The genus Lobariella (Ascomycota: Lobariaceae) in Hawaii: late colonization, high inferred endemism and three new species resulting from “micro-radiation”

2017 ◽  
Vol 49 (6) ◽  
pp. 673-691 ◽  
Author(s):  
Robert LÜCKING ◽  
Bibiana MONCADA ◽  
Clifford W. SMITH
Keyword(s):  
New Species ◽  
Molecular Clock ◽  
Single Species ◽  
Monophyletic Clade ◽  
Hawaiian Species ◽  
Clock Analysis ◽  
Morphological Differences ◽  
Three New Species ◽  
Herbarium Collections ◽  
Molecular Clock Analysis

AbstractWe assessed the taxonomy and phylogenetic relationships of Hawaiian species of the neotropical genus Lobariella. A single species was previously reported from the archipelago, the widespread neotropical L. crenulata. We targeted three loci of the mitochondrial and nuclear ribosomal rDNA gene cistron (mtSSU, nuLSU, ITS) and also performed a molecular clock analysis. Our results show that L. crenulata s. str. is seemingly present in the archipelago based on older herbarium collections. However, Hawaiian Lobariella includes three additional, presumably endemic, species unrelated to L. crenulata and new to science: L. flynniana Lücking, Moncada & C. W. Sm., with richly branched marginal phyllidia giving the thallus a fruticose appearance; L. robusta Lücking, Moncada & C. W. Sm., with a rather thick thallus and abundant, large, laminal phyllidia; and L. sandwicensis Lücking, Moncada & C. W. Sm., with a delicate thallus producing apothecia. Lobariella flynniana represents a novel morphotype within the genus, thus far known only from Hawaii. All three species are very closely related, forming a well-supported, monophyletic clade in spite of their morphological differences, suggesting local micro-radiation. Molecular clock analysis indicates that this clade colonized the islands between 1–8 mya and diverged between 0–2 mya. We interpret recent colonization as one of the main reasons why this clade has not diversified further.

scholarly journals Three new species of leaflitter frogs from the upper Amazon forests: cryptic diversity within Pristimantis "ockendeni" (Anura: Strabomantidae) in Ecuador

Zootaxa ◽  
2008 ◽  
Vol 1784 (1) ◽  
pp. 11 ◽  
Author(s):  
KATHRYN R. ELMER ◽  
DAVID C. CANNATELLA
Keyword(s):  
New Species ◽  
Dna Sequences ◽  
Amazon Basin ◽  
Single Species ◽  
Cryptic Diversity ◽  
Morphological Differences ◽  
Three New Species ◽  
Multiple Species

We describe three new species of Pristimantis leaflitter frogs from the upper Amazon basin of Ecuador: Pristimantis achuar, Pristimantis altamnis, and Pristimantis kichwarum. Each of these new species was previously considered to be part of a single species, formerly known as Eleutherodactylus ockendeni (Boulenger) morph B. However, analysis of DNA sequences together with examination of the morphology of more than 600 specimens from Ecuador reveals that multiple species were confused under the same name. The morphological differences among the three new species are subtle but consistent: presence or absence of a black canthal stripe and/or supratympanic ridge, snout-vent length, and ventral colouration. The three species are generally allopatric and geographically restricted, although at some localities two of the species occur sympatrically.Describimos tres especies nuevas de ranas del sotobosque de la cuenca Amazónica Ecuatoriana: Pristimantis achuar, Pristimantis altamnis y Pristimantis kichwarum. Estas especies fueron consideradas antes como una sola especie bajo el nombre Eleutherodactylus ockendeni (Boulenger) morfo B. Sin embargo, el análisis de secuencias de ADN y la examinación de la morfología de más que 600 especímenes Ecuatorianos indican que en realidad existen tres especies. Sus diferencias morfológicas son sutiles pero constantes: presencia o ausencia de una raya cantal negra y/o de un pliegue supratimpánico y su coloración ventral. Las tres especies tienen distribuciones alopátricas y distintas aunque en algunas localidades se puede encontrar dos de las tres especies juntas.

scholarly journals Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

Science ◽  
2021 ◽  
pp. eabh2644 ◽  
Author(s):  
Nuno R. Faria ◽  
Thomas A. Mellan ◽  
Charles Whittaker ◽  
Ingra M. Claro ◽  
Darlan da S. Candido ◽  
...  
Keyword(s):  
Molecular Evolution ◽  
Genome Sequencing ◽  
Immune Evasion ◽  
Molecular Clock ◽  
Spike Protein ◽  
Dynamical Model ◽  
Mortality Data ◽  
Clock Analysis ◽  
Protection Against Infection ◽  
Molecular Clock Analysis

