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Journal articles on the topic 'Reciprocal monophyly'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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1

Zhu, Sha, James H. Degnan, and Mike Steel. "Clades, clans, and reciprocal monophyly under neutral evolutionary models." Theoretical Population Biology 79, no. 4 (2011): 220–27. http://dx.doi.org/10.1016/j.tpb.2011.03.002.

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2

Vanderlaan, Tegan A., Malte C. Ebach, David M. Williams, and John S. Wilkins. "Defining and redefining monophyly: Haeckel, Hennig, Ashlock, Nelson and the proliferation of definitions." Australian Systematic Botany 26, no. 5 (2013): 347. http://dx.doi.org/10.1071/sb13031.

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The various existing definitions of monophyly have resulted in confusion within the systematics community. The divergence in terminology started with the work of Willi Hennig who attempted to introduce a precise definition of phylogenetic relationship in 1950, a term that he had synonymised with monophyly by 1953, thereby creating a new definition. In 1965, Hennig introduced paraphyly to distinguish his version of monophyly from groups based on symplesiomorphies or stem groups. In attempting to resolve the confusion, Ashlock synonymised Hennig’s monophyly as holophyly, resulting in another new

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3

Thacker, Robert W., and Valerie J. Paul. "Morphological, Chemical, and Genetic Diversity of Tropical Marine Cyanobacteria Lyngbya spp. and Symploca spp. (Oscillatoriales)." Applied and Environmental Microbiology 70, no. 6 (2004): 3305–12. http://dx.doi.org/10.1128/aem.70.6.3305-3312.2004.

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ABSTRACT Although diverse natural products have been isolated from the benthic, filamentous cyanobacterium Lyngbya majuscula, it is unclear whether this chemical variation can be used to establish taxonomic relationships among disparate collections. We compared morphological characteristics, secondary-metabolite compositions, and partial 16S ribosomal DNA (rDNA) sequences among several collections of L. majuscula Gomont, Lyngbya spp., and Symploca spp. from Guam and the Republic of Palau. The morphological characteristics examined were cell length, cell width, and the presence or absence of a

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4

Mehta, Rohan S., and Noah A. Rosenberg. "The probability of reciprocal monophyly of gene lineages in three and four species." Theoretical Population Biology 129 (October 2019): 133–47. http://dx.doi.org/10.1016/j.tpb.2018.04.004.

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5

Souza, Mateus S., Andréa T. Thomaz, and Nelson J. R. Fagundes. "River capture or ancestral polymorphism: an empirical genetic test in a freshwater fish using approximate Bayesian computation." Biological Journal of the Linnean Society 131, no. 3 (2020): 575–84. http://dx.doi.org/10.1093/biolinnean/blaa140.

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Abstract A headwater or river capture is a phenomenon commonly invoked to explain the absence of reciprocal monophyly of genetic lineages among isolated hydrographic basins in freshwater fish. Under the assumption of river capture, a secondary contact between populations previously isolated in different basins explains the observed genetic pattern. However, the absence of reciprocal monophyly could also arise under population isolation through the retention of ancestral of polymorphisms. Here, we applied an approximate Bayesian computation (ABC) framework for estimating the relative probabilit

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Padilla-Jacobo, Gabriela, Tiberio Cesar Monterrubio-Rico, Horacio Cano Camacho, and María Guadalupe Zavala-Páramo. "USE OF PHYLOGENETIC ANALYSIS TO IDENTIFY EVOLUTIONARILY SIGNIFICANT UNITS FOR THE ORANGE-FRONTED PARAKEET (EUPSITTULA CANICULARIS) IN MEXICO." Ornitología Neotropical 26, no. 4 (2016): 325–35. http://dx.doi.org/10.58843/ornneo.v26i4.68.

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In avian conservation biology, the subspecies concept based on reciprocal monophyly has been successfully applied to define priority populations through Evolutionarily Significant Units (ESUs). In México, the Orange-fronted Parakeet (Eupsittula canicularis) ranks first in illegal parrot trade. Its distribution ranges from southern Sonora to Chiapas on the Pacific slope, with populations representing three subspecies: E. c. canicularis, E. c. eburnirostrum, and E. c. clarae. To identify and propose ESUs to assist in conservation proposals for different populations, we assessed subspecific recip

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7

Kizirian, David, and Maureen A. Donnelly. "The criterion of reciprocal monophyly and classification of nested diversity at the species level." Molecular Phylogenetics and Evolution 32, no. 3 (2004): 1072–76. http://dx.doi.org/10.1016/j.ympev.2004.05.001.

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8

Hiller, Alexandra, and Bernd Werding. "Description of a new species of the Petrolisthes galathinus complex from the Caribbean Sea, and resurrection of Petrolisthes occidentalis from the East Pacific (Crustacea, Anomura, Porcellanidae)." ZooKeys 1191 (February 16, 2024): 391–407. http://dx.doi.org/10.3897/zookeys.1191.111570.

