Cryptic speciation in a biodiversity hotspot: multilocus molecular data reveal new velvet worm species from Western Australia (Onychophora : Peripatopsidae : Kumbadjena)

There is a yet uncovered multitude of species to be found among Western Australian Onychophora. Kumbadjena, one of the two genera that reside in this region, has been previously suggested to house an extensive species complex. Morphology alone has not been able to elucidate the diversity in this genus and has instead muddled species delineations. Topologies and species delimitation analyses resulting from the sequences of two mitochondrial ribosomal markers (12S rRNA and 16S rRNA), one nuclear ribosomal marker (18S rRNA), and one mitochondrial protein-coding gene (cytochrome c oxidase subunit I) are indicative of several undescribed species. Fixed diagnostic nucleotide changes in the highly conserved sequences of 18S rRNA warrant distinction of three new species of Kumbadjena: K. toolbrunupensis, sp. nov., K. karricola, sp. nov., and K. extrema, sp. nov. The geographic distributions of the proposed species suggest that Kumbadjena is another example of short-range endemism, a common occurrence in the flora and fauna of the region. The extensive biodiversity and endemism in the region necessitates conservation to preserve the species and processes that promote speciation harboured by Western Australia.

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Molecular phylogeny of Australasian anopsobiine centipedes (Chilopoda : Lithobiomorpha)

Invertebrate Systematics ◽

10.1071/is03033 ◽

2004 ◽

Vol 18 (3) ◽

pp. 235 ◽

Cited By ~ 9

Author(s):

Gregory D. Edgecombe ◽

Gonzalo Giribet

Keyword(s):

South Africa ◽

New Species ◽

New Zealand ◽

New Caledonia ◽

Sequence Data ◽

Mitochondrial Protein ◽

Molecular Data ◽

12S Rrna ◽

28S Rrna ◽

16S Rna

Species assigned to the anopsobiine centipede genera Anopsobius Silvestri, 1899, and Dichelobius Attems, 1911, are widely distributed on fragments of the Gondwanan supercontinent, including temperate and tropical Australia, New Zealand, New Caledonia, the Cape region of South Africa, and southern South America. Phylogenetic relationships between Australasian and other Gondwanan Anopsobiinae are inferred based on parsimony and maximum likelihood analyses (via direct optimisation) of sequence data for five markers: nuclear ribosomal 18S rRNA and 28S rRNA, mitochondrial ribosomal 12S rRNA and 16S RNA, and the mitochondrial protein-coding cytochrome c oxidase subunit I. New molecular data are added for Anopsobius from South Africa and New Zealand, Dichelobius from New Caledonia, and a new species from Queensland, Australia, Dichelobius etnaensis, sp. nov. The new species is based on distinctive morphological and molecular data. The molecular phylogenies indicate that antennal segmentation in the Anopsobiinae is a more reliable taxonomic character than is spiracle distribution. The former character divides the Gondwanan clade into a 17-segmented group (Dichelobius) and a 15-segmented group (Anopsobius). Confinement of the spiracles to segments 3, 10 and 12 has at least two origins in the Gondwanan clade. The area cladogram for Dichelobius (Queensland (Western Australia + New Caledonia)) suggests a relictual distribution pruned by extinction.

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A revision of the textricellin spider genus Raveniella (Araneae:Araneoidea:Micropholcommatidae): exploring patterns of phylogeny and biogeography in an Australian biodiversity hotspot

Invertebrate Systematics ◽

10.1071/is09048 ◽

2010 ◽

Vol 24 (3) ◽

pp. 209 ◽

Cited By ~ 15

Author(s):

Michael G. Rix ◽

Mark S. Harvey ◽

J. Dale Roberts

Keyword(s):

