Taxonomic Evaluations Research Articles

Gender Determination by PCR Assay for The Sex-Determining Region Y(SRY) Gene Amplification in Linnaeus’s Two-Toed Sloth (Choloepus Didactylus)

In Linnaeus’s two-toed sloths (Choloepus didactylus), there is no distinct sexual dimorphism. It is an obstacle for gender determination from the external genitalia, especially in newborns or young sloths. Hence, easy, rapid, and reliable genetics-based methods for gender identification of the sloths are needed to continue captive breeding more successfully. In this study, a PCR-based technique that allows gender determination of two-toed sloths by using a sex-determining region Y (SRY) gene marker was described. The hair samples from young (suspect gender) and adult sloths (known gender) were used in genetic analysis. Initially, genomic DNA was isolated from hair root samples using Roche high pure PCR template preparation kit. The SRY primers were specifically designed based on the NCBI and Ensembl databases, and they were verified with the BLAST program concerning the two-toed sloth genome. PCR amplification with the SRY-specific primers was carried out by a programmable thermal cycler device using FastStart High Fidelity PCR System, Roche dNTPack. The samples were then electrophoresed on 2% agarose gels and were visualized by a gel documentation and analysis system. A specific band in the electrophoresis pattern is diagnostic for a male individual with a partial SRY region. Hence, the analysis demonstrated that the samples belonged to a male two-toed sloth. Two-toed sloth species are commonly preferred animals in zoos. Gender determination is inevitable for these animals in captivity to be raised successfully and healthily. Molecular genetic techniques allow high efficiency in taxonomic evaluations and gender identification in species that do not display sexual dimorphism. The PCR assay described here may be helpful for a rapid genetic analysis that can be widely used in gender determination for two-toed sloths.

Unexplored diversity and ecological functions of transposable phages.

Phages are prevalent in diverse environments and play major ecological roles attributed to their tremendous diversity and abundance. Among these viruses, transposable phages (TBPs) are exceptional in terms of their unique lifestyle, especially their replicative transposition. Although several TBPs have been isolated and the life cycle of the representative phage Mu has been extensively studied, the diversity distribution and ecological functions of TBPs on the global scale remain unknown. Here, by mining TBPs from enormous microbial genomes and viromes, we established a TBP genome dataset (TBPGD), that expands the number of accessible TBP genomes 384-fold. TBPs are prevalent in diverse biomes and show great genetic diversity. Based on taxonomic evaluations, we propose the categorization of TBPs into four viral groups, including 11 candidate subfamilies. TBPs infect multiple bacterial phyla, and seem to infect a wider range of hosts than non-TBPs. Diverse auxiliary metabolic genes (AMGs) are identified in the TBP genomes, and genes related to glycoside hydrolases and pyrimidine deoxyribonucleotide biosynthesis are highly enriched. Finally, the influences of TBPs on their hosts are experimentally examined by using the marine bacterium Shewanella psychrophila WP2 and its infecting transposable phage SP2. Collectively, our findings greatly expand the genetic diversity of TBPs, and comprehensively reveal their potential influences in various ecosystems.

Description of Acheronauta gen. nov., a possible mandibulate from the Silurian Waukesha Lagerstätte, Wisconsin, USA

The Silurian Waukesha Lagerstätte of Wisconsin, USA, hosts a fauna of distinctive soft-bodied organisms, including a range of graptolites, worms, trilobites and uncommon arthropods, but otherwise lacks most of the shelly fauna typical of contemporaneous deposits. While several species have been described, much of the Waukesha biota remains understudied. Here, we examine numerous specimens of a previously unnamed and undescribed vermiform arthropod that bears a cephalic carapace, a suite of specialized head appendages, a long, segmented trunk, and a battery of small swimming appendages. The taxonomic and phylogenetic evaluations presented herein establish this taxon as a novel genus and species, Acheronauta stimulapis gen. et sp. nov., plausibly positioned within the basal mandibulates. Our phylogenetic analyses suggest that a new arthropod clade may be warranted, comprising Acheronauta gen. nov., Captopodus, and the thylacocephalans. https://zoobank.org/urn:lsid:zoobank.org:pub:B572831B-1A8A-4E4E-9258-34D91AA22A74nk