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The Petrolisthes galathinus complex currently consists of six American species distributed in the West Atlantic, including the amphi-American P. galathinus. All species in the complex are similar in their adult morphology but differ in colour, size, larval morphology, and shape of the adult sternal plate. The West Atlantic species have different geographic ranges, which overlap in the southern Caribbean. Previously published molecular data support the monophyly of the complex, and the reciprocal monophyly of each described species and further clades corresponding to different colour morphs. He

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Hiller, Alexandra, and Bernd Werding. "Description of a new species of the Petrolisthes galathinus complex from the Caribbean Sea, and resurrection of Petrolisthes occidentalis from the East Pacific (Crustacea, Anomura, Porcellanidae)." ZooKeys 1191 (February 16, 2024): 391–407. https://doi.org/10.3897/zookeys.1191.111570.

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The <i>Petrolisthes galathinus</i> complex currently consists of six American species distributed in the West Atlantic, including the amphi-American <i>P. galathinus</i>. All species in the complex are similar in their adult morphology but differ in colour, size, larval morphology, and shape of the adult sternal plate. The West Atlantic species have different geographic ranges, which overlap in the southern Caribbean. Previously published molecular data support the monophyly of the complex, and the reciprocal monophyly of each described species and further clades corresponding to different col

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10

Chen, Chien-Lin, Joseph W. Goy, Heather D. Bracken-Grissom, Darryl L. Felder, Ling Ming Tsang, and Tin-Yam Chan. "Corrigendum to: Phylogeny of Stenopodidea (Crustacea : Decapoda) shrimps inferred from nuclear and mitochondrial genes reveals non-monophyly of the families Spongicolidae and Stenopididae and most of their composite genera." Invertebrate Systematics 30, no. 6 (2016): 650. http://dx.doi.org/10.1071/is16024_co.

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The infraorder Stenopodidea is a relatively small group of marine decapod crustaceans including the well known cleaner shrimps, but their higher taxonomy has been rather controversial. This study provides the most comprehensive molecular phylogenetic analyses of Stenopodidea using sequence data from two mitochondrial (16S and 12S rRNA) and two nuclear (histone H3 and sodium–potassium ATPase ?-subunit (NaK)) genes. We included all 12 nominal genera from the three stenopodidean families in order to test the proposed evolutionary hypothesis and taxonomic scheme of the group. The inferred phylogen

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Chen, Chien-Lin, Joseph W. Goy, Heather D. Bracken-Grissom, Darryl L. Felder, Ling Ming Tsang, and Tin-Yam Chan. "Phylogeny of Stenopodidea (Crustacea : Decapoda) shrimps inferred from nuclear and mitochondrial genes reveals non-monophyly of the families Spongicolidae and Stenopididae and most of their composite genera." Invertebrate Systematics 30, no. 5 (2016): 479. http://dx.doi.org/10.1071/is16024.

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The infraorder Stenopodidea is a relatively small group of marine decapod crustaceans including the well known cleaner shrimps, but their higher taxonomy has been rather controversial. This study provides the most comprehensive molecular phylogenetic analyses of Stenopodidea using sequence data from two mitochondrial (16S and 12S rRNA) and two nuclear (histone H3 and sodium–potassium ATPase α-subunit (NaK)) genes. We included all 12 nominal genera from the three stenopodidean families in order to test the proposed evolutionary hypothesis and taxonomic scheme of the group. The inferred phylogen

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12

DONNELLAN, S., M. ANSTIS, L. PRICE, and L. WHEATON. "A new species of Crinia (Anura: Myobatrachidae) from the Flinders Ranges, South Australia." Zootaxa 3499, no. 1 (2012): 1. http://dx.doi.org/10.11646/zootaxa.3499.1.1.

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We describe, as a new species, the northern Flinders Ranges populations of the myobatrachid frog Crinia riparia. It isdistinguished from C. riparia sensu stricto on the basis of reciprocal monophyly of mitochondrial genes, absence ofhaplotype sharing in a nuclear gene, fixed differences in allozyme loci and differences in larval oral disc morphologyconsistent with less adaptation to stream habitats. We were not able to reliably distinguish the taxa on the basis of adultmorphology. The geographic range of C. riparia sensu stricto is now reduced to a 75 kilometre section of the southernFlinders

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13

WELTON, LUKE J., CAMERON D. SILER, ARVIN C. DIESMOS, and RAFE M. BROWN. "Phylogeny-based species delimitation of southern Philippines bent-toed geckos and a new species of Cyrtodactylus (Squamata: Gekkonidae) from western Mindanao and the Sulu Archipelago." Zootaxa 2390, no. 1 (2010): 49. http://dx.doi.org/10.11646/zootaxa.2390.1.3.

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Using a combination of fixed morphological character differences, mitochondrial DNA sequence data, and an estimate of phylogeny as our guide, we describe a new species of bent-toed gekkonid lizard (Genus: Cyrtodactylus) from southwestern Mindanao Island, and northeastern portions of the Sulu Archipelago, southern Philippines. The new species resembles C. annulatus, but differs from this and all other congeners by characteristics of external morphology, color pattern, and body size. In addition, the new species is distinguished from congeners by marked genetic divergence and reciprocal monophyl

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14

Schmidt-Lebuhn, Alexander N. "Reciprocal monophyly of Craspedia and Pycnosorus (Asteraceae, Gnaphalieae) and the problems of using ribosomal DNA at the lowest taxonomic levels." Australian Systematic Botany 26, no. 3 (2013): 233. http://dx.doi.org/10.1071/sb13018.

