Phylogeographic Relationships among Bombyx mandarina (Lepidoptera: Bombycidae) Populations and Their Relationships to B. mori Inferred from Mitochondrial Genomes

We report 37 mitochondrial genome (mitogenome) sequences of Bombyx mori strains (Lepidoptera: Bombycidae) and four of B. mandarina individuals, each preserved and collected, respectively, in South Korea. These mitogenome sequences combined with 45 public data showed a substantial genetic reduction in B. mori strains compared to the presumed ancestor B. mandarina, with the highest diversity detected in the Chinese origin B. mori. Chinese B. mandarina were divided into northern and southern groups, concordant to the Qinling–Huaihe line, and the northern group was placed as an immediate progenitor of monophyletic B. mori strains in phylogenetic analyses, as has previously been detected. However, one individual that was in close proximity to the south Qinling–Huaihe line was exceptional, belonging to the northern group. The enigmatic South Korean population of B. mandarina, which has often been regarded as a closer genetic group to Japan, was most similar to the northern Chinese group, evidencing substantial gene flow between the two regions. Although a substantial genetic divergence is present between B. mandarina in southern China and Japan, a highly supported sister relationship between the two regional populations may suggest the potential origin of Japanese B. mandarina from southern China instead of the Korean peninsula.

Acanthosaura meridiona sp. nov. (Squamata: Agamidae), a new short-horned lizard from southern Thailand

A new short – horned lizard species of the genus Acanthosaura from southern Thailand, is described herein. The species was previously recognised as Acanthosaura crucigera and has been reported to present a wide distribution across mainland south-east Asia. The combination of modern morphological studies of Acanthosaura meridiona sp. nov. allows its separation from closely related species A. crucigera, on the basis of presenting more nuchal scales, more scales between diastema, more scales bordering rostral scales and more midline ventral scales. Mitochondrial DNA analysis also indicated a sister relationship between A. meridiona sp. nov. and A. crucigera with a 100 % probability according to Bayesian and maximum – likelihood analyses. The pairwise distance between A. meridiona sp. nov. and A. crucigera ranges from 9.9 – 11.1 %, while the distance between A. meridiona populations ranges from 0 – 0.9 %. This new discovery contributes to the redescription of the distribution of A. crucigera under Kra Isthmus and its replacement by A. meridiona sp. nov.

Dothidea kunmingensis, a novel asexual species of Dothideaceae on Jasminum nudiflorum (winter jasmine) from Southwestern China

During a survey of saprobic microfungi in Southwest China, a coelomycetous fungus was found on dead twigs of Jasminum nudiflorum in Kunming, Yunnan Province. Based on a detailed morphological characterization coupled with multi-locus phylogenetic analyses, the fungus was identified as a new species in the genus Dothidea. Phylogenetic analyses using a combined matrix consisting of internal transcribed spacer (ITS), large subunit rRNA (LSU), small subunit rRNA (SSU), beta tubulin (tub2) and translation elongation factor-1 alpha (tef1-α) confirmed its placement in Dothideaceae and revealed a sister relationship to Dothidea eucalypti. The new species is characterized by pycnidial conidiomata, ampulliform or doliiform conidiogenous cells as well as aseptate, subglobose to ovoid, hyaline to pale-brown conidia. Comprehensive descriptions and illustrations are provided. Morphological characteristics of asexual morph taxa in Dothideaceae are also summarized and discussed.

Molecular evidence for the cladistic classification of euptyctimous moss mites (Acari, Oribatida, Euptyctima)

The cladistic classification of Phthiracaroidea (Niedbała 1986) and Euphthiracaroidea (Mahunka 1990) (Acari, Oribatida), based on morphological symplesio- and synapomorphic characters has been subjected to verification by molecular analysis of mitochondrial COI and nuclear ITS2, 18S and 28S DNA regions. Twenty-one selected species from representative genera of both superfamilies were analyzed. The phylogenetic trees generated by maximum likelihood method confirm the classification of ptyctimous mites resulting from the analysis of morphological characters. Mesoplophoridae, representing the supercohorts Enarthronota, were placed separately to the clade Mixonomata containing Phthiracaroidea and Euphthiracaroidea that are in a sister relationship. The percentage of genetic divergence between the main clades is high in three markers (COI, ITS2 and 28S), it ranges from 36.8% to 38.7% in the barcode marker COI from 26.0% to 35.4% in ITS2 and from 16.2% to 30.0% in 28S, while in 18S it is very low (1.1% - 3.3%). In the Phthiracaroidea, two sister clades Steganacaridae and Phthiracaridae are distinguished. Steganacaridae include three clades Atropacarus, Hoplophthiracarus and Steganacarus with Steganacarus and Tropacarus as the sister clades. Closely related S. (T.) carinatus and S. (T.) pulcherrimus are separate species. Within the Euphthiracaroidea, the four clades: Mesotritia, Microtritia, Acrotritia and Euphthiracarus are resolved. Mesotritia is the most distant, and Microtritia and Acrotritia show the closest relationship.

