Benthic Diatom Assemblages Research Articles

Distribution and frequent occurrence of diatom taxa (Bacillariophyta) inhabiting warmer oceans in Seogwipo coast of Jeju Island, southernmost Korea

The epiphytic diatoms attached to seaweeds and benthic diatom assemblages, have been collected along the Seogwipo coast in Jeju Island, South Korea. In the last three-year survey, 80 diatom taxa inhabiting warmer oceans have been found, including those in the tropical and subtropical regions such as the Pacific Ocean, the Caribbean Sea, the western Indian Ocean, and other warmer regions. These diatom flora shows a worldwide pattern that concentrated around the Tropic of Cancer. This survey of local areas reveals the existence of many rare or retrieved taxa that were not well known until recently. Furthermore, some of them, including Aulacodiscus affinis, Leudugeria janischii, Hyalosynedra lanceolata, Trachyneis velata var. ornata, Lyrella concilians have been reported for the first time since the first entry or haven been reported only once. Of the diatom flora described here, 48 taxa are new to South Korea and previously unrecorded in the local area.

Applicability of diatom metabarcoding in the ecological status assessment of Hungarian lotic and soda pan habitats

Diatoms are widely applied in the ecological status assessment of aquatic ecosystems using indices calculated from pollution sensitivity and indicator values of species. Traditional, morphology-based identification of species requires in-depth taxonomic knowledge and expertise. Identifying taxa according to their barcode sequences obtained with high-throughput sequencing (metabarcoding) would be a promising alternative. In this pilot study, we tested the applicability of metabarcoding of benthic diatom assemblages for the ecological status assessment of Hungarian water bodies, comparing its performance to that of morphology-based identification of species. The barcode region of the rbcL gene was investigated in samples from running waters with various trophic states and unique lentic habitats, namely soda pans. For running waters, the Specific Pollution Sensitivity Index (IPS) and for soda pans the H index and the Indice Biologique Diatomées (IBD) were calculated from the morphology- and sequence-based abundances. The ecological quality ratio was determined for running waters. Overall, more infrageneric taxa were found with microscopy than with metabarcoding in the lotic and lentic samples. The correspondence between taxon lists detected by the two methods was relatively low but increased considerably in the case of morphologically dominant taxa. Community composition based on microscopy and DNA sequence analysis showed a significant correlation and was determined by the same main environmental drivers. Morphology-based indices strongly correlated with sequence-based indices. Both aspects indicated the same ecological status class for more than half of the lotic samples. In other cases, a status shift from good to moderate was frequent, a phenomenon that could prove problematic because the Water Framework Directive prescribes intervention for waters with a moderate or worse status. Considering discrepancies between the results obtained with microscopy and metabarcoding, using both methods in parallel could be proposed until the reference database has been suitably updated.

Are recent protection strategies sufficient for maintaining diverse freshwater benthic diatom assemblages?

Even though microscopic algae play pivotal role in the healthy functioning of freshwater ecosystems, recent water protection strategies rarely consider them and primarily focus on macroscopic organisms. Here, we studied the effect of protection level and utilization type of lowland standing waters on the composition and diversity of benthic diatom assemblages and on the diatom-based ecological status of waters. We hypothesized that (i) protected waters will sustain more diverse diatom assemblages and better ecological quality than not protected ones. We also hypothesized that (ii) the increase in number of utilization will affect negatively on biodiversity and on ecological quality. Clear taxonomic differences were revealed only in protected and not utilized waters while trait composition in protected waters was independent from the utilization type. Neither biodiversity nor ecological status of waters were influenced by protection level. The increase in number of utilization types, however, significantly decreased functional richness. Although high biodiversity of algae can effectively buffer the negative effects of climate change and anthropogenic impact, recent protection strategies are insufficient to support it.

