Impacts of sediment type on the performance and composition of submerged macrophyte communities

To restore deteriorated lake ecosystems, it is important to identify environmental factors that influence submerged macrophyte communities. While sediment is a critical environmental factor for submerged macrophytes and many studies have examined effects of sediment type on the growth of individual submerged macrophytes, very few have tested how sediment type affects the growth and species composition of submerged macrophyte communities. We constructed submerged macrophyte communities containing four co-occurring submerged macrophytes (Hydrilla verticillata, Myriophyllum spicatum, Ceratophyllum demersum and Chara fragilis) and subjected them to three sediment treatments, i.e., clay, a mixture of clay and quartz sand at a volume ratio of 1:1 and a mixture at a volume ratio of 1:4. Compared to the clay, the 1:1 mixture treatment greatly increased overall biomass, number of shoot nodes and shoot length of the community, but decreased its diversity. This was because it substantially promoted the growth of H. verticillata within the community, making it the most abundant species in the mixture sediment, but decreased that of M. spicatum and C. demersum. The sediment type had no significant effects on the growth of C. fragilis. As a primary nutrient source for plant growth, sediment type can have differential effects on various submerged macrophyte species and 1:1 mixture treatment could enhance the performance of the communities, increasing the overall biomass, number of shoot nodes and shoot length by 39.03%, 150.13% and 9.94%, respectively, compared to the clay treatment. Thus, measures should be taken to mediate the sediment condition to restore submerged macrophyte communities with different dominant species.     

The Middle–Late Ordovician brachiopod Plectorthis from North America and its paleobiogeographic significance

Plectorthis is a commonly reported Late Ordovician brachiopod genus from Laurentia and several other tectonic plates. Examination of shells from the Cincinnati Arch type area shows that species previously assigned to the genus have a considerable range of variability, such as ribbing style, shell outline, and musculature. The type species, Orthis plicatella Hall, 1847 is characterized by generally simple costae, with double-rowed aditicules on each rib, and a cordate ventral muscle field. Some species previously attributed to Plectorthis have a subtriangular ventral muscle field and hence a closer affinity to the plaesiomyid genus Austinella. Orthis fissicosta is here demoted to a subspecies of Plectorthis plicatella based on its similar ribbing style to some specimens of the type species. In Laurentia, Plectorthis first appeared in the Darriwilian–Sandbian boundary interval, achieved a relatively high species diversity and wide paleogeographic distribution in pericratonic seas during the early Katian; the subequatorial species attained a notably larger shell than those in the higher paleotropics. The genus did not invade the intracratonic basins of Laurentia and became extinct by the late Katian.     

Supratidal foraminifera as ecological indicators in anthropically modified wetlands (Lagoon of Venice, Italy)

In transitional environments, the intertidal zones represent a peculiar case characterized by halophile vegetation and by a low diversity benthic community. On these areas just a few particular foraminiferal species, a class of Protoctista secreting a shell called test, can survive for a certain time out of water. They are distributed in well-defined vertical zonations with respect to mean sea level and they correspond to analogous marsh floral zonations. In particular, the Trochammina macrescens Brady + Trochammina inflata (Montagu) association characterizes the salt marsh zone above mean high water level. The potential of these taxa as bioindicators is tested, since their presence-absence-dominance differentiates the subtidal/supratidal environments. Over the last few centuries, various engineering works generated major physical changes in the Venetian Lagoon. These changes affected the natural evolution of the intertidal morphologies, the surface of which is decreasing. In an attempt to reverse this tendency, numerous artificial salt marshes have been constructed and more are under construction. In this study, the Mazzorbo artificial salt marsh, built during the second half of 1999, is considered. On its surface, 16 samples were collected along a transect line in May 2008 to verify the ecological role of this salting within the lagoon ecosystem. The sediment grain size distribution of the salt marsh reflects the dissipative role of the tide and the effect of sediment transport due to the wave and tidal action. However, the presence of only a few Trochammina individuals shows that the foraminiferal fauna did not recognise this morphology as a salt marsh. The lack of Trochammina colonisation can be related to the excessive elevation of the salt marsh surface. This hypothesis is confirmed by the lack of the salt-tolerant plant Spartina. The unsuccessful colonisation by the foraminifera seems to indicate that this artificial salting does not have the natural dynamism of the intertidal morphologies and it may only be classified as land recovery. The supratidal foraminiferal taxa can act as an ecological indicator: through their observation it is possible to verify whether an artificial salt marsh accomplishes its task of functioning as an ecological unit with the community of organisms.     

Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments

Nitrate is an important nutrient and electron acceptor for microorganisms, having a key role in nitrogen (N) cycling and electron transfer in anoxic sediments. High-nitrate inputs into sediments could have a significant effect on N cycling and its associated microbial processes. However, few studies have been focused on the effect of nitrate addition on the functional diversity, composition, structure and dynamics of sediment microbial communities in contaminated aquatic ecosystems with persistent organic pollutants (POPs). Here we analyzed sediment microbial communities from a field-scale in situ bioremediation site, a creek in Pearl River Delta containing a variety of contaminants including polybrominated diphenyl ethers (PBDEs) and polycyclic aromatic hydrocarbons (PAHs), before and after nitrate injection using a comprehensive functional gene array (GeoChip 4.0). Our results showed that the sediment microbial community functional composition and structure were markedly altered, and that functional genes involved in N-, carbon (C)-, sulfur (S)-and phosphorus (P)- cycling processes were highly enriched after nitrate injection, especially those microorganisms with diverse metabolic capabilities, leading to potential in situ bioremediation of the contaminated sediment, such as PBDE and PAH reduction/degradation. This study provides new insights into our understanding of sediment microbial community responses to nitrate addition, suggesting that indigenous microorganisms could be successfully stimulated for in situ bioremediation of POPs in contaminated sediments with nitrate addition.     

Diversity and distribution of ammonia-oxidizing Archaea in the seasonally frozen soils in Northeastern China

The genetic diversity and distribution of ammonia-oxidizing Archaea (AOA) in nine seasonally frozen soils sampled around the city of Harbin, China, is analyzed based on archaeal amoA gene. Soil samples are divided into four groups by its properties: fertilized/unfertilized mesic (well-balanced supply of moisture) soils and fertilized/unfertilized hydric (abundant of moisture) soils. Clone libraries based on AOA amoA gene polymerase chain reaction products are constructed, and the phylogenetic analysis at 5 % cutoff level shows that AOA members mainly belong to the soil/sediment lineage which includes four clusters, and very few archaeal amoA gene sequences fall into the marine lineage. The four groups of soils have different archaeal amoA gene assemblage, and the available nitrogen and organic carbon are significantly correlated with diversity indexes. The result shows that long-term artificial amendment such as fertilization and agriculture cultivation has an important impact on AOA community shift in terrestrial environment. Moisture may drive the shape of different AOA communities by changing the aerobic environment into anaerobic. Soil composition is another noticeable factor effect AOA community, which can help the shape of a special AOA community with only two species.     

Tubes or cell sheet? A 3-D reconstruction of Halysis Høeg, 1932, from the Upper Ordovician of South China

Halysis is a microfossil found in Ordovician to Devonian shallow-marine carbonates. Up to now, it is only known from thin-sections, and therefore its three-dimensional shape and its systematic position are controversial. Halysis is described as a chain-like microfossil with a shape of the single “chain links” ranging from circular to rounded rectangular. Given that Halysis commonly co-occurs with calcareous algae, it is assumed to also be an alga. Interpretations of the anatomy propose a filiform or tubiform shape. Even a unistratose sheet of cells has been discussed. Since Halysis is comparatively rare, its shape has not been resolved up to now. For the present study, 52 out of several hundred specimens from an Upper Ordovician shallow-water limestone of South China have been investigated in detail, which for the first time offers the opportunity to analyze a great number of sections through Halysis. A three-dimensional computer model of Halysis has been constructed in order to set up planes sectioning the model. These simulated sections have been compared to those from Halysis in thin-sections. The results show that Halysis represents a microfossil with a morphology consisting of parallel juxtaposed, partly branching tubes. A single sheet of cells, which was recently proposed as shape of Halysis, can clearly be excluded.     

