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1.
Ecol Evol ; 13(10): e10552, 2023 Oct.
Article in English | MEDLINE | ID: mdl-37780085

ABSTRACT

Recent studies have identified a significant number of endogenous cellulase genes in various arthropods, including isopods, allowing them to process hydrocarbons efficiently as a food source. While this research has provided insight into underlying gene-level processes in cellulose decomposition by arthropods, little is known about the existence and expression of cellulase genes in species from cave environments where carbohydrates are sparse. To investigate whether endogenous cellulase genes are maintained in subterranean species, we sequenced the transcriptomes of two subterranean paraplatyarthrid isopod species from calcrete (carbonate) aquifers of central Western Australia and a related surface isopod species. Seven protein-coding open-reading frames associated with endoglucanase genes were identified in all species. Orthology inference analyses, using a wide range of cellulase sequences from available databases, supported the endogenous origin of the putative endoglucanase genes. Selection analyses revealed that these genes are primarily subject to purifying selection in most of the sites for both surface and subterranean isopod species, indicating that they are likely to encode functional peptides. Furthermore, evolutionary branch models supported the hypothesis of an adaptive shift in selective pressure acting on the subterranean lineages compared with the ancestral lineage and surface species. Branch-site models also revealed a few amino acid sites on the subterranean branches to be under positive selection, suggesting the acquisition of novel adaptations to the subterranean environments. These findings also imply that hydrocarbons exist in subsurface aquifers, albeit at reduced levels, and have been utilized by subterranean isopods as a source of energy for millions of years.

2.
Mol Ecol Resour ; 23(6): 1257-1274, 2023 Aug.
Article in English | MEDLINE | ID: mdl-36999608

ABSTRACT

Stygofauna are aquatic fauna that have evolved to live underground. The impacts of anthropogenic climate change, extraction and pollution on groundwater pose major threats to groundwater health, prompting the need for efficient and reliable means to detect and monitor stygofaunal communities. Conventional survey techniques for these species rely on morphological identification and can be biased, labour-intensive and often indeterminate to lower taxonomic levels. By contrast, environmental DNA (eDNA)-based methods have the potential to dramatically improve on existing stygofaunal survey methods in a large range of habitats and for all life stages, reducing the need for the destructive manual collection of often critically endangered species or for specialized taxonomic expertise. We compared eDNA and haul-net samples collected in 2020 and 2021 from 19 groundwater bores and a cave on Barrow Island, northwest Western Australia, and assessed how sampling factors influenced the quality of eDNA detection of stygofauna. The two detection methods were complementary; eDNA metabarcoding was able to detect soft-bodied taxa and fish often missed by nets, but only detected seven of the nine stygofaunal crustacean orders identified from haul-net specimens. Our results also indicated that eDNA metabarcoding could detect 54%-100% of stygofauna from shallow-water samples and 82%-90% from sediment samples. However, there was significant variation in stygofaunal diversity between sample years and sampling types. The findings of this study demonstrate that haul-net sampling has a tendency to underestimate stygofaunal diversity and that eDNA metabarcoding of groundwater can substantially improve the efficiency of stygofaunal surveys.


Subject(s)
DNA, Environmental , Groundwater , Animals , DNA, Environmental/genetics , Biodiversity , DNA Barcoding, Taxonomic/methods , Ecosystem , Environmental Monitoring/methods
3.
Sci Rep ; 12(1): 16194, 2022 09 28.
Article in English | MEDLINE | ID: mdl-36171221

ABSTRACT

Subterranean habitats are generally very stable environments, and as such evolutionary transitions of organisms from surface to subterranean lifestyles may cause considerable shifts in physiology, particularly with respect to thermal tolerance. In this study we compared responses to heat shock at the molecular level in a geographically widespread, surface-dwelling water beetle to a congeneric subterranean species restricted to a single aquifer (Dytiscidae: Hydroporinae). The obligate subterranean beetle Paroster macrosturtensis is known to have a lower thermal tolerance compared to surface lineages (CTmax 38 °C cf. 42-46 °C), but the genetic basis of this physiological difference has not been characterized. We experimentally manipulated the thermal environment of 24 individuals to demonstrate that both species can mount a heat shock response at high temperatures (35 °C), as determined by comparative transcriptomics. However, genes involved in these responses differ between species and a far greater number were differentially expressed in the surface taxon, suggesting it can mount a more robust heat shock response; these data may underpin its higher thermal tolerance compared to subterranean relatives. In contrast, the subterranean species examined not only differentially expressed fewer genes in response to increasing temperatures, but also in the presence of the experimental setup employed here alone. Our results suggest P. macrosturtensis may be comparatively poorly equipped to respond to both thermally induced stress and environmental disturbances more broadly. The molecular findings presented here have conservation implications for P. macrosturtensis and contribute to a growing narrative concerning weakened thermal tolerances in obligate subterranean organisms at the molecular level.


