Testing taxonomic resolution,data transformation and selection of species for monitoring macroalgae communities

The Water Framework and Habitats Directives require the evaluation of both the conservation and ecological status of macroalgae communities at water body or habitat level. However, assessments of macroalgal communities are highly time-consuming, both in terms of sampling effort and laboratory processing. These constraints have brought about their oversight in many marine monitoring programs, especially in subtidal environments. By using data from intertidal and subtidal macroalgae assemblages of Mouro Island (North coast of Spain) we wanted to identify possible cost-effective methods for monitoring this biological indicator, based on both high taxa levels and use of representative taxa. Multivariate analyses were applied using different data transformations. The results show that macroalgal communities are robust to aggregation to genus or even family level. Moreover, the outcomes show that transformation types introduce higher variation in the multivariate pattern of samples than the taxonomic level to which organisms are identified. Also, the study supports the use of representative taxa as a surrogate to overall community structure. Therefore, we conclude that a rapid-assessment by means of field evaluations, based on coverage of representative taxa, is a reliable alternative for the assessment of macroalgae status. In addition this procedure allows evaluation at a broader spatial scale (water body or habitat level) than traditional quantitative sampling procedure does.     

An analysis of sponge diversity and distribution at three taxonomic levels in the Thousand Islands/Jakarta Bay reef complex, West-Java, Indonesia

Very few coral reefs are located close enough to large cities to study the influence of large urban populations on reef assemblages. An exception is the Thousand Islands reef complex to the north of Jakarta, the capital city of Indonesia, and one of the largest conurbations in the world. Here we present data from a detailed survey where sponge assemblages were assessed at 30 patch reefs associated with islands in three coastal zones along an in-to-offshore gradient. Sponge assemblages are described at three taxonomic levels of detail (species, genus and family level). We recorded a total of 118 sponge species, 64 genera and 36 families, Aaptos suberitoides (Brønsted, 1934), Clathria (Thalysias) reinwardti (Vosmaer, 1880), Petrosia (Petrosia) nigricans (Lindgren, 1897) and Xestospongia testudinaria (Lamarck, 1813) were the most common species overall. There was a pronounced difference in composition among zones with the most distinct difference between the inshore zone and the other two zones. The inshore environment was characterised by very high turbidity and low live coral cover; the dominant substrate consisted of algal turf and sand. Environmental conditions improved and sponge diversity increased further offshore, although most areas appeared to have been affected by some form of disturbance. Ordinations were also largely congruent, at species, generic and family levels of taxonomic resolution. This indicates that variation in composition at higher taxonomic levels is a good indicator of variation at lower taxonomic levels, at least when there is a pronounced environmental gradient.     

Variance estimate and taxonomic resolution: An analysis of macrobenthic spatial patterns at different scales in a Western Mediterranean coastal lagoon

The effects of taxonomic resolution on the variance estimates of macrobenthic assemblages were studied at four spatial scales in a Mediterranean coastal lagoon. The assemblages exhibited significant differences at all the investigated scales; however, spatial variability was mainly associated with the smallest and the largest scales. The decrease of taxonomic resolution (from species to family) was not related to a decrease of the overall variability and similar estimates of variance components were obtained using species and family resolution levels. The ordination models derived from species and family abundances were very similar both in terms of location and dispersion effect, while further aggregation to the class level began to alter the observed spatial patterns. In future studies aimed at assessing changes in the lagoon, resources derived from the cost reductions achieved using family level could be employed to plan more frequent surveys and/or to adopt complex spatial sampling designs with a high number of replicates.     

Seasonal patterns of tidepool macroalgal assemblages in the North of Portugal. Consistence between species and functional group approaches

Macroalgae are useful organisms to monitor the environmental quality and to detect impacts due to anthropogenic activities. However, it is very important to identify the scales of variation in natural assemblages, particularly for the detection of environmental impacts. Otherwise, changes due to anthropogenic impacts may be confused with differences due to natural temporal variability. Another important task is to determine the appropriate level of taxonomical effort needed to detect changes in the assemblage structure. Many taxonomical surrogates, at higher taxonomic levels than that of species, have been proposed but, the consistence in space and time of the results produced by surrogates with those obtained at specific level should be tested. The objectives of this study are to identify the seasonal patterns of tidepool macroalgal communities using objective procedures and to test the consistence between the patterns obtained considering data at the species level and functional groups. Results showed that the seasonal pattern obtained using functional groups and species was consistent. Tidepool macroalgal assemblages showed a seasonal pattern with significant differences between spring–summer and autumn–winter. This pattern can be explained by changes in environmental variables and the seasonal development of the dominating species. Ulva spp. and the non-indigenous species Grateloupia turuturu were the species responsible for this pattern due to their high seasonality in terms of biomass. Finally, the abundance and species diversity within the corticated functional group was proposed as indicator of environmental impacts due to its relatively constant abundance and its sensitivity to environmental impacts.     

