This paper describes the development of a method for quantitative measurement of the elemental composition of particulate matter (PM) in seawater. This method is based on use of wavelength dispersive X-ray fluorescence (WDXRF) analysing PM harvested on various filter types. As the amount of material is less than a monolayer of cells on the filters we reduced the need for absorption correction. Given the appropriate combination of filters and elements the detection limits are low: <1 µg/filter for carbon (C), nitrogen (N), and <0.1 µg/filter for silicon (Si), phosphorus (P), calcium (Ca) and iron (Fe). The analytical range used was 90–750 µg C, 23–116 µg N and 7–30 µg P, depending on the filters applied. Calibration constants for the elements included in this study were obtained from analysis of known quantities of chemical compounds on filters or silver plates. For carbon and nitrogen we also used comparative measurements of Synechococcus sp. cultures by CHN analyser and WDXRF. We harvested PM from 150 ml to 2000 ml on each filter in three replicates, obtaining less than 5% analytical variability between the replicates. One of the challenges using WDXRF as proposed here is the absorption of X-ray signals by the filter and variability of cell/particle sizes, and, consequentlyly, the variability of harvested PM on various filters. We find that an anodisc filter is best suited for C and N, while polycarbonate filters are best for heavier elements. Here we present analytical details and some data from field experiments related to C, N, P, Si, Ca and Fe in particles from seawater.

The rising impact of invasive species and climate change on Mediterranean fish biodiversity highlight the urgency to evaluate the current status of natural assemblages. Here we investigated the rocky-reef fish of Malta and Lampedusa (Strait of Sicily, Mediterranean Sea), two islands of high biogeographical importance subjected to a different level of protection and anthropic pressure. By using underwater visual census, a total of 192 counts were performed in May–June and September–October 2007 using a hierarchical spatial design and four depth layers. Overall, 23 families and 61 different taxa were recorded. Out of them, two highly invasive species were censused (i.e. Siganus luridus and Fistularia commersonii) with relatively low abundances. Native Labridae and Sparidae shape the assemblage structure of both islands, and thermophilic species such as Sparisoma cretense and Thalassoma pavo occur with high densities. The fish assemblages of Malta and Lampedusa were relatively similar in species composition, richness and total abundance. Nevertheless, multivariate analysis depicted significant differences between these two islands, mainly attributable to the unevenness of Labridae. Significant differences in the size distribution of the most abundant species were detected between islands, with parallel variation across time. The pattern of spatio-temporal variability of the whole assemblage structure strongly resembled that of nekto-benthic fish, hence pointing out the relevance of this guild as an indicator species group in future monitoring activity. This study will serve as a current baseline against which future changes in the central Mediterranean fish assemblages can be assessed.

Biological traits analysis (BTA) is considered to be a powerful technique for describing the ecological functioning of marine benthic assemblages. This study is the first to apply BTA to assess differences in the traits of benthic faunal assemblages between areas exposed to heavy and light trawling in a major upwelling ecosystem along the west coast of southern Africa. The data were collected from two sampling locations in Namibia and six sampling locations in South Africa. The intensity of trawling varied from area to area. Significant differences in biological traits (BT) were detected between heavily and lightly trawled areas. Weighted infaunal traits showed significant differences between heavily and lightly trawled areas for 17% of the traits investigated, while 24% of epifaunal traits investigated were significantly different between areas of different trawling intensities. This suggests that the measured BTs of the epifauna might be more sensitive to trawling disturbances than BTs of the infauna. The infaunal traits differed significantly between areas with larger or smaller proportions of sand and mud. Nevertheless, more of the significant differences in infaunal BTs were related to variations in trawling intensity than to variations in sediment composition. Significant modifications of BTs are likely to lead to modified functioning of the community and provide more general potential indicators for management than those based on species. The study confirms the need for more basic biological and life history data on macro-benthic invertebrates but nevertheless shows that BTA detected specific features that correlate with trawling intensity and that these features may be important for epifaunal assemblage functioning.

Microphytobenthos (MPB) contributes up to half the primary production of estuaries. These microorganisms are sensitive to changes in sediment temperatures, particularly the extreme temperatures during exposure periods. This study investigates the physiological responses of MPB to freezing temperatures at two locations near Hobart, Tasmania during winter. Photosynthetic parameters were measured at 2 mm intervals to a depth of 10 mm. FV/FM values at three different distances from the shoreline at Kings Beach and Browns River in winter were between 0.584 and 0.617. rETRmax values were between 24.696 and 20.773. Maximum α values peaked in the subsurface rather than at the sediment surface. In vitro laboratory experiments (down to −5°C) showed little difference in response between the control and treatment groups, indicating no apparent effects of short term freezing on the MPB. Little change in photosynthetic parameters in response to freezing was probably associated with the resistance of light-harvesting reactions to freezing temperatures, recovery of the plasmalemma integrity or cryoprotection. Sediment composition and species composition were similar at both sampling sites. Therefore, responses of MPB were not due to species and grain size composition.