Subject(s)
Coleoptera , Animals , Coleoptera/genetics , Ecosystem , Heat-Shock Response/genetics , Transcriptome
4.
Mol Phylogenet Evol ; 173: 107522, 2022 08.
Article in English | MEDLINE | ID: mdl-35595008

ABSTRACT

In the framework of neutral theory of molecular evolution, genes specific to the development and function of eyes in subterranean animals living in permanent darkness are expected to evolve by relaxed selection, ultimately becoming pseudogenes. However, definitive empirical evidence for the role of neutral processes in the loss of vision over evolutionary time remains controversial. In previous studies, we characterized an assemblage of independently-evolved water beetle (Dytiscidae) species from a subterranean archipelago in Western Australia, where parallel vision and eye loss have occurred. Using a combination of transcriptomics and exon capture, we present evidence of parallel coding sequence decay, resulting from the accumulation of frameshift mutations and premature stop codons, in eight phototransduction genes (arrestins, opsins, ninaC and transient receptor potential channel genes) in 32 subterranean species in contrast to surface species, where these genes have open reading frames. Our results provide strong evidence to support neutral evolutionary processes as a major contributing factor to the loss of phototransduction genes in subterranean animals, with the ultimate fate being the irreversible loss of a light detection system.


Subject(s)
Coleoptera , Animals , Coleoptera/genetics , Evolution, Molecular , Opsins/genetics , Phylogeny , Water
5.
Sci Total Environ ; 820: 153223, 2022 May 10.
Article in English | MEDLINE | ID: mdl-35063529

ABSTRACT

Monitoring of biota is pivotal for the assessment and conservation of ecosystems. Environments worldwide are being continuously and increasingly exposed to multiple adverse impacts, and the accuracy and reliability of the biomonitoring tools that can be employed shape not only the present, but more importantly, the future of entire habitats. The analysis of environmental DNA (eDNA) metabarcoding data provides a quick, affordable, and reliable molecular approach for biodiversity assessments. However, while extensively employed in aquatic and terrestrial surface environments, eDNA-based studies targeting subterranean ecosystems are still uncommon due to the lack of accessibility and the cryptic nature of these environments and their species. Recent advances in genetic and genomic analyses have established a promising framework for shedding new light on subterranean biodiversity and ecology. To address current knowledge and the future use of eDNA methods in groundwaters and caves, this review explores conceptual and technical aspects of the application and its potential in subterranean systems. We briefly introduce subterranean biota and describe the most used traditional sampling techniques. Next, eDNA characteristics, application, and limitations in the subsurface environment are outlined. Last, we provide suggestions on how to overcome caveats and delineate some of the research avenues that will likely shape this field in the near future. We advocate that eDNA analyses, when carefully conducted and ideally combined with conventional sampling techniques, will substantially increase understanding and enable crucial expansion of subterranean community characterisation. Given the importance of groundwater and cave ecosystems for nature and humans, eDNA can bring to the surface essential insights, such as study of ecosystem assemblages and rare species detection, which are critical for the preservation of life below, as well as above, the ground.


Subject(s)
DNA, Environmental , Ecosystem , Biodiversity , DNA Barcoding, Taxonomic , Environmental Monitoring/methods , Humans , Reproducibility of Results
6.
Zootaxa ; 5188(6): 559-573, 2022 Sep 22.
Article in English | MEDLINE | ID: mdl-37044760