CONTRIBUTIONS TO THE BLACK FLY FAUNA (DIPTERA, SIMULIIDAE) OF TURKEY WITH A NEW RECORD FROM THE WESTERN BLACK SEA REGION

Despite Anatolia's rich biodiversity potential, the blackfly fauna of Turkey has not been fully explored. 15 blackfly species from 73 different lotic habitats from the Western Black Sea Region have been reported. One species, Simulium (Nevermannia) carthusiense Grenier & Dorier, 1959 is new for the Turkish fauna. 10 species have been recorded from this region for the first time. The material was mainly collected in the spring from 2016 to 2018. Distributional remarks both in Turkey and world are given along with brief taxonomic evaluations for each species.

The Hesperornithiformes: A Review of the Diversity, Distribution, and Ecology of the Earliest Diving Birds

The Hesperornithiformes (sometimes referred to as Hesperornithes) are the first known birds to have adapted to a fully aquatic lifestyle, appearing in the fossil record as flightless, foot-propelled divers in the early Late Cretaceous. Their known fossil record—broadly distributed across the Northern Hemisphere—shows a relatively rapid diversification into a wide range of body sizes and degrees of adaptation to the water, from the small Enaliornis and Pasquiaornis with lesser degrees of diving specialization to the large Hesperornis with extreme morphological specializations. Paleontologists have been studying these birds for over 150 years, dating back to the “Bone Wars” between Marsh and Cope, and as such have a long history of naming, and renaming, taxa. More recent work has focused to varying degrees on the evolutionary relationships, functional morphology, and histology of the group, but there are many opportunities remaining for better understanding these birds. Broad-scale taxonomic evaluations of the more than 20 known species, additional histological work, and the incorporation of digital visualization tools such as computed tomography scans can all add significantly to our understanding of these birds.

Seeking surrogates for taxonomic and functional evaluations of leaf-litter ant faunas

Comprehensive biodiversity inventories are expensive and time-consuming to achieve, especially for groups of megadiverse organisms. One approach to resolve such situations is to utilize biological substitutes, referred to as surrogates. A surrogate should provide meaningful information at a lower cost and/or effort than the original level of resolution. Studies have shown that species richness is often not the best or most appropriate component or predictor of biodiversity. Functional diversity can be used as a measurement of the ecological differentiation between habitats or between biological functions. We evaluated the use of several taxonomic metrics as potential surrogates for leaf-litter ant assemblages distributed in 65 Atlantic rainforest sites. Our goal was to find reliable and economic substitutes for both taxonomic and functional leaf-litter ant diversity and composition. We tested four potential surrogate approaches for taxonomic metrics and three for functional group metrics. Additionally, we also evaluated the time and costs involved. We used a large leaf-litter ant database that comprises 364 ant species, respectively classified into 13 or 26 ant functional groups based on either a general and specific resolution. Subfamily was found to be an unacceptable surrogate for both taxonomic and functional group metrics. Mixed-level and indicator taxa metrics were rated as ‘excellent’ taxonomic surrogates. Mixed-level and genus metrics were rated as ‘excellent’ or ‘acceptable’ functional group surrogates when considering the most general functional resolution, while mixed-level and genus were considered as ‘excellent’ surrogates when considering the more specific resolution. The monetary and time costs to identify ants to genus level were lower than those using indicator taxa and mixed-level metrics. The use of a certain higher taxon functional and taxonomic surrogates allows a reduction of survey and analysis costs while still enabling the analysis of biological diversity from the taxonomic and functional point of view.