More about taxonomic sufficiency: a case study using polychaete communities in a subtropical bay moderately affected by urban sewage

The taxonomic sufficiency approach has been proposed as a surrogate for the typical analysis of speciesabundance data, especially in conditions involving prominent pollution gradients. Here, we evaluate the use of taxonomic sufficiency with infralittoral macrobenthic data derived from samples taken in a moderate polluted subtropical environment in southeastern Brazil, analysing five taxonomic levels and including two functional levels throughout polychaete feeding guilds and trophic groups. The data were collected seasonally at nine stations and studied for two abundance data series (0.5 and 1.0 mm sieve mesh-size). The results showed a similar ordination pattern between the two sieve mesh-size, but with the 0.5 mm sieve data a different pattern was observed during austral summer. A slight loss of information was detected using genus, family, polychaete species and their feeding guilds as taxonomic/ functional units. These results together with those of the cost/ benefit ratio, suggested that the family level seemed to be sufficient to detect the impact caused by moderate pollution in this shallow-water, subtropical environment. In additional, through the use of feeding guilds, similar patterns are obtained. Correlation analysis showed that chlorophyll a, total organic matter, zinc, and chromium sediment content were the variables that best explained the biological pattern observed and not always the best correlation coefficient occurring at the species level. The feeding guild approach seems to be useful and generates interpretable results similar to those obtained with the species level of the whole macroinfauna. The results showed an important cost reduction in the sample processing, suggesting that it is possible to adopt a coarser taxonomic level monitoring program even in species-rich communities.     

Volunteer and professional macroinvertebrate monitoring provide concordant assessments of stream health

Whilst volunteer monitoring has many benefits for both volunteers and professionals, volunteer data must be validated to understand the value and potential applications of information from volunteer monitoring programmes. Our study aimed to assess the concordance between volunteer and professional data, including state and trend assessments. We compared macroinvertebrate data collected by volunteers using a simplified identification protocol to data collected by professionals following standard national protocols for collection and identification. We found that volunteer and professional macroinvertebrate data expressed as summary indices of ecological health were significantly correlated. However, the coarser level of taxonomic identification in the volunteer dataset limited the use of taxon richness as a biodiversity measure. We also demonstrated that the ability of volunteer data to detect long-term trends in ecological health is comparable to professional data. Overall, stream monitoring data collected by volunteers provided an assessment of stream health that was concordant with assessments based on data collected by professionals, indicating that volunteer data could be used to support professional monitoring programmes.     

黄河口鱼类群落分类学多样性的研究

根据2013-2014年在黄河口水域进行的7个航次的鱼类资源底拖网调查数据，应用分类多样性指数分析了黄河口水域鱼类群落生物多样性的时空变化。黄河口鱼类主名录的平均分类差异指数△+理论平均值为75.5。2013-2014年调查中，该水域共捕获鱼类51种，隶属10目、27科、43属，以鲈形目、鲱形目和鲉形目鱼类居多。本次调查中鱼类群落分类多样性指数△和分类差异指数△*月变化范围分别为39.98~65.48和59.15~75.54，均表现为夏季月份最高，春、秋季月份次之，冬季最低。除春季月份外，其他月份鱼类平均分类差异指数△+均显著低于黄河口鱼类主名录的△+理论平均值。不同月份中平均分类差异指数△+也呈现一定的空间变化，夏、秋季月份绝大部分站位平均分类差异指数处于95%置信范围内，春、冬季月份个别站位的平均分类差异指数显著低于理论平均值，这与这些站位绝大多数种类集中在鲈形目有关。黄河口水域鱼类分类学多样性具有明显的时空变化，鱼类资源衰退，应加强该水域鱼类资源养护和多样性保护。     

Application of functional data analysis to investigate seasonal progression with interannual variability in plankton abundance in the Bay of Fundy,Canada

The statistical technique of functional data analysis (FDA) is applied to a time series analysis of plankton monitoring data. The analysis is focused on revealing patterns in the seasonal cycle to assess interannual variability of several different taxonomic groups of plankton. Cell concentrations of diatom, dinoflagellate and zooplankton abundances from the Bay of Fundy, Canada provide the observations for analysis. FDA was performed on the log-transformed abundance data as a new approach for treating such types of sparse and noisy data. Differences in the seasonal progression were seen, with peak numbers, timings and abundance levels varying for the three groups as determined by curve registration and higher order derivatives using the objectively fit FDA curves. Nonmetric multidimensional scaling was used to capture seasonal variation among years. These results were further assessed in terms of dominant species and the relationships between groups for different seasons and years. It is anticipated that the easy to use, general and flexible technique of FDA could be applied to a wide variety of marine ecological data that are characterized by missing values and non-Gaussian distributions.     

