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Port Phillip Bay (PPB) is a large (1,930 km 2 ), temperate embayment in southern Victoria, Australia. Extensive bay-wide surveys of PPB have occurred since 1840. In 1995/1996 the Commonwealth Scientific and Industrial Research Organization (CSIRO) Centre for Research on Introduced Marine Pests (CRIMP) undertook an intensive evaluation of the region with the aims of developing a comprehensive species list of native and introduced biota and contrasting previous bay-wide assessments with a current field survey in order to detect new incursions and discern alterations to native communities. Two methods were used to meet these aims: a re-evaluation of regional museum collections and published research in PPB to identify and determine the timing of introductions; and field surveys for benthic (infauna, epifauna and encrusting) organisms between September 1995 to March 1996. One hundred and sixty introduced (99) and cryptogenic (61) species were identified representing over 13% of the recorded species of PPB. As expected, the majority of these are concentrated around the shipping ports of Geelong and Melbourne. Invasions within PPB appear to be increasing, possibly due to an increase in modern shipping traffic and an increase in aquaculture (historically associated with incidental introductions); however the records of extensive biological surveys suggest that this may, in part, be an artefact of sampling effort. In contrast to Northern Hemisphere studies, PPB (and Southern Hemisphere introductions in general) have significantly different suites of successfully invading taxa. PPB is presented as one of the most invaded marine ecosystems in the Southern Hemisphere.

Epibenthic community structure in Port Phillip Bay was examined from quantitative diver samples collected at 30 depth-stratified stations during 1998. Analysis of variance showed a strong trend of decreasing epibenthic abundance, biomass and species diversity with depth. Reductions in these three parameters were most pronounced over shallow inshore waters and could be attributed largely to decreases in the abundance of the heavy, mat-forming ascidian Pyura stolonifera with depth. Four epifaunal community groupings, closely reflecting differences in sediment and habitat type within the bay, were identified from ordinations of species abundance and biomass data. The four epifaunal groupings also closely matched distributional patterns observed in other studies in both demersal fish and infaunal communities. Epifaunal communities in the bay were dominated by filter-feeding organisms which accounted for nearly 95% of the total species abundance and 98% of the total species biomass. Seven of the 63 epibenthic organisms collected during the survey are exotic introductions to the bay (Sabella spallanzanii, Ascidiella aspersa, Styela clava, Styela plicata, Ciona intestinalis, Pyromaia tuberculata and Asterias amurensis). As many of these species are widespread and abundant (35% of all individuals), their effects on the ecology of Port Phillip Bay are likely to be significant.

Infauna are important in many ecological processes but have been rarely considered in biodiversity assessments of coral reefs and surrounding areas. We surveyed infaunal assemblages and associated environmental factors (depth, seabed reflectance, sediment characteristics) in three areas (Mandu, Point Cloates, Gnaraloo) along the Carnarvon Shelf, Western Australia. This region supports Ningaloo Reef, a relatively pristine coral reef protected by the Ningaloo Marine Park and a Commonwealth marine reserve. Macrofauna were sampled with a Smith-McIntyre grab and sieved through 500 µm. A total of 423 species and 4036 individuals was recorded from 145 grabs, with infauna accounting for 67% of species and 78% of individuals. Rare species (≤2 individuals per species) represented 42% of the total assemblage. Assemblages were significantly different among all three areas, with the most distinct recorded from the southern-most area (Gnaraloo). Although assemblages varied significantly with depth and sediment composition (mud and gravel), these relationships were weak. Results from the current study broadly quantify macrofaunal diversity in the region and identify potential spatial and environmental patterns which will help inform future marine management plans, including the provision of baseline information to assess the efficacy of protected areas in soft-sediment habitats adjacent to coral reefs.

A key requirement for informed marine-zone management is an understanding of the spatial patterns of marine biodiversity, often measured as species richness, total abundance or presence of key taxa. In the present study, we focussed on the diversity of benthic infauna and applied a predictive modelling approach to map biodiversity patterns for three study sites on the tropical Carnarvon shelf of Western Australia. A random forest decision tree model was used to generate spatial predictions of two measures of infaunal diversity, namely, species richness and total abundance. Results explained between 20% and 37% of the variance of each measure. The modelling process also identified potential physical surrogates for species richness and abundance, with sediment physical properties ranked as most important across the study region. Specifically, coarse-grained heterogeneous sediments were associated with higher infaunal species richness and total abundance. Seabed topographic properties were also important at the local scale. The study demonstrated the value of a surrogacy approach to the prediction of biodiversity patterns, particularly when the number of biological samples was limited. Such an approach may facilitate an understanding of ecosystem processes in the region and contribute to integrated marine management.

Strong correlations between pairs of the abiotic variables (|ρ| >= 0.75) are highlighted in Table S1. The four Local Moran's I of bathymetry variables were highly correlated (ρ = 1.0); as were the four Local Moran's I of backscatter variables (ρ >= 0.97) and the four TPI variables (ρ >= 0.89). This indicates that over the extent of the study area scale was not a significant issue for these three measures. Strong correlations were also found amongst the morphological parameters (slope, topographic relief and surface area) (ρ >= 0.75), between sediment sorting and a seabed exposure variable (|ρ| = 0.82), and between Fe and water temperature (|ρ| = 0.79). The correlations between bathymetry and two seabed exposure variables (ρ = 0.79) were expected because bathymetry was an input to the SWAN model. The strong correlations between skewness and kurtosis (measures of asymmetry) (|ρ| = 0.93) and between mud and sand (|ρ| = 1.0) were also expected because they are interrelated descriptors of the grain size distribution for each sample.

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