Flavivirus isolations from mosquitoes collected from Saibai Island in the Torres Strait, Australia, during an incursion of Japanese encephalitis virus

Adult mosquitoes (Diptera: Culicidae) were collected in January and February 2000 from Saibai Island in the Torres Strait of northern Australia, and processed for arbovirus isolation during a period of Japanese encephalitis (JE) virus activity on nearby Badu Island. A total of 84 210 mosquitoes were processed for virus isolation, yielding six flavivirus isolates. Viruses obtained were single isolates of JE and Kokobera (KOK) and four of Kunjin (KUN). All virus isolates were from members of the Culex sitiens Weidemann subgroup, which comprised 53.1% of mosquitoes processed. Nucleotide sequencing and phylogenetic analysis of the pre-membrane region of the genome of JE isolate TS5313 indicated that it was closely related to other isolates from a sentinel pig and a pool of Cx. gelidus Theobald from Badu Island during the same period. Also molecular analyses of part of the envelope gene of KUN virus isolates showed that they were closely related to other KUN virus strains from Cape York Peninsula. The results indicate that flaviviruses are dynamic in the area, and suggest patterns of movement south from New Guinea and north from the Australian mainland.     

Coralline algae indicate Pleistocene evolution from deep,open platform to outer barrier reef environments in the northern Great Barrier Reef margin

Coralline algae from a drill core in Ribbon Reef 5 have been used to interpret changes in the depositional palaeoenvironments in the northern Australian Great Barrier Reef over the last 790 ka. Three main coralline algal assemblages, each dominated by members of a particular subfamily, have been distinguished by quantitative analysis: (1) mastophoroid assemblages, usually occurring as crusts on corals, are typical of the shallowest reef settings; (2) lithophylloid assemblages within algal nodules may represent shallow-water, cooler environments or deeper reef subenvironments; and (3) melobesioid assemblages are characteristic of deeper-water platform areas. The algal assemblages between 96 and 210 m b.s.f. (metre below sea floor) record a fluctuating but progressive shallowing-upwards from deep, outer-platform to shallower, non-reefal depositional environments. Two intervening episodes dominated by mastophoroids represent two phases of reef growth. The section above 96 m b.s.f. comprises several stacked reefs in which mastophoroid crusts similar to the present-day shallow-water assemblages predominate.Electronic Supplementary Material Supplementary material is available for this article at .Communicated by: Geological Editor P.K. Swart     

A review of bioinformatics degrees in Australia

Bioinformatics has been a hot topic in Australia's biotechnology circles for the past five years. As with biotechnology in the 1990s, there has been a sudden increase in the number of Bioinformatics undergraduate degrees. For students in the 2005 intake there are six undergraduate Bioinformatics degrees to choose from and another five Bioinformatics streams within a Bachelor of Science degree. The courses vary from three to four years of full-time study. This report aims at dissecting each of these degrees to determine where the differences lie, to give the prospective students an idea as to which degree suits their career goals and to give an overview of the pedagogy of Australian bioinformatics education.     

Nest architecture and genetic differentiation in a species complex of Australian stingless bees

We investigated the taxonomic significance of nest shape and its putative role in speciation in Trigona (Heterotrigona) carbonaria and T. (H.) hockingsi, two sibling species of stingless bee species from eastern Australia. These species are primarily distinguished by their nest architecture, as in all other respects they are nearly identical. We genotyped 130 colonies from six locations in Queensland at 13 microsatellite loci together with 106 additional colonies from six other Indo-Pacific Trigona species. Whether they were present in allopatry or in sympatry, colonies that displayed the T. carbonaria or the T. hockingsi nest architecture could be unambiguously differentiated at the genetic level. However, T. hockingsi colonies were classifiable into two highly differentiated paraphyletic and geographically separate populations, one in northern and one in southern Queensland. These two populations probably belong to two distinct species, T. hockingsi and T. davenporti nov. sp. Our results suggest that nest architecture characters are relevant but not sufficient criteria to identify species in this group. Consequently, modifications of nest architecture are probably not of prime importance in the speciation process of Australian stingless bees, although nest architecture differences probably result from relatively simple mechanisms. The rare interspecific hybrid colonies detected did not display a nest with an intermediate form between T. hockingsi and T. carbonaria.     