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The reciprocal monophyly of Craspedia and Pycnosorus (Asteraceae, Gnaphalieae) is tested, with a phylogenetic analysis of ribosomal and chloroplast DNA. Although one species of the latter genus was not sampled, the results of the present study indicated that it is most likely monophyletic as opposed to paraphyletic with respect to Craspedia. Within Craspedia, deeper sampling results in the appearance of several species (C. aurantia, C. coolaminica, C. glabrata and C. variabilis) in both major Australian rDNA clades, indicating that the available molecular phylogenies have to be considered gene

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15

Sacks, Benjamin N., Mark J. Statham, Laurel E. K. Serieys, and Seth P. D. Riley. "Population Genetics of California Gray Foxes Clarify Origins of the Island Fox." Genes 13, no. 10 (2022): 1859. http://dx.doi.org/10.3390/genes13101859.

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We used mitochondrial sequences and nuclear microsatellites to investigate population structure of gray foxes (Urocyon cinereoargenteus) and the evolutionary origins of the endemic island fox (Urocyon littoralis), which first appeared in the northern Channel Islands <13,000 years ago and in the southern Channel Islands <6000 years ago. It is unclear whether island foxes evolved directly from mainland gray foxes transported to the islands one or more times or from a now-extinct mainland population, already diverged from the gray fox. Our 345 mitochondrial sequences, combined with previous

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16

Vadthanarat, Santhiti, Saisamorn Lumyong, and Olivier Raspé. "Cacaoporus, a new Boletaceae genus, with two new species from Thailand." MycoKeys 54 (June 10, 2019): 1–29. http://dx.doi.org/10.3897/mycokeys.54.35018.

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We introduce a new genus, Cacaoporus, characterised by chocolate brown to dark brown basidiomata and hymenophore, tubes not separable from the pileus context, white to off-white basal mycelium, reddening when bruised, amygdaliform to ovoid spores and dark brown spore deposit. Phylogenetic analyses of a four-gene dataset (atp6, tef1, rpb2 and cox3) with a wide selection of Boletaceae showed that the new genus is monophyletic and sister to the genera Cupreoboletus and Cyanoboletus in the Pulveroboletus group. Two new species in the genus, C.pallidicarneus and C.tenebrosus are described from nort

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17

Beresford, Pamela, Jon Fjeldså, and Jacob Kiure. "A New Species of Akalat (Sheppardia) Narrowly Endemic in the Eastern Arc of Tanzania." Auk 121, no. 1 (2004): 23–34. http://dx.doi.org/10.1093/auk/121.1.23.

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Abstract The group of small forest robins, or akalats, that dwell in lowland and montane forests in Africa have complicated parapatric or partly overlapping distributions, the details of which are still being discovered. Here, we use external morphology and mitochondrial and nuclear DNA sequence data to determine the reciprocal monophyly of several populations, including one form that is related to Sheppardia lowei and S. montana. Those data corroborate the recognition of a new species, Sheppardia aurantiithorax, and show relatively high levels of sequence divergence among populations of the d

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18

Vadthanarat, Santhiti, Saisamorn Lumyong, and Olivier Raspé. "Cacaoporus, a new Boletaceae genus, with two new species from Thailand." MycoKeys 54 (June 10, 2019): 1–29. https://doi.org/10.3897/mycokeys.54.35018.

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We introduce a new genus, Cacaoporus, characterised by chocolate brown to dark brown basidiomata and hymenophore, tubes not separable from the pileus context, white to off-white basal mycelium, reddening when bruised, amygdaliform to ovoid spores and dark brown spore deposit. Phylogenetic analyses of a four-gene dataset (atp6, tef1, rpb2 and cox3) with a wide selection of Boletaceae showed that the new genus is monophyletic and sister to the genera Cupreoboletus and Cyanoboletus in the Pulveroboletus group. Two new species in the genus, C. pallidicarneus and C. tenebrosus are described from no

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19

Dearborn, Donald C., Andrea B. Gager, Morgan E. Gilmour, Andrew G. McArthur, Douglas A. Hinerfeld, and Robert A. Mauck. "Non-neutral evolution and reciprocal monophyly of two expressed Mhc class II B genes in Leach’s storm-petrel." Immunogenetics 67, no. 2 (2014): 111–23. http://dx.doi.org/10.1007/s00251-014-0813-2.

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20

JI, HWAN-SUNG, and JIN-KOO KIM. "A new species of prickleback, Dictyosoma tongyeongensis (Perciformes: Stichaeidae) from the South Sea of Korea." Zootaxa 3569, no. 1 (2012): 55. http://dx.doi.org/10.11646/zootaxa.3569.1.4.