The trace fossil Circulichnis as a record of feeding exploration: New data from deep-sea Oligocene–Miocene deposits of northern Italy

Circulichnis is a puzzling, ring-like trace fossil preserved on bedding planes. It is represented mostly by its type ichnospecies C. montanus, which is characterized by an evenly circular or elliptical course. A new ichnospecies, C. ligusticus, is distinguished based on material from deep-sea Oligocene–Miocene deposits of the Tertiary Piemonte Basin, NW Italy. It shows a winding or irregular course. A new model of Circulichnis is proposed as an exploration burrow produced mostly by the trace makers of Helminthoidichnites, Gordia, or Helminthopsis, as it moved to a different sediment layer to checking its feeding utility. This type of behaviour occurred already by the Ediacaran and is common in marine, mostly deep-sea bedded sediments. The trace makers belong mostly to polychaetes in marine sediments and to oligochaetes in continental sediments.     

Middle–Late Ordovician brachiopods from Ningnan,southern Sichuan Province,Southwest China: Implications for macroevolution and palaeogeography

Middle to Late Ordovician brachiopods from the Huadan Formation (upper Darriwilian–Sandbian) of Ningnan County, southern Sichuan Province, are systematically documented here for the first time. The locality belongs to the western margin of the Upper Yangtze Platform, South China palaeoplate, and the brachiopod fauna includes one new genus and three new species as well as five other constituents: Hingganoleptaena sp., Acculina zhongliangziensis n. sp., Ningnanmena longisepta n. gen. n. sp., Kassinella (Trimurellina) minuta n. sp., Lepidorthis typicalis Wang, 1955, Protoskenidioides weixinensis Zhan and Jin, 2005, Porambonites transversus Xu, Rong and Liu, 1974, and Psilocamerella sp. Taxonomically it is a typical representative of a Middle to early Late Ordovician brachiopod fauna, and, together with some other evidence from other fossil groups like trilobites, conodonts, chitinozoans, a late Darriwilian–Sandbian age could be inferred for the horizon yielding this fauna. According to the richness of each constituent, this fauna is suggested to be called the Acculina-Ningnanmena fauna (ANF). Numerical palaeogeographical analysis shows that two broad palaeobiogeographic provinces could be recognized during this particular time interval, and, although the ANF is grouped into the South China cluster, it shares very little similarity with other representatives of that group except for two cosmopolitans. It further confirms that the Great Ordovician Biodiversification Event (GOBE), in other words the Ordovician radiation, was actually manifested by the strong localization of major marine organisms such as brachiopods, trilobites, graptolites, etc.     

Purple Pitcher Plant (Sarracenia rosea) Dieback and Partial Community Disassembly following Experimental Storm Surge in a Coastal Pitcher Plant Bog

Sea-level rise and frequent intense hurricanes associated with climate change will result in recurrent flooding of inland systems such as Gulf Coastal pitcher plant bogs by storm surges. These surges can transport salt water and sediment to freshwater bogs, greatly affecting their biological integrity. Purple pitcher plants (Sarracenia rosea) are Gulf Coast pitcher plant bog inhabitants that could be at a disadvantage under this scenario because their pitcher morphology may leave them prone to collection of saline water and sediment after a surge. We investigated the effects of storm surge water salinity and sediment type on S. rosea vitality, plant community structure, and bog soil-water conductivity. Plots (containing ≥1 ramet of S. rosea) were experimentally flooded with fresh or saline water crossed with one of three sediment types (local, foreign, or no sediment). There were no treatment effects on soil-water conductivity; nevertheless, direct exposure to saline water resulted in significantly lower S. rosea cover until the following season when a prescribed fire and regional drought contributed to the decline of all the S. rosea to near zero percent cover. There were also significant differences in plant community structure between treatments over time, reflecting how numerous species increased in abundance and a few species decreased in abundance. However, in contrast to S. rosea, most of the other species in the community appeared resilient to the effects of storm surge. Thus, although the community may be somewhat affected by storm surge, those few species that are particularly sensitive to the storm surge disturbance will likely drop out of the community and be replaced by more resilient species. Depending on the longevity of these biological legacies, Gulf Coastal pitcher plant bogs may be incapable of fully recovering if they become exposed to storm surge more frequently due to climate change.     

