Life Sciences Commons^™

Taxonomic Advances Driven By The Genomic Analysis Of Butterflies, Jing Zhang, Qian Cong, Jinhui Shen, Leina Song, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

This study presents new findings based on a large-scale analysis of butterfly genomic sequences. Focusing on species identification through comparative genomics, we define subspecies as populations differentiated to a lesser extent than distinct species ("species in the making"). Additionally, we propose further adjustments to the current butterfly classification. As a result, 3 subgenera, 12 species, and 4 subspecies are described as new. New subgenera are (type species in parenthesis): Hyalaus Grishin, subgen. n. (Papilio epidaus E. Doubleday, 1846) of Eurytides Hübner, [1821] (Papilionidae Latreille, [1802]) and Astria Grishin, subgen. n. (Lycaena astraea Freyer, 1851) of Glaucopsyche Scudder, 1872 …

Genomic Analysis Reveals New Species And Subspecies Of Butterflies, Jing Zhang, Qian Cong, Jinhui Shen, Leina Song, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

Large-scale genomic sequencing of butterfly taxa reveals new findings that are presented here. While we focus on detecting species by comparative genomics and define subspecies as groups of populations genetically differentiated from each other but not as strongly as species (that is, subspecies as species in the making), we report other adjustments to butterfly classification. As a result, 4 subgenera, 11 species, and 6 subspecies are proposed as new. New subgenera are: Rapis Grishin, subgen. n. (type species Papilio rapae Linnaeus, 1758, genus Pieris Schrank, 1801) in Pieridae Swainson, 1820 and Callitera Grishin, subgen. n. (type species Eurygona? pulcherrima …

The Ecology And Evolution Of Species Rarity In Oaks (Quercus Spp.), Yingtong Wu

Dissertations

Rare species are susceptible to extinction due to ecological and genetic factors. Understanding the distribution, ecology, and evolution of rare species can provide useful information for effective conservation. To investigate species rarity, this dissertation focuses on a species-rich and ecologically diverse genus, Quercus (oaks). In Chapter 1, I aimed to understand how interactions between hosts and soil microbes contribute to habitat restriction in oak species. I performed a soil inoculum experiment on two pairs of sister oak species that show habitat divergence. I found that host-specific soil microbes contribute to habitat divergence and exclusion among sister species of oaks, but …

Taxonomic Discoveries Enabled By Genomic Analysis Of Butterflies, Jing Zhang, Qing Cong, Jinhui Shen, Leina Song, Riley J. Gott, Pierre Boyer, Crispin S. Guppy, Steve Kohler, Gerardo Lamas, Paul A. Opler, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

The comparative genomics of butterflies yields additional insights into their phylogeny and classification that are compiled here. As a result, 3 genera, 5 subgenera, 5 species, and 3 subspecies are proposed as new, that is, in Hesperiidae: Antina Grishin, gen. n. (type species Antigonus minor O. Mielke, 1980), Pompe Grishin and Lamas, gen. n. (type species Lerema postpuncta Draudt, 1923), and Curva Grishin, gen. n. (type species Moeris hyagnis Godman, 1900); in Lycaenidae: Fussia Grishin, subgen. n. (type species Polyommatus standfussi Grum-Grshimailo, 1891) and Pava Grishin, subgen. n. (type species Thecla panava Westwood, 1852); in Hesperiidae: Monoca Grishin, subgen. n. …

Taxonomic Resolution Assessment And Biodiversity Evaluations For Deep-Sea Fish Assemblages In A Pelagic Ecosystem Of The Northern Gulf Of Mexico, Krista N. Scheuerman

All HCAS Student Capstones, Theses, and Dissertations

Knowledge of community assemblages and biodiversity is important for monitoring health and resilience in an ecosystem. Taxonomic and functional biodiversity of mesopelagic (200- 1000 m) fishes is extremely rich in the Gulf of Mexico. The aim of this study was to compare calculations of biodiversity and community structures at varying taxonomic resolutions for deep pelagic fishes to inform future decisions about deep-sea ecosystem monitoring. This study analyzed biodiversity and assemblage structure patterns from a biological inventory of deep-sea fishes collected with a large mesh, commercial-sized, high-speed rope trawl in the Gulf of Mexico between June 21^st and July 14 …

Checking The Checkered Taxonomy Of Plötz's Checkered Skippers (Hesperiidae: Pyrgini), Jing Zhang, Qing Cong, John M. Burns, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