The rocky shore of Punta Este, Golfo Nuevo (Patagonia, Argentina), was sampled by means of the standardized NaGISA (CoML) protocol, that was aimed to generate biodiversity baseline data in six levels, from high intertidal to 10 m depth. Based on the generated data, we analysed the benthic assemblage structure, species richness, mean abundance and the distribution pattern of invertebrate functional groups, typifying species in each intertidal and subtidal level. The intertidal sampled is exposed to extreme physical conditions higher than any other rocky shore system studied, with air temperature variation of 40°C during the year, maximum winds of 90 km/h and semidiurnal tides of 5 m amplitude; on the other hand subtidal presents less thermal variation (ΔT 10°C throughout the year) and more homogeneous physical conditions. We identified 64 taxa represented by six animal phyla: Mollusca, Arthropoda, Annelida (Polychaeta), Echinodermata, Cnidaria and Nemertea; and three algal phyla: Chlorophyta, Rhodophyta and Heterokontophyta (class: Phaeophyceae). Ordination non-metric multidimensional scaling plots showed three different assemblages in terms of species composition (intertidal, subtidal 1 m level and subtidal 5–10 m levels). The intertidal was represented by suspension feeders, mainly Mollusca. The tiny mussels Brachidontes rodriguezii and Brachidontes purpuratus, and the algae Corallina officinalis dominated the intertidal and promote positive interaction (amelioration), preventing other species from the extreme physical stress. The subtidal was mainly represented by grazers. Our results showed a tendency of suspension feeders to decrease and grazers and predators to increase from high intertidal to subtidal, probably driven by decreasing physical stress. The gastropod Tegula patagonica, the sea urchins Arbacia dufresnii and Pseudechinus magellanicus and the invasive algae Undaria pinnatifida were the most abundant species in 1 m–10 m levels. Based on previous work performed in the region, we hypothesize that the differences registered between intertidal and subtidal levels could be explained in part by an increase in physical stress at the intertidal, with low predation pressure that promotes positive interactions, while in the subtidal the increase in consumers and decrease of physical stress could lead to associational defences. Our results could be useful as baseline data to develop a sustainable network for long-term monitoring of benthic community changes due to anthropogenic activities.

Here we describe habitat use and the grazing effects of the sea urchin Tetrapygus niger and the gastropod Tegula atra in the low intertidal zone of a rocky shore in central Peru (Ancón bay: 11°46′S 77°12′W), where these two species were documented as coexisting with no evidence of habitat segregation between them. Gut content and isotopic analyses revealed differences between their diets: T. atra consumes mainly microalgae while Tetrapygus niger consumed also benthic macroalgae. Individual grazing effects were evaluated with inclusion/exclusion experiments. Tetrapygus niger prevented the colonization of the substrate by sessile organisms, including the dominant mussel Semimytilus algosus, while Tegula atra reduced the abundance of microalgae and green ephemeral macroalgae during early succession, but these effects were overwhelmed by the rapid increase in cover of S. algosus. We suggest that Tetrapygus niger plays a key role in this low intertidal community. Through directly limiting mussels to monopolize the substratum, T. niger can reduce the diversity of mussel associated species; conversely, through controlling primary space holders, T. niger can also benefit other grazers that live on bare substrate by maintaining a suitable area for feeding or living.

Community parameters of diatoms have been used as useful bioindicators for bioassessment of both lentic and lotic systems. The influence of enumeration time periods on detecting community parameters of periphytic diatom assemblages within different exposure times was studied using an artificial substratum in coastal waters of the Yellow Sea, northern China, during the period May–June 2010. Samples were collected at a depth of 1 m, and were examined with different enumeration time periods. Enumeration time periods represented a significant influence on detecting the community features of periphytic diatoms, although no significant changes occurred in periphytic diatom community structure between two enumeration schemes (within 24 h and 24–48 h). The delayed enumeration (within 24–48 h) may result in the similarity of the communities being reduced 10–29%, and in species numbers decreasing and in abundance increasing with exposure duration, respectively. The diversity (richness, evenness and diversity of species) indices were significantly decreased in almost all samples with >10% standard errors at some exposure times by the delayed enumeration scheme. These results suggest that the delayed enumeration may have resulted in the species richness and individual abundance of periphytic diatoms significantly decreasing and increasing, respectively, and thus significantly affected the analyses of species diversity for assessing water quality in marine ecosystems.