Dinosaurs: a field guide/The Princeton field guide to dinosaurs

Eggshells from the three extant crocodilian species Crocodylus mindorensis (Philippine Crocodile), Paleosuchus palpebrosus (Cuvier's Smooth-fronted Caiman or Musky Caiman) and Alligator mississippiensis (American Alligator or Common Alligator) were prepared for thin section and scanning electron microscope analyses and are described in order to improve the knowledge on crocodilian eggs anatomy and microstructure, and to find new apomorphies that can be used for identification. Both extant and fossil crocodilian eggs present an ornamentation that vary as anastomo-, ramo- or the here newly described rugosocavate type. The angusticaniculate pore system is a shared character for Crocodylomorpha eggshells and some dinosaurian and avian groups. Previously reported signs of incubated crocodilian eggs were found also on our only fertilised and hatched egg. Paleosuchus palpebrosus presents unique organization and morphology of the three eggshell layers, with a relatively thin middle layer characterised by dense and compact tabular microstructure.     

Variation in Craniomandibular Morphology and Sexual Dimorphism in Pantherines and the Sabercat Smilodon fatalis

Sexual dimorphism is widespread among carnivorans, and has been an important evolutionary factor in social ecology. However, its presence in sabertoothed felids remains contentious. Here we present a comprehensive analysis of extant Panthera and the sabertoothed felid Smilodon fatalis. S. fatalis has been reported to show little or no sexual dimorphism but to have been intraspecifically variable in skull morphology. We found that large and small specimens of S. fatalis could be assigned to male and female sexes with similar degrees of confidence as Panthera based on craniomandibular shape. P. uncia is much less craniomandibularly variable and has low levels of sexual size-dimorphism. Shape variation in S. fatalis probably reflects sexual differences. Craniomandibular size-dimorphism is lower in S. fatalis than in Panthera except P. uncia. Sexual dimorphism in felids is related to more than overall size, and S. fatalis and the four large Panthera species show marked and similar craniomandibular and dental morphometric sexual dimorphism, whereas morphometric dimorphism in P. uncia is less. Many morphometric-sexually dimorphic characters in Panthera and Smilodon are related to bite strength and presumably to killing ecology. This suggests that morphometric sexual dimorphism is an evolutionary adaptation to intraspecific resource partitioning, since large males with thicker upper canines and stronger bite forces would be able to hunt larger prey than females, which is corroborated by feeding ecology in P. leo. Sexual dimorphism indicates that S. fatalis could have been social, but it is unlikely that it lived in fusion-fission units dominated by one or a few males, as in sub-Saharan populations of P. leo. Instead, S. fatalis could have been solitary and polygynous, as most extant felids, or it may have lived in unisexual groups, as is common in P. leo persica.     

A Rangwapithecus gordoni mandible from the early Miocene site of Songhor,Kenya

A mandible of Rangwapithecus gordoni from the early Miocene site of Songhor, Kenya, provides additional information about this relatively poorly known taxon. The R. gordoni sample is small, being composed of dental and a few gnathic parts. The fossil described here provides examples of previously unknown dental and mandibular anatomy, and confirms former reassignments of isolated anterior teeth based on less certain evidence. The phylogenetic status of Rangwapithecus, its distribution, and paleobiology are briefly reviewed. Rangwapithecus shows a suite of dental and gnathic features that warrants its generic distinction from Proconsul. Derived features shared with Nyanzapithecus and Turkanapithecus indicate that it is an early member of the subfamily Nyanzapithecinae. Its molar morphology suggests a considerable component of folivory in its diet. A review of the hypodigm shows Rangwapithecus to be restricted to Songhor. This distribution parallels that of Limnopithecus evansi, and is mirrored by Limnopithecus legetet and Micropithecus clarki suggesting that Songhor may have differed ecologically from other more or less contemporary sites in the region.     

