Comparative ultrastructure and ornamentation characteristics of scales in gobiid species (Teleostei: Gobiidae) using the scanning electron microscope.

To study scale based phylogenetic affinity, the ultrastructure and ornamentation characteristics of body key scales were studied for 12 gobiid species from the Iranian coast of the Persian Gulf including Qeshm and Hormuz Islands and the Makran coast of the Oman Sea using scanning electron microscopy (SEM) technique. The scales were removed from below the first dorsal fin, cleaned in potassium hydroxide solution 1%, and were prepared for the SEM imaging. The presence of both ctenoid and cycloid scales in the studied gobiids was revealed. The focus of ctenoid scales was positioned posteriorly, while the focus of cycloid scales was positioned in the postero-central part of the scale. In all the studied species, radii were located only on the anterior part of the scale, and the primary radii were dominant. Also, there were no granules in the inter circular space, but bifurcation was observed in some circuli. In most species, the teeth-like structures called lepidonts were present on the crest of circuli, which functionally help to firmly attach the scales to the epithelium. The dendrogram of the between-groups-linkage method sorted the gobiid species into the two main groups of five distinct clusters: (a) Cryptocentroides arabicus and Cryptocentrus cyanotaenia (the Cryptocentrus-lineage); (b) Bathygobius meggitti and Bathygobius cocosensis (the Glossogobius-lineage); (c) Coryogalops adamsoni and Coryogalops tessellatus (the Gobius-lineage); (d) Acentrogobius dayi, Istigobius ornatus, Favonigobius reichei, Aulopareia ocellata, and Silhouettea ghazalae (the Gobiopsis-lineage). It seems that the dendrogram topology obtained based on the macro-and microscopic structures of scales, reveals phylogenetic lineages of gobies that have already been proposed for these taxa. Hence, the results of this study are largely consistent with the previous molecular studies on the gobiid fishes and implied that besides other data, the analysis of scale shape and scale-surface microstructures could be served to study the diversification of gobiid species.

Viral metagenomic analysis of fecal samples reveals an enteric virome signature in irritable bowel syndrome.

BACKGROUND: Changes in the enteric microbiota have been suggested to contribute to gastrointestinal diseases, including irritable bowel syndrome. Most of the published work is on bacterial dysbiosis with meager data on the role of the virome in irritable bowel syndrome and other gastrointestinal diseases. In the current study, we therefore aimed to investigate the viral community composition of the gut and test for potential dysbiosis linked to irritable bowel syndrome. RESULTS: A metagenomics analysis on fecal samples of 50 individuals - 30 of whom met the Rome IV criteria for IBS and 20 healthy controls- was conducted. There was a noticeable alteration in viral taxa observed in association with irritable bowel syndrome when compared to healthy individuals - where some eukaryotic viral taxa noticeably prevail over others. We observed a significant decrease in the diversity and abundance of enteric virome particularly in eukaryotic viruses of Megavirales in patients with irritable bowel syndrome. CONCLUSIONS: These findings shed light on a new hypothesis that the alteration of the viral taxa contributes to the pathogenesis of irritable bowel syndrome and related symptoms, and therefore, pave the way for developing a new diagnostic biomarker or anti-viral drugs for the treatment of irritable bowel syndrome.

Shedding Light on a Secretive Tertiary urodelean Relict: Hynobiid salamanders (Paradactylodon persicus s.l.) from Iran, Illuminated by Phylogeographic, Developmental and Transcriptomic Data.