Cases of SARS-CoV-2 infection in Manaus, Brazil, resurged in late 2020, despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1, acquired 17 mutations, including a trio in the spike protein (K417T, E484K and N501Y) associated with increased binding to the human ACE2 receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7–2.4-fold more transmissible, and that previous (non-P.1) infection provides 54–79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness.

scholarly journals A new synonym for Zelia Robineau-Desvoidy, 1830 (Diptera, Tachinidae), the genus Opsozelia Townsend, 1919, with the description of three new species

ZooKeys ◽  
2019 ◽  
Vol 880 ◽  
pp. 113-133
Author(s):  
Rodrigo de Vilhena Perez Dios ◽  
Marcelo Domingos de Santis
Keyword(s):  
New Species ◽  
Single Species ◽  
Species Group ◽  
Identification Key ◽  
Additional Material ◽  
New Synonym ◽  
Three New Species

The monotypic tachinid genus Opsozelia Townsend, 1919 (Diptera: Tachinidae) is synonymized with ZeliaRobineau-Desvoidy 1830, syn. nov. The single species of Opsozelia, O. discalis Townsend, 1919, is redescribed as Zelia discalis, comb. nov., based on examination of the holotype from Guyana and additional material from Suriname, Brazil and Paraguay. Three new species of Zelia similar to Z. discalis are described from Brazil: Z. magnasp. nov., Z. guimaraesisp. nov. and Z. formosasp. nov. These four species are treated informally as the Zelia discalis species group. An identification key to the species of this species group is provided based on male specimens. Descriptions and illustrations are provided for the male terminalia of all species and for the female terminalia of one species, Z. guimaraesi.

Revision of the genus Setosella (Bryozoa: Cheilostomata) with description of new species from deep-waters and submarine caves of the Mediterranean Sea

Zootaxa ◽  
2020 ◽  
Vol 4728 (4) ◽  
pp. 401-442 ◽  
Author(s):  
A. ROSSO ◽  
E. DI MARTINO ◽  
V. GEROVASILEIOU
Keyword(s):  
New Species ◽  
Southern Italy ◽  
Free Living ◽  
Deep Waters ◽  
Scanning Electron Microscopy Examination ◽  
Species Complexes ◽  
Morphological Differences ◽  
Three New Species ◽  
Submarine Caves ◽  
Microscopy Examination

The genus Setosella included to date six species. After revision, only four of these species were retained, i.e. S. vulnerata, S. cavernicola, S. folini and S. spiralis. The remaining two species were tentatively placed in Woodipora, W.? antilleana n. comb., and Andreella,  A.? fragilis n. comb. On the other hand, scanning electron microscopy examination of Mediterranean material, revealed the presence of three new species previously included in species complexes: S. cyclopensis n. sp. from the open-shelf, S. rossanae n. sp. from submarine caves, and S. alfioi n. sp. from deep-waters. The diagnosis of the genus was amended to include the occurrence of kenozooids in S. cyclopensis n. sp. and S. cavernicola, and of free-living ring-shaped and scorpioid colonies in S. folini and S. alfioi n. sp. All the seven species n           1ow in Setosella have present-day representatives; the geographic distribution of the genus 1sinian of southern Italy and insular Greece, with only three species occasionally and discontinuously reported. All species are able to produce numerous, subsequent intramural buds and morphological differences seem to be consistently associated with exploitation of particular habitats and substrata. 

Three new species of thelotremoid Graphidaceae from tropical Africa

Phytotaxa ◽  
2014 ◽  
Vol 189 (1) ◽  
pp. 176 ◽  
Author(s):  
Robert Lücking
Keyword(s):  
New Species ◽  
Tropical Africa ◽  
Novel Taxa ◽  
Three New Species ◽  
Herbarium Collections

Three new species of thelotremoid Graphidaceae are described from tropical Africa. Astrochapsa fusca Lücking differs from A. platycarpella in the brown thallus and larger ascospores with more numerous septa. Ocellularia abbayesiana is similar to O. exuta in morphology and chemistry but has smaller, hyaline ascospores. Ocellularia grantii resembles O. terebrata in the carbonized excipulum and columella, the hyaline, transversely septate ascospores, and the psoromic acid chemistry, but is distinguished by its verrucose-bullate thallus, white-tipped columella, and smaller ascospores. The three species were discovered in historic material collected between 1874 and 1954 and underline the importance of revising herbarium collections for the discovery of novel taxa.