Response of Benthic Diatom Assemblages to Contamination by Metals in a Marine Environment

Studies on marine benthic diatoms in environments contaminated by metals are scarce. The typical structure of benthic diatom assemblages (species richness, diversity, dominance, dominant taxa) from undisturbed environments may be used as reference for contrasting with contaminated environments in order to observe how said assemblages respond to such disturbance. Thus, the Ho that the structure of benthic diatom associations and morphology of their frustules under contamination by metals would be normal, as in unpolluted environments was tested. To do this, concentrations of 24 metals were surveyed in a coastal zone impacted by mining residues, and the structure of benthic local diatom assemblages was described. Metal concentrations measurements for 15 metals surpassed the normal values of the upper earth cortex, seven were under the low range effect, and three (Cd, Cu, Zn) surpassed the medium range effect values. At a control site no element concentration was above the reference values for low range effect (LRE) or medium range effect (MRE) standards. There, diatom species richness (S) was high, particularly on seaweeds; where, 397 diatom taxa were recorded. In contrast, at the contaminated area 217 diatom taxa were recorded, but diversity (H’) ranged from 2.4 to 4.3. Relative high frequencies of deformed diatom valves mainly of Achnanthes spp. were recorded in contaminated sediments. In general, diatom taxocenoses presented a typical structure for non-contaminated environments. However, scarceness of specimens, lower S, and frequency of deformed valves suggest responses to metal contamination. For marine environments, the latter values corresponding to A. longipes may be considered a reliable reference to the response of benthic diatoms to metal contamination.

Using benthic diatom assemblages to assess sedimentary nutrient status in Tri An reservoir, Dong Nai province, Vietnam

Tri An Reservoir plays an important role in the water supply for Dong Nai province and Ho Chi Minh city. It also contributes significantly to increase underground water reserves in the vicinity, especially in the dry season. However, recently, the increase of nutritional compounds in the lake has contributed to eutrophication, causing serious deterioration of the quality of the environment, creating conditions for microalgae to thrive. Therefore, this study aimed to evaluate and zoning the sediment quality of the Tri An reservoir based on using benthic diatom communities as biological indicators as an indicator tool. Sediment and algae samples were collected from 8 survey locations in the Ho Tri An area from March to August in 2019. The results showed that the dominance of several species belonging to the genera that prefer to live in nutrient-rich environment such as Navicula, Nitzschia. The TDI index indicated the sediment environment had high nutrient contents. Water quality in the lower section of the reservoir was classified from eutrophic (even hyper-eutrophic) status, particularly stations into the reservoir. Meanwhile, upstream and downstream sites had lower nutrient levels, mainly excessive phosphorus but still in eutrophic class. Additionally, the initial analysis results also revealed that NH4 +, TN, PO4 3􀀀 and DO played a major role to regulate the development of benthic diatom assemblages.

The Fellowship of the Ring Test: DNAqua-Net WG2 initiative to compare diatom metabarcoding protocols used in routine freshwater biomonitoring for standardisation

During the past decade genetic approaches have been developed to monitor biodiversity in aquatic ecosystems. These enable access to taxonomic and genetic information from biological communities using DNA from environmental samples (e.g. water, biofilm, soil) and methods based on high-throughput sequencing technologies, such as DNA metabarcoding. Within the context of the Water Framework Directive (WFD), such approaches could be applied to assess Biological Quality Elements (BQE). These are used as indicators of the ecological status of aquatic ecosystems as part of national monitoring programs of the european network of 110,000 surface water monitoring sites with 79.5% rivers and 11% lake sites (Charles et al. 2020). A high-throughput method has the potential to increase our spatio-temporal monitoring capacity and to accelerate the transfer of information to water managers with the aim to increase protection of aquatic ecosystems. Good progress has been made with developing DNA metabarcoding approaches for benthic diatom assemblages. Technological innovation and protocol optimization have allowed robust taxonomic (species) and genetic (OTU, ESV) information to be obtained from which diatom quality indices can be calculated to infer ecological status to rivers and lakes. Diatom DNA metabarcoding has been successfully applied for biomonitoring at the scale of national river monitoring networks in several countries around the world and can now be considered technically ready for routine application (e.g. Apothéloz-Perret-Gentil et al. 2017, Bailet et al. 2019, Mortágua et al. 2019, Vasselon et al. 2019, Kelly et al. 2020, Pérez-Burillo et al. 2020, Pissaridou et al. 2021). However, protocols and methods used by each laboratory still vary between and within countries, limiting their operational transferability and the ability to compare results. Thus, routine use of DNA metabarcoding for diatom biomonitoring requires standardization of all steps of the metabarcoding procedure, from the sampling to the final ecological status assessment in order to define good practices and standards. Following previous initiatives which resulted in a CEN technical report for biofilm sampling and preservation (CEN 2018), a set of experiments was initiated during the DNAqua-Net WG2 diatom workshop (Cyprus, 2019) to focus on DNA extraction and PCR amplification steps in order to evaluate: i) the transferability and reproducibility of a protocol between different laboratories; ii) the variability introduced by different protocols currently applied by the scientific community. 19 participants from 14 countries performed DNA extraction and PCR amplification in parallel, using i) the same fixed protocol and ii) their own protocol. Experiments were performed by each participant on a set of standardized DNA and biofilm samples (river, lake, mock community). In order to specifically test the variability of DNA extraction and PCR amplification steps, all other steps of the metabarcoding process were fixed and the preparation of the Miseq sequencing was performed by only one laboratory. The variability within and between participants will be evaluated on DNA extracts quantity, taxonomic (genus, species) and genetic richness, community structure comparison and diatom quality index scores (IPS). We will also evaluate the variability introduced by different DNA extraction and PCR amplification protocols on diatom quality index scores and the final ecological status assessment. The results from this collaborative work will not serve to define “one protocol to rule them all”, but will provide valuable information to define guidelines and minimum requirements that should be considered when performing diatom metabarcoding for biomonitoring.