The Hyrcanian Forests present a unique Tertiary relict ecosystem, covering the northern Elburz and Talysh Ranges (Iran, Azerbaijan), a poorly investigated, unique biodiversity hotspot with many cryptic species. Since the 1970s, two nominal species of Urodela, Hynobiidae, Batrachuperus (later: Paradactylodon) have been described: Paradactylodon persicus from northwestern and P. gorganensis from northeastern Iran. Although P. gorganensis has been involved in studies on phylogeny and development, there is little data on the phylogeography, systematics, and development of the genus throughout the Hyrcanian Forests; genome-wide resources have been entirely missing. Given the huge genome size of hynobiids, making whole genome sequencing hardly affordable, we aimed to publish the first transcriptomic resources for Paradactylodon from an embryo and a larva (9.17 Gb RNA sequences; assembled to 78,918 unigenes). We also listed 32 genes involved in vertebrate sexual development and sex determination. Photographic documentation of the development from egg sacs across several embryonal and larval stages until metamorphosis enabled, for the first time, comparison of the ontogeny with that of other hynobiids and new histological and transcriptomic insights into early gonads and timing of their differentiation. Transcriptomes from central Elburz, next-generation sequencing (NGS) libraries of archival DNA of topotypic P. persicus, and GenBank-sequences of eastern P. gorganensis allowed phylogenetic analysis with three mitochondrial genomes, supplemented by PCR-amplified mtDNA-fragments from 17 museum specimens, documenting <2% uncorrected intraspecific genetic distance. Our data suggest that these rare salamanders belong to a single species P. persicus s.l. Humankind has a great responsibility to protect this species and the unique biodiversity of the Hyrcanian Forest ecosystems.

Plio-Pleistocene diversification and biogeographic barriers in southern Australia reflected in the phylogeography of a widespread and common lizard species.

Palaeoclimatic events and biogeographical processes since the mid-Tertiary have played an important role in shaping the evolution and distribution of Australian fauna. However, their impacts on fauna in southern and arid zone regions of Australia are not well understood. Here we investigate the phylogeography of an Australian scincid lizard, Tiliqua rugosa, across southern Australia using mitochondrial DNA (mtDNA) and 11 nuclear DNA markers (nuDNA), including nine anonymous nuclear loci. Phylogenetic analyses revealed three major mtDNA lineages within T. rugosa, geographically localised north and south of the Murray River in southern Australia, and west of the Nullarbor Plain. Molecular variance and population analyses of both mtDNA and nuDNA haplotypes revealed significant variation among the three populations, although potential introgression of nuDNA markers was also detected for the Northern and Southern population. Coalescent times for major mtDNA lineages coincide with an aridification phase, which commenced after the early Pliocene and increased in intensity during the Late Pliocene-Pleistocene. Species distribution modelling and a phylogeographic diffusion model suggest that the range of T. rugosa may have contracted during the Last Glacial Maximum and the locations of optimal habitat appear to coincide with the geographic origin of several distinct mtDNA lineages. Overall, our analyses suggest that Plio-Pleistocene climatic changes and biogeographic barriers associated with the Nullarbor Plain and Murray River have played a key role in shaping the present-day distribution of genetic diversity in T. rugosa and many additional ground-dwelling animals distributed across southern Australia.

Embryonic and early development of the Zagros tooth-carp, Aphanius vladykovi (Actinopterygii: Cyprinodontidae).

The embryonic and early larval development of laboratory reared Zagros tooth-carp, Aphanius vladykovi Coad, 1988, are described and illustrated. Development and embryogenesis start with the external fertilization of sticky, transparent and spherical telolecithal/macrolecithal eggs with a mean diameter of 1.61± 0.12 mm and it continues with meroblastic/radial cleavage, blastulation/blastula formation, epibolic cell migration during gastrulation and organogenesis resulting in a newly hatched larvae of 5.23 ± 0.09 mm in length with attached yolk sac at about 164 hr (at 24 ± 1°C) after fertilization.

Minimizing the cost of translocation failure with decision-tree models that predict species' behavioral response in translocation sites.

The high number of failures is one reason why translocation is often not recommended. Considering how behavior changes during translocations may improve translocation success. To derive decision-tree models for species' translocation, we used data on the short-term responses of an endangered Australian skink in 5 simulated translocations with different release conditions. We used 4 different decision-tree algorithms (decision tree, decision-tree parallel, decision stump, and random forest) with 4 different criteria (gain ratio, information gain, gini index, and accuracy) to investigate how environmental and behavioral parameters may affect the success of a translocation. We assumed behavioral changes that increased dispersal away from a release site would reduce translocation success. The trees became more complex when we included all behavioral parameters as attributes, but these trees yielded more detailed information about why and how dispersal occurred. According to these complex trees, there were positive associations between some behavioral parameters, such as fight and dispersal, that showed there was a higher chance, for example, of dispersal among lizards that fought than among those that did not fight. Decision trees based on parameters related to release conditions were easier to understand and could be used by managers to make translocation decisions under different circumstances.

