Too hot to handle: Cenozoic aridification drives multiple independent incursions of Schizomida (Hubbardiidae) into hypogean environments

Dating in the Dark: Elevated Substitution Rates in Cave Cockroaches (Blattodea: Nocticolidae) Have Negative Impacts on Molecular Date Estimates

Rates of nucleotide substitution vary substantially across the Tree of Life, with potentially confounding effects on phylogenetic and evolutionary analyses. A large acceleration in mitochondrial substitution rate occurs in the cockroach family Nocticolidae, which predominantly inhabit subterranean environments. To evaluate the impacts of this among-lineage rate heterogeneity on estimates of phylogenetic relationships and evolutionary timescales, we analyzed nuclear ultraconserved elements (UCEs) and mitochondrial genomes from nocticolids and other cockroaches. Substitution rates were substantially elevated in nocticolid lineages compared with other cockroaches, especially in mitochondrial protein-coding genes. This disparity in evolutionary rates is likely to have led to different evolutionary relationships being supported by phylogenetic analyses of mitochondrial genomes and UCE loci. Furthermore, Bayesian dating analyses using relaxed-clock models inferred much deeper divergence times compared with a flexible local clock. Our phylogenetic analysis of UCEs, which is the first genome-scale study to include all 13 major cockroach families, unites Corydiidae and Nocticolidae and places Anaplectidae as the sister lineage to the rest of Blattoidea. We uncover an extraordinary level of genetic divergence in Nocticolidae, including two highly distinct clades that separated ~115 million years ago despite both containing representatives of the genus Nocticola. The results of our study highlight the potential impacts of high among-lineage rate variation on estimates of phylogenetic relationships and evolutionary timescales.

Shedding light on the Ophel biome: the trans-Tethyan phylogeography of the sulfide shrimp Tethysbaena (Peracarida: Thermosbaenacea) in the Levant

Background

Tethysbaena are small peracarid crustaceans inhabiting extreme environments such as subterranean lakes and thermal springs, represented by endemic species found around the ancient Tethys, including the Mediterranean, Arabian Sea, Mid-East Atlantic, and the Caribbean Sea. Two Tethysbaena species are known from the Levant: T. relicta, found along the Dead Sea-Jordan Rift Valley, and T. ophelicola, found in the Ayyalon cave complex in the Israeli coastal plain, both belonging to the same species-group based on morphological cladistics. Along the biospeleological research of the Levantine subterranean fauna, three biogeographic hypotheses determining their origins were proposed: (1) Pliocenic transgression, (2) Mid-late Miocenic transgression, and (3) The Ophel Paradigm, according to which these are inhabitants of a chemosynthetic biome as old as the Cambrian.

Methods

Tethysbaena specimens of the two Levantine species were collected from subterranean groundwaters. We used the mitochondrial cytochrome c oxidase subunit I (COI) gene and the nuclear ribosomal 28S (28S rRNA) gene to establish the phylogeny of the Levantine Tethysbaena species, and applied a molecular clock approach for inferring their divergence times.

Results

Contrary to the morphological cladistic-based classification, we found that T. relicta shares an ancestor with Tethysbaena species from Oman and the Dominican Republic, whereas the circum-Mediterranean species (including T. ophelicola) share another ancestor. The mean age of the node linking T. relicta from the Dead Sea-Jordan Rift Valley and Tethysbaena from Oman was 20.13 MYA. The mean estimate for the divergence of T. ophelicola from the Mediterranean Tethysbaena clade dated to 9.46 MYA.

Conclusions

Our results indicate a two-stage colonization of Tethysbaena in the Levant: a late Oligocene transgression, through a marine gulf extending from the Arabian Sea, leading to the colonization of T. relicta in the Dead Sea-Jordan Rift Valley, whereas T. ophelicola, originating from the Mesogean ancestor, inhabited anchialine caves in the coastal plain of Israel during the Mid-Miocene.