Applicability of diatom metabarcoding in the ecological status assessment of Hungarian lotic and soda pan habitats

Diatoms, eukaryotic algae with silica cell wall have been proved to be reliable bioindicators and are applied in ecological status assessment of aquatic ecosystems using indices calculated from pollution sensitivity and indicator values of species. Traditional method of identification of diatom species is based on morphological features of frustule that requires in-depth taxonomical knowledge and expertise. Metabarcoding that combines barcodes and high-throughput sequencing offers a promising alternative. In this pilot study we tested the applicability of metabarcoding of benthic diatom assemblages for ecological status assessment of water bodies in Hungary comparing its performance to that of morphology-based identification of species. Samples from 78 rivers and streams arranged along a trophic gradient and 14 soda pans representing unique types of habitats were investigated. Sequences of the barcode region of rbcL gene suggested by Vasselon et al. (2017) were acquired revealing 1135 diatom amplicon sequence variants (ASVs) of which 54% could be assigned at species level using Diat.barcode (Rimet et al. 2019) as reference database. Morphological investigation detected more species and intraspecific taxa in the lotic and lentic samples (413 and 78, respectively) than metabarcoding (190 and 75). Correspondence between taxa detected based on morphology and DNA sequences was relatively low (on average 24% in lotic and 26% in lentic samples) but considerably increased (on average 66% and 56%, respectively) when taking into account only the taxa reaching higher than 5% relative abundance in microscopy counting. The differences mainly derived from that a considerable portion (59% and 32%, respectively) of the morphologically identified taxa were not recorded in the reference database. Community structure of samples from both running and standing waters based on microscopy and DNA sequence analysis showed significant correlation as revealed using Mantel test. For rivers and streams diatom index IPS (Specific Pollution Sensitivity Index, (Coste in Cemagref, 1982) for soda pans indices H (Ziemann et al., 2001) and IBD (Indice Biologique Diatomées, Lenoir and Coste, 1996) were calculated from the results of the two aspects. Strong correlation was found between morphology- and sequence-based indices and in about half of the samples, the ecological status class obtained with the two methods coincided. Our results suggest that metabarcoding inheres a great opportunity and could be successfully applied in benthic diatom-based ecological status assessment of Hungarian waters after the reference database is supplemented with taxa frequently occurring in these habitats. References Cemagref, 1982. Etude des méthodes biologiques quantitativesd’appréciation de la qualité des eaux, Rapport Division Qualité des Eaux Lyon. Agence financière de Bassin Rhône-Méditerranée-Corse, Pierre-Bénite, France. Lenoir, A., Coste, M., 1996. Development of a practical diatom index of overall water quality applicable to the French National Water Board Network. Presented at the International symposium, Volksbildungsheim Grilhof Vill, AUT, 17-19 September 1995, Universität Innsbruck, pp. 29–43. Rimet, F., Gusev, E., Kahlert, M., Kelly, M.G., Kulikovskiy, M., Maltsev, Y., Mann, D.G., Pfannkuchen, M., Trobajo, R., Vasselon, V., Zimmermann, J., Bouchez, A., 2019. Diat.barcode, an open-access curated barcode library for diatoms. Sci. Rep. 9, 15116. Vasselon, V., Rimet, F., Tapolczai, K., Bouchez, A., 2017. Assessing ecological status with diatoms DNA metabarcoding: Scaling-up on a WFD monitoring network (Mayotte island, France). Ecol. Indic. 82, 1–12. Ziemann, H., Kies, L., Schulz, C.-J., 2001. Desalinization of running waters: III. Changes in the structure of diatom assemblages caused by a decreasing salt load and changing ion spectra in the river Wipper (Thuringia, Germany). Limnologica 31, 257–280.