El alto índice de fracasos es una de las razones por la cual la reubicación no se recomienda frecuentemente. El considerar cómo cambia el comportamiento durante las reubicaciones puede incrementar las posibilidades de su éxito. Para derivar modelos de árboles de decisión para la reubicación de especies usamos datos sobre las respuestas a corto plazo de un escinco australiano en peligro de extinción dentro de cinco reubicaciones simuladas con diferentes condiciones de liberación. Usamos cuatro diferentes algoritmos de árboles de decisión (árbol de decisión, árbol de decisión paralelo, tocón de decisión y bosque al azar) con cuatro criterios diferentes (proporción de ganancia, ganancia de información, índice gini y certeza) para investigar cómo los parámetros ambientales y conductuales pueden afectar al éxito de la reubicación. Asumimos que los cambios conductuales que incrementaban la dispersión lejos de un sitio de liberación reducirían el éxito de la reubicación. Los árboles se volvieron cada vez más complejos cuando incluimos a todos los parámetros conductuales como atributos, pero estos árboles produjeron más información detallada sobre por qué y cómo ocurría la dispersión. De acuerdo a estos árboles complejos, hubo asociaciones positivas entre algunos parámetros conductuales, como el combate y la dispersión, que demostraron que hay una mayor posibilidad, por ejemplo, de dispersión entre las lagartijas que pelearon que entre aquellas que no lo hicieron. Los árboles de decisión con base en parámetros relacionados con condiciones de liberación fueron más fáciles de entender y podrían usarse por los manejadores para tomar decisiones de reubicación bajo circunstancias diferentes.

Short-term dispersal response of an endangered Australian lizard varies with time of year.

Dispersal is an important component in the demography of animal populations. Many animals show seasonal changes in their tendency to disperse, reflecting changes in resource availability, mating opportunities, or in population age structure at the time when new offspring enter the population. Understanding when and why dispersal occurs can be important for the management of endangered species. The pygmy bluetongue lizard is an endangered Australian species that occupies and defends single burrow refuges for extended periods of time, rarely moving far from the burrow entrance. However, previous pitfall trapping data have suggested movement of adult males in spring and of juveniles in autumn of each year. In the current study we compared behaviours of adult lizards each month, over the spring-summer activity period over two consecutive field seasons, to provide deeper understanding of the seasonal dispersal pattern. We released adult pygmy bluetongue lizards into a central area, provided with artificial burrows, within large enclosures, and monitored the behaviour and movements of the released lizards over a four day period. There was a consistent decline in time spent basking, amount of movement around burrow entrances, and rates of dispersal from the central release area from early spring to late summer. Results could be relevant to understanding and managing natural populations and for any translocation attempts of this endangered lizard species.

The ecological associations of surface-dwelling lizards in Qom Province in the Northwest of Central Plateau of Iran.

We used pitfall trapping to investigate the effects of elevation, plant density and soil structure on species diversity and the impact of these habitat factors on lizard habitat selectivity in the Qom Province in the Central Plateau of Iran. From a total of 12 1-ha plots, we captured 363 individuals of 15 species of lizards (six species of Lacertidae, five species of Agamidae, two species of Gekkonidae, one species of Varanidae and one species of Scincidae). A generalized linear model (GLM) determined that elevation was the most important factor impacting species diversity. The highest species diversity was at the intermediate elevation (1289 m). Abundance of 6 out of 15 species showed strong relationships with some habitat factors. These relationships were demonstrated by habitat selectivity index (Ivlev's index). Our result supports other surveys that showed that elevation plays an important role in determining lizard species diversity.