Molecular phylogeography and systematics of the arid-zone members of the Egernia whitii (Lacertilia: Scincidae) species group

We assembled a molecular phylogeny for the arid-zone members of the Egernia whitii species group to test Pianka's [Zoogeography and speciation of Australian desert lizards: an ecological perspective, Copeia (1972) 127-145] hypothesis that habitat specificity to the three major arid-zone vegetation communities is the primary cause of lizard speciation within the arid interior of Australia. This hypothesis predicts that species should exhibit phylogeographic structuring concordant with the major arid-zone vegetation types. Sequence data were obtained from four of the five arid-zone members of the E. whitii species group, and from across the ranges of the ecologically generalized E. inornata and E. multiscutata and the more specialized E. striata. We targeted a fragment (696 base pair (bp)) of the mitochondrial genome comprising the 3' half of the ND4 gene. We analysed the data using parsimony, maximum likelihood and Bayesian methods. Our phylogeny confirms the monophyly of the arid-zone members of the species group, although the phylogenetic relationships among species were not fully resolved. Although our topology does not support the recognition of the existing subspecies within E. multiscutata, there is a substantial phylogeographic break between South Australian/Victorian (Clade 1) and Western Australian (Clade 2) populations. We found considerable phylogeographic structure within E. inornata, with six major clades identified. However, these clades were not concordant with the distribution of habitat types in the arid-zone. Phylogeographic structure was also observed in the more specialized E. striata, although our analysis revealed close phylogenetic affinities between the sympatric species E. striata and E. kintorei. Shimodaira-Hasegawa topology tests were equivocal in regard to whether the phylogeographic structure within E. striata was in accordance with Pianka's predictions. Although our data failed to provide strong support for the suggestion that ecological and habitat factors are responsible for the diversification of arid-zone lizards, most E. inornata and E. striata populations had similar habitats, indicating that adaptation to particular habitats may have some role in the speciation of lizards in the Australian arid-zone.     

Contrasting patterns of radiation in African and Australian Restionaceae

The floras of the Mediterranean-climate areas of southern Africa and southwestern Australia are remarkably species rich. Because the two areas are at similar latitudes and in similar positions on their respective continents, they have probably had similar Cenozoic climatic histories. Here we test the prediction that the evolution of the species richness in the two areas followed a similar temporal progression by comparing the rates of lineage accumulation for African and Australian Restionaceae. Restionaceae (Poales) are typical and often dominant elements in the fynbos vegetation of the Cape Floristic Region of southern Africa and the kwongan vegetation of the Southwestern Floristic Province of Western Australia. The phylogeny of the family was estimated from combined datasets for rbcL and trnL-F sequences and a large morphological dataset; these datasets are largely congruent. The monophyly of Restionaceae is supported and a basal division into an African clade (approximately 350 species) and an Australian clade (146 species) corroborated. There is also support for a futher subdivision of these two large sister-clades, but the terminal resolution within the African clade is very weak. Fossil pollen records provided a minimum age of the common ancestor of Australian and African Restionaceae as 64-71 million years ago, and this date was used to calibrate a molecular clock. A molecular clock was rejected by a likelihood ratio test; therefore, rate changes between the lineages were smoothed using nonparametric rate smoothing. The rate-corrected ages were used to construct a plot of lineages through time. During the Palaeogene the Australian lineage diversity increased consistent with the predictions of the constant birthrate model, while the African lineage diversity showed a dramatic increase in diversification rate in the Miocene. Incomplete sampling obscures the patterns in the Neogene, but extending the trends to the modern extant diversity suggests that this acceleration in the speciation rate continued in the African clade, whereas the Australian clade retained a constant diversification rate. The substantial morphological and anatomical similarity between the African and Australian Restionaceae appear to preclude morphological innovations as possible explanations for the intercontinental differences. Most likely these differences are due to the greater geographical extent and ecological variation in temperate Australia than temperate Africa, which might have provided refugia for basal Restionaceae lineages, whereas the more mountainous terrain of southern Africa might have provided the selective regimes for a more rapid, recent speciation.     

A review of the world marine gastropod fishery: evolution of catches, management and the Chilean experience

Marine mollusks are among the most importantinvertebrate fisheries in the world. The mainclasses of mollusk fished are Cephalopoda,Bivalvia and Gastropoda. Marine gastropodsrepresent approximately 2% of the mollusksfished in the world. Several species ofgastropods, such as Haliotis spp., Strombus spp., Busycon spp. and Concholepas concholepas, have high economicvalue in international markets and playimportant social roles in small-scale artisanalfisheries. In the past 25 years wild-stockcatches of marine gastropods have increasedfrom 75,000 mt in 1979 to 103,000 mt in 1996.During the same period the countries involvedin gastropod landings rose from 23 to 47.Gastropods are fished mainly in: (1) theAmerican continent, dominated by the extractionof the muricid ``loco', C. concholepas, inChile and Peru; strombid conchs, Strombusspp., in the Caribbean, and abalone, Haliotis spp., in California and the west coastof the Baja California peninsula; (2) Asia andOceania, with the dominate abalone fishery,mainly in Australia and New Zealand, and thehorned turban snail, Turbo truncatus, inJapan and Korea; (3) in Africa and Europe, thedominate species extracted are Haliotismidae, heavily fished in South Africa, and thecommon periwinkle, Littorina littorea,and the whelk Buccinum undatum, which areextracted in Europe. This review summarizes the fishery of abalonespecies in California and the west coast of theBaja California peninsula. We highlightoverfishing situations and the utilization ofadaptive management tools, such as those inoperation in Baja California, where small-scalefisher associations (cooperatives) havereceived exclusive access rights to abaloneextraction within specific fishing zones, since1936. We also review the abalone fishery inAustralia, and the use of IndividualTransferable Quotas (ITQs) and Total AllowableCommercial Catches (TACC), which have been inuse since the mid-1980's. We describe thegastropod fisheries in Chile, mainly C. concholepas, highlighting their economic andsocial importance. We provide information onthe evolution of catches and exports anddiscuss the development of novel managementadaptive tools, such as the implementation ofthe Benthic Regime for Extraction andProcessing (BREP), the introduction ofNon-Transferable Individual Quotas (NTIQs) andterritorial users rights for benthic fisheries,such as the Management and Exploitation Areas(MEAS). Finally, we present and discuss thenecessary steps for the sustainable managementof marine gastropods and other benthic resources.     