Late Holocene Peatland Evolution in Terelj and Tuul Rivers Drainage Basins in the Khentii Mountain Range of Northeastern Mongolia

This study reviews the late Holocene peatlands in Terelj River and Tuul River drainage basins in the Khentii (Khentii has been misspelled as Khentey (or Hentey) and Khentei (or Hentei) in many publications. The Khentii is the right English translation from Mongolian Xэнmuй) Mountain Range of northeastern Mongolia. The peatlands were examined through their physical and chemical properties, diatom assemblages, and radiocarbon dating. In the Terelj River basin, the high contents of organic matter and biogenic silica and the dominant benthic diatom assemblages such as Eunotia praerupta, Pinnularia borealis, and Navicula mutica in the peat deposits indicate the warm and humid climates in the late Holocene. The high accretion rate of 0.97 mm/yr in the peatland records the intensive erosion in the surrounding landscape and deposition in the peatland due to increased precipitation and runoff in the humid climate since 0.5 cal. ka BP. In the Tuul River basin, the high content of mineral fractions and diatom assemblages dominated by benthic species Cymbella proxima, Encyonema silesiacum, and planktonic species Cyclotella ocellata in the peat deposits show a transition from humid to arid climates at 0.9 cal. ka BP. The accretion rate of 0.56 mm/yr in the peatland on the paleo-floodplain indicates strengthened erosion in the peatland over the past ~1000 years. This study in the southern Khentii Mountain Range provides new descriptive insights to extend the underestimated Mongolia’s peat studies, and it would be a useful proof-of-concept study for future detailed paleo-environmental analyses.

The importance of weather and tides on the resuspension and deposition of microphytobenthos (MPB) on intertidal mudflats

Abiotic variables, such as weather and tidal forces, are potentially as important as biotic factors (growth, predation, competition) in driving the variability of microphytobenthic (MPB) biomass on intertidal flats. Patterns of spatial distribution and temporal variability in MPB Chl. a, sediment Extracellular Polymeric Substances (EPS) and benthic diatom species composition were investigated during daily sampling spanning neap to spring tide periods on intertidal mudflats in the Colne Estuary, U.K., in three different seasons, with a particular focus on the influence of wind, rainfall, sun hours in the days prior to sampling, and tidal range. Spatial distribution (at < 1 m and <5 m scales) made the greatest contribution to biomass variability, followed by temporal (inter-monthly) variability. MPB Chl. a and EPS concentrations were positively correlated with sun-hours and tidal range, and negatively with rainfall and wind speed. Higher benthic MPB biomass was associated with lower suspended solid and Chl a loads, indicating biostabilisation of surface sediment. Suspended sediment loads and suspended Chl. a concentrations were positively correlated, and were significantly higher during neap rather than spring tides. Sediment settlement rates were higher during neap tides and related to suspended sediment load. The percent similarity in the benthic and suspended diatom assemblages (species relative abundance, RA) increased linearly with suspended solid load, with highest similarity during neap tides, with pennate benthic diatom taxa (Gyrosigma balticum, G. scalproides and Pleurosigma angulatum) dominant, indicating local sediment resuspension. During Spring tides, species similarity was lower, with a higher RA of planktonic centric diatoms (Actinoptychus, Coscinodiscus and Odontella) and lower sediment loads. Despite greater volumes of water movement during high tidal range periods, the highest levels of localised resuspension and remobilisation of MPB biomass across the mudflats occurred during low tidal range neap tide periods, when wind-induced waves were a key factor, particularly with shallower water depths over the intertidal mudflats.