Taxonomic evaluations on the anatomical characters of leaf and achene in Turkish Tripleurospermum with its relative Matricaria (Asteraceae)

Tripleurospermum is a typically Mediterranean genus with ca. 40 species. It is widespread and diverse in Turkey with ca. 32 taxa, of which 12 are provided anatomical traits of both leaf and achene/cypsela, previously. In addition, the leaf anatomy of endemic T. baytopianum as well as the achene anatomy of endemic T. rosellum var. album with diploid cytotype are presented from Turkey. In this study, the anatomy of both leaf and achene of 15 taxa as well as achene anatomy of T. baytopianum and T. rosellum var. album with tetraploid cytotype were described in detail from Turkey. The leaf and achene anatomical characteristics of Turkish Tripleurospermum and its closely related genus Matricaria using multivariate analyses (cluster analysis, principal components analysis) were evaluated in taxonomic context. Additional data of further species of Tripleurospermum as well as Matricaria (four taxa) were taken from the literature for multivariate analyses. All studied taxa have the basic leaf structure with lower and upper epidermis including anomocytic stomata, parenchymatic mesophyll, and vascular bundle. The pericarp is composed of several layers of parenchymatous and sclerenchymatous cells with one vascular bundle in each rib. The thickness of palisade sclerenchyma in the pericarp, the vascular bundle length in the midrib of the leaf, and presence or absence of a slime envelope have high taxonomic value at interspecific/intergeneric levels.

Four new species of Pristimantis Jiménez de la Espada, 1870 (Anura: Craugastoridae) in the eastern Amazon.

The Pristimantis genus (Anura: Craugastoridae) is the most diverse among all vertebrates with 531 described species. The highest diversity occurs in Ecuador (215 species), followed by Colombia (202), Peru (139), Venezuela (60), Brazil (30), Bolivia (17), Guyana (6) Suriname and French Guiana (5). The genus is divided into 11 species groups. Of these, the P. conspicillatus group (containing 34 species), distributed in extreme southeastern Costa Rica, Isla Taboga (Panama), northern South America (from Colombia to eastern Guyana), south Bolivia, and is the best represented in Brazil (16 species). The main characteristics of this group are the tympanic membrane and tympanic annulus distinct (except in P. johannesdei); dorsum smooth or shagreen; dorsal lateral fold present or absent; usually smooth belly, but may be weakly granular in some species; toe V slightly larger than the toe III. Most of the taxonomic inconsistencies in species of Pristimantis could be due to its much conserved morphology and the lack of comprehensive taxonomic evaluations. Thus, an ongoing challenge for taxonomists dealing with the Pristimantis genus is the ubiquitous abundance of cryptic species. In this context, accurate species delimitation should integrate evidences of morphological, molecular, bioacoustics and ecological data, among others. Based on an integrative taxonomy perspective, we utilize morphological, molecular (mtDNA) and bioacoustic evidence to describe four new species of the Pristimantis conspicillatus group from the eastern Amazon basin. Pristimantis giorgii sp. nov. is known from the Xingu/Tocantins interfluve and can be distinguished from the other Pristimantis species of the region by presenting discoidal fold, dorsolateral fold absent, vocalization composed of three to four notes and genetic distance of 7.7% (16S) and 14.8% (COI) from P. latro, the sister and sympatric species with respect P. giorgii sp. nov.. Pristimantis pictus sp. nov. is known to the northern Mato Grosso state, Brazil, and can be distinguished from the other species of Pristimantis by presenting the posterior surface of the thigh with light yellow patches on a brown background, also extending to the inguinal region, vocalization consisting of four to five notes and a genetic distance of 11.6% (16S) and 19.7% (COI) from P. pluvian sp. nov., which occurs in sympatry. Pristimantis pluvian sp. nov. is known to the northern Mato Grosso state, Brazil, and may be distinguished from the other Pristimantis species by having a posterior surface of the thigh reddish and vocalization composed of two notes. Pristimantis moa sp. nov. is known to the northern Tocantins state and southwestern Maranhão state. This species can be distinguished from the other Pristimantis species by possessing slightly perceptible canthal stripe, external thigh surface with dark yellow spots on brown background, vocalization consisting of three to five notes and genetic distance of 2.3-11.7 (16S) and 10.5-23.1 (COI) for the new Pristimantis species of this study.

