Species-level phylogeny, fruit evolution and diversification history of Geranium (Geraniaceae)

2017 ◽  
Vol 110 ◽  
pp. 134-149 ◽  
Author(s):  
Thomas Marcussen ◽  
Andrea S. Meseguer
2020 ◽  
Vol 4 (6) ◽  
Author(s):  
Stephen M Baca ◽  
Andrew E Z Short

Abstract Notomicrinae (Coleoptera: Noteridae) is a subfamily of minute and ecologically diverse aquatic beetles distributed across the Southeast Asia, Oceania, and the Americas. We investigate the evolution of Notomicrinae and construct the first species-level phylogeny within Noteridae using five nuclear and mitochondrial gene fragments. We focus on the genus Notomicrus Sharp (Coleoptera: Noteridae), sampling 13 of the 17 known Notomicrus species and an additional 11 putative undescribed species. We also include Phreatodytes haibaraensis Uéno (Coleoptera: Noteridae). Datasets are analyzed in Maximum Likelihood and Bayesian frameworks. With these, we 1) estimate divergence times among notomicrine taxa and reconstruct the biogeographical history of the group, particularly testing the hypothesis of Gondwanan vicariance between Old World and New World Notomicrus; 2) additionally, we assess ecological plasticity within Notomicrinae in the context of the phylogeny; and 3) finally, we test the monophyly of tentative species groups within Notomicrus and place putative new taxa. We recover a monophyletic Notomicrinae, with Phreatodytes sister to Notomicrus. We estimate the crown age of Notomicrinae to be ca. 110 Mya. The crown age of Notomicrus is recovered as ca. 75 Mya, there diverging into reciprocally monophyletic Old and New World clades, suggesting Gondwanan vicariance. Our phylogenetic estimate indicates a strong degree of ecological plasticity within Notomicrinae, with habitat switching occurring in recently diverging taxa. Finally, we recover five main species groups in Notomicrus, one Old World, Four New World, with tentative affirmation of the placement of undescribed species.


Zootaxa ◽  
2008 ◽  
Vol 1875 (1) ◽  
pp. 1 ◽  
Author(s):  
TERRY REARDON ◽  
MARK ADAMS ◽  
NORM MCKENZIE ◽  
PAULINA JENKINS

The species-level taxonomy of Australian Mormopterus has a long history of uncertainty. In this paper we review in detail the historic problems associated with determining the relationship between the norfolkensis holotype (allegedly from Norfolk Island) and forms occurring on mainland Australia. Using external and cranial characters, we establish that the holotype is conspecific with mainland specimens and we provide a redescription of the species. We also describe a new species, Mormopterus eleryi sp. nov. from central Australia. Updated allozyme profiles (a total of 40 putative loci) show that M. norfolkensis and M. eleryi sp. nov. diverge from one another at an average of 49% fixed differences and each diverge from the ‘planiceps-beccarii-loriae’ complex at an average of 48% and 45% fixed differences respectively. While both species are readily diagnosable by external and cranial features, they are especially distinctive in the morphology of the upper molars and glans penis. Echolocation call profiles as recorded by ANABAT bat detectors also show both species to have unique search phase calls compared to other Australian Mormopterus species. Both M norfolkensis and M. eleryi sp. nov. are known from less than 30 museum specimens each.


