ABSTRACT: This is the third compilation of imperiled (i.e., endangered, threatened, vulnerable) plus extinct freshwater and diadromous fishes of North America prepared by the American Fisheries Society’s Endangered Species Committee. Since the last revision in 1989, imperilment of inland fishes has increased substantially. This list includes 700 extant taxa representing 133 genera and 36 families, a 92% increase over the 364 listed in 1989. The increase reflects the addition of distinct populations, previously non-imperiled fishes, and recently described or discovered taxa. Approximately 39% of described fish species of the continent are imperiled. There are 230 vulnerable, 190 threatened, and 280 endangered extant taxa, and 61 taxa presumed extinct or extirpated from nature. Of those that were imperiled in 1989, most (89%) are the same or worse in conservation status; only 6% have improved in status, and 5% were delisted for various reasons. Habitat degradation and nonindigenous species are the main threats to at-risk fishes, many of which are restricted to small ranges. Documenting the diversity and status of rare fishes is a critical step in identifying and implementing appropriate actions necessary for their protection and management. Howard L. Jelks, Frank McCormick, Stephen J. Walsh, Joseph S. Nelson, Noel M. Burkhead, Steven P. Platania, Salvador Contreras-Balderas, Brady A. Porter, Edmundo Díaz-Pardo, Claude B. Renaud, Dean A. Hendrickson, Juan Jacobo Schmitter-Soto, John Lyons, Eric B. Taylor, and Nicholas E. Mandrak, Melvin L. Warren, Jr. Jelks, Walsh, and Burkhead are research McCormick is a biologist with the biologists with the U.S. -
Oregonichthys Kalawatseti) in the North Umpqua After Almost a Century
REOCCURRENCE OF THE UMPQUA CHUB (OREGONICHTHYS KALAWATSETI) IN THE NORTH UMPQUA AFTER ALMOST A CENTURY Authors: Penaluna, Brooke E, and Ellenburg, Loretta Source: Northwestern Naturalist, 100(3) : 208-210 Published By: Society for Northwestern Vertebrate Biology URL: https://doi.org/10.1898/1051-1733-100.3.208 BioOne Complete (complete.BioOne.org) is a full-text database of 200 subscribed and open-access titles in the biological, ecological, and environmental sciences published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Complete website, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/terms-of-use. Usage of BioOne Complete content is strictly limited to personal, educational, and non - commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Downloaded From: https://bioone.org/journals/Northwestern-Naturalist on 27 May 2020 Terms of Use: https://bioone.org/terms-of-use Access provided by United States Department of Agriculture National Agricultural Library (NAL) GENERAL NOTES NORTHWESTERN NATURALIST 100:208–210 WINTER 2019 REOCCURRENCE OF THE UMPQUA CHUB (OREGONICHTHYS KALAWATSETI) IN THE NORTH UMPQUA AFTER ALMOST A CENTURY BROOKE EPENALUNA AND LORETTA ELLENBURG ABSTRACT—We document the 1st record in 93 y of Subsequent surveys to the same sites throughout Umpqua Chub (Oregonichthys kalawatseti) in the North the basin in 1998 (Simon and Markle 1999), and Umpqua River. -
Molecular Systematics of Western North American Cyprinids (Cypriniformes: Cyprinidae)
Zootaxa 3586: 281–303 (2012) ISSN 1175-5326 (print edition) www.mapress.com/zootaxa/ ZOOTAXA Copyright © 2012 · Magnolia Press Article ISSN 1175-5334 (online edition) urn:lsid:zoobank.org:pub:0EFA9728-D4BB-467E-A0E0-0DA89E7E30AD Molecular systematics of western North American cyprinids (Cypriniformes: Cyprinidae) SUSANA SCHÖNHUTH 1, DENNIS K. SHIOZAWA 2, THOMAS E. DOWLING 3 & RICHARD L. MAYDEN 1 1 Department of Biology, Saint Louis University, 3507 Laclede Avenue, St. Louis, MO 63103, USA. E-mail S.S: [email protected] ; E-mail RLM: [email protected] 2 Department of Biology and Curator of Fishes, Monte L. Bean Life Science Museum, Brigham Young University, Provo, UT 84602, USA. E-mail: [email protected] 3 School of Life Sciences, Arizona State University, Tempe, AZ 85287-4501, USA. E-mail: [email protected] Abstract The phylogenetic or evolutionary relationships of species of Cypriniformes, as well as their classification, is in a era of flux. For the first time ever, the Order, and constituent Families are being examined for relationships within a phylogenetic context. Relevant findings as to sister-group relationships are largely being inferred from analyses of both mitochondrial and nuclear DNA sequences. Like the vast majority of Cypriniformes, due to an overall lack of any phylogenetic investigation of these fishes since Hennig’s transformation of the discipline, changes in hypotheses of relationships and a natural classification of the species should not be of surprise to anyone. Basically, for most taxa no properly supported phylogenetic hypothesis has ever been done; and this includes relationships with reasonable taxon and character sampling of even families and subfamilies. -
COPEIA February 1