The systematics of the pseudoscorpion genus Indohya (Pseudoscorpiones: Hyidae) in Australia

The pseudoscorpion genus Indohya Beier, 1974 is known to occur in three Gondwanan fragments around the Indian Oceansouthern India, Madagascar and north-western Australiasuggesting that the genus had evolved prior to the breakup of Gondwana and was present on each landmass as they rifted apart during the Mesozoic. The Australian fauna is the most diverse, with nine species previously described from Cape Range and the Kimberley region of north-western Australia. The present study documents the genus Indohya in Australia using a combination of morphology and DNA sequence data. We found a total of 36 species, including 27 new species. The majority of the Pilbara fauna consist of blind troglobites collected from subterranean ecosystems, with an additional three eyed species from epigean habitats. The new species consist of one from Cape Range (I. anastomosa Harvey & Burger, n. sp.), 21 from the Pilbara (I. adlardi Harvey & Burger, n. sp., I. alexanderi Harvey & Burger, n. sp., I. aphana Harvey & Burger, n. sp., I. aquila Harvey & Burger, n. sp., I. arcana Harvey & Burger, n. sp., I. arnoldstrongi Harvey & Burger, n. sp., I. boltoni Harvey & Burger, n. sp., I. cardo Harvey & Burger, n. sp., I. catherineae Harvey & Burger, n. sp., I. cockingi Harvey & Burger, n. sp., I. cribbi Harvey & Burger, n. sp., I. draconis Harvey & Burger, n. sp., I. furtiva Harvey & Burger, n. sp., I. incomperta Harvey & Burger, n. sp., I. jessicae Harvey & Burger, n. sp., I. lynbeazlyeae Harvey & Burger, n. sp., I. morganstrongi Harvey & Burger, n. sp., I. rixi Harvey & Burger, n. sp., I. sagmata Harvey & Burger, n. sp., I. scanloni Harvey & Burger, n. sp. and I. silenda Harvey & Burger, n. sp.) and five from the Kimberley (I. currani Harvey & Burger, n. sp., I. finitima Harvey & Burger, n. sp., I. julianneae Harvey & Burger, n. sp., I. karenae Harvey & Burger, n. sp. and I. sachsei Harvey & Burger, n. sp.). The study is augmented with sequence data from 29 species of Indohya, including all of the 24 species recorded from the Pilbara and Cape Range, and five of the 12 known Kimberley species. Seven clades recovered during the molecular analysis are only represented by nymphs, but we used COI sequence data to diagnose these species in the absence of adult morphological data.

But wait, there’s more! Descriptions of new species and undescribed sexes of flattie spiders (Araneae, Selenopidae, Karaops) from Australia

Nineteen new species of Karaops are described: K. durrantorumsp. nov. (♂), K. morganoconnellisp. nov. (♀♂), K. joehaenerisp. nov. (♀), K. dalmanyisp. nov. (♀♂), K. garyodwyerisp. nov. (♂), K. dejongisp. nov. (♀♂), K. malumbusp. nov. (♀♂), K. conilurussp. nov. (♂), K. yumbubaarnjisp. nov. (♀♂), K. markharveyisp. nov. (♀♂), K. nitmiluksp. nov. (♀), K. kennerleyorumsp. nov. (♂), K. jawaywaysp. nov. (♀), K. mparntwesp. nov. (♀), K. larapintasp. nov. (♀), K. kwartatumasp. nov. (♂), K. madhawundusp. nov. (♀), and K. mareebasp. nov. (♀). The male of K. umiida Crews, 2013 was found to be misidentified and is now K. conilurussp. nov.Karaops yindjibarndisyn. nov. is a new synonym of K. nyiyaparli. Selenops australiensis L. Koch, 1875 is considered a nomen dubium because the holotype is an immature male, and the species previously referred to as K. australiensis (L. Koch, 1875) is here described as K. strayamatesp. nov. (♀♂). The males of K. marrayagong Crews & Harvey, 2011 and K. banyjima Crews, 2013 are described for the first time. To manage the growing diversity of the genus, most of the species have been placed in species groups, which are diagnosed. They are the Central Desert group, the strayamate group, the raveni group, the dawara group, the francesae group, the Kimberley group, and the Pilbara-Gascoyne group. New keys are provided to accommodate the new species, and new distribution maps and new records are provided for all species. Diagnoses and descriptions are emended where required. Images of live spiders, many not previously seen alive, and natural history information are also provided.