New Species ◽

Western Australia ◽

Coastal Plain ◽

Mitochondrial Protein ◽

Biodiversity Hotspot ◽

Rrna Genes ◽

Protein Coding ◽

Swan Coastal Plain ◽

Coastal Species ◽

Eastern Australia

South-western Western Australia is a biodiversity hotspot, with high levels of local endemism and a rich but largely undescribed terrestrial invertebrate fauna. Very few phylogeographic studies have been undertaken on south-western Australian invertebrate taxa, and almost nothing is known about historical biogeographic or cladogenic processes, particularly on the relatively young, speciose Quaternary sand dune habitats of the Swan Coastal Plain. Phylogeographic and taxonomic patterns were studied in textricellin micropholcommatid spiders belonging to the genus Raveniella Rix & Harvey. The Micropholcommatidae is a family of small spiders with a widespread distribution in southern Western Australia, and most species are spatially restricted to refugial microhabitats. In total, 340 specimens of Raveniella were collected from 36 surveyed localities on the Swan Coastal Plain and 17 non-Swan Coastal Plain reference localities in south-western Western Australia. Fragments from three nuclear rRNA genes (5.8S, 18S and ITS2), and one mitochondrial protein-coding gene (COI) were used to infer the phylogeny of the genus Raveniella, and to examine phylogeographic patterns on the Swan Coastal Plain. Five new species of Raveniella are described from Western Australia (R. arenacea, sp. nov., R. cirrata, sp. nov., R. janineae, sp. nov., R. mucronata, sp. nov. and R. subcirrata, sp. nov.), along with a single new species from south-eastern Australia (R. apopsis, sp. nov.). Four species of Raveniella were found on the Swan Coastal Plain: two with broader distributions in the High Rainfall and Transitional Rainfall Zones (R. peckorum Rix & Harvey, R. cirrata); and two endemic to the Swan Coastal Plain, found only on the western-most Quindalup dunes (R. arenacea, R. subcirrata). Two coastally restricted species (R. subcirrata, R. janineae) were found to be morphologically cryptic but genetically highly distinct, with female specimens morphologically indistinguishable from their respective sister-taxa (R. cirrata and R. peckorum). The greater Perth region is an important biogeographic overlap zone for all four Swan Coastal Plain species, where the ranges of two endemic coastal species join the northern and south-western limits of the ranges of R. peckorum and R. cirrata, respectively. Most species of Raveniella were found to occupy long, highly autapomorphic molecular branches exhibiting little intraspecific variation, and an analysis of ITS2 rRNA secondary structures among different species of Raveniella revealed the presence of an extraordinary hypervariable helix, ranging from 31 to over 400 nucleotides in length.

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Towards a dated molecular phylogeny of the Tanypodinae (Chironomidae, Diptera)

Invertebrate Systematics ◽

10.1071/is16046 ◽

2017 ◽

Vol 31 (3) ◽

pp. 302 ◽

Cited By ~ 4

Author(s):

M. N. Krosch ◽

P. S. Cranston ◽

L. M. Bryant ◽

F. Strutt ◽

S. R. McCluen

Keyword(s):

Molecular Phylogeny ◽

Mixed Model ◽

Mitochondrial Protein ◽

Divergence Time ◽

Molecular Data ◽

Ribosomal Gene ◽

Protein Coding ◽

Weak Support ◽

Gene Coi ◽

Inference Methods

A dated molecular phylogeny is proposed for the Tanypodinae, a diverse subfamily of Chironomidae (Diptera). We used molecular data from fragments of one ribosomal gene (28S), one nuclear protein-coding gene (CAD), and one mitochondrial protein-coding gene (COI), analysed using mixed model Bayesian and maximum likelihood inference methods. All proposed tribes were sampled, namely, Anatopyniini, Clinotanypodini, Coelopyniini, Fittkauimyiini, Macropelopiini, Natarsiini, Pentaneurini, Procladiini and Tanypodini. A multilocus dataset of 1938 characters was compiled from 123 individuals including outgroups. Monophyly was supported for all tribes although some relationships were not robust. Relationships between tribes and some genus groups are highly congruent with a morphology-based estimate. Relationships within tribe Pentaneurini mostly find weak support, yet previously hypothesised groupings and monophyly or lack thereof in well-sampled genera are revealed. The tempo of diversification of the family was deduced by divergence time analysis (BEAST). Origination of a subfamily stem group in the late Jurassic to early Cretaceous was inferred, with all tribes and many genera of Pentaneurini originating and diversifying in the Cretaceous. Some nodes are biogeographically informative. Gene sections supported the backbone, but more extensive sampling is needed to estimate shallower phylogenies and to better understand the tempo and diversification of Tanypodinae.