Microsatellite Borders and Micro-sequence Conservation in Juglans

Walnuts (Juglans spp.) are economically important nut and timber species with a worldwide distribution. Using the published Persian walnut genome as a reference for the assembly of short reads from six Juglans species and several interspecific hybrids, we identified simple sequence repeats in 12 Juglans nuclear and organellar genomes. The genome-wide distribution and polymorphisms of nuclear and organellar microsatellites (SSRs) for most Juglans genomes have not been previously studied. We compared the frequency of nuclear SSR motifs and their lengths across Juglans, and identified section-specific chloroplast SSR motifs. Primer pairs were designed for more than 60,000 SSR-containing sequences based on alignment against assembled scaffold sequences. Of the >60,000 loci, 39,000 were validated by e-PCR using unique primer pairs. We identified primers containing 100% sequence identity in multiple species. Across species, sequence identity in the SSR-flanking regions was generally low. Although SSRs are common and highly dispersed in the genome, their flanking sequences are conserved at about 90 to 95% identity within Juglans and within species. In a few rare cases, flanking sequences are identical across species of Juglans. This comprehensive report of nuclear and organellar SSRs in Juglans and the generation of validated SSR primers will be a useful resource for future genetic analyses, walnut breeding programs, high-level taxonomic evaluations, and genomic studies in Juglandaceae.

Agroecological coffee management increases arbuscular mycorrhizal fungi diversity.

Agroecology aims to maintain ecosystem services by minimizing the impact of agriculture and promoting the use of biological potential. Arbuscular mycorrhizal fungi (AMF) are elements which are key to improving crop productivity and soil quality. It is pertinent to understand how agricultural management in the tropics affects the AMF spatio-temporal community composition, especially in crops of global importance, such as coffee (Coffea arabica L.). Soil and root samples were collected from three localities under three management systems (agroecological, conventional and forest fragment), during the phenological stages of coffee (flowering, grain filling, harvesting). Spores were extracted for morphological identification and molecular community analysis by PCR–DGGE. Dendrograms were prepared and the bands were sequenced and analyzed by bioinformatics. No differences were observed in the richness of morphospecies between management systems, localities and period, but little is known about tropical species. Molecular analysis showed that the agroecological management system was similar to natural forest and with a higher diversity indices than conventional management. Locality and period of sample affect AMF community composition. It is necessary to associate classical taxonomic evaluations with molecular biological techniques because different approaches can lead to different outcomes. This study contributes to the understanding of the impact of agriculture management systems on AMF and provides evidence that agroecology is a management system applicable to sustainable coffee production.

The genus Podaxis in arid regions of Mexico: preliminary ITS phylogeny and ethnomycological use

Identification of Podaxis species to species-level based on morphology alone is problematic. Thus, species of the genus Podaxis are in dire need of taxonomic and phylogenetic evaluations using molecular data to develop a consensus between morphological taxonomy and more robust molecular analyses. In Mexico, most of the collected specimens of Podaxis have been morphologically identified as Podaxis pistillarissensu lato and are locally used for its culinary value. In this study, the internal transcribed spacer region of Podaxis specimens from the MEXU fungarium collected between 1948 and 2014 from arid regions of Mexico were sequenced and these collections placed into a molecular phylogenetic framework using Maximum Likelihood analysis. In addition, the ethnomycological use of Podaxis in Mexico (utility, traditional handling, economic importance, etc.) is described by observations, interviews, and sampling of Podaxis species with local people from three areas of the region of the Cañada of Oaxaca, which belongs to the Tehuacán-Cuicatlán Biosphere Reserve. These results indicate that the Mexican Podaxis were divided into two clades. Specimens collected in the northern region showed phylogenetic affinities to clade D, while specimens from the south of Mexico clustered within clade E. Morphological data, such as spore length and width, showed significant differences between the two phylogenetic clades, implying that these clades represent different species. None of the Mexican specimens were found in association with termite mounds, which might indicate an adaptation to desert-like regions. This study provides the first ethnomycological use of Podaxis from Mexico.