Shift in polar benthic community structure in a fast retreating glacial area of Marian Cove, West Antarctica

Glacier retreat is a major long-standing global issue; however, the ecological impacts of such retreats on marine organisms remain unanswered. Here, we examined changes to the polar benthic community structure of “diatoms” under current global warming in a recently retreated glacial area of Marian Cove, Antarctica. The environments and spatiotemporal assemblages of benthic diatoms surveyed in 2018–2019 significantly varied between the intertidal (tidal height of 2.5 m) and subtidal zone (10 and 30 m). A distinct floral distribution along the cove (~ 4.5 km) was characterized by the adaptive strategy of species present, with chain-forming species predominating near the glacier. The predominant chain-forming diatoms, such as Fragilaria striatula and Paralia sp., are widely distributed in the innermost cove over years, indicating sensitive responses of benthic species to the fast-evolving polar environment. The site-specific and substrate-dependent distributions of certain indicator species (e.g., F. striatula, Navicula glaciei, Cocconeis cf. pinnata) generally reflected such shifts in the benthic community. Our review revealed that the inner glacier region reflected trophic association, featured with higher diversity, abundance, and biomass of benthic diatoms and macrofauna. Overall, the polar benthic community shift observed along the cove generally represented changing environmental conditions, (in)directly linked to ice-melting due to the recent glacier retreat.

Los microorganismos que habitan los bañados de desborde fluvial como indicadores de los efectos de la urbanización y la actividad agropecuaria

Los bañados de desborde fluvial (BDF) desempeñan un papel integral en la ecología de las cuencas fluviales y en su capacidad de autodepuración. La demanda antrópica de espacio y agua pone en riesgo su biota y los beneficios ecosistémicos que brindan. Los objetivos del trabajo fueron analizar los ensambles de microorganismos que habitan en BDF, relacionar sus variaciones al impacto antrópico y evaluar cómo la microbiota puede ser indicadora de estos cambios ambientales. Se estudiaron los ensambles de diatomeas bentónicas, fitoplancton, zooplancton, ostrácodos y hongos de cuatro BDF: dos de ubicación periurbana con uso del suelo agrícola y hortícola (Del Gato y Carnaval), y dos de ubicación rural y uso ganadero (Cajaravillas y Chubichaminí). En la mayoría de los grupos las diferencias vinculadas a la ubicación geográfica se expresaron claramente, resultando en una agrupación de ensambles en: BDF rurales (con un número de especies sensibles a la contaminación y a la eutrofización comparativamente mayor) y BDF periurbanos (donde fueron más importantes las especies muy tolerantes a la contaminación y a la eutrofización). En estos últimos, tanto la participación de los grandes grupos taxonómicos como los niveles tróficos estuvieron más restringidos y relacionados a la vía detritívora por sobre la fotosintética, y allí también se acentuaron las estrategias para afrontar el estrés hídrico. Los resultados evidencian los efectos de la presión humana, la importancia que adquieren los microorganismos y la necesidad de una planificación adecuada del uso del territorio para evitar la pérdida de funciones y beneficios en estos ambientes.

Testing the response of benthic diatom assemblages to common riverine contaminants

Benthic diatoms constitute keystone assemblages in riverine ecosystems, and their structure is used to support regulatory water quality assessment. However, no standard ecotoxicological tests exist using integrated responses of the benthic diatom assemblages. This work aimed to assess whether benthic diatom assemblages are responsive to different riverine contaminants through a previously developed rapid toxicity test, supporting future attempts towards its standardization and integration in both prospective and retrospective Environmental Risk Assessment (ERA) schemes. We selected two benthic diatoms assemblages likely responding similarly to pollution (similar IPS diatom index score), collected from two rivers in Northern-Central Portugal (sites: Palhal and Cabreia). Fresh whole diatom assemblages were exposed for 48 h to five model contaminants (glyphosate, imidacloprid, SDS, CuSO4, and Pb). At the end of the test, changes induced by the exposures in overall yield and in the yield of each diatom genus were assessed. The assemblage collected at Palhal was invariably more responsive and sensitive than that collected at Cabreia, both considering overall and genus-specific yields, regardless of the tested contaminant. Achnanthes, Fragilaria and Navicula were the most responsive genus, regardless of the tested contaminant or assemblage. The distinct response profiles observed for the two assemblages to the same contaminants at the same concentration ranges suggest that using this test method to support prospective ERA is inadequate. However, the method can be an asset supporting retrospective ERA, as the responses seem to be shaped by the interplay of resilience drivers promoted by the local conditions, e.g. adaptive changes in assemblage structure.