We present an analysis of the names proposed by Carl Plötz in 1884 for the New World species in the genus Pyrgus Hübner, [1819] facilitated by the genomic sequencing of extant primary type specimens comparatively with a larger sample of more recently collected specimens of these species and their relatives. The changes to nomenclature suggested here are only caused by the identity of primary type specimens as revealed by their phenotypes or though genomic sequencing. All neotypes are designated to stabilize nomenclature in agreement with the current usage of these names, which in unison agrees best with the information available …

Nematode Biodiversity In Lincoln, Nebraska's Tallgrass Prairie Corridor, Abigail Borgmeier

Department of Plant Pathology: Dissertations, Theses, and Student Research

The tallgrass prairie was once one of the most diverse grasslands on the planet, however over 95% has been converted to agriculture in the past 150 years. The remaining prairie is still host to a wide variety of plants, insects, mammals, and soil-dwelling microorganisms, creating an incredibly complex ecosystem. The first aim of this study is to compare three approaches for the measurement of nematode diversity within a 10-mile-long protected prairie habitat corridor near Lincoln, Nebraska. The methods are 1) a traditional morphological analysis of 150 nematodes per study site, 2) a metabarcoding analysis using the 18S genetic marker of …

Genomics-Guided Refinement Of Butterfly Taxonomy, Jing Zhang, Qian Cong, Jinhui Shen, Paul A. Opler, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

Continuing with comparative genomic exploration of worldwide butterfly fauna, we use all proteincoding genes as they are retrieved from the whole genome shotgun sequences for phylogeny construction. Analysis of these genome-scale phylogenies projected onto the taxonomic classification and the knowledge about butterfly phenotypes suggests further refinements of butterfly taxonomy that are presented here. As a general rule, we assign most prominent clades of similar genetic differentiation to the same taxonomic rank, and use criteria based on relative population diversification and the extent of gene exchange for species delimitation. As a result, 7 tribes, 4 subtribes, 14 genera, and 9 subgenera …

Observations On The Distribution And Status Of Selected Nebraska Mammals, Zachary P. Roehrs, Russell A. Benedict, Thomas E. Labedz, Hugh H. Genoways

Transactions of the Nebraska Academy of Sciences and Affiliated Societies

Information on the distribution and current status of 25 species or subspecies of mammals occurring in Nebraska are presented. The species covered include one shrew, an armadillo, eight bats, 10 rodents (including two subspecies of one species), three carnivores, and one artiodactyl. Distributional information reported includes the first state record for one species (Sorex nanus) and new county records for 18 species. In Nebraska, we know that mammals are shifting their geographic ranges with some extending populations into the state, whereas others are expanding their geographic ranges within the state. The current status of six additional mammalian taxa …

Genomic Evidence Suggests Further Changes Of Butterfly Names, Jing Zhang, Qian Cong, Jinhui Shen, Pal A. Opler, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

Further genomic sequencing of butterflies by our research group expanding the coverage of species and specimens from different localities, coupled with genome-scale phylogenetic analysis and complemented by phenotypic considerations, suggests a number of changes to the names of butterflies, mostly those recorded from the United States and Canada. Here, we present evidence to support these changes. The changes are intended to make butterfly classification more internally consistent at the genus, subgenus and species levels. That is, considering all available evidence, we attempt to assign similar taxonomic ranks to the clades of comparable genetic differentiation, which on average is correlated with …

Designation Of A Neotype For Oeneis Melissa (Fabricius, 1775) And A Lectotype For Oeneis Polixenes (Fabricius, 1775) (Lepidoptera: Nymphalidae: Satyrinae), Crispin S. Guppy

The Taxonomic Report of the International Lepidoptera Survey

The Oeneis melissa (Fabricius, 1775) “neotype” designations of Lukhtanov and Eitschberger (2000; 2001) do not meet several critical requirements of the ICZN and are therefore invalid. In addition, the locality data is too vague to be taxonomically useful, their “neotype” specimen is a specimen of the taxon generally known as O. melissa semplei, and acceptance of their specimen as neotype would change the meaning of the taxon Oeneis melissa. Hence, I reject their neotype designation. A neotype Oeneis melissa (Fabricius, 1775) is designated from Nain, Labrador with careful consideration of the Articles of the International Code of Zoological …

Changes To North American Butterfly Names, Jing Zhang, Qian Cong, Jinhui Shen, Paul A. Opler, Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

We obtained and analyzed whole genome shotgun sequences of all 845 species of butterflies recorded from Canada and the United States. Genome-scale phylogenetic trees constructed from the data reveal several nonmonophyletic genera and suggest improved classification of species included in these genera. Here, these changes are formalized and 2 subgenera are described: Amblyteria Grishin, subgen. n. (type species Goniloba exoteria Herrich-Schäffer, 1869, parent genus Amblyscirtes Scudder, 1872), and Coa Grishin, subgen. n. (type species Hesperia baracoa Lucas, 1857, parent genus Polites Scudder, 1872). Furthermore, we resurrect 3 genera and 2 subgenera from synonymy, change the rank of 6 currently used …