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A new prickleback is described based on six specimens collected by fish trap in southern Korea (water depth 5–12 m) in 2009 and 2010. The new prickleback is most similar to Dictyosoma burgeri and Dictyosoma rubrimaculatum in general morphology, but differs in the following combination of characters: dorsal contour of head almost a straight line; anal-fin rays 45–47; vertebrae 70–74; no blackish-brown blotches on head. In addition, mitochondrial DNA cytochrome oxidase subunit I (COI) sequences and recombination activating gene 2 (RAG2) sequences were analyzed for clarifying their genetic relati

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COGNATO, ANTHONY I., SARAH M. SMITH, MATTHEW SCHIFFER, and YOU LI. "A taxonomic review of Sueus Murayama, 1951 ambrosia beetles (Coleoptera: Curculionidae: Scolytinae: Hyorrhynchini) aided by molecular phylogenetic analyses." Zootaxa 5477, no. 4 (2024): 475–93. http://dx.doi.org/10.11646/zootaxa.5477.4.5.

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Four Sueus Murayama, 1951 species occur in Southeast Asia and Oceania. They all likely have a female-biased haplodiploid inbreeding mating system and feed on symbiotic ambrosia fungi. These life history traits increase the potential of adventive events. Indeed, Sueus has been recently discovered on the Caribbean island of Martinique. Morphological variation has been observed among some populations of Sueus niisimai (Eggers, 1926), which questioned species boundaries. Given the beetle’s potential economic importance, we provide a molecular phylogeny as a foundation for systematic study and revi

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PICARD, C. J., M. H. VILLET, and J. D. WELLS. "Amplified fragment length polymorphism confirms reciprocal monophyly in Chrysomya putoria and Chrysomya chloropyga: a correction of reported shared mtDNA haplotypes." Medical and Veterinary Entomology 26, no. 1 (2011): 116–19. http://dx.doi.org/10.1111/j.1365-2915.2011.00976.x.

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23

Fonseca, Pedro Mesquita, Elgion Lucio Silva Loreto, Marco Silva Gottschalk, and Lizandra Jaqueline Robe. "Cryptic diversity and speciation in the Zygothrica genus group (Diptera, Drosophilidae): the case of Z. vittimaculosa Wiedemann." Insect Systematics & Evolution 48, no. 3 (2017): 285–313. http://dx.doi.org/10.1163/1876312x-48022158.

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In this paper we describe a new Zygothrica species that is morphologically, ecologically and evolutionarily related to Zygothrica vittimaculosa through molecular and morphological analyses. Moreover, we compare distribution, abiotic and biotic niches between both species and perform ecological simulations in order to assess the potential influence played by ecology versus geography in the divergence of the target species, which was also dated with the use of a nuclear marker. The aedeagus and wing morphometry patterns were underpinned by molecular evidence, as obtained for the mitochondrial CO

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Hjalmarsson, Anna E., Wolfram Graf, Sonja C. Jähnig, Simon Vitecek, and Steffen U. Pauls. "Molecular association and morphological characterisation of Himalopsyche larval types (Trichoptera, Rhyacophilidae)." ZooKeys 773 (July 9, 2018): 79–108. http://dx.doi.org/10.3897/zookeys.773.24319.

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HimalopsycheBanks, 1940 (Trichoptera, Rhyacophilidae) is a genus of caddisflies inhabiting mountain and alpine environments in Central and East Asia and the Nearctic. Of 53 known species, only five species have been described previously in the aquatic larval stage. We perform life stage association using three strategies (GMYC, PTP, and reciprocal monophyly) based on fragments of two molecular markers: the nuclear CAD, and the mitochondrial COI gene. A total of 525 individuals from across the range ofHimalopsyche(Himalayas, Hengduan Shan, Tian Shan, South East Asia, Japan, and western North Am

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25

Wibowo, Arif, Achmad Farajalah, and Husnah Husnah. "DNA BARCODING OF FRESHWATER FISH SPECIES OF MANNA RIVER (BENGKULU) AND SEMANKA RIVER (LAMPUNG)." Indonesian Fisheries Research Journal 19, no. 1 (2013): 9. http://dx.doi.org/10.15578/ifrj.19.1.2013.9-17.

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The identification of fish species is challenging. DNA barcoding provides new perspective in ecology and systematics of fishes. In this study, we assess intraspecific and interspecific genetic divergence among several freshwater fish species from Manna River of Bengkulu Province and Semanka River of Lampung Province, using data from mitochondrial cytochrome c oxidase subunit I (COI) gene. The results show that a total of six freshwater fish species identified in this study exhibited high levels of interspecific variation based on 51 analyzed sequences. Almost all species corresponded to a sing

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Anderson, Justin, Michael Kantar, Dan Bock, Kunsiri Chaw Grubbs, Edward Schilling, and Loren Rieseberg. "Skim-Sequencing Reveals the Likely Origin of the Enigmatic Endangered Sunflower Helianthus schweinitzii." Genes 10, no. 12 (2019): 1040. http://dx.doi.org/10.3390/genes10121040.

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Resolving the origin of endangered taxa is an essential component of conservation. This information can be used to guide efforts of bolstering genetic diversity, and also enables species recovery and future evolutionary studies. Here, we used low-coverage whole genome sequencing to clarify the origin of Helianthus schweinitzii, an endangered tetraploid sunflower that is endemic to the Piedmont Plateau in the eastern United States. We surveyed four accessions representing four populations of H. schweinitzii and 38 accessions of six purported parental species. Using de novo approaches, we assemb

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27

LIU, JIANG, PENG CHEN, LI YU, SHI-FANG WU, YA-PING ZHANG, and XUELONG JIANG. "The taxonomic status of Lepus melainus (Lagomorpha: Leporidae) based on nuclear DNA and morphological analyses." Zootaxa 3010, no. 1 (2011): 47. http://dx.doi.org/10.11646/zootaxa.3010.1.4.