Enriching for orthologs increases support for Xenacoelomorpha and Ambulacraria sister relationship

Conflicting studies place a group of bilaterian invertebrates containing xenoturbellids and acoelomorphs, the Xenacoelomorpha, as either the primary emerging bilaterian phylum, or within Deuterostomia, sister to Ambulacraria. While their placement as sister to the rest of Bilateria supports relatively simple morphology in the ancestral bilaterian, their alternative placement within Deuterostomia suggests a morphologically complex ancestral Bilaterian along with extensive loss of major phenotypic traits in the Xenacoelomorpha. More recently, further studies have brought into question whether Deuterostomia should be considered monophyletic at all. Hidden paralogy presents a major challenge for reconstructing species phylogenies. Here we assess whether hidden paralogy has contributed to the conflict over the placement of Xenacoelomorpha. Our approach assesses previously published datasets, enriching for orthogroups whose gene trees support well resolved clans elsewhere in the animal tree of life. We find that the majority of constituent genes in previously published datasets violate incontestable clans, suggesting that hidden paralogy is rife at this depth. We demonstrate that enrichment for genes with orthologous signal alters the final topology that is inferred, whilst simultaneously improving fit of the model to the data. We discover increased, but ultimately not conclusive, support for the existence of Xenambulacraria in our orthology enriched set of genes. At a time when we are steadily progressing towards sequencing all of life on the planet, we argue that long-standing contentious issues in the tree of life will be resolved using smaller amounts of better quality data that can be modelled adequately.

Pollen morphology of Ellisiophyllum and Sibthorpia (Plantaginaceae, tribe Sibthorpieae) and phylogenetics of the tribe

Pollen morphology of six species belonging to genera Ellisiophyllum and Sibthorpia (Plantaginaceae tribe Sibthorpieae) was studied using light and scanning electron microscopy. The data were analyzed in the light of the first phylogenetic analysis including all but one species of the tribe using DNA sequence data from nuclear ribosomal (ITS) and plastid trnL-F region. Pollen grains in representatives of this tribe are 3-colpate, occasionally 3-porate, suboblate to prolate; mainly medium-sized, rarely small. One major pollen type (3-colpate) is recognized in the tribe. Within this pollen type, six subtypes are distinguished based on their exine sculpture, pollen grain size, length of the apertures, and exine thickness. The obtained results confirm that pollen characters are useful for species identification. Palynomorphological data are consistent with the results of the molecular phylogenetic analyses. All studies support a sister relationship of the widespread European Sibthorpia europaea with the widespread South American Sibthorpia repens and a sister relationship of two insular species, the Balearic Sibthorpia africana and the Madeiran Sibthorpia peregrina. Pollen grains in the tribe Sibthorpieae have both reticulate exine sculpture characteristic for representatives of the Russelieae–Cheloneae–Antirrhineae clades of Plantaginaceae, and also nanoechinate sculpture, which is typical for the Veroniceae and Plantagineae clades of that family. Also, in Sibthorpia repens, we observe a possible transition from the colpate type to the porate type typical for taxa of Plantago and Littorella.

A new genus and species of tanager (Passeriformes, Thraupidae) from the lower Yungas of western Bolivia and southern Peru

We describe a colorful and distinctive new species of tanager from the lower slopes of the Andes of southeastern Peru and western Bolivia. The species was first noted from southeastern Peru in 2000, but little of its natural history was uncovered until the 2011 discovery of a breeding population in deciduous forest in an intermontane valley, the Machariapo valley, in Bolivia. This species appears to be an intratropical migrant, breeding in deciduous forest during the rainy season (November–March) and spending the dry season dispersed along the lower slopes of the Andes, apparently favoring Guadua bamboo-dominated habitats in both seasons. Phylogenetic evidence suggests this tanager is embedded within a clade of thraupids that includes Ramphocelus, Coryphospingus, Loriotus, Tachyphonus, and related genera in the subfamily Tachyphoninae. Within this subfamily, the new species falls in a clade with two monotypic genera, Eucometis penicillata (Gray-headed Tanager) and Trichothraupis melanops (Black-goggled Tanager). There is strong support for a sister relationship between the new tanager and T. melanops, but because all three species in this clade are highly distinctive phenotypically, we propose erecting a new genus and species name for the new tanager.