ABSTRACT

The Pilbara and nearby regions in north-western Western Australia have an exceptionally high diversity of short-range endemic invertebrates inhabiting threatened groundwater-dependent habitats. Amphipod crustaceans, in particular, are dominant in these communities, but are poorly understood taxonomically, with many undescribed species. Recent molecular phylogenetic analyses of Pilbara eriopisid amphipods have, nonetheless, uncovered a previously unknown biodiversity. In this study, we formally establish a new genus, Pilbarana Stringer & King gen. nov., and describe two new species, P. grandis Stringer & King sp. nov. from Cane River Conservation Park and P. lowryi Stringer & King sp. nov. from the Fortescue River Basin near the Hamersley Range, using a combination of molecular and morphological data. The new genus is similar morphologically to the two additional Western Australian eriopisid genera, Nedsia Barnard & Williams, 1995 and Norcapensis Bradbury & Williams, 1997, but represents a genetically divergent, reciprocally monophyletic lineage, which can be differentiated by its vermiform body shape, the presence of an antennal sinus, and by the length and form of the antennae and uropods. This research signifies an important contribution to knowledge of Pilbara subterranean communities and has critical implications for future environmental impact assessments and conservation management.


Subject(s)
Amphipoda , Animals , Western Australia , Australia , Phylogeny , Biodiversity
7.
PLoS One ; 16(9): e0256861, 2021.
Article in English | MEDLINE | ID: mdl-34534224

ABSTRACT

Transcriptome-based exon capture approaches, along with next-generation sequencing, are allowing for the rapid and cost-effective production of extensive and informative phylogenomic datasets from non-model organisms for phylogenetics and population genetics research. These approaches generally employ a reference genome to infer the intron-exon structure of targeted loci and preferentially select longer exons. However, in the absence of an existing and well-annotated genome, we applied this exon capture method directly, without initially identifying intron-exon boundaries for bait design, to a group of highly diverse Haloniscus (Philosciidae), paraplatyarthrid and armadillid isopods, and examined the performance of our methods and bait design for phylogenetic inference. Here, we identified an isopod-specific set of single-copy protein-coding loci, and a custom bait design to capture targeted regions from 469 genes, and analysed the resulting sequence data with a mapping approach and newly-created post-processing scripts. We effectively recovered a large and informative dataset comprising both short (<100 bp) and longer (>300 bp) exons, with high uniformity in sequencing depth. We were also able to successfully capture exon data from up to 16-year-old museum specimens along with more distantly related outgroup taxa, and efficiently pool multiple samples prior to capture. Our well-resolved phylogenies highlight the overall utility of this methodological approach and custom bait design, which offer enormous potential for application to future isopod, as well as broader crustacean, molecular studies.


Subject(s)
Arthropod Proteins/genetics , Exons , Genome , Isopoda/genetics , Open Reading Frames , Animals , Arthropod Proteins/classification , Arthropod Proteins/metabolism , Datasets as Topic , Gene Expression , Genetic Loci , Genetics, Population , High-Throughput Nucleotide Sequencing , Introns , Isopoda/classification , Phylogeny
8.
Zootaxa ; 4949(1): zootaxa.4949.1.4, 2021 Mar 24.
Article in English | MEDLINE | ID: mdl-33756995

ABSTRACT

Involving the community in taxonomic research has the potential to increase the awareness, appreciation and value of taxonomy in the public sphere. We report here on a trial citizen science project, Insect Investigators, which partners taxonomists with school students to monitor Malaise traps and prioritise the description of new species collected. In this initial trial, four schools in regional South Australia participated in the program and all collected new species of the braconid subfamily Microgastrinae (Hymenoptera: Braconidae). These four species are here described as new, with the names being chosen in collaboration with the participating school students: Choeras ramcomarmorata Fagan-Jeffries Austin sp. nov., Glyptapanteles drioplanetus Fagan-Jeffries Austin sp. nov., Dolichogenidea franklinharbourensis Fagan-Jeffries Austin sp. nov. and Miropotes waikerieyeties Fagan-Jeffries Austin sp. nov. All four species are diagnosed against the known members of the genera from Australia, New Zealand, Fiji, Samoa and Papua New Guinea, and images and COI DNA barcodes are provided of the holotypes. Students had positive feedback about their experiences of the program, and there is significant potential for it to be expanded and used as a means to connect communities with taxonomic science.