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The human mitochondrial 12S rRNA m4C methyltransferase METTL15 is required for proper mitochondrial function

10.1101/809756 ◽

2019 ◽

Author(s):

Hao Chen ◽

Zhennan Shi ◽

Jiaojiao Guo ◽

Kao-jung Chang ◽

Qianqian Chen ◽

...

Keyword(s):

Mitochondrial Protein ◽

Small Subunit ◽

12S Rrna ◽

Mitochondrial Rna ◽

Protein Coding ◽

Mitochondrial Ribosome ◽

The Difference ◽

And Function

ABSTRACTMitochondrial DNA (mtDNA) gene expression is coordinately regulated pre- and post-transcriptionally, and its perturbation can lead to human pathologies. Mitochondrial ribosomal RNAs (mt-rRNAs) undergo a series of nucleotide modifications following release from polycistronic mitochondrial RNA (mtRNA) precursors, which is essential for mitochondrial ribosomal biogenesis. Cytosine N4 methylation (m4C) at position 839 of the 12S small subunit (SSU) mt-rRNA was identified decades ago, however, its biogenesis and function have not been elucidated in details. Here we demonstrate that human Methyltransferase Like 15 (METTL15) is responsible for 12S mt-rRNA methylation at C839 (m4C839) both in vivo and in vitro. We tracked the evolutionary history of RNA m4C methyltransferases and revealed the difference in substrates preference between METTL15 and its bacterial ortholog rsmH. Additionally, unlike the very modest impact on ribosome upon loss of m4C methylation in bacterial SSU rRNA, we found that depletion of METTL15 specifically causes severe defects in mitochondrial ribosome assembly, which leads to an impaired translation of mitochondrial protein-coding genes and a decreased mitochondrial respiration capacity. Our findings point to a co-evolution of methylatransferase specificities and modification patterns in rRNA with differential impact on prokaryotic ribosome versus eukaryotic mitochondrial ribosome.

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Further evidence of the coextinction threat for jumping plant-lice: three new Acizzia (Psyllidae) and Trioza (Triozidae) from Western Australia

Insect Systematics & Evolution ◽

10.1163/1876312x-00002107 ◽

2014 ◽

Vol 45 (3) ◽

pp. 283-302 ◽

Cited By ~ 10

Author(s):

Gary S. Taylor ◽

Melinda L. Moir

Keyword(s):

New Species ◽

State Government ◽

Western Australia ◽

Undescribed Species ◽

Conservation Action ◽

South West ◽

Australian State ◽

Risk Of Extinction ◽

Three New Species ◽

Western Australian

Three new species of jumping plant-lice (Psylloidea) are described from Western Australia. Acizzia hughesae sp.n. occurs on Acacia veronica Maslin (Fabaceae: Mimosoideae), A. mccarthyi sp.n. on an undescribed species of Grevillea (Proteaceae) identified by the Western Australian State Government as in need of conservation action (Grevillea sp. ‘Stirling Range’) and Trioza barrettae sp.n. from the critically endangered Banksia brownii (Proteaceae). These new species of jumping plant-lice are considered rare, and at risk of extinction, or coextinction, as they are recorded from plant species with highly restricted distributions in the south-west of Western Australia. Indeed, the Western Australian State Government recently classified two of the three new jumping plant-lice species as threatened.

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Dissecting the major African snake radiation: a molecular phylogeny of the Lamprophiidae Fitzinger (Serpentes, Caenophidia)

Zootaxa ◽

10.11646/zootaxa.1945.1.3 ◽

2008 ◽

Vol 1945 (1) ◽

pp. 51-66 ◽

Cited By ~ 37

Author(s):

NICOLAS VIDAL ◽

WILLIAM R. BRANCH ◽

OLIVIER S. G. PAUWELS ◽

S. BLAIR HEDGES ◽

DONALD G. BROADLEY ◽

...