Conservation challenges regarding species status assessments in biogeographically complex regions: examples from overexploited reptiles of Indonesia

AbstractIUCN Red List assessments are important for conservation and management initiatives. However, status assessments are often challenging because of poor sampling between biogeographical regions. Researchers sometimes assess poorly known species, which can have unforeseen ramifications, including the trade of rare and cryptic species under common species names. Here, we address this issue in relation to economically important reptile species in Indonesia. We reviewed examples of single species categorized as Least Concern for which the assessments probably encompassed multiple closely related species. We also examined Red List assessments that utilized species distribution modelling techniques, and identified biogeography as a major barrier to using such methods. To test how biogeography may affect status assessments we used our own model lizard system from Indonesia, taking an integrative phylogeographical approach to quantify status assessments under contrasting scenarios. We show that failure to account for biogeographical breaks leads to significant variation in Red List status. Our model system fluctuates from Least Concern to Endangered, depending upon whether biogeographical boundaries are considered in taxonomic evaluations. We identify Sauria (lizards) and Serpentes (snakes) as major lineages requiring taxonomic and conservation attention in Indonesia. We also make the following recommendations: (1) Indonesia's trade quotas should further subdivide management zones to account for gaps in taxonomic evaluations; (2) genetic sampling should be considered a high priority during wildlife exportation processes from poorly studied geographical areas; and (3) continuation of thorough biological inventory is critical for conservation initiatives across heterogeneous mountain and island landscapes.

Geographical Variation ofRhinolophus affinis(Chiroptera: Rhinolophidae) in the Sundaic Subregion of Southeast Asia, including the Malay Peninsula, Borneo and Sumatra

Rhinolophus affinis sensu lato is a widespread bat species in South and Southeast Asia which shows considerable geographical variation in its morphology, echolocation call frequencies and genetics. The taxonomic status of the taxon in the Sundaic subregion remains uncertain however as the limited studies to date have been largely based on morphology. The aim of the present study was to determine the taxonomic status of subspecific forms recognized in the subregion and to evaluate phylogeographic distinctiveness between those occurring in Borneo and the Malay Peninsula using genetic, morphological and acoustic datasets. Two forms were confirmed: R. a. nesites from Borneo and R. a. superans from the peninsula. The previous recognition of a population from southernmost Sumatra as R. a. superans was not supported, however, as this form is likely R. a. affinis. Genetic divergence between these three forms is rather deep and is estimated to have occurred during the arid climatic period of the Pleistocene when suitable habitats were reduced to isolated pockets. Our results support the phylogeographic distinctiveness hypothesis as R. affinis sensu lato shows discrete affinities between Borneo and the Malay Peninsula. Discovery of new forms of R. affinis is likely with greater sampling effort throughout the region. Our study also demonstrates the importance of employing multiple datasets in taxonomic evaluations, as the use of morphological and/or acoustic datasets alone could lead to erroneous conclusions.

Dinoflagellate taxonomy — a review and proposal of a revised classification

The knowledge about morphology-based taxonomy and classification as well as molecular phylogenetic hypotheses and character evolution of dinokaryotic dinoflagellates was summarized. Recommendations for future taxonomic work and character evaluations were given. A classification scheme based on nameless ranked systematics for dinoflagellate levels above genus was proposed. Higher ranks were based on the relative number of alveolae (Polyalveolate and Oligoalveolate) and their arrangement. Polyalveolate had alveolae arranged in series or not. Oligoalveolate had alveolae arranged in different tabulation patterns (Symmetricomorpha, Asymmetricomorpha, Sagittale). A group of taxa with unclear tabulation type (in-between peridinioid and gonyaulacoid) was separated and named Mesomorpha. A higher rank for taxa with a sagittal suture splitting only the hyposome in two lateral halves (extra tabulation pattern) was created, Pre-sagittale. The classification intended to highlight the unresolved relationships of higher ranks. Furthermore, the difficulties to define characters suitable for general higher rank circumscription should become visible. The study pinpointed what needs to be done to improve the current dinoflagellate taxonomy.