Three new species of nocturnal geckos of the Paroedura oviceps clade from xeric environments of Madagascar (Squamata: Gekkonidae)

Zootaxa ◽  
2018 ◽  
Vol 4433 (2) ◽  
pp. 305
Author(s):  
FRANK GLAW ◽  
JÖRN KÖHLER ◽  
MIGUEL VENCES
Keyword(s):  
Mitochondrial Dna ◽  
New Species ◽  
National Park ◽  
Colour Pattern ◽  
Haplotype Sharing ◽  
The Third ◽  
Transitional Forest ◽  
Morphological Differences ◽  
Three New Species ◽  
Karst Habitats

We describe three new gecko species of the Paroedura oviceps clade, diagnosed by deep divergences in mitochondrial DNA, absence of haplotype sharing in two nuclear genes (sacs and kiaa1239), and morphological differences. Paroedura spelaea sp. nov. is an extremely slender species from karst habitats in the limestone massif of the Tsingy de Bemaraha National Park in western Madagascar, morphologically reminiscent of P. homalorhina but distinguished by the absence of distinct dorsal rows of spiny tubercles. Paroedura fasciata sp. nov. from the small karstic island Nosy Hara in northern Madagascar is phylogenetically placed sister to P. spelaea despite radical morphological differences. It is morphologically most similar to P. hordiesi from the geographically close Montagne des Français massif, but is smaller, has slightly more spiny dorsal scales, and a distinctive colour pattern with light grey dorsal crossbands. The third species, Paroedura kloki sp. nov., is known from Ankarafantsika National Park and the western slopes of Makira, two sites of dry to transitional forest in western Madagascar. It is at least partly arboreal and morphologically very similar to P. oviceps, from which it differs by spiny scales extending over its entire tail. Although incomplete, the available phylogenetic evidence suggests that the karst specialists in the P. oviceps clade (P. fasciata, P. homalorhina, P. hordiesi, P. spelaea) form a monophyletic group which might have diversified by vicariance after becoming isolated, respectively, in their limestone habitats in Tsingy de Bemaraha, Ankarana, Nosy Hara and Montagne des Français. 

Integrative approach reveals underestimated Peyssonneliales diversity in Brazil: registering the first occurrence of Ramicrusta and Incendia, with the description of three new species

Phytotaxa ◽  
2020 ◽  
Vol 439 (1) ◽  
pp. 39-55
Author(s):  
EDILENE MARIA DOS SANTOS PESTANA ◽  
GOIA DE MATTOS LYRA ◽  
GABRIEL DO NASCIMENTO SANTOS ◽  
CIBELE CONCEIÇÃO DOS SANTOS ◽  
VALÉRIA CASSANO ◽  
...  
Keyword(s):  
New Species ◽  
Original Description ◽  
Morphological Characters ◽  
Type Locality ◽  
Integrative Approach ◽  
Brazilian Coast ◽  
Monophyletic Clade ◽  
Sister Relationship ◽  
First Occurrence ◽  
Three New Species

Peyssonneliaceae represents a monophyletic clade of red encrusting algae classified Peyssonneliales. Molecular analyses have been important for revealing unknown diversity in this family, which includes small, cryptic organisms, frequently distinguished solely by discrete anatomical characters. Brazil however, remains virtually unknown. To assess this diversity, phylogenetic and barcoding analyses using rbcL, COI-5P and SSU data, as well as morpho-anatomical analyses were performed. Here we report the first occurrence of two genera on the Brazilian coast: Ramicrusta and Incendia, and describe three new species: Ramicrusta fujiiana sp. nov., Ramicrusta paradoxa sp. nov. and Incendia yoneshigueana sp. nov. Ramicrusta was resolved as a monophyletic clade in the three reconstructed phylogenies, and had congruent topologies. In the rbcL phylogeny, Ramicrusta fujiiana formed a well-supported clade sister to a well-supported clade including R. aranea (Vanuatu, type locality) and R. textilis (Jamaica, type locality). Morphological characters of R. paradoxa are not in agreement with the original description of the genus. Therefore, we present an updated and broader concept of Ramicrusta. Incendia was resolved as a monophyletic clade with full support for rbcL. Incendia yoneshigueana is in a sister relationship with I. glabra (Vanuatu, type locality). This study extends the distributions of Ramicrusta and Incendia, proposes three new species, and confirms the effectiveness of rbcL, COI-5P and SSU in inferring phylogenetic relationships and delimiting species in the Peyssonneliales. The integrative approach established clear taxonomic concepts for the studied genera and species, and identified useful characters for genera delimitation in Peyssonneliaceae.