Keyword(s):

Mitochondrial Protein ◽

Sister Group ◽

Molecular Data ◽

Rrna Genes ◽

Phylogenetic Position ◽

Data Set ◽

Protein Coding ◽

Mitochondrial Rrna ◽

Protein Coding Genes ◽

History Of

The Elapoidea includes the Elapidae and a large (~60 genera, 280 sp.) and mostly African (including Madagascar) radiation termed Lamprophiidae by Vidal et al. (2007), that includes at least four major groups: the psammophiines, atractaspidines, lamprophiines and pseudoxyrhophiines. In this work, we reviewed the recent taxonomic history of the lamprophiids, and built a data set including two nuclear protein-coding genes (c-mos and RAG2), two mitochondrial rRNA genes (12S and 16S rRNA) and two mitochondrial protein-coding genes (cytochrome b and ND4) for 85 species belonging to 45 genera (thus representing about 75% of the generic diversity and 30% of the specific diversity of the radiation), in order to clarify the phylogenetic relationships of this large and neglected group at the subfamilial and generic levels. To this aim, 480 new sequences were produced. The vast majority of the investigated genera fall into four main monophyletic clusters, that correspond to the four subfamilies mentioned above, although the content of atractaspidines, lamprophiines and pseudoxyrhophiines is revised. We confirm the polyphyly of the genus Stenophis, and the relegation of the genus name Dromophis to the synonymy of the genus name Psammophis. Gonionotophis brussauxi is nested within Mehelya. The genus Lamprophis Fitzinger, 1843 is paraphyletic with respect to Lycodonomorphus Fitzinger, 1843. Lamprophis swazicus is the sister-group to Hormonotus modestus, and may warrant generic recognition. Molecular data do not support the traditional placement of Micrelaps within the Atractaspidinae, but its phylogenetic position, along with that of Oxyrhabdium (previously considered to belong to the Xenodermatidae), requires additional molecular data and they are both treated as Elapoidea incertae sedis. The interrelationships of Psammophiinae, Atractaspidinae, Lamprophiinae, Pseudoxyrhophiinae, Prosymna (13 sp.), Pseudaspis (1 sp.) and Pythonodipsas (1 sp.), Buhoma (2 species), and Psammodynastes (1 sp.) remain unresolved. Finally, the genus Lycognathophis, endemic to the Seychelles, does not belong to the African radiation, but to the Natricidae.

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Conservation systematics of the shield-backed trapdoor spiders of the nigrum-group (Mygalomorphae, Idiopidae, Idiosoma): integrative taxonomy reveals a diverse and threatened fauna from south-western Australia

ZooKeys ◽

10.3897/zookeys.756.24397 ◽

2018 ◽

Vol 756 ◽

pp. 1-121 ◽

Cited By ~ 10

Author(s):

Michael G. Rix ◽

Joel A. Huey ◽

Steven J.B. Cooper ◽

Andrew D. Austin ◽

Mark S. Harvey

Keyword(s):

Western Australia ◽

Conservation Status ◽

South Australia ◽

Molecular Data ◽

Integrative Taxonomy ◽

Species Status ◽

State Legislation ◽

Australian State ◽

Threatened Fauna ◽

Western Australian

The aganippine shield-backed trapdoor spiders of the monophyleticnigrum-group ofIdiosomaAusserers. l.are revised, and 15 new species are described from Western Australia and the Eyre Peninsula of South Australia:I.arenaceumRix & Harvey,sp. n.,I.corrugatumRix & Harvey,sp. n.,I.clypeatumRix & Harvey,sp. n.,I.dandaraganRix & Harvey,sp. n.,I.formosumRix & Harvey,sp. n.,I.gardneriRix & Harvey,sp. n.,I.gutharukaRix & Harvey,sp. n.,I.incomptumRix & Harvey,sp. n.,I.intermediumRix & Harvey,sp. n.,I.jarrahRix & Harvey,sp. n.,I.kopejtkaorumRix & Harvey,sp. n.,I.kwonganRix & Harvey,sp. n.,I.mcclementsorumRix & Harvey,sp. n.,I.mcnamaraiRix & Harvey,sp. n., andI.schoknechtorumRix & Harvey,sp. n.Two previously described species from south-western Western Australia,I.nigrumMain, 1952 andI.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 thenigrum-group are of long-standing conservation significance, andI.nigrumis the only spider in Australia to be afforded threatened species status under both State and Commonwealth legislation. Two other species,I.formosumRix & Harvey,sp. n.andI.kopejtkaorumRix & Harvey,sp. n., are also formally listed as Endangered under Western Australian State legislation. Here we significantly relimitI.nigrumto 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.