2000, No. 1COPEIA February 1 Copeia, 2000(1), pp. 1±10 Phylogenetic Relationships in the North American Cyprinid Genus Cyprinella (Actinopterygii: Cyprinidae) Based on Sequences of the Mitochondrial ND2 and ND4L Genes RICHARD E. BROUGHTON AND JOHN R. GOLD Shiners of the cyprinid genus Cyprinella are abundant and broadly distributed in eastern and central North America. Thirty species are currently placed in the genus: these include six species restricted to Mexico and three barbeled forms formerly placed in different cyprinid genera (primarily Hybopsis). We conducted a molecular phylogenetic analysis of all species of Cyprinella found in the United States, using complete nucleotide sequences of the mitochondrial, protein-coding genes ND2 and ND4L. Maximum-parsimony analysis recovered a single most-parsimonious tree for Cyprinella. Among historically recognized, nonbarbeled Cyprinella, the mitochondrial (mt) DNA tree indicated that basal lineages in Cyprinella are comprised largely of species with linear breeding tubercles and that are endemic to Atlantic and/or Gulf slope drainages, whereas derived lineages are comprised of species broadly distrib- uted in the Mississippi basin and the American Southwest. The Alabama Shiner, C. callistia, was basal in the mtDNA tree, although a monophyletic Cyprinella that in- cluded C. callistia was not supported in more than 50% of bootstrap replicates. There was strong bootstrap support (89%) for a clade that included all species of nonbarbeled Cyprinella (except C. callistia) and two barbeled species, C. labrosa and C. zanema. The third barbeled species, C. monacha, fell outside of Cyprinella sister to a species of Hybopsis. Within Cyprinella were a series of well-supported species groups, although in some cases bootstrap support for relationships among groups was below 50%. -
Occasional Papers of the Museum of Zoology University of Michigan Annarbor, Michigan
OCCASIONAL PAPERS OF THE MUSEUM OF ZOOLOGY UNIVERSITY OF MICHIGAN ANNARBOR, MICHIGAN PRELIMINARY ANALYSIS OF THE AMERICAN CYPRINID FISHES, SEVEN NEW, REFERRED TO THE GENUS HYBOPSIS, SUBGENUS ERIlWYSTAX* BY CARLL. HUBBSAND WALTERR. CROWE FORmany years we have studied the eastern North American cyprinid fishes that were recently referred to the genus Erimystax Jordan. Earlier, this assortment of species had been included in the genus Hybopsis. In the present swing of the pendulum these species are again placed in Hybopsis, though they may be retained in Erimystax as a subgenus. For several reasons the re-expanded genus Hybopsis rests on an un- steady basis, but it is not our purpose to attempt a generic evaluation. The differential diagnoses to follow are presented in analytical form. The rubrics in the key that pertain to each form may be visualized in the outline of classification that heads the analysis. Thus, for Hybopsis insignis eristigma it will be at once apparent that the diagnosis com- prises items Ib, 3b, 4b, 5b, 7b, and 9b. In addition, the diagnosis of each form may be taken to include the following features of Erimystax, common to all: A single small barbel is developed in the ternlinal or nearly terminal position (over or behind the end of the gape). The scales lack basal radii. The hooked pharyngeal teeth are uniserial, and number four on each side. The nuptial tubercles are minute or even obsolete on the top of the head (never enlarged as in Nocomis). The species are all small (none longer than 100 mm. to caudal) and delicate. -
A List of Common and Scientific Names of Fishes from the United States And
t a AMERICAN FISHERIES SOCIETY QL 614 .A43 V.2 .A 4-3 AMERICAN FISHERIES SOCIETY Special Publication No. 2 A List of Common and Scientific Names of Fishes -^ ru from the United States m CD and Canada (SECOND EDITION) A/^Ssrf>* '-^\ —---^ Report of the Committee on Names of Fishes, Presented at the Ei^ty-ninth Annual Meeting, Clearwater, Florida, September 16-18, 1959 Reeve M. Bailey, Chairman Ernest A. Lachner, C. C. Lindsey, C. Richard Robins Phil M. Roedel, W. B. Scott, Loren P. Woods Ann Arbor, Michigan • 1960 Copies of this publication may be purchased for $1.00 each (paper cover) or $2.00 (cloth cover). Orders, accompanied by remittance payable to the American Fisheries Society, should be addressed to E. A. Seaman, Secretary-Treasurer, American Fisheries Society, Box 483, McLean, Virginia. Copyright 1960 American Fisheries Society Printed by Waverly Press, Inc. Baltimore, Maryland lutroduction This second list of the names of fishes of The shore fishes from Greenland, eastern the United States and Canada is not sim- Canada and the United States, and the ply a reprinting with corrections, but con- northern Gulf of Mexico to the mouth of stitutes a major revision and enlargement. the Rio Grande are included, but those The earlier list, published in 1948 as Special from Iceland, Bermuda, the Bahamas, Cuba Publication No. 1 of the American Fisheries and the other West Indian islands, and Society, has been widely used and has Mexico are excluded unless they occur also contributed substantially toward its goal of in the region covered. In the Pacific, the achieving uniformity and avoiding confusion area treated includes that part of the conti- in nomenclature. -