Zootaxa ◽  
2019 ◽  
Vol 2714 (1) ◽  
pp. 1 ◽  
Author(s):  
BONNIE B. BLAIMER

The taxonomy of the Malagasy Crematogaster (Decacrema) is revised and a total of six distinct species and one species-complex are recognized. Malagasy Decacrema are widespread ants in Madagascar that nest almost exclusively arboreally, either in carton nests or inside dead twigs or branches, and often tend Coccoidea. Four species are newly described here: Crematogaster mahery sp. nov., C. malala sp. nov., C. sabatra sp. nov. and C. sisa sp. nov.. The species status of Crematogaster grevei Forel 1891 is confirmed by the study, and one described subspecies, C. hova nosibeensis Forel 1891 is raised to species level (C. nosibeensis stat. nov.) and a neotype designated. Crematogaster hova latinoda Forel 1891 is synonymised under C. hova Forel 1887, and the taxonomic status of C. hova, C. ensifera Forel 1910 and C. schencki Forel 1891 is further investigated, but could not be resolved with methods employed here. The C. hova-complex, a species-complex consisting of five morphological forms, is hence defined and the three described species above are associated with these morphotypes. Full descriptions including natural history information are presented for all species and the species-complex, as well as images, distribution maps and a species-identification key to the workers of Malagasy Decacrema. A diagnosis of the Malagasy Decacrema and identification keys to the subgenera of the ant genus Crematogaster in the Malagasy region are also provided.


2021 ◽  
Vol 9 ◽  
Author(s):  
Parvin Aghayeva ◽  
Salvatore Cozzolino ◽  
Donata Cafasso ◽  
Valida Ali-zade ◽  
Silvia Fineschi ◽  
...  

DNA barcoding has rapidly become a useful complementary tool in floristic investigations particularly for identifying specimens that lack diagnostic characters. Here, we assess the capability of three DNA barcode markers (chloroplast rpoB, accD and nuclear ITS) for correct species assignment in a floristic survey on the Caucasus. We focused on two herbal groups with potential for ornamental applications, namely orchids and asterids. On these two plant groups, we tested whether our selection of barcode markers allows identification of the “barcoding gap” in sequence identity and to distinguish between monophyletic species when employing distance-based methods. All markers successfully amplified most specimens, but we found that the rate of species-level resolution amongst selected markers largely varied in the two plant groups. Overall, for both lineages, plastid markers had a species-level assignment success rate lower than the nuclear ITS marker. The latter confirmed, in orchids, both the existence of a barcoding gap and that all accessions of the same species clustered together in monophyletic groups. Further, it also allowed the detection of a phylogeographic signal.The ITS marker resulted in its being the best performing barcode for asterids; however, none of the three tested markers showed high discriminatory ability. Even if ITS were revealed as the most promising plant barcode marker, we argue that the ability of this barcode for species assignment is strongly dependent on the evolutionary history of the investigated plant lineage.


ZooKeys ◽  
2019 ◽  
Vol 822 ◽  
pp. 1-15 ◽  
Author(s):  
Stephen D. Cairns ◽  
Michelle L. Taylor

A history of the description of the 50 valid species of Narella is given, beginning with the first species described in 1860. To help differentiate the various species, a tabular and a polychotomous key are provided. The species in the keys are arranged using nine characters or character sets that are believed to be of value at the species level. New characters or new significance given to previously described characters used in our keys include: 1) the nature of the dorsolateral edge of the basal scale, being ridged or not, 2) the thickness of the body wall scales, and 3) the arrangement of the coenenchymal scales (imbricate or mosaic), their thickness (thin or massive), and their outer surface ornamentation (ridged or not). All characters used in the keys are illustrated.


2021 ◽  
Author(s):  
Jessie F Salter ◽  
Peter A Hosner ◽  
Edward L Braun ◽  
Rebecca T Kimball ◽  
Robb T Brumfield ◽  
...  