The Neotropical Variegated Squirrel, Sciurus Variegatoides (Rodentia: Sciuridae) In Nicaragua, With The Description Of A New Subspecies, Hugh H. Genoways, Robert M. Timm

University of Nebraska State Museum: Mammalogy Papers

The Neotropical variegated squirrel, Sciurus variegatoides, is represented in Nicaragua by five known subspecies—adolphei, belti, boothiae, dorsalis, and underwoodi. Analyses of morphometrics, color, and color patterns of 394 specimens from throughout the country and all available literature support the retention of these subspecies, but also reveal the presence of a sixth population of these squirrels, which is worthy of description and recognition as a new subspecies. This new subspecies is confined to Isla de Ometepe in Lago de Nicaragua. Variegated squirrels on Ometepe are on average the smallest variegated squirrels in the country …

Expanded Phenotypic Diagnoses For 24 Recently Named New Taxa Of Hesperiidae (Lepidoptera), Nick V. Grishin

The Taxonomic Report of the International Lepidoptera Survey

Expanded diagnoses by phenotypic characters for the 24 new taxa named in the article "Genomes of skipper butterflies reveal extensive convergence of wing patterns" by Li, W., Cong, Q., Shen, J., Zhang, J., Hallwachs, W., Janzen, D.H. and Grishin, N.V., 2019 and published in the Proceedings of the National Academy of Sciences of the United States of America on March 15, 2019 are provided and illustrated. More detailed diagnoses will help identifying these phylogenetic groups by their wing patterns and shapes and other morphological characters including the structures of antennae and genitalia using this single publication, instead of obtaining the …

Distribution Extension Of Aspiculuris Americana Parasite Of Peromyscus Difficilis In Hidalgo, Mexico, Griselda Pulido-Flores, Scott Monks, Jorge Falcón-Ordaz

Harold W. Manter Laboratory of Parasitology: Faculty and Staff Publications

English: As a part of an ongoing project to inventory the helminth parasites of rodents in Mexico, 30 individuals of Aspiculuris americana were collected inhabiting the intestine from three specimens of the rock mouse Peromyscus difficilis, collected from Cerro Xihuingo, Municipality of Tepeapulco, Hidalgo State, Mexico. This species of nematode parasite different species of the genus Peromyscus (P. gossypinus, P. leucopus, P. maniculatus, and P. floridanus) distributed from Yukon Territory in Canada to Florida in the United States of America. This is the first report of Aspiculuris americana in a Mexican endemic rodent, widening …

Revision Of The Genus Monatractides (Parasitengona, Torrenticolidae) Of The United States And Canada: New Species, Re-Descriptions, Phylogenetics, And A Key To Species, Whitney Anne Nelson

Graduate Theses and Dissertations

The full suite of known Monatractides (Parasitengona, Torrenticolidae) taxa of North America (north of Mexico) are investigated herein using integrative methods. Species hypotheses are supported with morphology, geography, and phylogenetic analysis of the barcoding region of COI for 154 individuals from over 100 localities. Relationships between species are examined with a combined analysis of COI and 28S rDNA for 55 specimens. Previously described species are examined and re-described with color images and updated information, where possible. Our results indicate the need to synonymize two species: M. californica (Marshall, 1943) is a junior synonym of M. geographica (Marshall, 1943). We describe …

Identification Of Taxonomic And Functional Ichthyofaunal Zones Within The James River Basin, Virginia, Joseph L. Noel

Theses and Dissertations

Environmental gradients structure ichthyofaunal communities longitudinally along river networks via the selective filtering of species’ traits. In many instances, these environmental influences have created distinct zones of co-occurring fish species. Zonation studies have most often been conducted with taxonomic data (species x site matrices), but the increasing availability of functional trait data creates an opportunity to build more rigorous understanding of species’ co-occurrence patterns. Notably, zonation studies that use taxonomic data may not reveal the same patterns as studies based on trait data. In this study, we tested for distinct ichthyofaunal zonation in James River Basin, VA using a combination …

Evolution, Systematics & Geographic Parthenogenesis Of Ilyodromus (Crustacea, Ostracoda), Rylan James Shearn