The Ordovician acritarch genus Coryphidium

The acritarch genus Coryphidium Vavrdová, 1972 is one of the most frequently recorded acritarch taxa in the Ordovician. The original diagnoses, stratigraphical ranges and geographical distribution of all Coryphidium species are critically evaluated in a review of published literature supplemented by studies of material from the British Isles, Belgium, the Czech Republic, Germany, Spain, Morocco, Algeria, Tunisia, Libya and China, including sections from type areas. The taxonomic concept of the genus is here rationalized: the genus Coryphidium is emended and the informal category of coryphid acritarchs is introduced to include all morphotypes with the characteristic vesicle shape of the two genera Coryphidium and Vavrdovella Loeblich and Tappan, 1976. Nine of the previously described species can be attributed to the genus, and two other species possibly belong to it. The attribution to Coryphidium of the species C. sichuanense Wang and Chen, 1987 is rejected here. Intraspecific variability is very important and the attribution of Coryphidium specimens at the specific level is sometimes difficult. The genus is found in all palaeoenvironments from nearshore to offshore settings and apparently does not occupy specific palaeoecological niches. Coryphidium is very useful biostratigraphically and palaeobiogeographically. The review indicates that the genus first appears in the uppermost Tremadocian Araneograptus murrayi graptolite Biozone and is common through the upper Lower Ordovician and the Middle Ordovician, while Upper Ordovician occurrences might be the result of reworking. Palaeogeographically, Coryphidium is an indicator of the peri-Gondwanan acritarch “palaeoprovince” during the Early/Middle Ordovician.     

Zooxanthellae genotypes in the coral Siderastrea stellata from coastal reefs in northeastern Brazil

Siderastrea stellata is a common scleractinian coral that inhabits shallow reefs off the coast of Brazil. This species is considered to be very resistant to temperature and salinity variations and water turbidity, demonstrating great ecological plasticity and adaptability to environmental changes. Samples of S. stellata were taken from the Cabo Branco coastal reefs near João Pessoa, Brazil, every month for two years and analyzed using PCR and Restriction Fragment Length Polymorphisms of SSU rDNA techniques. The data indicated that during the study period S. stellata hosted only one SSU rDNA genotype of Symbiodinium with the RFLP pattern of clade C. The presence of clade C zooxanthellae in S. stellata in northeastern Brazilian reefs shows the wide geographical distribution of this clade, and it may aid bleaching recovery in S. stellata. Furthermore, the association of S. stellata with a zooxanthellae clade considered to be one of most resistant to bleaching may help to explain the high ecological plasticity of this scleractinian species, its capacity to reverse bleaching, and its high resistance and resilience to environmental disturbances.     

Skeletal variation in the early clathrodictyid stromatoporoids of Upper Ordovician and its paleoecological and phylogenetic implications

This study reports four species belonging to two genera of clathrodictyid stromatoporoids from the Sanqushan Formation (Katian, Upper Ordovician), Changshan County, Zhejiang Province, East China: Clathrodictyon cf. mammillatum (Schmidt), C. plicatum Webby and Banks, C. cf. microundulatum Nestor and Labyrinthodictyon cascum (Webby and Morris). Of these, three species (C. cf. mammillatum, C. plicatum and L. cascum) show a wide range of skeletal variation, representing the variation from the normal skeletal phase to abnormal Ecclimadictyon-like crumpled skeletal phase, especially in the axial part of the columnar growth forms. It is uncertain whether the skeletal variation in early clathrodictyids was the result of environmental stress (such as abrupt sediment influxes that often cause growth interruptions of the stromatoporoids) or genetic inheritance. These characteristics suggest that this group had greater environmental tolerance than the earlier labechiids and increased ecological complexity during Late Ordovician by providing a stable, solid and elevated substrate for the other benthic organisms. This may imply that the labechiids and clathrodictyids are quite different groups, probably independently derived during the early evolution of stromatoporoids.     