As phylogenomics focuses on comprehensive taxon sampling at the species and population/subspecies levels, incorporating genomic data from historical specimens has become increasingly common. While historical samples can fill critical gaps in our understanding of the evolutionary history of diverse groups, they also introduce additional sources of phylogenomic uncertainty, making it difficult to discern novel evolutionary relationships from artifacts caused by sample quality issues. These problems highlight the need for improved strategies to disentangle artifactual patterns from true biological signal as historical specimens become more prevalent in phylogenomic datasets. Here, we tested the limits of historical specimen-driven phylogenomics to resolve subspecies-level relationships within a highly polytypic family, the New World quails (Odontophoridae), using thousands of ultraconserved elements (UCEs). We found that relationships at and above the species-level were well-resolved and highly supported across all analyses, with the exception of discordant relationships within the two most polytypic genera which included many historical specimens. We examined the causes of discordance and found that inferring phylogenies from subsets of taxa resolved the disagreements, suggesting that analyzing subclades can help remove artifactual causes of discordance in datasets that include historical samples. At the subspecies-level, we found well-resolved geographic structure within the two most polytypic genera, including the most polytypic species in this family, Northern Bobwhites (Colinus virginianus), demonstrating that variable sites within UCEs are capable of resolving phylogenetic structure below the species level. Our results highlight the importance of complete taxonomic sampling for resolving relationships among polytypic species, often through the inclusion of historical specimens, and we propose an integrative strategy for understanding and addressing the uncertainty that historical samples sometimes introduce to phylogenetic analyses.


Author(s):  
Jeffrey L Weinell ◽  
Anthony J Barley ◽  
Cameron D Siler ◽  
Nikolai L Orlov ◽  
Natalia B Ananjeva ◽  
...  

Abstract The genus Boiga includes 35, primarily arboreal snake species distributed from the Middle East to Australia and many islands in the western Pacific, with particularly high species diversity in South-East Asia. Despite including the iconic mangrove snakes (Boiga dendrophila complex) and the brown tree snake (Boiga irregularis; infamous for avian extinctions on small islands of the Pacific), species-level phylogenetic relationships and the biogeographic history of this ecologically and morphologically distinct clade are poorly understood. In this study, we sequenced mitochondrial and nuclear DNA for 24 Boiga species and used these data to estimate a robust phylogenetic inference, in order to (1) test the hypothesis that Boiga is monophyletic, (2) evaluate the validity of current species-level taxonomy and (3) examine whether geographic range evolution in Boiga is consistent with expectations concerning dispersal and colonization of vertebrates between continents and islands. Our results support the prevailing view that most dispersal events are downstream – from continents to oceanic islands – but we also identify a role for upstream dispersal from oceanic islands to continents. Additionally, the novel phylogeny of Boiga presented here is informative for updating species-level taxonomy within the genus.


Paleobiology ◽  
1993 ◽  
Vol 19 (1) ◽  
pp. 1-27 ◽  
Author(s):  
J. David Archibald

During the latest Cretaceous and the Paleocene in western North America, disappearance rates for mammalian genera track appearance rates, both reaching their peak in the early Paleocene (Puercan) following the extinction of non-avian dinosaurs. Some of the disappearances during this time were pseudoextinctions that resulted when ancestral species disappeared during speciation.Species-level cladistic analyses and a well-constrained biostratigraphic framework are required to study this form of pseudoextinction. Cladistic analyses show that monophyly cannot be established or rejected for some species because these species lack autapomorphies (uniquely derived character states) that unite their constituent members. Such taxa, termed metaspecies, are potential ancestors to species and higher clades with which they share a node in the cladogram.A hypothetical species-level cladistic analysis coupled with three different hypothetical biostratigraphies shows how different models of speciation (bifurcation, budding, or anagenesis) result in very different patterns of true versus pseudoextinction. Depending on the speciation model, true extinction can be overestimated by as much as a factor of four, raising the specter of mass extinction. Species-level studies for three early Tertiary mammalian taxa—taeniodont eutherians, taeniolabidid multituberculates, and periptychid ungulates—use the same procedures. They show that almost 25% of disappearances during the early Paleocene (Puercan) for species in the analysis were pseudoextinctions of metaspecies. Budding and anagenetic-like peripatric speciation, but not bifurcation, are seen in the three examples.Equating disappearance to true extinction can profoundly affect interpretations of faunal turnover, especially during mass extinctions or major faunal reorganizations. Some authors use pseudoextinction to describe the taxonomic rather than evolutionary disappearance of nonmonophyletic groups. Pseudoextinction, as used here refers only to the evolutionary disappearance of metaspecies via speciation. Both usages seem appropriate but should not be confounded.


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