Theses

Most multicellular organisms reproduce sexually at some point in their life cycle. This is paradoxical because being asexual is theoretically far more advantageous. Asexual organisms do not need to find and court new mates, they reproduce at a faster rate, and with no males, all members of the population contribute toward population growth rate. With over 20, often mutually exclusive hypotheses, this paradox resists a synthesised explanation, and continues to represent one of the largest gaps in our understanding of fundamental evolutionary theory. Clearly, more real world studies are required that document the selective mechanisms underlying differences in evolutionary fitness …

Next-Generation Field Guides, Elizabeth J. Farnsworth, Miyoko Chu, W. John Kress, Amanda K. Neill, Jason H. Best, John Pickering, Robert D. Stevenson, Gregory W. Courtney, John K. Vandyk, Aaron M. Ellison

John K. VanDyk

To conserve species, we must first identify them. Field researchers, land managers, educators, and citizen scientists need up-to-date and accessible tools to identify organisms, organize data, and share observations. Emerging technologies complement traditional, book-form field guides by providing users with a wealth of multimedia data. We review technical innovations of next-generation field guides, including Web-based and stand-alone applications, interactive multiple-access keys, visual-recognition software adapted to identify organisms, species checklists that can be customized to particular sites, online communities in which people share species observations, and the use of crowdsourced data to refine machine-based identification algorithms. Next-generation field guides are user …

Systematics Of The Neotropical Genus Leptodactylus Fitzinger, 1826 (Anura: Leptodactylidae): Phylogeny, The Relevance Of Non-Molecular Evidence, And Species Accounts, Rafael O. De Sá, Taran Grant, Arley Camargo, W. R. Heyer, María Laura Ponssa, Edward Stanley

Biology Faculty Publications

A phylogeny of the species-rich clade of the Neotropical frog genus Leptodactylus sensu stricto is presented on the basis of a total evidence analysis of molecular (mitochondrial and nuclear markers) and non-molecular (adult and larval morphological and behavioral characters) sampled from > 80% of the 75 currently recognized species. Our results support the monophyly of Leptodactylus sensu stricto, with Hydrolaetare placed as its sister group. The reciprocal monophyly of Hydrolaetare and Leptodactylus sensu stricto does not require that we consider Hydrolaetare as either a subgenus or synonym of Leptodactylus sensu lato. We recognize Leptodactylus sensu stricto, Hydrolaetare, Adenomera, and Lithodytes …

Systematics And Biogeography Of The Australian Burrowing Freshwater Crayfish Genus Engaewa Riekk (Decapoda: Parastacidae), Quinton Burnham

Theses: Doctorates and Masters

The overall aim of this study was to explore the systematics and biogeographic patterns of the freshwater crayfish genus Engaewa Riek, a strongly burrowing freshwater crayfish restricted to the coastal corner of south-western Australia (SWA). The genus Engaewa is a Gondwanan relict with great potential as a marker of historical processes, due to its high habitat specificity and low dispersal ability. This study comprises an extensive taxonomic and phylogenetic revision of the genus Engaewa (using both molecular and morphological data), a detailed study of its distribution and uses the knowledge gained to explore biogeographic patterns in the biodiversity hotspot of …

The Tadpole Of Leptodactylus Caatingae Heyer & Juncá, 2003 (Anura: Leptodactylidae): External Morphology, Internal Anatomy, And Natural History, Felipe De Madeiros Magalhães, Adrian Antonio Garda, Ralita Ferreira Amado, Rafael O. De Sá

Biology Faculty Publications

We describe and illustrate the external morphology, oral disc, chondrocranium, and internal oral anatomy of Leptodactylus caatingae larvae. We analyze the internal oral anatomy using scanning electron microscopy of a larva in Gosner, stage 38 and chondrocranial anatomy is reported for Gosner stage 34. The tadpole at Gosner stage 38 has a globular body shape with low tail fins and a ventral oral disc bordered by two rows of marginal papillae on most of the disc, except for the anterior labium and a medial portion of the posterior labium where papillae are simple; a wide rostral gap is present, labial …

Bryoecology In The American Southwest: Patterns Of Biodiversity And Responses To Global Change, John Carroll Brinda

UNLV Theses, Dissertations, Professional Papers, and Capstones

This dissertation combines investigation of the large-scale responses of bryophyte species diversity and distribution with small-scale physiological adaptations to global change. These two areas of inquiry are linked because one way to predict plant species responses to global change is to examine their distribution across current ecological gradients produced by factors such as latitude and elevation. By examining these biogeographic patterns one can identify those species that have a narrow tolerance and therefore are most sensitive to change. Selected bryophytes might then be used as indicator species in long-term monitoring programs. Where historical data exist, these can be used to …

The Scientific Classification Of Wolves: Canis Lupus Soupus, L. David Mech

USGS Northern Prairie Wildlife Research Center

Gray wolf, timber wolf, red wolf, eastern wolf, brush wolf, arctic wolf, Mexican wolf, maned wolf, Ethiopian wolf, etc., etc. How many kinds of wolves are there? And what are the differences? This is a really good question, and the answer is getting more complicated all the time. Let us start by going back a few years to the way science looked at wolves more traditionally— before the days of the new field of molecular genetics. Molecular genetics examines the actual DNA of animals and tries to classify them according to genetic similarities. ...