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The taxonomic status of the species Lepus melainus, the Manchurian black hare, is intensely debated. It is considered either as a valid species or a black color morph of L. mandshuricus, the Manchurian hare. Herein, we evaluate the validity of L. melainus using 24 morphological traits and two nuclear DNA loci (TG=466bp; MGF=592bp) from newly collected specimens. Except for winter pelage, we fail to discover significant morphological differences between L. melainus and L. mandshuricus. Analysis of the nuclear DNA sequences reveals lack of reciprocal monophyly between L. mandshuricus and L. mela

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Barreira, Ana S., Darío A. Lijtmaer, and Pablo L. Tubaro. "The multiple applications of DNA barcodes in avian evolutionary studies." Genome 59, no. 11 (2016): 899–911. http://dx.doi.org/10.1139/gen-2016-0086.

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DNA barcodes of birds are currently available for 41% of known species and for many different geographic areas; therefore, they are a rich data source to answer evolutionary questions. We review studies that have used DNA barcodes to investigate evolutionary processes in birds using diverse approaches. We also review studies that have investigated species in depth where taxonomy and DNA barcodes present inconsistencies. Species that showed low genetic interspecific divergence and lack of reciprocal monophyly either are the result of recent radiation and (or) hybridize, while species with large

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LARSEN, PETER A., MARÍA R. MARCHÁN-RIVADENEIRA, and ROBERT J. BAKER. "Taxonomic status of Andersen’s fruit-eating bat (Artibeus jamaicensis aequatorialis) and revised classification of Artibeus (Chiroptera: Phyllostomidae)." Zootaxa 2648, no. 1 (2010): 45. http://dx.doi.org/10.11646/zootaxa.2648.1.3.

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Fruit-eating bats of the genus Artibeus are widely distributed across the Neotropics and are one of the most recently evolved assemblages of the family Phyllostomidae. Although the taxonomy and systematics of species of Artibeus has been the subject of an intense historical debate, the most current taxonomic arrangements recognize approximately eleven species within the genus. However, recent phylogenetic studies indicate that species diversity within South and Middle American populations of Artibeus is underestimated. South American populations referable to A. jamaicensis aequatorialis are of

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Polak, Slavko, Teo Delić, Rok Kostanjšek, and Peter Trontelj. "Molecular phylogeny of the cave beetle genus Hadesia (Coleoptera: Leiodidae: Cholevinae: Leptodirini), with a description of a new species from Montenegro." Arthropod Systematics & Phylogeny 74, no. 3 (2016): 241–54. http://dx.doi.org/10.3897/asp.74.e31860.

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Hadesia is a charismatic and scientifically important genus of cave beetles. It is a classical representative of the subterranean fauna of the Dinaric Karst and the model upon which the ultra-specialized ecomorphological form of semi-aquatic, hygropetricolous filter feeders became known. We describe a new species, Hadesia zetae sp.n., from southwestern Montenegro, and employ new morphological characters to build an identification key to all five species of the genus. Based on DNA sequence data from two nuclear and two mitochondrial genes and using multispecies coalescent methods, we corroborat

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31

TORRES-CARVAJAL, OMAR. "A new species of lava lizard (Iguanidae: Tropidurinae: Microlophus) from the Galápagos." Zootaxa 5428, no. 1 (2024): 58–74. http://dx.doi.org/10.11646/zootaxa.5428.1.2.

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Following Darwin’s visit to the Galápagos in 1835, the species of lava lizards inhabiting the archipelago were scientifically described in the remaining decades of the 19th century. Notably, only a single species was found on each of the surveyed islands, with different species on most islands. Many species have also expanded their distributions onto surrounding islets. Based on morphological and genetic evidence, I describe herein a new species of lava lizard from the 0.8 km2 Gardner islet located 8 km east of the southern island of Floreana. The new species is most similar in morphology and

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Polak, Slavko, Teo Delić, Rok Kostanjšek, and Peter Trontelj. "Molecular phylogeny of the cave beetle genus Hadesia (Coleoptera: Leiodidae: Cholevinae: Leptodirini), with a description of a new species from Montenegro." Arthropod Systematics & Phylogeny 74 (December 2, 2016): 241–54. https://doi.org/10.3897/asp.74.e31860.

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Hadesia is a charismatic and scientifically important genus of cave beetles. It is a classical representative of the subterranean fauna of the Dinaric Karst and the model upon which the ultra-specialized ecomorphological form of semi-aquatic, hygropetricolous filter feeders became known. We describe a new species, Hadesia zetae sp.n., from southwestern Montenegro, and employ new morphological characters to build an identification key to all five species of the genus. Based on DNA sequence data from two nuclear and two mitochondrial genes and using multispecies coalescent methods, we corroborat

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Lessa, Enrique, and Andrés Parada. "Are the Heteromyidae paraphyletic? Molecular phylogenetics of extant geomyoid rodents." Therya 16, no. 1 (2025): 29–39. https://doi.org/10.12933/therya-25-6138.