Subject(s)
Citizen Science , Hymenoptera , Wasps , Animals , Schools , South Australia
9.
Evolution ; 75(1): 166-175, 2021 01.
Article in English | MEDLINE | ID: mdl-33219700

ABSTRACT

Most subterranean animals are assumed to have evolved from surface ancestors following colonization of a cave system; however, very few studies have raised the possibility of "subterranean speciation" in underground habitats (i.e., obligate cave-dwelling organisms [troglobionts] descended from troglobiotic ancestors). Numerous endemic subterranean diving beetle species from spatially discrete calcrete aquifers in Western Australia (stygobionts) have evolved independently from surface ancestors; however, several cases of sympatric sister species raise the possibility of subterranean speciation. We tested this hypothesis using vision (phototransduction) genes that are evolving under neutral processes in subterranean species and purifying selection in surface species. Using sequence data from 32 subterranean and five surface species in the genus Paroster (Dytiscidae), we identified deleterious mutations in long wavelength opsin (lwop), arrestin 1 (arr1), and arrestin 2 (arr2) shared by a sympatric sister-species triplet, arr1 shared by a sympatric sister-species pair, and lwop and arr2 shared among closely related species in adjacent calcrete aquifers. In all cases, a common ancestor possessed the function-altering mutations, implying they were already adapted to aphotic environments. Our study represents one of the first confirmed cases of subterranean speciation in cave insects. The assessment of genes undergoing pseudogenization provides a novel way of testing modes of speciation and the history of diversification in blind cave animals.


Subject(s)
Coleoptera/genetics , Genetic Drift , Genetic Speciation , Insect Proteins/genetics , Vision, Ocular/genetics , Animals , Arrestins/genetics , Groundwater , Opsins/genetics
10.
Genome ; 64(3): 181-195, 2021 Mar.
Article in English | MEDLINE | ID: mdl-32552081

ABSTRACT

The subterranean islands hypothesis for calcretes of the Yilgarn region in Western Australia applies to many stygobitic (subterranean-aquatic) species that are "trapped" evolutionarily within isolated aquifers due to their aquatic lifestyles. In contrast, little is known about the distribution of terrestrial-subterranean invertebrates associated with the calcretes. We used subterranean Collembola from the Yilgarn calcretes to test the hypothesis that troglobitic species, those inhabiting the subterranean unsaturated (non-aquatic) zone of calcretes, are also restricted in their distribution and represent reciprocally monophyletic and endemic lineages. We used the barcoding fragment of the mtDNA cytochrome c oxidase subunit 1 (COI) gene from 183 individuals to reconstruct the phylogenetic history of the genus Pseudosinella Schäffer (Collembola, Lepidocyrtidae) from 10 calcretes in the Yilgarn. These calcretes represent less than 5% of the total possible calcretes in this region, yet we show that their diversity for subterranean Collembola comprises a minimum of 25 new species. Regionally, multiple levels of diversity exist in Pseudosinella, indicative of a complex evolutionary history for this genus in the Yilgarn. These species have probably been impacted by climatic oscillations, facilitating their dispersal across the landscape. The results represent a small proportion of the undiscovered diversity in Australia's arid zone.


Subject(s)
Arthropods/classification , Arthropods/genetics , Animals , Biodiversity , Calcium Carbonate , Electron Transport Complex IV/genetics , Genetic Variation , Phylogeny , Phylogeography , Western Australia
11.
Ecol Evol ; 10(16): 8815-8826, 2020 Aug.
Article in English | MEDLINE | ID: mdl-32884659

ABSTRACT

Food web dynamics are vital in shaping the functional ecology of ecosystems. However, trophic ecology is still in its infancy in groundwater ecosystems due to the cryptic nature of these environments. To unravel trophic interactions between subterranean biota, we applied an interdisciplinary Bayesian mixing model design (multi-factor BMM) based on the integration of faunal C and N bulk tissue stable isotope data (δ13C and δ15N) with radiocarbon data (Δ14C), and prior information from metagenomic analyses. We further compared outcomes from multi-factor BMM with a conventional isotope double proxy mixing model (SIA BMM), triple proxy (δ13C, δ15N, and Δ14C, multi-proxy BMM), and double proxy combined with DNA prior information (SIA + DNA BMM) designs. Three species of subterranean beetles (Paroster macrosturtensis, Paroster mesosturtensis, and Paroster microsturtensis) and their main prey items Chiltoniidae amphipods (AM1: Scutachiltonia axfordi and AM2: Yilgarniella sturtensis), cyclopoids and harpacticoids from a calcrete in Western Australia were targeted. Diet estimations from stable isotope only models (SIA BMM) indicated homogeneous patterns with modest preferences for amphipods as prey items. Multi-proxy BMM suggested increased-and species-specific-predatory pressures on amphipods coupled with high rates of scavenging/predation on sister species. SIA + DNA BMM showed marked preferences for amphipods AM1 and AM2, and reduced interspecific scavenging/predation on Paroster species. Multi-factorial BMM revealed the most precise estimations (lower overall SD and very marginal beetles' interspecific interactions), indicating consistent preferences for amphipods AM1 in all the beetles' diets. Incorporation of genetic priors allowed crucial refining of the feeding preferences, while integration of more expensive radiocarbon data as a third proxy (when combined with genetic data) produced more precise outcomes but close dietary reconstruction to that from SIA + DNA BMM. Further multidisciplinary modeling from other groundwater environments will help elucidate the potential behind these designs and bring light to the feeding ecology of one the most vital ecosystems worldwide.