Spatial patterns in meiobenthic assemblages in intermittently open/closed coastal lakes in New South Wales, Australia

Intermittently closed and open lakes and lagoons (ICOLLs) are important features of the Australian coastline. Local authorities frequently open lakes by bulldozing or dredging the mouths, in an effort to improve water-quality and to reduce the risk of flooding and these interventions provided an opportunity to examine large-scale patterns in meiobenthos in relation to isolation from the sea. Even at a coarse level of taxonomic resolution (phylum, class and order), consistent differences between assemblages of meiobenthos in different reaches of the lakes and between open and closed lakes were revealed. The abundance of meiobenthos generally decreased with increasing distance from the sea. Multivariate analyses showed that nematodes, copepods and turbellarians were characteristic of assemblages near the mouths of lakes while polychaetes and oligochaetes characterised those in more isolated areas. Furthermore, assemblages in the inner reaches of open lakes also differed from those in closed lakes. Isolated localities were less diverse and more spatially variable. Differences in meiobenthos between natural lakes and those that are artificially opened became apparent when open and closed were analysed separately. Lakes that are kept open artificially are similar to naturally open lakes despite other impacts associated with human activities. These results are considered in the context of isolation and the implications of proposed changes in the way mouths are manipulated are discussed.     

Implications of spatial heterogeneity for management of marine protected areas (MPAs): examples from assemblages of rocky coasts in the northwest Mediterranean

Marine protected areas (MPAs) are increasingly used as a management tool to preserve species and habitats. Testing hypotheses about the effectiveness of MPAs is important for their implementation and to identify informative criteria to support management decisions. This study tested the general proposition that MPAs affected assemblages of algae and invertebrates between 0.0 and 0.5 m above the mean low water level of rocky coasts on two islands in the Tuscan Archipelago (northwest Mediterranean). Protection was concentrated mainly on the west coasts of the islands, raising the possibility that neither the full range of assemblages nor the relevant scales of variation were properly represented within MPAs. This motivated the comparison of assemblages on opposite sides of islands (habitats). The effects of MPAs and habitat were assessed with a multifactorial sampling design; hypotheses were tested about differences in structure of assemblages, in mean abundance of common taxa and in univariate and multivariate measures of spatial variation. The design consisted of three replicate shores for each condition of protected and reference areas on the west side of each island and three unprotected shores on the eastern side. Assemblages were sampled independently four times on each island between June 1999 and January 2001. At each time of sampling two sites were selected randomly at each of two tidal heights to represent midshore and lowshore assemblages on each shore. Estimates of abundance were obtained using non-destructive sampling methods from five replicate 20x20 cm quadrats at each site. Results indicated differences among habitats in structure of assemblages, in mean abundance of common taxa and in univariate and multivariate measures of spatial variation at the scale of shores. Most of these patterns were inconsistent with the predicted effect of management through MPAs. The data suggest that designation of MPAs in the Tuscan Archipelago should proceed through management of multiple shores and types of habitat selected to guarantee protection to a representative sample of assemblages and to the processes responsible for maintenance of spatial patchiness at different scales. This study also shows that considerations of spatial heterogeneity are important to underpin management decisions about the number, size and location of MPAs.     

Size scaling patterns of species richness and carbon biomass for marine phytoplankton functional groups

Phytoplankton assemblages were clustered into associations according to functional taxonomic (diatoms, dinoflagellates and coccolithophores) and “ataxonomic” unimodal (nanoplankton, microplankton and macroplankton) size‐based criteria. Scaling relations of species richness‐cell size were performed in terms of histogram and log‐transformed data analyses for both taxonomic and ataxonomic groups. Frequency distribution histograms were fitted to a negative power function, which was strongly unimodal and right skewed and invariant across taxonomic and ataxonomic units. Regression analyses of the log‐transformed data were fitted to negative linear curves, which had common patterns and they were independent of taxonomic or ataxonomic affiliation. Species carbon biomass–cell size spectra produced by log transformation of the relevant data yielded positive slopes for both taxonomic and ataxonomic groups. In contrast, comparisons of the relative cell abundance, cell volume and carbon biomass levels showed large differences among these variables across taxonomic and ataxonomic groups. This work demonstrates that phytoplankton taxonomic and ataxonomic functional group relationships should be considered when developing future models of phytoplankton community structure.     