Using diatoms to assess river restoration: A pilot study in Whychus Creek, Oregon, USA

AbstractA primary goal of river restoration is to reestablish lost ecological functions. Yet the impact of restoration on diatom assemblages and algal biomass in a stream is rarely addressed in the scientific literature reporting the outcomes of restoration projects aimed at improving riverine habitat. To investigate the potential for using benthic diatoms as indicators of the benefits to habitat associated with river restoration, we conducted a pilot diatom study in Whychus Creek, a headwater tributary of the Deschutes River in Oregon, USA. As part of a work study project for college students, we collected periphyton samples in a restored reach, a restored transition reach and an unrestored reach (control) and compared diatom assemblages and algae biomass of these reaches. Diatom assemblages and traits differed substantially between the control and restored reaches and the median percentage of chlorophyll a in the periphyton biomass increased from 9% in the control reach to 12% in the restored reach. The results of this pilot study suggest that benthic diatom assemblage may be useful indicators of river restoration success, particularly for approaches that aim to reconfigure channels and increase floodplain connectivity and habitat complexity.

Diatom DNA metabarcoding for ecological assessment: Comparison among bioinformatics pipelines used in six European countries reveals the need for standardization

Ecological assessment of lakes and rivers using benthic diatom assemblages currently requires considerable taxonomic expertise to identify species using light microscopy. This traditional approach is also time-consuming. Diatom metabarcoding is a promising alternative and there is increasing interest in using this approach for routine assessment. However, until now, analysis protocols for diatom metabarcoding have been developed and optimised by research groups working in isolation. The diversity of existing bioinformatics methods highlights the need for an assessment of the performance and comparability of results of different methods. The aim of this study was to test the correspondence of outputs from six bioinformatics pipelines currently in use for diatom metabarcoding in different European countries. Raw sequence data from 29 biofilm samples were treated by each of the bioinformatics pipelines, five of them using the same curated reference database. The outputs of the pipelines were compared in terms of sequence unit assemblages, taxonomic assignment, biotic index score and ecological assessment outcomes. The three last components were also compared to outputs from traditional light microscopy, which is currently accepted for ecological assessment of phytobenthos, as required by the Water Framework Directive. We also tested the performance of the pipelines on the two DNA markers (rbcL and 18S-V4) that are currently used by the working groups participating in this study. The sequence unit assemblages produced by different pipelines showed significant differences in terms of assigned and unassigned read numbers and sequence unit numbers. When comparing the taxonomic assignments at genus and species level, correspondence of the taxonomic assemblages between pipelines was weak. Most discrepancies were linked to differential detection or quantification of taxa, despite the use of the same reference database. Subsequent calculation of biotic index scores also showed significant differences between approaches, which were reflected in the final ecological assessment. Use of the rbcL marker always resulted in better correlation among molecular datasets and also in results closer to these generated using traditional microscopy. This study shows that decisions made in pipeline design have implications for the dataset's structure and the taxonomic assemblage, which in turn may affect biotic index calculation and ecological assessment. There is a need to define best-practice bioinformatics parameters in order to ensure the best representation of diatom assemblages. Only the use of similar parameters will ensure the compatibility of data from different working groups. The future of diatom metabarcoding for ecological assessment may also lie in the development of new metrics using, for example, presence/absence instead of relative abundance data.

Depth-distribution of lake benthic diatom assemblages in relation to light availability and substrate: implications for paleolimnological studies