Donax trunculus (Bivalvia: Donacidae) as a potential biological indicator of grain-size variations in beach sediment

Donax trunculus (Linnaeus, 1758) is one of the most common bivalve molluscs inhabiting the sandy shores of the Mediterranean Sea. This species, which is preferentially distributed on sediments at depths between 0 and about 2 m, is considered to be a substrate-sensitive organism because of its sensitivity to sediment grain size variations during its life cycle, in particular during its early growth stages. This study aims at investigating the relationship between D. trunculus’ density distributions and sediment grain size, in order to evaluate its use as a biological indicator of grain-size variations in beach sediment. For this purpose, a specific environmental study was performed by ISPRA (Italian National Institute for Environmental Protection and Research) along six beaches located in the Central Tyrrhenian Sea between Ladispoli and Anzio (Rome, Italy). On each beach, samples of D. trunculus and superficial sediments were collected in the infra-littoral zone at 3 different depths (0, 0.5, and 1 m) between June 2002 and March 2004. The results pointed out that the distribution of D. trunculus populations is strongly influenced by the sediment's grain size variations. A significant positive correlation was found between species density and the 2.00-phi and 2.50-phi grain size classes; but, in particular, the predominance of the 2.00-phi grain size class in the beach's sediment seems to positively influence the species density and distribution.This study suggests that sediment grain size is the chief factor controlling the distribution of D. trunculus populations; suitable grain sizes allow the settlement and the subsequent growth of well-structured populations. Generally, species density declined in areas subjected to grain-size variations in beach sediments, suggesting a predictable biological response to both natural and human-caused stressors. The present study also highlighted that where nourishment was carried out using suitable sediments, the species reappears on the beach after a few months, as it finds an optimal substrate for settlement. In this case, finding D. trunculus specimens a few months after replenishment indicates that the nourishment operations have been successful from an environmental point of view. As reported by Carignan and Villard (2002), a species that is strongly associated with particular habitat features could be a useful indicator; in particular, a species – like D. trunculus – that is negatively associated with human disturbances could be considered a “positive” indicator of ecological integrity.Long-term monitoring of D. trunculus abundance or density on sandy beaches (adequately carried out during the species’ recruitment period, e.g. between July and September), could help pinpoint the presence of natural or human-made phenomena that are leading to grain-size variations in the sediment. In conclusion, we can assume that D. trunculus can be used as a practical biological indicator to detect grain size variations on sandy beaches in coastal monitoring programmes; it could be a useful tool for researchers, managers and administrators to assess erosion phenomena while minimizing times and costs, also in view of an integrated coastal zone management.     

New brachiopods from the Ordovician of northeastern Russia

New brachiopod taxa, Starnikoviella gen. nov., with the type species S. settedabanica sp. nov. (family Clitambonitidae), and Avdeevella gen. nov., with the type species A. mica sp. nov. (subfamily Glyptomeninae), from the Middle–Upper Ordovician boundary deposits of northeastern Russia are described.     

Sinoceras chinense (Foord, 1888) in western Thailand: first identification outside China

The nautiloid cephalopod Sinoceras chinense (Foord, 1888) was previously only known from the Upper Ordovician of Chinese blocks/terranes. Here, we document the first identification of S. chinense from the Kanchanaburi area, western Thailand. Upper part of the Tha Manao Formation containing S. chinense is extremely similar both faunally and lithologically to the coeval Pagoda Formation of South China. This identification from Thailand not only extends the palaeobiogeographic distribution of S. chinense, but also supports the dynamic palaeogeographic reconstruction of the peri-Gondwana Chinese terranes and Sibumasu from Middle to Late Ordovician.