Spatial variation of the intertidal sediments and macrozoo-benthic assemblages along Eighty-mile Beach, North-western Australia

The extensive intertidal flats along Eighty-mile Beach in North-western Australia appear to be monotonous and homogeneous and seem ideally suited to study tidal zonation in macrozoo-benthic communities and their possible correlates with characteristics of the sediment. In October 1999, we sampled benthic invertebrates and sediments at a total of 895 sampling stations distributed over six different locations, each location separated by 15 km of unsampled foreshore along Eighty-mile Beach. To test for the presence or absence of patterns of tidal zonation (distinct height-related zones of specific sediment grain sizes or zoobenthic taxonomic groups) or patchiness (distinct patches of specific sediment grain sizes or zoobenthic taxonomic groups not related to tidal height) each location was divided into three along-shore sections and each section (transect) was examined at two or three tidal heights. Zonation was observed for sediment grain sizes. Sediments were coarser at the highest intertidal level and finer towards the low water line. Benthic assemblages also differed among tidal heights, but in terms of species-composition the differences were not consistent among the locations. Each location supported a unique collection of benthic invertebrates. Therefore the hypothesis of the presence of distinct zones of specific species or zoobenthic taxonomic groups was rejected; the presence of benthic patches was confirmed. The distribution of sediments and the composition of benthic assemblages were surprisingly poorly correlated compared to those reported in 12 previous quantitative studies around the world. One possible explanation might be that super-cyclone Vance, which hit the study-area only six months before this study, contributed to this poor correlation. Alternatively, the poor correlation may indicate that biotic interactions are more important than the assumed abiotic structuring.     

The Identification and Evaluation of Benthic Macroinvertebrate Assemblages in an Industrialised estuary—Southampton Water, UK, using a longterm, low-level sampling strategy

A long-term, low-intensity sampling strategy has been applied to the benthic infauna of Southampton Water, UK to determine patterns of faunal distribution in relation to water quality influences. The estuary receives domestic and industrial discharges including a large oil refinery and associated petro-chemical industries.The data has been subject to classification and ordination techniques and three faunal assemblages identified, one characterising an area with high hydrocarbon and copper sediment values.Spatial and temporal variations have been identified- emphasising the need for a long-term approach to demonstrate the dominant faunal patterns in an area receiving a variety of discharges. The approach is economic in use of resources but compatible with the objectives of monitoring surveys.     

The use of taxonomic distinctness indices in assessing patterns of biodiversity in modular organisms

Estimating diversity of modular organisms may be problematic due to actual difficulties in discriminating between 'individuals' and quantifying their abundances. Quantitative data, when available, are collected through methods that could preclude the application of classical diversity indices, making comparisons among studies difficult. Taxonomic distinctness indices, such as the 'Average Taxonomic Distinctness' (Δ⁺) and the 'Variation in Taxonomic Distinctness' (Λ⁺) may represent suitable tools in investigating diversity beyond the simple species number. The potential usefulness of such indices has been explored almost exclusively on unitary organisms, neglecting modular ones. In this study, we employed Δ⁺ and Λ⁺ to analyse patterns of diversity of epiphytic hydroid assemblages living on Cystoseira seaweeds at a hierarchy of spatial scales, along 800 km of rocky coast (SE Italy). ANOVA on species richness and Λ⁺ showed no significant difference in sample diversity at the investigated spatial scales. In contrast, there were significant differences at the scale of 10s of km in Δ⁺. Analyses based on simulations detected significant variations at all spatial scales in Δ⁺. Such findings underline the potential of Δ⁺ in highlighting relevant spatial scales of variation in patterns of hydroid diversity. Our results also suggest that the interplay between natural environmental variations and the complex ecological traits of modular organisms might affect taxonomic distinctness indices. We stress the need for further investigations focusing on modular organisms before any generalizations on the use of taxonomic relatedness measures in examining marine biodiversity can be made.     