Redescription of Namalycastis glasbyi Fernando & Rajasekaran, 2007 (Annelida, Nereididae, Namanereidinae) from India

Namalycastis glasbyi Fernando & Rajasekaran, 2007 was originally described from the creek-lined coast north of Mumbai in western India. However, the original description includes some oddities that make species recognition problematic and may confuse future taxonomic evaluations of the genus. Moreover, the type material of the species has been lost and, therefore, this species is herein redescribed, a neotype is assigned, and the distinguishing morphological features are clearly illustrated. The species shares some features with two other Indian species: Namalycastis indica Southern, 1921 and the N. abiuma Müller in Grube, 1871 species group. However, N. glasbyi differs from N. indica in having comparatively smaller antennae, shorter posterior dorsal cirri, a higher count of notochaetae (maximum of three) in the mid and anterior body, and finely serrated blades in sub- and supra-neuroacicular falcigers in the anterior and mid-body. Further, sub-neuroacicular spinigers have finely serrated blades in all parapodia in N. glasbyi, as opposed to the coarsely serrated spinigers from antero-mid body parapodia of N. indica. Moreover, N. glasbyi differs from the N. abiuma species group in lacking coarsely serrated sub-neuroacicular spinigers in the parapodia of mid and posterior parts of the body and in possessing a tripartite pygidium. In addition to these morphological differences, the mitochondrial COI sequence (DNA barcode) of the neotype of Namalycastis glasbyi clearly distinguishes it from other Indian species.

Postnatal temporal bone ontogeny in Pan, Gorilla, and Homo, and the implications for temporal bone ontogeny in Australopithecus afarensis

Assessments of temporal bone morphology have played an important role in taxonomic and phylogenetic evaluations of fossil taxa, and recent three-dimensional analyses of this region have supported the utility of the temporal bone for testing taxonomic and phylogenetic hypotheses. But while clinical analyses have examined aspects of temporal bone ontogeny in humans, the ontogeny of the temporal bone in non-human taxa is less well documented. This study examines ontogenetic allometry of the temporal bone in order to address several research questions related to the pattern and trajectory of temporal bone shape change during ontogeny in the African apes and humans. We further apply these data to a preliminary analysis of temporal bone ontogeny in Australopithecus afarensis. Three-dimensional landmarks were digitized on an ontogenetic series of specimens of Homo sapiens, Pan troglodytes, Pan paniscus, and Gorilla gorilla. Data were analyzed using geometric morphometric methods, and shape changes throughout ontogeny in relation to size were compared. Results of these analyses indicate that, despite broadly similar patterns, African apes and humans show marked differences in development of the mandibular fossa and tympanic portions of the temporal bone. These findings indicate divergent, rather than parallel, postnatal ontogenetic allometric trajectories for temporal bone shape in these taxa. The pattern of temporal bone shape change with size exhibited by A. afarensis showed some affinities to that of humans, but was most similar to extant African apes, particularly Gorilla.

Taxonomic status of southern South AmericanConepatus(Carnivora: Mephitidae)

Despite recent taxonomic evaluations of Mephitidae and North American hog-nosed skunks, southern South American species of Conepatus have not been thoroughly examined in a systematic context. Conepatus chinga and Conepatus humboldtii were described more than 150 years ago, based on external characters such as hair coloration and size. Although historically recognized as valid species, to date no detailed systematic analysis has been performed for either of these taxa. Herein, we evaluated the taxonomic status of C. chinga and C. humboldtii within the southern part of South America using geometric morphometrics of the skull and mandible, mitochondrial DNA analysis using the cytochrome b and cytochrome oxidase c subunit I genes, and also control region and pelage pattern variation. We failed to find morphological (skull shape and pelage coloration patterns) or molecular differences between these two species; thus, we considered that the specimens assigned to C. chinga and C. humboldtii belong to the same species. Our results indicate that environmental variation seems to be responsible for shape and size variation in Conepatus skulls from southern South America. © 2013 The Linnean Society of London

Bats Worldwide Carry Hepatitis E Virus-Related Viruses That Form a Putative Novel Genus within the Family Hepeviridae