12.
Mol Phylogenet Evol ; 142: 106643, 2020 01.
Article in English | MEDLINE | ID: mdl-31622741

ABSTRACT

Like other crustacean families, the Parabathynellidae is a poorly studied subterranean and aquatic (stygobiontic) group in Australia, with many regions of available habitat having not yet been surveyed. Here we used a combined approach of molecular species delimitation methods, applied to mitochondrial and nuclear genetic data, to identify putative new species from material obtained from remote subterranean habitats in the Pilbara region of Western Australia. Based on collections from these new localities, we delineated a minimum of eight and up to 24 putative new species using a consensus from a range of molecular delineation methods and additional evidence. When we placed our new putative species into the broader phylogenetic framework of Australian Parabathynellidae, they grouped with two known genera and also within one new and distinct Pilbara-only clade. These new species significantly expand the known diversity of Parabathynellidae in that they represent a 22% increase to the 109 currently recognised species globally. Our investigations showed that sampling at new localities can yield extraordinary levels of new species diversity, with the majority of species showing likely restricted endemic geographical ranges. These findings represent only a small sample from a region comprising less than 2.5% of the Australian continent.


Subject(s)
Crustacea/classification , Animals , Biodiversity , Crustacea/genetics , Ecosystem , Phylogeny , Western Australia
13.
Zootaxa ; 4560(3): zootaxa.4560.3.1, 2019 Feb 26.
Article in English | MEDLINE | ID: mdl-31716565

ABSTRACT

The braconid subfamily Microgastrinae are ecologically important parasitoids of larval lepidopterans, but are poorly studied in many regions of the world. In this study, we focus on describing new species of microgastrine wasps, in part from specimens collected on six different 'Bush Blitz' surveys of regional reserves in South Australia and Tasmania. Ten species of Microgastrinae are described as new and DNA barcodes of the genes COI and wingless are provided: three species in the genus Choeras Mason: C. bushblitz Fagan-Jeffries Austin sp. nov., C. parvoculus Fagan-Jeffries Austin sp. nov., and C. zygon Fagan-Jeffries Austin sp. nov.; six species in the genus Dolichogenidea Viereck: D. bonbonensis Fagan-Jeffries Austin sp. nov., D. brabyi Fagan-Jeffries Austin sp. nov., D. forrestae Fagan-Jeffries Austin sp. nov., D. garytaylori Fagan-Jeffries Austin sp. nov., D. kelleri Fagan-Jeffries Austin sp. nov., and D. lobesiae Fagan-Jeffries Austin sp. nov.; and one species from the genus Sathon Mason: S. oreo Fagan-Jeffries Austin sp. nov. These new species represent just a small fraction of the potential of 'Bush Blitz' surveys in regional Australia, which provide DNA-quality material allowing an integrative taxonomic approach and offer a window into the biodiversity of some of the least studied areas of the continent.