Copepod assemblages in a highly complex hydrographic region

Community structure and diversity patterns of planktonic copepods were investigated for the Southwestern Atlantic Ocean between 34 and 41°S. Our objectives were (1) to define copepod assemblages, (2) to accurately identify their association to different water masses/hydrodynamic regimes, (3) to characterize the assemblages in terms of their community structure, and (4) to test if frontal boundaries between water masses separate copepod assemblages. Biogeographic patterns were investigated using multivariate analysis (cluster and ANOSIM analyses). Biodiversity patterns were examined using different univariate indexes (point species richness and taxonomic distinctness). Five regions of similar copepod assemblages were defined for our study area each one corresponding to different environments (freshwater, estuarine, continental shelf, Malvinas and Brazil current assemblages). These assemblages have major community structure differences. In spite of the complex oceanographic scenario of our study area, that can lead us to expect a pattern of copepod communities with diffuse boundaries, we found a strong spatial correspondence between these limits and the presence of permanent frontal structures.     

Invasion of Sargassum muticum in intertidal rockpools: Patterns along the Atlantic Iberian Peninsula

Spatial patterns of non-indigenous species show scale-dependent properties. Sargassum muticum is an invasive macroalga widely distributed along the Atlantic Iberian Peninsula. Despite being quite abundant from Norway to South Portugal, there is little information about its patterns of distribution, particularly at a large spatial scale (i.e. thousands of kilometres). Here, we examined the spatial variation in the invasion success of S. muticum from rockpools at multiple spatial scales using a hierarchical design. In addition, we analysed how the richness of native assemblages was related to its invasion success and how this relationship changed over different scales. Most of the variation in the invasion success was found at the smallest scales of pool and plot. Furthermore, the invasibility of native macroalgal assemblages was related to the native species richness, but causes that determined invasion success could not be separated from the effects provoked by the invader. Results suggest that small-scale (centimetres to metres) processes contribute considerably to the heterogeneity of S. muticum invasion success.     

Abundance of the introduced seastar, Asterias amurensis, and spatial variability in soft sediment assemblages in SE Tasmania: Clear correlations but complex interpretation

The northern Pacific seastar, Asterias amurensis, was first collected in southeast Tasmania in 1986. Mistaken for the endemic asteroid Uniophora granifera, its true identity was not realised until 1992. It is now a conspicuous predator in soft sediment habitats in this region, and is considered a major threat to native assemblages and commercial species. We examined the structure of soft sediment assemblages at different spatial scales in southeast Tasmania, and correlated spatial variation in community composition with seastar abundances. We found that the structure of soft sediment assemblages is highly variable at a range of spatial scales from metres to tens of kilometres. Clear differences in the composition of assemblages and abundances of major taxa were detected between areas with and without seastars and between areas with low and high seastar densities. However, the nature of these patterns suggests that they are more likely due to differences in sediment characteristics than due to impacts of the seastar. Thus, spatial differences in soft sediment assemblages might have been erroneously attributed to seastars without detailed information on important physical factors such as sediment characteristics. A second survey, using larger sampling units (1 m²) but across a more limited spatial extent, targeted bivalves and heart urchins that were identified as important prey of the seastar in observations of feeding and in experimental studies. Large-scale patterns of abundance and size structure were consistent with seastar effects anticipated from small-scale experimental and feeding studies for some, but not all, species. While the field survey ultimately provided evidence about the presence or absence of seastar impacts at large-scales, the identification of key ecological variables in experimental and feeding studies proved crucial to both the design and interpretation of patterns observed in the large-scale surveys. Overall, this work highlighted the necessity to consider multiple lines of evidence rather than relying on a single ‘inferential’ test, in the absence of pre-impact data.     

Spatial variation of intertidal assemblages at Tavolara-Capo Coda Cavallo MPA (NE Sardinia): geographical vs. protection effect

Marine protected areas (MPAs) represent a potentially useful management tool to preserve biodiversity. Protection effectiveness was investigated at Tavolara-Capo Coda Cavallo MPA by comparing assemblages of rocky shores at a location 'A' level of protection (island), with those at two locations at 'B' level of protection (one on an island and one on the mainland coast) and two at 'C' level of protection (one on an island and one on the mainland coast). Results did not indicate significant differences in structure of intertidal assemblages among locations under different levels of protection ('A', 'B' and 'C'). Protection was not found to be a significant source of variation to low-shore assemblages investigated. In contrast, assemblages seemed to be more dependent on the geographical location within the MPA. Results have important implications for conservation of marine coastal assemblages and would indicate that inclusion of representative assemblages within systems of marine protected areas should target rocky shores both on the mainland and on islands.