A Hotspot of Arid Zone Subterranean Biodiversity: The Robe Valley in Western Australia

Knowledge of subterranean fauna has mostly been derived from caves and streambeds, which are relatively easily accessed. In contrast, subterranean fauna inhabiting regional groundwater aquifers or the vadose zone (between surface soil layers and the watertable) is difficult to sample. Here we provide species lists for a globally significant subterranean fauna hotspot in the Robe Valley of the Pilbara region, Western Australia. This fauna was collected from up to 50 m below ground level using mining exploration drill holes and monitoring wells. Altogether, 123 subterranean species were collected over a distance of 17 km, comprising 65 troglofauna and 58 stygofauna species. Of these, 61 species were troglobionts and 48 stygobionts. The troglofauna occurs in small voids and fissures in mesas comprised mostly of an iron ore formation, while the stygofauna occurs in the alluvium of a river floodplain. The richness of the Robe Valley is not a localized aberration, but rather reflects the richness of the arid Pilbara region. While legislation in Western Australia has recognized the importance of subterranean fauna, mining is occurring in the Robe Valley hotspot with conditions of environmental approval that are designed to ensure species persistence.

The Towakkalak System, A Hotspot of Subterranean Biodiversity in Sulawesi, Indonesia

The Towakkalak System located in the Maros karst of South Sulawesi is currently the richest of Southeast Asia in obligate subterranean species. It comprises several caves and shafts that give access to the subterranean Towakkalak river as well as many unconnected fossil caves, stream sinks, and springs located within its footprint. The total length of the caves linked to the active system is 24,319 m and comprises two of the longest caves of Indonesia, Gua Salukkan Kallang and Gua Tanette. Studies of its fauna began in 1985. There are 10 stygobionts and 26 troglobionts that are known from the system. The smaller adjacent system of Saripa has 6 stygobionts and 18 troglobionts, of which 1 and 3, respectively, are absent from Towakkalak. Like all tropical cave inventories, our dataset has limits due to identification uncertainties, gaps in habitat (waters, guano) and taxonomic coverage (micro-crustaceans, mites), sampling methods (pitfall trapping, Karaman–Chappuis), and problems of ecological assignment. A number of additional species are therefore expected to be found in the future. The Towakkalak and Saripa cave systems are included in the Bantimurung-Bulusaraung National Park and are under efficient protection, but parts of the Maros karst outside the park are under serious threat, mainly from quarrying.

A rich fauna of subterranean short-range endemic Anillini (Coleoptera, Carabidae, Trechinae) from semi-arid regions of Western Australia

Globally, the great majority of Anillini species are endogean, adapted to live in the interstices of soil and leaf litter, while the extremely low vagility of these minute ground beetles gives rise to numerous shortrange endemic species. Until recently the Australian Anillini fauna was known only from leaf litter in rain forests and eucalypt forests in the wetter, forested regions of eastern and south eastern Australia, as well as Lord Howe and Norfolk islands. The first hypogean Anillini in Australia (17 species in six genera) were described in 2016 from mineral exploration drill holes in iron-ore bearing rocks of the Pilbara region in Western Australia, representing the first finding of the tribe deep underground in a semi-arid climate region. A further eight new genera and 20 new species are described herein, mostly from the Pilbara region as well as the semi-arid Kimberley and Goldfields regions; all were collected in mineral exploration drill holes. The following new genera are described: Erwinanillus gen. nov., Gregorydytes gen. nov., Pilbaraphanus gen. nov., Neoillaphanus gen. nov., Kimberleytyphlus gen. nov., Gilesdytes gen. nov., Pilbaradytes gen. nov., and Bylibaraphanus gen. nov. The following new species are described: Erwinanillus baehri sp. nov.; Gracilanillus hirsutus sp. nov., G. pannawonicanus sp. nov.; Gregorydytes ophthalmianus sp. nov.; Pilbaraphanus chichesterianus sp. nov., P. bilybarianus sp. nov.; Magnanillus firetalianus sp. nov., M. sabae sp. nov., M. salomonis sp. nov., M. regalis sp. nov., M. serenitatis sp. nov.; Neoillaphanus callawanus sp. nov.; Kimberleytyphlus carrboydianus sp. nov.; Austranillus jinayrianus sp. nov.; Gilesdytes pardooanus sp. nov., G. ethelianus sp. nov.; Pilbaradytes abydosianus sp. nov., P. webberianus sp. nov.; Bylibaraphanus cundalinianus sp. nov.; and Angustanillus armatus sp. nov. Identification keys are provided for all Australian anilline genera, and Western Australian species. All the described species are known from a single locality and qualify as short-range endemics. The Anillini are recognised as a significant and diverse element making up part of Western Australia's remarkable subterranean fauna, and whose conservation may potentially be impacted by mining developments.