Revision of the genus Epexochus Reitter, with description of three new species (Coleoptera: Curculionidae: Lixinae: Cleonini)

Zootaxa ◽  
2009 ◽  
Vol 2011 (1) ◽  
pp. 47-68
Author(s):  
MASSIMO MEREGALL ◽  
FABIO TALAMELLI
Keyword(s):  
New Species ◽  
Single Species ◽  
Morphological Characters ◽  
Type Locality ◽  
Western China ◽  
Large Size ◽  
Colour Variant ◽  
The Status ◽  
Three New Species ◽  
North Western

The genus Epexochus Reitter is revised, its morphological characters are defined and the differences from the most closely related genera, Leucochromus Motschulsky and Eurycleonus Bedel, are outlined. All the populations of Epexochus from Kazakhstan and north-western China (Xinjiang) are referred to a single species, E. lehmanni (Ménétries). The status of Exochus latus Chevrolat is discussed and its name is formally synonymised with lehmanni. According to Art. 45.6.4.1 of the ICZN (1999), the name lehmanni var. consobrinus Faust, originally proposed for a colour variant and misidentified by Ter-Minasyan, is deemed to be subspecific and thus a synonym of lehmanni. Three new species are described in the genus: E. korotyaevi sp. n. (type locality: southern Tajikistan, Shaar-tuz region), characterised by the pronotum curved towards the elytra and by slender, lanceolate scales; E. voriseki sp. n. (type locality: central Uzbekistan, Gazli), characterised by small size, only slightly convex elytra and long hair-like setae, and E. mongolicus sp. n. (type locality: western Mongolia, Kobdoskij Aimak), characterised by large size, convex elytra with flat intervals and an elongate lamella of the aedeagus.

scholarly journals Complete Genomic Sequence of Human Coronavirus OC43: Molecular Clock Analysis Suggests a Relatively Recent Zoonotic Coronavirus Transmission Event

2005 ◽  
Vol 79 (3) ◽  
pp. 1595-1604 ◽  
Author(s):  
Leen Vijgen ◽  
Els Keyaerts ◽  
Elien Moës ◽  
Inge Thoelen ◽  
Elke Wollants ◽  
...  
Keyword(s):  
Molecular Clock ◽  
Complete Genome ◽  
Recent Common Ancestor ◽  
Human Coronavirus ◽  
Transmission Event ◽  
Most Recent Common Ancestor ◽  
A Genome ◽  
Clock Analysis ◽  
Group 2 ◽  
Molecular Clock Analysis

ABSTRACT Coronaviruses are enveloped, positive-stranded RNA viruses with a genome of approximately 30 kb. Based on genetic similarities, coronaviruses are classified into three groups. Two group 2 coronaviruses, human coronavirus OC43 (HCoV-OC43) and bovine coronavirus (BCoV), show remarkable antigenic and genetic similarities. In this study, we report the first complete genome sequence (30,738 nucleotides) of the prototype HCoV-OC43 strain (ATCC VR759). Complete genome and open reading frame (ORF) analyses were performed in comparison to the BCoV genome. In the region between the spike and membrane protein genes, a 290-nucleotide deletion is present, corresponding to the absence of BCoV ORFs ns4.9 and ns4.8. Nucleotide and amino acid similarity percentages were determined for the major HCoV-OC43 ORFs and for those of other group 2 coronaviruses. The highest degree of similarity is demonstrated between HCoV-OC43 and BCoV in all ORFs with the exception of the E gene. Molecular clock analysis of the spike gene sequences of BCoV and HCoV-OC43 suggests a relatively recent zoonotic transmission event and dates their most recent common ancestor to around 1890. An evolutionary rate in the order of 4 × 10−4 nucleotide changes per site per year was estimated. This is the first animal-human zoonotic pair of coronaviruses that can be analyzed in order to gain insights into the processes of adaptation of a nonhuman coronavirus to a human host, which is important for understanding the interspecies transmission events that led to the origin of the severe acute respiratory syndrome outbreak.

Sign in / Sign up

Export Citation Format

Share Document