Subject(s)
Hymenoptera , Wasps , Animals , Australia , South Australia , Tasmania
14.
Zootaxa ; 4518(1): 1-76, 2018 Nov 12.
Article in English | MEDLINE | ID: mdl-30486184

ABSTRACT

A combined molecular and morphological approach was used to revise the Australian spiny trapdoor spiders of the genus Blakistonia Hogg. Where possible, our molecular approach used sequence data from the COI barcoding gene, which were analysed using Bayesian, RAxML and neighbour-joining approaches. These molecular data were combined with morphology to describe and diagnose the genus, to redescribe the type (and only previously valid) species, B. aurea Hogg, 1902, and to diagnose, describe and map 19 new species: B. bassi sp. n., B. bella sp. n., B. birksi sp. n., B. carnarvon sp. n., B. emmottiorum sp. n., B. gemmelli sp. n., B. hortoni sp. n., B. mainae sp. n., B. maryae sp. n., B. newtoni sp. n., B. nullarborensis sp. n., B. olea sp. n., B. parva sp. n., B. pidax sp. n., B. plata sp. n., B. raveni sp. n., B. tariae sp. n., B. tunstilli sp. n., and B. wingellina sp. n. The genus Blakistonia is found to be distributed throughout the Australian arid and semi-arid zones, from the Wheatbelt region of Western Australia to central Queensland and western Victoria.


Subject(s)
Bayes Theorem , Spiders , Animals , Queensland , Victoria , Western Australia
15.
Integr Comp Biol ; 58(3): 465-479, 2018 09 01.
Article in English | MEDLINE | ID: mdl-29860449

ABSTRACT

Two tribes of subterranean dytiscid diving beetles independently colonized groundwater systems of the Western Australian arid zone, a habitat transition that was most likely driven by the contraction of surface water bodies following late Neogene aridification of the Australian continent. These "stygofauna" are now trapped within discrete calcrete aquifers that have formed in paleodrainage valleys, resulting in the world's most diverse radiations of subterranean dytiscid beetles. Approximately 100 species from three genera exhibit partial or fully regressed visual systems and are essentially blind. This unique study system, with multiple independent transitions to subterranean life enables regressive and adaptive evolutionary processes to be studied in parallel at an unheralded comparative scale. Here we provide an overview of the progression of dytiscid beetle research and undertake a literature survey of published research within the field of regressive evolution as it applies to eye loss. We detail our exploration of insect vision genes for signatures of adaptive and neutral evolutionary mechanisms related to eye regression, largely within photoreceptor and eye pigment genes. Our project makes use of transcriptome data from five representative dytiscid beetle species (two surface and three subterranean) in order to design a customized set of RNA baits for use in a hybrid-capture method to target a pool of vision genes sequenced using high-throughput Illumina platforms. This methodological design permits the assessment of modifications in the genomic sequence of beetle vision genes at a much broader scale than Sanger sequencing, enabling a higher number of both target species and genes to be simultaneously assessed relative to research time-investments. Based on our literature search criteria of the research field ("regressive evolution" + "eyes"), 81 papers have been published since the late 1980s accruing an h-index of 27 and a mean citation rate of 24.57. Collective annual citations for this field of research have surged over the past 5 years, an indication that broader scientific community interest is gaining momentum. The majority of publications (75%) have focused on the chordate clade Actinopterygii. Historically, research on variant subterranean taxa has faced difficulties inferring the evolutionary mechanisms of eye regression (and vision loss) using molecular approaches because only a handful of target genes could be feasibly addressed within grant funding cycles. From a comparative phylogenetic perspective, next-generation sequencing approaches applied to stygobiontic dytiscid beetles hold the potential to greatly improve our understanding of the genetic mechanisms underlying regressive evolution generally.


Subject(s)
Coleoptera/physiology , Evolution, Molecular , Genes, Insect/physiology , Vision, Ocular/genetics , Animals , Coleoptera/genetics , Ecosystem , Phylogeny , Western Australia
16.
Zookeys ; (756): 1-121, 2018.
Article in English | MEDLINE | ID: mdl-29773959