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The superfamily Geomyoidea includes the Geomyidae (pocket gophers: 7 genera, 42 species) and Heteromyidae (pocket mice, kangaroo mice, and kangaroo rats: 5 genera, 69 species). Analyses of both morphological and molecular data have confirmed the monophyly of the superfamily relative to other rodents but have cast doubts on the reciprocal monophyly of Geomyidae and Heteromyidae. The latter are recovered as paraphyletic in some, but not all molecular phylogenies, with low to moderate support for critical nodes. To test alternative hypotheses of geomyoid phylogenetic relationships, we searched NC

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WEBSTER, GRANT N., and IAN BOOL. "A new genus for four myobatrachid frogs from the South Western Australian Ecoregion." Zootaxa 5154, no. 2 (2022): 127–51. http://dx.doi.org/10.11646/zootaxa.5154.2.2.

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The southern Australian endemic genus Geocrinia Blake 1973 (Anura: Myobatrachidae) currently contains seven species, with five restricted to Western Australia and two in the south-eastern states covering parts of New South Wales, Victoria, Tasmania and South Australia. All species have a modified life history with at least some or all of the larval stage being completed terrestrially. Four of the Western Australian species have terrestrial, non-feeding tadpoles nourished by yolk until metamorphosis. The remaining species have a biphasic development with embryos developing on land followed by a

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Phillips, Anna J., Alex Dornburg, Katerina L. Zapfe, et al. "Phylogenomic Analysis of a Putative Missing Link Sparks Reinterpretation of Leech Evolution." Genome Biology and Evolution 11, no. 11 (2019): 3082–93. http://dx.doi.org/10.1093/gbe/evz120.

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Abstract Leeches (Hirudinida) comprise a charismatic, yet often maligned group of worms. Despite their ecological, economic, and medical importance, a general consensus on the phylogenetic relationships of major hirudinidan lineages is lacking. This absence of a consistent, robust phylogeny of early-diverging lineages has hindered our understanding of the underlying processes that enabled evolutionary diversification of this clade. Here, we used an anchored hybrid enrichment-based phylogenomic approach, capturing hundreds of loci to investigate phylogenetic relationships among major hirudinida

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Hjalmarsson, Anna E., Wolfram Graf, Sonja C. Jähnig, Simon Vitecek, and Steffen U. Pauls. "Molecular association and morphological characterisation of Himalopsyche larval types (Trichoptera, Rhyacophilidae)." ZooKeys 773 (July 9, 2018): 79–108. https://doi.org/10.3897/zookeys.773.24319.

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Himalopsyche Banks, 1940 (Trichoptera, Rhyacophilidae) is a genus of caddisflies inhabiting mountain and alpine environments in Central and East Asia and the Nearctic. Of 53 known species, only five species have been described previously in the aquatic larval stage. We perform life stage association using three strategies (GMYC, PTP, and reciprocal monophyly) based on fragments of two molecular markers: the nuclear CAD, and the mitochondrial COI gene. A total of 525 individuals from across the range of Himalopsyche (Himalayas, Hengduan Shan, Tian Shan, South East Asia, Japan, and western North

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French, R., and D. C. Stenger. "Genome sequences of Agropyron mosaic virus and Hordeum mosaic virus support reciprocal monophyly of the genera Potyvirus and Rymovirus in the family Potyviridae." Archives of Virology 150, no. 2 (2004): 299–312. http://dx.doi.org/10.1007/s00705-004-0396-6.

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Vallianatos, M., S. C. Lougheed, and P. T. Boag. "Phylogeography and genetic characteristics of a putative secondary-contact zone of the loggerhead shrike in central and eastern North America." Canadian Journal of Zoology 79, no. 12 (2001): 2221–27. http://dx.doi.org/10.1139/z01-157.

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The loggerhead shrike (Lanius ludovicianus) is found throughout North America in grassland and open scrub habitats. We previously described four loggerhead shrike management units found in central and eastern North America within the geographic ranges of three subspecies, L. l. migrans, L. l. ludovicianus, and L. l. excubitorides. A contact zone has been suggested to occur between L. l. migrans and L. l. excubitorides. The present study uses mitochondrial DNA sequence data to explore historical, ecological, and geographical factors that may have played a role in the genetic differentiation of

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Salvador de Jesús-Bonilla, Vladimir, Mario García-París, Carlos N. Ibarra-Cerdeña, and Alejandro Zaldívar-Riverón. "Geographic patterns of phenotypic diversity in incipient species of North American blister beetles (Coleoptera: Meloidae) are not determined by species niches, but driven by demography along the speciation process." Invertebrate Systematics 32, no. 3 (2018): 672. http://dx.doi.org/10.1071/is17072.