Extinction Rates in North American Freshwater Fishes, 1900–2010 Author(S): Noel M
Extinction Rates in North American Freshwater Fishes, 1900–2010 Author(s): Noel M. Burkhead Source: BioScience, 62(9):798-808. 2012. Published By: American Institute of Biological Sciences URL: http://www.bioone.org/doi/full/10.1525/bio.2012.62.9.5 BioOne (www.bioone.org) is a nonprofit, online aggregation of core research in the biological, ecological, and environmental sciences. BioOne provides a sustainable online platform for over 170 journals and books published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Web site, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/page/terms_of_use. Usage of BioOne content is strictly limited to personal, educational, and non-commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Articles Extinction Rates in North American Freshwater Fishes, 1900–2010 NOEL M. BURKHEAD Widespread evidence shows that the modern rates of extinction in many plants and animals exceed background rates in the fossil record. In the present article, I investigate this issue with regard to North American freshwater fishes. From 1898 to 2006, 57 taxa became extinct, and three distinct populations were extirpated from the continent. Since 1989, the numbers of extinct North American fishes have increased by 25%. From the end of the nineteenth century to the present, modern extinctions varied by decade but significantly increased after 1950 (post-1950s mean = 7.5 extinct taxa per decade). -
Endangered Species Act Section 7 Consultation Final Programmatic
Endangered Species Act Section 7 Consultation Final Programmatic Biological Opinion and Conference Opinion on the United States Department of the Interior Office of Surface Mining Reclamation and Enforcement’s Surface Mining Control and Reclamation Act Title V Regulatory Program U.S. Fish and Wildlife Service Ecological Services Program Division of Environmental Review Falls Church, Virginia October 16, 2020 Table of Contents 1 Introduction .......................................................................................................................3 2 Consultation History .........................................................................................................4 3 Background .......................................................................................................................5 4 Description of the Action ...................................................................................................7 The Mining Process .............................................................................................................. 8 4.1.1 Exploration ........................................................................................................................ 8 4.1.2 Erosion and Sedimentation Controls .................................................................................. 9 4.1.3 Clearing and Grubbing ....................................................................................................... 9 4.1.4 Excavation of Overburden and Coal ................................................................................ -
Species of Greatest Conservation Need
APPENDIX A. VIRGINIA SPECIES OF GREATEST CONSERVATION NEED Taxa Common Scientific Name Tier Cons. Opp. Habitat Descriptive Habitat Notes Name Ranking Amphibians Barking Hyla gratiosa II a Forest Forests near or within The Virginia Fish and Wildlife Information System indicates treefrog shallow wetlands the loss suitable wetlands constitute the greatest threats to this species. DGIF recommends working to maintain or restore forested buffers surrounding occupied wetlands. These needs are consistent with action plan priorities to conserve and restore wetland habitats and associated buffers. Recently discovered populations within its known range, may indicate this species is more abundant than previously believed. An in-depth investigation into its status may warrant delisting. This species will be prioritized as Tier 2a. Amphibians Blue Ridge Desmognathus IV c Forest High elevation seeps, This species' distribution is very limited. Other than limiting dusky orestes streams, wet rock faces, logging activity in the occupied areas, no conservation salamander and riparian forests actions have been identified. Unless other threats or actions are identified, this species will be listed as Tier 4c. Amphibians Blue Ridge Eurycea III a Wetland Mountain streams and The needs of this species are consistent with priorities for two-lined wilderae adjacent riparian areas maintaining and enhancing riparian forests and aquatic salamander with mixed hardwood or habitats. This species will be listed as Tier 3a. spruce-fir forests up to 6000 feet. Amphibians Carpenter Lithobates III a Wetland Freshwater wetlands with The needs of this species are consistent with action plan frog virgatipes sphagnum moss priorities to preserve and restore aquatic and wetland habitats and water quality.