The genus Clytia is distributed worldwide, but most accepted species in this genus have been examined either only at the hydroid or medusa stage. The challenge in identifying Clytia species reflects their complex life cycles and phenotypic plasticity. In this study, molecular and morphological investigations of Clytia specimens from the coastal waters of China revealed an as yet unreported species, designated C. xiamenensis sp. nov., that was considered as conspecific to two nearly cosmopolitan species, C. hemisphaerica and C. gracilis. DNA barcoding based on partial mitochondrial cytochrome c oxidase subunit I (COI) and large subunit ribosomal RNA gene (16S) confirmed the highly distinct lineage of C. xiamenensis sp. nov. These results were corroborated by the detailed observations of its mature medusae and its colonies, which showed that C. xiamenensis sp. nov. was morphologically distinct from other species of Clytia. Thus, based on our findings, the nearly cosmopolitan distribution attributed to some species of Clytia might rather be due to the misidentification, and it is necessary to elucidate their whole life cycle in order to establish the systematic validity of all species within the genus Clytia.

We redescribe and illustrate Halcurias pilatus McMurrich, 1893 and H. mcmurrichi Uchida, 2004 (Endocoelantheae, Halcuriidae) from newly collected specimens from Southern Chile and deep-water reefs off Florida, respectively. Halcurias pilatus was previously considered to have a disjunct distribution until Uchida (2004) described a new species for the material from the Bahamas. However, the description of H. mcmurrichi does not meet modern taxonomic standards. We provide new anatomical and cnidae data for H. pilatus and H. mcmurrichi. Both species differ in the distribution and cnidom of nematocyst batteries in the column, development of microcnemes mesenteries, cnidae and geographical distribution. We find that H. pilatus can have a weak mesogleal marginal sphincter and amend accordingly the diagnoses of the genus Halcurias, family Halcuriidae, and suborder Endocoelantheae. These new records represent the first time both species have been collected since their original descriptions.

The corallivorous gastropod Coralliophila meyendorffi (family Coralliophilidae) is a well-known predator of the coral Cladocora caespitosa, particularly in the eastern Adriatic Sea, where population outbreaks can drastically reduce coral cover. Coralliophila meyendorffi ranges in size from 5 to 40 mm in shell total length, and smaller specimens are often found living with the coral C. caespitosa. Specimens of C. meyendorffi feed exclusively on live coral tissue, stripping it from the calcium carbonate skeleton. Recent outbreaks of the gastropod C. meyendorffi have caused considerable damage on a C. caespitosa bank in Veliko Jezero (the Mljet National Park, eastern Adriatic Sea). The bank occurs at depths between 6 and 18 m, covering a 65  m2 area. During summer of 2010, a substantial outbreak affected about 5%t of the coral colonies. The gastropods were highly aggregated in sheltered areas of the coral bank (up to 41 specimens/dm2) with smaller clusters (from 8 to 12 specimens/dm2) on coral colonies that were influenced by strong bottom currents (up to 1.23 ms−1).

Several poorly known species of the family Syllidae (Annelida) have been revised and re-described. New diagnosis and taxonomic remarks are provided for Erinaceusyllis erinaceus, Opisthosyllis neglecta comb. nov., Parapionosyllis parapionosylliformis comb. nov., Prosphaerosyllis semiverrucosa comb. nov. and Amblyosyllis granosa.

The aim of this work was to study the dynamics of Alitta succinea population growth in a tropical estuary. The organisms were collected in the polyhaline area of Pina Basin, north-eastern Brazil, in lower and shallow subtidal consolidated substrates, from October 2009 to March 2011. Fifteen samples with a size of 0.01 m2 were collected every month. A total of 2064 A. succinea individuals were measured for growth analysis, and the measure used was the length from prostomium to the 25th setiger. Growth parameters were estimated by the frequency–length distribution data from three different functions (i.e. von Bertalanffy, Gompertz and Richards). The differences in the densities of A. succinea were significant between the months of the dry and the rainy season, with the rain pattern being the factor that most affects the A. succinea life cycle. According to Akaike information criteria, the von Bertalanffy and Gompertz models were the ones that presented the best fit with the growth curve of A. succinea for the studied period. Using the Bhattacharya method for the analysis of modal progression, we identified eight cohorts. The lowest recruitment values were found in July and August 2010, respectively, and the remaining months had numbers of recruits that were representative of the total population. The growth performance index (Ø′) found was 2.86. The maximum longevity indicates that specimens of A. succinea live between 586 and 953 d, and the instantaneous mortality rate (Z) is 1.53 yr−1.