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Analysis of the differences between Syntormon pallipes and S. pseudospicatus (Diptera: Dolichopodidae): morphological and molecular data

Zoosystematica Rossica ◽

10.31610/zsr/2019.28.2.305 ◽

2019 ◽

Vol 28 (2) ◽

pp. 305-316

Author(s):

M.A. Chursina ◽

I.Ya. Grichanov

Keyword(s):

Dna Analysis ◽

Distinct Species ◽

Molecular Data ◽

Wing Shape ◽

Morphological Data ◽

12S Rrna ◽

Separate Species ◽

Geometric Morphometric ◽

Geometric Morphometric Analysis ◽

Morphological And Molecular Data

The recent catalogues of the family Dolichopodidae considered Syntormon pallipes (Fabricius, 1794) and S. pseudospicatus Strobl, 1899 as separate species. In this study, we used three approaches to estimate the significance of differences between the two species: molecular analysis (COI and 12S rRNA sequences), analysis of leg colour characters and geometric morphometric analysis of wing shape. The morphological data confirmed the absence of significant differences between S. pallipes and S. pseudospicatus found in the DNA analysis. Significant differences in the wing shape of two species have not been revealed. Hence, according to our data, there is no reason to consider S. pseudospicatus as a distinct species.

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Polyphyletic Origins of Schizothoracinae Fishes (Cyprinidae) in Respect to Their Mitochondrial Protein-Coding Genes

10.35248/2375-446x.19.7.207 ◽

2019 ◽

Vol 07 (02) ◽

Author(s):

Saira Bibi ◽

Muhammad Fiaz Khan ◽

Aqsa Rehman ◽

Faisal Nouroz

Keyword(s):

Mitochondrial Protein ◽

Protein Coding ◽

Protein Coding Genes

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Factors that contribute to urban–rural gradients in risk of schizophrenia: Comparing Danish and Western Australian registers

Australian & New Zealand Journal of Psychiatry ◽

10.1177/00048674211009615 ◽

2021 ◽

pp. 000486742110096

Author(s):

Oleguer Plana-Ripoll ◽

Patsy Di Prinzio ◽

John J McGrath ◽

Preben B Mortensen ◽

Vera A Morgan

Keyword(s):

Confidence Interval ◽

Western Australia ◽

Urban Areas ◽

Proportional Hazards ◽

Cox Proportional Hazards ◽

Hazard Ratio ◽

Indigenous Status ◽

Increased Risk ◽

The Relationship ◽

Western Australian

Introduction: An association between schizophrenia and urbanicity has long been observed, with studies in many countries, including several from Denmark, reporting that individuals born/raised in densely populated urban settings have an increased risk of developing schizophrenia compared to those born/raised in rural settings. However, these findings have not been replicated in all studies. In particular, a Western Australian study showed a gradient in the opposite direction which disappeared after adjustment for covariates. Given the different findings for Denmark and Western Australia, our aim was to investigate the relationship between schizophrenia and urbanicity in these two regions to determine which factors may be influencing the relationship. Methods: We used population-based cohorts of children born alive between 1980 and 2001 in Western Australia ( N = 428,784) and Denmark ( N = 1,357,874). Children were categorised according to the level of urbanicity of their mother’s residence at time of birth and followed-up through to 30 June 2015. Linkage to State-based registers provided information on schizophrenia diagnosis and a range of covariates. Rates of being diagnosed with schizophrenia for each category of urbanicity were estimated using Cox proportional hazards models adjusted for covariates. Results: During follow-up, 1618 (0.4%) children in Western Australia and 11,875 (0.9%) children in Denmark were diagnosed with schizophrenia. In Western Australia, those born in the most remote areas did not experience lower rates of schizophrenia than those born in the most urban areas (hazard ratio = 1.02 [95% confidence interval: 0.81, 1.29]), unlike their Danish counterparts (hazard ratio = 0.62 [95% confidence interval: 0.58, 0.66]). However, when the Western Australian cohort was restricted to children of non-Aboriginal Indigenous status, results were consistent with Danish findings (hazard ratio = 0.46 [95% confidence interval: 0.29, 0.72]). Discussion: Our study highlights the potential for disadvantaged subgroups to mask the contribution of urban-related risk factors to risk of schizophrenia and the importance of stratified analysis in such cases.

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