Phylogenetic relationships of the nematode subfamily Phascolostrongylinae from macropodid and vombatid marsupials inferred using mitochondrial protein sequence data

Background The subfamily Phascolostrongylinae (Superfamily Strongyloidea) comprises nematodes that are parasitic in the gastrointestinal tracts of macropodid (Family Macropodidae) and vombatid (Family Vombatidae) marsupials. Currently, nine genera and 20 species have been attributed to the subfamily Phascolostrongylinae. Previous studies using sequence data sets for the internal transcribed spacers (ITS) of nuclear ribosomal DNA showed conflicting topologies between the Phascolostrongylinae and related subfamilies. Therefore, the aim of this study was to validate the phylogenetic relationships within the Phascolostrongylinae and its relationship with the families Chabertiidae and Strongylidae using mitochondrial amino acid sequences. Methods The sequences of all 12 mitochondrial protein-coding genes were obtained by next-generation sequencing of individual adult nematodes (n = 8) representing members of the Phascolostrongylinae. These sequences were conceptually translated and the phylogenetic relationships within the Phascolostrongylinae and its relationship with the families Chabertiidae and Strongylidae were inferred from aligned, concatenated amino acid sequence data sets. Results Within the Phascolostrongylinae, the wombat-specific genera grouped separately from the genera occurring in macropods. Two of the phascolostrongyline tribes were monophyletic, including Phascolostrongylinea and Hypodontinea, whereas the tribe Macropostrongyloidinea was paraphyletic. The tribe Phascolostrongylinea occurring in wombats was closely related to Oesophagostomum spp., also from the family Chabertiidae, which formed a sister relationship with the Phascolostrongylinae. Conclusion The current phylogenetic relationship within the subfamily Phascolostrongylinae supports findings from a previous study based on ITS sequence data. This study contributes also to the understanding of the phylogenetic position of the subfamily Phascolostrongylinae within the Chabertiidae. Future studies investigating the relationships between the Phascolostrongylinae and Cloacininae from macropodid marsupials may advance our knowledge of the phylogeny of strongyloid nematodes in marsupials. Graphical Abstract

Molecular phylogenetic analysis of the genus Gloydius (Squamata, Viperidae, Crotalinae), with description of two new alpine species from Qinghai-Tibet Plateau, China

We provide a molecular phylogeny of Asian pit vipers (the genus Gloydius) based on four mitochondrial genes (12S, 16S, ND4, and cytb). Sequences of Gloydius himalayanus, the only member of the genus that occurs south of the Himalayan range, are included for the first time. In addition, two new species of the genus Gloydius are described based on specimens collected from Zayu, Tibet, west of the Nujiang River and Heishui, Sichuan, east of the Qinghai-Tibet Plateau. The new species, Gloydius lipipengi sp. nov., can be differentiated from its congeners by the combination of the following characters: the third supralabial not reaching the orbit (separated from it by a suborbital scale); wide, black-bordered greyish postorbital stripe extending from the posterior margin of the orbit (not separated by the postoculars, covering most of the anterior temporal scale) to the ventral surface of the neck; irregular black annular crossbands on the mid-body; 23-21-15 dorsal scales; 165 ventral scales, and 46 subcaudal scales. Gloydius swildsp. nov. can be differentiated from its congeners by the narrower postorbital stripe (only half the width of the anterior temporal scale, the lower edge is approximately straight and bordered with white); a pair of arched stripes on the occiput; lateral body lakes black spots; a pair of round spots on the parietal scales; 21 rows of mid-body dorsal scales; zigzag dark brown stripes on the dorsum; 168–170 ventral scales, and 43–46 subcaudal scales. The molecular phylogeny in this study supports the sister relationship between G. lipipengisp. nov. and G. rubromaculatus, another recently described species from the Qinghai-Tibet Plateau, more than 500 km away, and indicate the basal position of G. himalayanus within the genus and relatively distant relationship to its congeners.

Familial Multiple Sclerosis in a Mother and Son Pair: A Sri Lankan and a South Asian First

Multiple sclerosis (MS) is an immune-mediated demyelinating disorder involving the central nervous system (CNS). It is common amongst young females. Although the exact cause of MS is yet unknown, viral infections such as EBV, environmental factors, and autoimmune and genetic mechanisms involving HLA-DRB1 loci are implicated. Familial MS is reported from some geographic locations and ethnic groups but is thought to be rare in Asia. In this paper, we present both a Sri Lankan mother and her son, with clinically definite MS conforming to McDonald’s 2017 clinical and MAGNIMS 2016 radiological criteria. Both had oligoclonal bands in their CSF (OCB-IEF) with no serum bands indicating intrathecal production and were negative for AQP4 and MOG IgG serology. Familial MS is more common among siblings, with sister-sister relationship having the highest rate. The lowest relation was amongst father-son and mother-son pairs. Amongst siblings, the risk of MS is between 3.5% and 4.7%. Inherited factors rather than common environmental exposure influence susceptibility in such cases. To the best of our knowledge, MS occurring in a mother-son pair has not been reported before either from Sri Lanka or South Asia.