ABSTRACT

The aganippine shield-backed trapdoor spiders of the monophyletic nigrum-group of Idiosoma Ausserer s. l. are revised, and 15 new species are described from Western Australia and the Eyre Peninsula of South Australia: I. arenaceum Rix & Harvey, sp. n., I. corrugatum Rix & Harvey, sp. n., I. clypeatum Rix & Harvey, sp. n., I. dandaragan Rix & Harvey, sp. n., I. formosum Rix & Harvey, sp. n., I. gardneri Rix & Harvey, sp. n., I. gutharuka Rix & Harvey, sp. n., I. incomptum Rix & Harvey, sp. n., I. intermedium Rix & Harvey, sp. n., I. jarrah Rix & Harvey, sp. n., I. kopejtkaorum Rix & Harvey, sp. n., I. kwongan Rix & Harvey, sp. n., I. mcclementsorum Rix & Harvey, sp. n., I. mcnamarai Rix & Harvey, sp. n., and I. schoknechtorum Rix & Harvey, sp. n. Two previously described species from south-western Western Australia, I. nigrum Main, 1952 and I. sigillatum (O. P.-Cambridge, 1870), are re-illustrated and re-diagnosed, and complementary molecular data for 14 species and seven genes are analysed with Bayesian methods. Members of the nigrum-group are of long-standing conservation significance, and I. nigrum is the only spider in Australia to be afforded threatened species status under both State and Commonwealth legislation. Two other species, I. formosum Rix & Harvey, sp. n. and I. kopejtkaorum Rix & Harvey, sp. n., are also formally listed as Endangered under Western Australian State legislation. Here we significantly relimit I. nigrum to include only those populations from the central and central-western Wheatbelt bioregion, and further document the known diversity and conservation status of all known species.

17.
Mol Ecol Resour ; 2018 May 23.
Article in English | MEDLINE | ID: mdl-29791787

ABSTRACT

The Microgastrinae are a hugely diverse subfamily of endoparasitoid wasps of lepidopteran caterpillars. They are important in agriculture as biological control agents and play a significant ecological role in the regulation of caterpillar populations. Whilst the group has been the focus of intensive rearing and DNA barcoding studies in the Northern Hemisphere, the Australian fauna has received little attention. In total, 99 species have been described from or have been introduced into Australia, but the real species diversity for the region is clearly much larger than this. In this study, museum ethanol samples and recent field collections were mined for hundreds of specimens of microgastrine wasps, which were then barcoded for the COI region, ITS2 ribosomal spacer and the wingless nuclear genes, using a pooled sequencing approach on an Illumina Miseq system. Full COI sequences were obtained for 525 individuals which, when combined with 162 publicly available sequences, represented 417 haplotypes, and a total of 236 species were delimited using a consensus approach. By more than doubling the number of known microgastrine wasp species in Australia, our study highlights the value of DNA barcoding in the context of employing high-throughput sequencing methods of bulk ethanol museum collections for biodiversity assessment.

18.
Mol Phylogenet Evol ; 126: 153-161, 2018 09.
Article in English | MEDLINE | ID: mdl-29678644

ABSTRACT

Australian cave crickets are members of the subfamily Macropathinae (Orthoptera: Rhaphidophoridae). The subfamily is thought to have originated prior to the tectonic separation of the supercontinent Gondwana based on distributions of extant lineages and molecular phylogenetic evidence, although the Australian fauna have been underrepresented in previous studies. The current study augments existing multigene data (using 12S, 16S, and 28S rRNA genes) to investigate the placement of the Australian representatives within the Macropathinae and to assess divergence dates of select clades. Results suggest that the endemic Tasmanian genus Parvotettix is the sister lineage to the remaining members of the subfamily, an outcome that presents a paraphyletic Australian fauna in contrast to previous studies. All other Australian taxa represented in this study (Micropathus and Novotettix) emerged as a sister group to the New Zealand and South American macropathine lineages. Estimation of phylogenetic divergence ages among the aforementioned clades were calibrated using two methods, in absence of suitable fossil records: (i) tectonic events depicting the fragmentation of Gondwanan landmasses that invoke vicariant scenarios of present day geographic distributions; and (ii) molecular evolutionary rates. Geological calibrations place the median age of the most recent common ancestor of extant macropathines at ∼125 to ∼165 Ma, whereas analyses derived from molecular substitution rates suggest a considerably younger origin of ∼32 Ma. This phylogenetic study represents the most rigorous taxonomic sampling of the Australian cave cricket fauna to date and stresses the influence of lineage representation on biogeographic inference.