During a recent cruise to investigate the cold-water coral habitats in the eastern Gulf of Mexico seven scale worm species (Polychaeta: Aphroditiformia) were found, with four of them new to science: Laetmonice tunicata sp. nov. (Aphroditidae); Eunoe purpurea Treadwell, 1936, Gorgoniapolynoe caeciliae (Fauvel, 1913), Harmothoe dannyi sp. nov., Harmothoe cedrici sp. nov. and Subadyte campechensis sp. nov. (Polynoidae); and Leanira robusta Verrill, 1885 (Sigalionidae). An extended taxonomic account is given for all species, with detailed descriptions and figures for the new species. Three of the five polynoid species were found associated with a coral host: E. purpurea with Bathypathes cf. alternata Brook, 1898 (Antipatharia); G. caeciliae with Acanthogorgia armata Verrill, 1878 and Candidella imbricata (Johnson, 1862) (Octocorallia) and H. dannyi sp. nov. with Stylaster erubescens Pourtalès, 1868 (Hydrozoa). These associations are characterized in detail and documented by in situ ROV pictures and microscopic images and videos of the live animals, together with their respective host.

Alternative oxidase (AOX), a ubiquinol oxidase, introduces a branch pathway to the respiratory electron transport chain (ETC), bypassing complexes III and IV and catalysing the cyanide-resistant reduction of oxygen to water without translocation of protons across the inner mitochondrial membrane. Thus, it functions as a non-energy-conserving member of respiratory ETC. Previous studies of AOX focused on plants and some fungi, whereas data on animals are limited. In this study, full-length AOX cDNA was cloned from the Echiuran worm, Urechis unicinctus, a marine benthic invertebrate. In addition, mRNA expression pattern of combined activity of cytochrome c oxidase (CCO) in the body wall and hindgut of the worm exposed in sulphide (50 µM and 150 µM) was measured. The results revealed that AOX mRNA expression increased in a time- and concentration-dependent manner in both tissues, was significantly increased at 48 h, and continuously increased with time. In contrast, the activity of CCO decreased significantly at 24 h and was inhibited at 48 h during exposure to 150 µM sulphide. The present data indicate the expression of AOX mRNA depended on the sulphide concentration present as well as being influenced by the physical condition of the worm, especially the CCO activity.

Phytoplankton primary production and copepod production, and the size composition of the phytoplankton community in Tolo Harbour, a semi-enclosed bay in north-eastern Hong Kong, were studied from February 2008 to March 2009. Chlorophyll-a (Chl a) concentrations decreased from an average of 9.07 µg l−1 in the inner part of the bay to 3.07 µg l−1 at the mouth of the bay. In terms of contribution to total Chl a biomass, the >20 µm size fraction dominated the phytoplankton community. The zooplankton community in Tolo Harbour was dominated by small copepods, with cephalothorax length ranging from ~0.3 to 0.4 mm, and the density of copepods decreased from ~15,000 ind.m−3 in the inner part of the bay to ~9,700 ind.m−3 at the mouth of the bay. Depth-integrated net primary production in Tolo Harbour was high, ranging from 0.34 to 10.40 g C m−2 day−1, with an overall mean of 2.64 g C m−2 day−1. In contrast, copepod production was low, ranging from 0.19 to 16.64 mg C m−3 day−1, with an overall mean of 2.73 mg C m−3 day−1. The low transfer efficiency of 1.4% between phytoplankton primary production and copepod secondary production suggests that the large phytoplankton was inefficiently grazed by the small copepods in Tolo Harbour.

Changes in phenotypic traits, such as mollusc shells, are indicative of variations in selective pressure along environmental gradients. Recently, increased sea surface temperature (SST) and ocean acidification (OA) due to increased levels of carbon dioxide in the seawater have been described as selective agents that may affect the biological processes underlying shell formation in calcifying marine organisms. The benthic snail Concholepas concholepas (Muricidae) is widely distributed along the Chilean coast, and so is naturally exposed to a strong physical–chemical latitudinal gradient. In this study, based on elliptical Fourier analysis, we assess changes in shell morphology (outlines analysis) in juvenile C. concholepas collected at northern (23°S), central (33°S) and southern (39°S) locations off the Chilean coast. Shell morphology of individuals collected in northern and central regions correspond to extreme morphotypes, which is in agreement with both the observed regional differences in the shell apex outlines, the high reclassification success of individuals (discriminant function analysis) collected in these regions, and the scaling relationship in shell weight variability among regions. However, these extreme morphotypes showed similar patterns of mineralization of calcium carbonate forms (calcite and aragonite). Geographical variability in shell shape of C. concholepas described by discriminant functions was partially explained by environmental variables (pCO2, SST). This suggests the influence of corrosive waters, such as upwelling and freshwaters penetrating into the coastal ocean, upon spatial variation in shell morphology. Changes in the proportion of calcium carbonate forms precipitated by C. concholepas across their shells and its susceptibility to corrosive coastal waters are discussed.