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The Epicauta stigmata complex is a group of blister beetles composed of three parapatric or sympatric species that occur in central Mexico to southern USA: E. stigmata, E. uniforma and E. melanochroa. These species are morphologically very similar, and are mainly distinguished by body colour differences. Here we assessed whether phenotypic divergence in coloration patterns define evolutionary units within the complex. We studied the phylogenetic relationships, demographic history and concordances between morphological and ecological traits in the group. The complex apparently had a demographic

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Westerman, M., J. Young, and C. Krajewski. "Molecular relationships of species of Pseudantechinus, Parantechinus and Dasykaluta (Marsupialia: Dasyuridae)." Australian Mammalogy 29, no. 2 (2007): 201. http://dx.doi.org/10.1071/am07024.

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The eight currently recognized species of false antechinuses are members of the dasyurid marsupial genera Pseudantechinus, Parantechinus and Dasykaluta. Previous morphological and molecular studies have confidently placed these species in the tribe Dasyurini, but their affinities within that clade are poorly understood. We report phylogenetic analyses of cytochrome b, 12S rRNA, 16S rRNA, IRBP, �-fibrinogen intron 7 and e-globin intron 1 DNA sequences from one or more exemplars of each species of false antechinus and selected outgroups. The three genera of false antechinuses do not form a monop

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Brunke, Adam J. "A world generic revision of Quediini (Coleoptera, Staphylinidae, Staphylininae), part 1. Early diverging Nearctic lineages." ZooKeys 1134 (December 8, 2022): 129–70. http://dx.doi.org/10.3897/zookeys.1134.87853.

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Several phylogenetically isolated, early diverging lineages of rove beetle tribe Quediini, all endemic to the western Nearctic, have recently been revealed by phylogenomic systematics. These three lineages, currently treated as either Quedius (Raphirus) or Q. (Paraquedius) warrant recognition at the genus level in the ongoing effort to achieve reciprocal monophyly of genera in Quediini. The three lineages were each morphologically studied in detail, with the following results: Paraquedius Casey, stat. res. is re-elevated to genus rank, Quediellus Casey, stat. res. is resurrected from synonymy

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Andrade-Gómez, Leopoldo, Mirza Patricia Ortega-Olivares, Brenda Solórzano-García, Martín García-Varela, Berenit Mendoza-Garfias, and Gerardo Pérez-Ponce de León. "Monorchiids (Digenea, Trematoda) of fishes in the Yucatán Peninsula, Mexico, with the description of three new species based on morphological and molecular data." Parasite 30 (2023): 15. http://dx.doi.org/10.1051/parasite/2023015.

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Adult specimens of monorchiids (Digenea) were collected from the intestines of the white grunt, Haemulon plumierii Lacepède (Haemulidae), and the white mullet, Mugil curema Valenciennes (Mugilidae) from five localities off the Yucatán Peninsula and one locality in the Gulf of Mexico. Some specimens were photographed and sequenced for two molecular markers, the large subunit (LSU) of nuclear rDNA and the cytochrome c oxidase subunit 1 (cox1) of mitochondrial DNA. Other specimens were processed for morphological analyses. Newly generated sequences were aligned with other sequences available in G

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Brunke, Adam J. "A world generic revision of Quediini (Coleoptera, Staphylinidae, Staphylininae), part 1. Early diverging Nearctic lineages." ZooKeys 1134 (December 8, 2022): 129–70. https://doi.org/10.3897/zookeys.1134.87853.

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Several phylogenetically isolated, early diverging lineages of rove beetle tribe Quediini, all endemic to the western Nearctic, have recently been revealed by phylogenomic systematics. These three lineages, currently treated as either Quedius (Raphirus) or Q. (Paraquedius) warrant recognition at the genus level in the ongoing effort to achieve reciprocal monophyly of genera in Quediini. The three lineages were each morphologically studied in detail, with the following results: Paraquedius Casey, stat. res. is re-elevated to genus rank, Quediellus Casey, stat. res. is resurrected from synonymy

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de Freitas, Thales R. O., and Simone S. F. Ximenes. "Hybrid zone between Ctenomys lami and C. minutus: habitat alterations influence the evolutionary history of two burrowing rodent species of southern Brazil." Therya 16, no. 1 (2025): 77–89. https://doi.org/10.12933/therya-25-6141.

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Hybridization events provide insights into central questions in evolutionary biology regarding the role of reproductive isolation in speciation mechanisms. Because of that, there is increasing interest in understanding the patterns and processes underlying hybrid zones. The sister species Ctenomys minutus (2n = 48a) and Ctenomys lami (2n = 56) are burrowing rodents endemic to the southern Brazilian coastal plain and collectively exhibit high karyotype polymorphism. We analyzed chromosomal and mitochondrial DNA (mtDNA) variation to assess their evolutionary history and confirm and characterize

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PRUDIC, KATHLEEN L., ANDREW D. WARREN, and JORGE LLORENTE-BOUSQUETS. "Molecular and morphological evidence reveals three species within the California sister butterfly, Adelpha bredowii (Lepidoptera: Nymphalidae: Limenitidinae)." Zootaxa 1819, no. 1 (2008): 1. http://dx.doi.org/10.11646/zootaxa.1819.1.1.