Variation in insect damage and growth in Eucalyptus globulus

Abstract

• 1 Objectives of this study were to examine (i) between‐provenance variation in susceptibility to insects in Eucalyptus globulus and (ii) relationships between insect damage and tree growth. We planted seedlings of 18 provenances of E. globulus from south‐east Australia in a field trial and measured tree growth and insect damage.
• 2 Christmas beetles Anoplognathus spp. were the dominant herbivores during this experiment, and 99% of trees were affected by them. Defoliation of individual trees by Anoplognathus spp. ranged from 0% to 85%.
• 3 The main results of this study were that: (i) provenances of E. globulus from Tasmania and the Bass Strait islands, which had previously shown resistance to autumn gum moth Mnesampela privata and leaf blister sawfly Phylacteophaga froggatti tended to be resistant to Anoplognathus spp.; (ii) mean tree volume was reduced by herbivory; and (iii) the volume‐based performance ranking of provenances changed depending on the probability of insect outbreaks.
• 4 Fast‐growing provenances should be planted in optimal growing areas for E. globulus with low probability of insect outbreaks. However, in suboptimal growing areas, planting slightly slower growing but more resistant provenances is likely to result in greater output than planting fast‐growing provenances when the probability of insect outbreaks is high.

     

<Emphasis Type="Italic">Trichiurus nickolensis</Emphasis>, a new hairtail from Australia belonging to the <Emphasis Type="Italic">Trichiurus russelli</Emphasis> complex (Perciformes: Trichiuridae)

A new hairtail, Trichiurus nickolensis, is described on the basis of ten specimens collected off northwestern Australia, off the Northern Territory, and in the Gulf of Carpentaria, Queensland. The new species strongly resembles T. brevis Wang and You in Wang et al., 1992, off Hainan Island, South China Sea, and T. russelli Dutt and Thankam, 1966, off the Waltair Coast, Andhra Pradesh, India, in having the highest point of the supraoccipital crest situated directly above the posterior margin of the eye and a relatively short caudal peduncle. Trichiurus nickolensis differs from those two species in being strongly pigmented on the anterior section of the dorsal fin membrane (vs. slightly pigmented), and having a dorsal head margin that appears concave in lateral view, rises gently from snout tip to above middle of orbit, and then extends more steeply to dorsal fin origin (vs. rising gently from tip of snout to dorsal fin origin). The new species also has a greater number of dorsal fin rays (III, 138–143 vs. III, 127–132 and III, 127–131 in T. brevis and T. russelli, respectively) and total vertebrae (160–166 vs. 147–155 and 149–153), and shorter preanal length (mean 30% TL vs. 33% TL and 35% TL), head length (11% TL vs. 12% TL and 13% TL) and upper jaw length (4% TL vs. 5% TL and 5% TL).     

Effects of decomposition on carcass attendance in a guild of carrion-breeding flies

Many forensically important calliphorids, sarcophagids and muscids (Diptera) oviposit or larviposit on corpses only during the early stages of decomposition, yet individuals may attend bodies throughout decay. A field study was conducted to investigate how patterns of carcass use and attendance by some fly species are affected by decomposition. Five fly traps were placed in the forest and baited with whole, fresh piglet carcasses. Piglets decomposed in traps throughout the experiment, and all were skeletonized within 6 days. Flies were trapped at both early and late decomposition stages, and the species and population structures of trap catches were compared. More flies attended carcasses early rather than late in decay. For all species, flies attending early were mainly gravid females, but few gravid females attended late in decay. No females ovi- or larviposited late in decay, whereas females of all fly species deposited offspring early in decay. The number of males trapped of each species correlated positively with the number of females with eggs at early development stages. Observations were made of fly predation by European wasps Vespula germanica Fabricius (Hymenoptera, Vespidae) and jumper ants Myrmecia pilosula Smith (Hymenoptera, Formicidae) throughout the experiment. There was a higher risk for smaller fly species of being killed following predator attack. Ants and wasps attacked smaller fly species, whereas only wasps attacked larger fly species.