Hepatitis E virus (HEV) is one of the most common causes of acute hepatitis in tropical and temperate climates. Tropical genotypes 1 and 2 are associated with food-borne and waterborne transmission. Zoonotic reservoirs (mainly pigs, wild boar, and deer) are considered for genotypes 3 and 4, which exist in temperate climates. In view of the association of several zoonotic viruses with bats, we analyzed 3,869 bat specimens from 85 different species and from five continents for hepevirus RNA. HEVs were detected in African, Central American, and European bats, forming a novel phylogenetic clade in the family Hepeviridae. Bat hepeviruses were highly diversified and comparable to human HEV in sequence variation. No evidence for the transmission of bat hepeviruses to humans was found in over 90,000 human blood donations and individual patient sera. Full-genome analysis of one representative virus confirmed formal classification within the family Hepeviridae. Sequence- and distance-based taxonomic evaluations suggested that bat hepeviruses constitute a distinct genus within the family Hepeviridae and that at least three other genera comprising human, rodent, and avian hepeviruses can be designated. This may imply that hepeviruses invaded mammalian hosts nonrecently and underwent speciation according to their host restrictions. Human HEV-related viruses in farmed and peridomestic animals might represent secondary acquisitions of human viruses, rather than animal precursors causally involved in the evolution of human HEV.

Phylogeny of Philippine slender skinks (Scincidae: Brachymeles) reveals underestimated species diversity, complex biogeographical relationships, and cryptic patterns of lineage diversification

The spectacular, virtually endemic radiation of Philippine semi-fossorial skinks of the genus Brachymeles represent one of the few radiations of scincid lizards to possess both fully limbed and limbless species. And yet, nothing is known of the phylogenetic relationships of this exceptional group. Morphologically similar body plans have made it difficult to assess species-level diversity, and the genus has long been recognized as one of the more modest radiations of southeast Asian lizards. However, recent large-scale survey efforts have resulted in the discovery of numerous new species, and taxonomic studies indicate that the diversity within the genus Brachymeles is grossly underestimated. In this study we provide the first robust estimate of phylogenetic relationships within the genus Brachymeles using a multi-locus dataset and nearly complete taxonomic sampling. We provide statistical tests of monophyly for all polytypic species and two widespread limb-reduced species and our results indicate wholesale deviations from past summaries and taxonomic evaluations of the genus. With few exceptions, we are able to reject the monophyly of all polytypic and widespread species, thereby validating the need for large-scale taxonomic revisions. Our results reveal that the limbless, monotypic, genus Davewakeum is nested within Brachymeles. Mapping of body form on our preferred phylogenetic tree suggests that limb-reduction and digit loss has occurred on multiple occasions in the history of the genus. A Bayesian reconstruction of ancestral areas indicates strong statistical support for a minimum of five major dispersal events that have given rise to a major component of the observed species diversity on separate Pleistocene aggregate island platforms of the archipelago.

High diversity of frenulates (Polychaeta: Siboglinidae) in the Gulf of Cadiz mud volcanoes: A DNA taxonomy analysis

Frenulates are the most poorly known members of the family Siboglinidae (Polychaeta: Canalipalpata). These thread-like worms occur in reducing marine sediments worldwide, but they are often overlooked in benthic samples or too poorly preserved for adequate taxonomic evaluations. We report on a remarkable diversity of frenulates that were recently sampled from 13 mud volcanoes (350–3902 m deep) in the Gulf of Cadiz, off southern Iberia. Sampled with benthic coring devices, the bodies of these long tubiculous worms were often broken or incomplete, making them difficult to identify morphologically. Consequently, we employed DNA taxonomic methods to assess their diversity. Mitochondrial cytochrome- c-oxidase subunit 1 ( COI) sequences distinguished 15 evolutionary lineages inhabiting the Gulf of Cadiz. Only four of the lineages could be assigned to currently recognized Atlantic species; the remaining 11 may be new to science. This remarkable diversity of frenulates in a small geographical region is unprecedented and is hypothesized to result from environmental heterogeneity associated with the bathymetric and geochemical settings of these mud volcanoes.