Subject(s)
Caves , Gryllidae/classification , Phylogeny , Animals , Australia , Bayes Theorem , Genetic Variation , Gryllidae/genetics , New Zealand , Time Factors
19.
Annu Rev Entomol ; 63: 389-406, 2018 01 07.
Article in English | MEDLINE | ID: mdl-29058979

ABSTRACT

The braconid parasitoid wasp subfamily Microgastrinae is perhaps the most species-rich subfamily of animals on Earth. Despite their small size, they are familiar to agriculturalists and field ecologists alike as one of the principal groups of natural enemies of caterpillars feeding on plants. Their abundance and nearly ubiquitous terrestrial distribution, their intricate interactions with host insects, and their historical association with mutualistic polydnaviruses have all contributed to Microgastrinae becoming a key group of organisms for studying parasitism, parasitoid genomics, and mating biology. However, these rich sources of data have not yet led to a robust genus-level classification of the group, and some taxonomic confusion persists as a result. We present the current status of understanding of the general biology, taxonomic history, diversity, geographical patterns, host relationships, and phylogeny of Microgastrinae as a stimulus and foundation for further study. Current progress in elucidating the biology and taxonomy of this important group is rapid and promises a revolution in the classification of these wasps in the near future.


Subject(s)
Wasps/genetics , Animals , Biodiversity , Biological Coevolution , Host Specificity , Phylogeny , Polydnaviridae , Wasps/classification , Wasps/virology
20.
Zootaxa ; 4538(1): 1-113, 2018 Dec 21.
Article in English | MEDLINE | ID: mdl-30647337

ABSTRACT

The Aulacidae is a small family of Hymenoptera that are parasitic on wood-boring beetles and wasps. They have a worldwide distribution but are generally poorly studied, particularly for the southern hemisphere. This study is part of a series that aims to describe the Australian fauna which is relatively species-rich compared with other regions. We describe 39 new Aulacus species from eastern mainland Australia and Tasmania: A. anici Jennings Austin, sp. nov., A. aquilus Jennings Austin, sp. nov., A. bamagensis Jennings Austin, sp. nov., A. bashfordi Jennings Austin, sp. nov., A. bicolor Jennings Austin, sp. nov., A. boonanghiensis Jennings Parslow, sp. nov., A. brabyi Jennings Austin, sp. nov., A. broadi Jennings Austin, sp. nov., A. burnsi Jennings Austin, sp. nov., A. confusus Jennings Parslow, sp. nov., A. dandenongensis Jennings Austin, sp. nov., A. deansi Jennings Austin, sp. nov., A. doddi Jennings Austin, sp. nov., A. froggatti Jennings Austin, sp. nov., A. glorious Jennings Parslow, sp. nov., A. hackeri Jennings Austin, sp. nov., A. insularis Jennings Austin, sp. nov., A. jamberoo Jennings Parslow, sp. nov., A. kittelae Jennings Austin, sp. nov., A. kiwarrakensis Jennings Austin, sp. nov., A. leai Jennings Austin, sp. nov., A. mareebaensis Jennings Austin, sp. nov., A. naumanni Jennings Austin, sp. nov., A. nebo Jennings Austin, sp. nov., A. neboissi Jennings Austin, sp. nov., A. obcordellus Jennings Parslow, sp. nov., A. pallidus Jennings Austin, sp. nov., A. quickei Jennings Austin, sp. nov., A. rieki Jennings Austin, sp. nov., A. scitulus Jennings Parslow, sp. nov., A. simsoni Jennings Austin, sp. nov., A. smithi Jennings Austin, sp. nov., A. tasmanicus Jennings Austin, sp. nov., A. tiernyi Jennings Austin, sp. nov., A. umbackae Jennings Austin, sp. nov., A. walkeri Jennings Parslow, sp. nov., A. warraensis Jennings Austin, sp. nov., A. willamsi Jennings Austin, sp. nov., and A. wrightae Jennings Austin, sp. nov. We also redescribe 14 species: A. albimanus (Kieffer), A. aroueti (Girault), A. atriceps Kieffer, A. elegans (Kieffer), A. festivus (Kieffer), A. flavicornis (Kieffer), A. flavimanus (Kieffer), A. fuscicornis Cameron, A. longiventris (Kieffer), A. minutus Crosskey, A. pallidicaudis (Cameron), A. planiceps (Szépligeti), A. truncatus (Kieffer), and A. vespiformis (Kieffer). As well, A. nigriventris (Kieffer) is synonymised with A. albimanus (Kieffer) syn nov. This brings to 60 the total number of species known from Australia (71 for the Australian region), although one species, A. biroi (Szépligeti), remains incertae sedis. A key to Australian Aulacus species is presented, along with notes on taxonomic history and host relationships.


Subject(s)
Hymenoptera , Wasps , Animal Distribution , Animals , Australia , Coleoptera , Tasmania
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