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In recent decades the butterfly Adelpha bredowii (Lepidoptera: Nymphalidae), known in the USA as the California Sister, has been considered to be a polytypic array of taxa, composed of two, three or four subspecies. The most recent review of the genus (Willmott 2003a) recognized three: A. b. bredowii, A. b. eulalia (= guatemalensis) and A. b. californica. We used mitochondrial (COII) and nuclear (Tpi) DNA sequence data, coupled with a reevaluation of traditional morphological characters, to determine the phylogenetic relationships between members of the A. bredowii complex, and to elucidate th

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Pyrcz, Tomasz, Jadwiga Lorenc-Brudecka, Anna Zubek, Pierre Boyer, M. Gabaldon, and Jesus Mavarez. "Taxonomy, phylogeny and distribution of the genus Steromapedaliodes sensu novo in the Cordillera de Mérida, Venezuela (Lepidoptera: Nymphalidae: Satyrinae: Satyrini)." Arthropod Systematics & Phylogeny 75, no. 2 (2017): 195–243. http://dx.doi.org/10.3897/asp.75.e31899.

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We revise the taxonomy and phylogeny of the genera Steromapedaliodes Forster, 1964 and Redonda Adams & Bernard, 1981, both subparamo and paramo endemics of the Cordillera de Mérida (Venezuela). Redonda is hereby synonymized with Steromapedaliodes, a decision supported by a comparative study evidencing several synapomorphies of both genera in external characters and genitalia, and the lack of salient synapomorphies specific to each genus in morphological, biogeographical and ecological traits. Also, Steromapedaliodes mavarezi sp.n. presents several intermediate characters in relation to the

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Pyrcz, Tomasz, Jadwiga Lorenc-Brudecka, Anna Zubek, Pierre Boyer, M. Gabaldon, and Jesus Mavarez. "Taxonomy, phylogeny and distribution of the genus Steromapedaliodes sensu novo in the Cordillera de Mérida, Venezuela (Lepidoptera: Nymphalidae: Satyrinae: Satyrini)." Arthropod Systematics & Phylogeny 75 (August 30, 2017): 195–243. https://doi.org/10.3897/asp.75.e31899.

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We revise the taxonomy and phylogeny of the genera Steromapedaliodes Forster, 1964 and Redonda Adams & Bernard, 1981, both subparamo and paramo endemics of the Cordillera de Mérida (Venezuela). Redonda is hereby synonymized with Steromapedaliodes, a decision supported by a comparative study evidencing several synapomorphies of both genera in external characters and genitalia, and the lack of salient synapomorphies specific to each genus in morphological, biogeographical and ecological traits. Also, Steromapedaliodes mavarezi sp.n. presents several intermediate characters in relation to the

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Mitchell, Kieren J., Andrew F. Hugall, Holly Heiniger, Leo Joseph, and Paul M. Oliver. "Disparate origins for endemic bird taxa from the ‘Gondwana Rainforests’ of Central Eastern Australia." Biological Journal of the Linnean Society 134, no. 1 (2021): 40–56. http://dx.doi.org/10.1093/biolinnean/blab031.

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Abstract Subtropical and temperate rainforests of Central Eastern Australia are some of the largest remaining fragments of their kind globally. The biota of these rainforests appears to comprise two broad biogeographical elements: a more ancient (Miocene or older) and typically upland temperate (‘Gondwanan’) element and a younger (Plio-Pleistocene) lowland tropical element. We present the first phylogenetic synthesis of the spatiotemporal origins for the eight bird taxa endemic to Central Eastern Australian Rainforests. At least five of these eight focal taxa show Plio-Pleistocene divergences

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Peralta, Diego M., Humberto L. Cappozzo, Ezequiel A. Ibañez, Sergio Lucero, Mauricio Failla, and Juan I. Túnez. "Phylogeography of Otaria flavescens (Carnivora: Pinnipedia): unravelling genetic connectivity at the southernmost limit of its distribution." Biological Journal of the Linnean Society 134, no. 1 (2021): 11–27. http://dx.doi.org/10.1093/biolinnean/blab053.

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Abstract The Pleistocene glacial period shaped the current genetic structure of numerous species. The last glacial dynamics has been proposed to have split the South American sea lion, Otaria flavescens, into two Evolutionarily Significant Units (ESUs), one on each side of the continent. However, previous studies have not provided genetic information on colonies found along 3000 km of coastline of the southernmost limit of the species distribution, where gene flow could occur. We conducted an exhaustive phylogeographical analysis of O. flavescens using a mtDNA marker, including, for the first

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SASAKAWA, KÔJI. "Taxonomic studies on the Bembidion (‘Cillenus’) complex (Coleoptera: Carabidae): A revision of the subgeneric taxonomy and description of a new species from Japan." Zootaxa 1575, no. 1 (2007): 35–45. http://dx.doi.org/10.11646/zootaxa.1575.1.2.

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The supraspecific taxonomy of the coastal carabid Bembidion (‘Cillenus’) complex is controversial because a single ‘synapomorphy,’ a large head with long mandibles, may be the result of functional convergence. This study examined the phylogeny of B. (‘Cillenus’) complex based on morphological characters to revise the complicated taxonomy of this group. All type species of the genera concerned were included, and membranous parts of the genitalia (male endophallus and female vagina and spermatheca) were examined for the first time. Because all species are treated under the genus Bembidion Latrei

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