What does all this mean in …

Asiatic Wild Ass In Israel, David A. Blank

Erforschung biologischer Ressourcen der Mongolei / Exploration into the Biological Resources of Mongolia, ISSN 0440-1298

The Syrian wild ass (Equus hemionus hemippus) lived in Israel in historic times until the 1930s, when it disappeared from the entire Middle East region. Khulans from other subspecies (E. h. onager - six individulas and E. h. kulan - five individuals) were brought to Israel from European zoos during 1968-69 (the authors of project considered that onager and kulan were the same subspecies) and these animals bred together in the semi-captivity conditions of the Haibar Yotvata Reserve. Later, during a 12-year period from 1982 through 1993, six groups totalling 38 khulans (17 males and 21 females) …

The Emerging Dziggetai (Equidae: Equus Hemionus Pallas): An Illustrated History Of Taxonomic Concepts For The Identification, Classification, And Distribution Of Hemiones From Central Asia, Arnd Schreiber

Erforschung biologischer Ressourcen der Mongolei / Exploration into the Biological Resources of Mongolia, ISSN 0440-1298

The history of the discovery and the exploration of the hemione populations (Equus hemionus PALLAS) from Central Asia (Mongolia, northwest China, northeast Tibet, Kazakhstan, and Russian Siberia) from the 13th century to approximately 1950 are compiled with the aim to provide materials for a taxonomic and population genetic revision of the dziggetais. Data on their phenotypic differentiation, historical distribution status, and their husbandry history in European zoological gardens, are reviewed, as is the gradual emergence of concepts of how to identify and to classify these populations. Hemiones were an important historical case in the discussion of how to represent …

Rana Ocellata Linnaeus, 1758 (Currently Leptodactylus Ocellatus; Amphibia, Anura): Proposed Conservation Of Usage Of The Specific Name By The Designation Of A Neotype, W. Ronald Heyer, Ulisses Caramaschi, Rafael O. De Sá

Biology Faculty Publications

The purpose of this application, under Article 75.6 of the Code, is to conserve the usage of the specific name of Rana ocellata Linnaeus, 1758 for a species of leptodactylid frog from South America by the designation of a neotype. Prevailing usage of the name is threatened by the identity of the type specimen which is a different species than that which is currently known as Leptodactylus ocellatus. It is proposed that all name-bearing types be set aside and a neotype designated in accord with prevailing usage.

A Fresh Look At The Taxonomy Of Midcontinental Sandhill Cranes, Douglas H. Johnson, Jane E. Autin, Jill A. Shaffer

Proceedings of the North American Crane Workshop

The midcontinental population of sandhill crane (Grus canadensis) includes about 500,000 birds and provides valuable recreational crane-watching and hunting opportunities in Canada and the United States. It comprises three subspecies, one of which (G. c. rowani) was of uncertain taxonomic status and another of which (G. c. tabida) merited protection from excessive harvest due to its small population size. We obtained measurements of cranes used by Johnson and Stewart (1973) and additional crane specimens to 1) evaluate the subspecies designation of midcontinental sandhill cranes and 2) to seek improved methods for classifying cranes from …

Butterflies Of The North Okanagan, British Columbia, Canada, David L. Threatful

The Taxonomic Report of the International Lepidoptera Survey

An annotated list of 106 species of butterflies known to occur in the north Okanagan area of British Columbia, Canada is presented. Information is provided on flight phenology, elevation and habitat for each species. Field work over the past 100 years shows that this is one of the premiere areas in Canada for butterfly species diversity. More than one third of all known Canadian butterflies have been found in this small area.

A Taxonomic Study Of, And Key To, The Lecithoceridae (Lepidoptera) From Guizhou, China, Chunsheng Wu

The Taxonomic Report of the International Lepidoptera Survey

This paper provides a key to twelve species (in ten genera and three subfamilies) of Lecithoceridae from Guizhou Province, China. Among them, three species are unnamed and eight are new Guizhou Province records. The female of Opacoptera ecblasta Wu is known for the first time and its genitalia are illustrated for the first time.