Extensive Genetic Connectivity and Historical Persistence Are Features of Two Widespread Tree Species in the Ancient Pilbara Region of Western Australia

Phylogeographic studies can be used as a tool to understand the evolutionary history of a landscape, including the major drivers of species distributions and diversity. Extensive research has been conducted on phylogeographic patterns of species found in northern hemisphere landscapes that were affected by glaciations, yet the body of literature for older, unaffected landscapes is still underrepresented. The Pilbara region of north-western Australia is an ancient and vast landscape that is topographically complex, consisting of plateaus, gorges, valleys, and ranges, and experiences extreme meteorological phenomena including seasonal cyclonic activity. These features are expected to influence patterns of genetic structuring throughout the landscape either by promoting or restricting the movement of pollen and seed. Whilst a growing body of literature exists for the fauna endemic to this region, less is known about the forces shaping the evolution of plant taxa. In this study we investigate the phylogeography of two iconic Pilbara tree species, the Hamersley Bloodwood (Corymbia hamersleyana) and Western Gidgee (Acacia pruinocarpa), by assessing patterns of variation and structure in several chloroplast DNA regions and nuclear microsatellite loci developed for each species. Gene flow was found to be extensive in both taxa and there was evidence of long-distance seed dispersal across the region (pollen to seed ratios of 6.67 and 2.96 for C. hamersleyana and A. pruinocarpa, respectively), which may result from flooding and strong wind gusts associated with extreme cyclonic activity. Both species possessed high levels of cpDNA genetic diversity in comparison to those from formerly glaciated landscapes (C. hamersleyana = 14 haplotypes, A. pruinocarpa = 37 haplotypes) and showed evidence of deep lineage diversification occurring from the late Miocene, a time of intensifying aridity in this landscape that appears to be a critical driver of evolution in Pilbara taxa. In contrast to another study, we did not find evidence for topographic features acting as refugia for the widely sampled C. hamersleyana.

Integrative systematics untangles the evolutionary history of Stenochrus (Schizomida: Hubbardiidae), a neglected junkyard genus of North American short-tailed whipscorpions

Until recently, the Nearctic short-tailed whipscorpion genus, StenochrusChamberlin, 1922, included 27 species distributed primarily in Mexico, the USA and Central America. Morphological disparity among its species, associated with their adaptation to diverse habitats, raised the question as to whether Stenochrus was monophyletic. The phylogenetic relationships among short-tailed whipscorpions have only recently begun to be explored, and the monophyly of Stenochrus had never been tested. The present contribution provides the first phylogeny of Stenochrus and related genera, based on 61 morphological characters and 2991 aligned DNA nucleotides from two nuclear and two mitochondrial gene markers, for 73 terminal taxa. Separate and simultaneous analyses of the morphological and molecular data sets were conducted with Bayesian Inference, Maximum Likelihood, and parsimony with equal and implied weighting. Terminals represented only by morphological data (‘orphans’) were included in some analyses for evaluation of their phylogenetic positions. As previously defined, Stenochrus sensuReddell & Cokendolpher (1991, 1995) was consistently polyphyletic and comprised eight monophyletic clades, justifying its reclassification into eight genera including Heteroschizomus Rowland, 1973, revalidated from synonymy with Stenochrus by Monjaraz-Ruedas et al. (2019). Rowland & Reddell’s (1980)mexicanus and pecki species groups were consistently paraphyletic. Orphans grouped with the most morphologically similar taxa.