Buccinidae—like other canivorous and predatory molluscs—are generally considered to be occasional visitors or rare colonizers in deep-sea biogenic habitats. However, casual observations during tropical deep-sea cruises suggest that associations between buccinids and sunken wood, in particular, are not fortuitous. Enigmatocolus monnieri has been found to co-occur in Madagascar with bathymodiolines, vesicomyids and solemyids, indicating the presence of seeps, and species of Thermosipho gen. nov. have been sampled by submersibles and remotely operated vehicles, exclusively from hydrothermal vents. A molecular phylogeny (based on CO1, 12S and 28S genes) reveals that buccinid genera potentially associated with sunken wood (Eosipho, Gaillea gen. nov., Calagrassor gen. nov., and Manaria) are closely related to taxa from vents (Thermosipho gen. nov.) and seeps (Enigmaticolus). The anatomy of several dissected species did not reveal any special trait that could be interpreted as a special adaptation to biogenic substrates. Buccinids from sunken wood are most diverse in the Indo-Pacific centre of marine biodiversity, the ‘Coral Triangle’, at depths between 100 and 1000 m, with numerous species still undescribed.

A 2009 oceanographic expedition of the Russian Academy of Sciences collected the anterior region of a single acorn worm (phylum Hemichordata, class Enteropneusta) by trawling at a depth of 5560 m in the Romanche Trench (equatorial Atlantic). The specimen was a ripe female with numerous, relatively small oocytes in each ovary. Phylogenetic analysis of rDNA sequences robustly placed the worm in the family Spengelidae. In addition, morphological features of the proboscis, collar, and anterior trunk region indicated that the worm was Glandiceps abyssicola, a species previously represented solely by the holotype, which had been dredged from the equatorial Atlantic in 1873 by the HMS ‘Challenger’ and subsequently sent to Germany for description by Spengel (1893). The holotype was presumably destroyed by World War II bombing; therefore, we here designate the Romanche Trench specimen as the neotype of G. abyssicola and supply an augmented species diagnosis.

The feeding ecology of the southern thorny skate, Amblyraja doellojuradoi, on the Argentine Continental Shelf was evaluated using generalized linear models. Amblyraja doellojuradoi preyed mainly on crabs (85.41% index of relative importance (IRI)) and to a lesser extent on polychaetes (4.98% IRI), teleosts (3.28% IRI), isopods (2.03% IRI), other crustaceans (1.52% IRI) and other invertebrates (2.78% IRI). As individuals increased in size, the consumption of crabs also increased and the consumption of polychaetes and other invertebrates decreased. The study area was divided into a northern (36°–43°S) and a southern (43°–50°S) region. Regarding the latitude of capture, it was observed that A. doellojuradoi mainly fed on crabs in the north and on fish, isopods and other crustaceans in the south. Females of A. doellojuradoi had a stronger preference for fish and isopods than males. As to sexual maturity, immatures fed more on polychaetes and other crustaceans than did mature. The ontogenetic change in feeding habits could be attributed to body size and an increasing ability to capture larger prey, rather than to food availability. However, this point cannot be confirmed because little is known about the benthic fauna of this area.

The Pacific sharpnose shark Rhizoprionodon longurio is caught seasonally by inshore artisanal fisheries in the Mexican Pacific. Our study focuses on the feeding ecology of this shark species in the southern Gulf of California. The prey species obtained from stomach contents were identified and quantified, and variations between sexes and maturity stages were determined. A total of 98 stomachs were analysed during two periods (2000–2001 and 2003–2004); 64% of stomachs contained food. The trophic spectrum was composed of four cephalopod species, three crustacean species, and 13 pelagic and benthic fish species. According to the index of relative importance (%IRI), the fish Echiophis brunneus (IRI = 14.4%), Opisthopterus dovii (IRI = 12.2%) and Scomber japonicus (IRI = 9.6%) were the main prey items. Based on diversity values, IRI values and diet breadth, R. longurio is an opportunistic predator. The trophic position of R. longurio was above four in all categories, which indicates that this shark is a tertiary consumer.