We analyzed the depth distributions of benthic diatoms in two adjacent, but hydrologically distinct subalpine lakes (Lakes Soiernseen, S-Germany). Lake Unterer Soiernsee is affected by marked water-level fluctuations and is light-penetrated to the bottom most of the year, while Lake Oberer Soiernsee provides more stable conditions and an extended aphotic zone. Mixed samples of epiphytic, epilithic, epipsammic and epipelic periphyton were taken in one-meter depth steps by scuba divers. Most of the common benthic diatoms occurred in distinct depth-areas. RDA analyses showed that depth was strongly correlated with species distribution in both lakes. Depth-constrained cluster analyses indicated three distinct diatom community zones in each lake. A shallow littoral zone hosting mainly epiphytic and epilithic species and a deeper littoral zone with mainly epipsammic and epipelic taxa existed in both lakes. Additionally, a highly disturbed near-shore littoral zone with diatoms adapted to unstable conditions (aerophilic taxa, pioneer species) was found in Lake Unterer Soiernsee, and a deep-water pelagic zone with mainly planktonic taxa in Lake Oberer Soiernsee. Light availability, substrate, physical stressors and nutrient concentrations were linked closely with water depth. While light availability affected the ratio of benthic and planktonic diatoms, substrate type influenced benthic diatom assemblage structures. Diatoms occurring in surficial sediments of the aphotic zone represent an ideal cross-section of the recent diatom assemblage of the lake, including benthic and planktonic species. However, sediment samples taken in light-flooded depths are inappropriate for studies based on shifts between benthic and planktonic taxa, because in situ benthic species dominate the surface-sediment assemblages, while settled tychoplanktonic and planktonic species occur less frequently. A diatom-inferred depth model was created for each lake to prove the usability for down-core studies using weighted-averaging approaches. For both lakes these models are highly appropriate to reconstruct past fluctuations in water-transparency or lake-level. With regard to the development of diatom-based TP-transfer-functions for Bavarian mountain lakes, we found it is highly important to consider lake depth and transparency. Based on the findings of this study we recommend the creation of two different training-sets, one for deep or low-transparency lakes with an aphotic zone including both benthic and planktonic diatoms, and another one for shallow, clear water lakes solely using benthic diatoms.

Environmental filtering and limiting similarity as main forces driving diatom community structure in Mediterranean and continental temporary and perennial streams

Climatic extreme events such as droughts (unpredictable), dry periods (predictable) or even flush floods, threaten freshwater ecosystems worldwide. The filtering mechanisms of these events and their strength on communities, however, can be different among regions. While time-for-adaptation theory defines whether or not water scarcity can be considered as disturbance, the stress-dominance theory predicts an increase in importance of environmental filtering and a decrease in the role of biotic interactions in communities with increasing environmental stress. Here, we tested whether environmental filtering (leading to trait convergence) or limiting similarity (leading to trait divergence) is the main assembly rule shaping the structure and trait composition of benthic diatom assemblages in Mediterranean (Portuguese) and continental (Hungarian) temporary and perennial streams. We assumed that the trait composition of diatom assemblages in the two stream types would be less different in the Mediterranean than in the continental region (addressed to time-for-adaptation theory). We also hypothesized that trait composition would be shaped by environmental filtering in the Hungarian streams while by biotic interactions in Portuguese streams (addressed to stress-dominance theory). Our results supported our first hypothesis since traits, which associated primarily to temporary streams were found only in the continental region. Our findings, however, only partially proved the stress-dominance hypothesis. In the continental region, where drying up of streams were induced by unpredictable droughts, biotic interactions were the main assembly rules shaping community structure. In contrast, environmental filtering was nearly as important as limiting similarity in structuring trait composition in the Mediterranean region during the predictable dry phase with no superficial flow. These analyses also highlighted that drought events (both predictable and unpredictable ones) have a complex and strong influence on benthic diatom assemblages resulting even in irreversible changes in trait composition and thereby in ecosystem functioning.

Benthic diatom community dynamics in Mediterranean intermittent streams: Effects of water availability and their potential as indicators of dry-phase ecological status

The study of intermittent rivers is a critical and timely issue due to their worldwide increase, triggered by several causes including climate change. The need to understand the response of intermittent river biota to water intermittency led us to conduct this study using benthic diatoms collected in southern Portugal. Benthic diatoms were explored in terms of assemblages, diversity indices, the Specific Pollution Sensitivity (SPI) Index, functional metrics (i.e. ecological guilds and life-forms) and conservation status. We verified that changes in water physico-chemical characteristics were highly controlled by flow intermittency, which in turn is directly linked to meteorological variables (air temperature and precipitation). Changes in diatom assemblages reflect the aquatic regime of sites, changes in aquatic states through time and mesohabitats (dry biofilm, samples collected in pools or under flowing conditions). Species richness, on the other hand, did not reflect these differences, whilst Shannon diversity and Pielou's Evenness indices only reflected mesohabitat differences. The SPI distinguished sampling periods, and mesohabitats. The relative abundance of ecological guilds changed with aquatic states, with the low-profile guild dominating in eurheic and arheic conditions (except during Summer), being replaced by motile taxa in summer arheic conditions, reflecting increases in nutrient and siltation. The hypothesis that benthic diatom assemblages in dry biofilm can be used as an indicator of ecological status during the dry-phase was validated, since no differences between the Ecological Quality Ratio determined in dry biofilm collected in Summer 2017 and the previous Spring 2017 in flowing water. A method is proposed for diatom sampling in dry biofilm, contributing to an integrated ecological status evaluation, which considers the dry-phase and enhances the reach of biomonitoring programs.

Intra-annual fluctuations dominating temporal dynamics of benthic diatom assemblages in a Chinese mountainous river

Understanding temporal dynamics of community may provide insights on biological responses under environmental changes. However, our knowledge on temporal dynamics of river organisms is still limited. In the present study, we employed a multivariate time-series modeling approach with a long-term dataset (i.e. 72 consecutive months) to investigate temporal dynamics of benthic diatom communities in four sites located in a Chinese mountainous river network. We hypothesized that: (1) there are multi-scale temporal dynamics within the diatom community; (2) intra-annual fluctuations dominate the community dynamics; (3) diatom species composing the community respond distinctly to environmental changes. We found that intra-annual fluctuations with periodicities &lt;12 months explained 8.1–16.1% of community variation. In contrast, fluctuations with periodicities of 13–36 months and 37–72 months only accounted for 1.1–5.9% and 2.8–9.7% of variance in diatom community dynamics, respectively. Taxa correlating significantly to each significant RDA axis (namely, RDA taxa group) displayed distinct temporal dynamics. Conductivity, total nitrogen, and pH were important to most RDA taxa groups across the four sites while their effects were group-specific. We concluded that intra-annual dynamics dominated temporal variation in diatom communities due to community responses to local environmental fluctuations. We suggest that long-term monitoring data are valuable for identifying multiple-scale temporal dynamics within biological communities.

Marine diatom assemblages of the Nosy Be Island coasts, NW Madagascar: species composition and biodiversity using molecular and morphological taxonomy

Madagascar is an isolated oceanic island characterized by high degrees of endemism at all taxonomic levels. The waters surrounding Madagascar are still poorly studied for benthic marine diatom assemblages. The aim of our study was to analyse the taxonomic biodiversity and molecular phylogeny of the diatom assemblages of the Nosy Be archipelago in terms of their ubiquity/rarity. A total of 65 samples from 14 sampling sites were collected from the Nosy Be and Nosy Tanikely islands in June/July 2014. Diatom identification, based on light and electron microscopic examination, revealed 332 diatom taxa. From those, ∼90 strains were isolated and successfully cultured. So far, DNA has been extracted and one chloroplast gene (rbcL) sequenced from 21 strains in order to reconstruct their single gene phylogeny. Taxa selected for sequencing and the preliminary phylogeny are from genera considered common benthic and planktonic forms in the marine littoral: Bellerochea, Melosira, Paralia, Triceratium, Navicula, Hippodonta, Auricula, Nitzschia, Cocconeis, and some araphids. For each site, Shannon and Simpson biodiversity indices were calculated. Diatom assemblages of Nosy Be were characterized by high biodiversity. The most abundant species was Cocconeis scutellum. Whereas some of the cultured taxa seem to represent cosmopolitan or zonal forms: e.g., Bellerochea malleus, Triceratium dubium, Melosira lineata, Paralia crawfordii, or Nitzschia inconspicua, most of the taxa isolated in culture and sequenced have not been observed in earlier works based on use of molecular markers. The dominant taxa were generally those with broad geographic distribution with global/Indo-Pacific affinities. Amongst all 332 taxa, only 35% have been identified to the species level. Many of the taxa identified to the generic level may turn out to represent taxa new to science after further SEM examination and DNA sequencing.

Diatoms as indicators of the effects of river impoundment at multiple spatial scales.

River impoundment constitutes one of the most important anthropogenic impacts on the World's rivers. An increasing number of studies have tried to quantify the effects of river impoundment on riverine ecosystems over the past two decades, often focusing on the effects of individual large reservoirs. This study is one of the first to use a large-scale, multi-year diatom dataset from a routine biomonitoring network to analyse sample sites downstream of a large number of water supply reservoirs (n=77) and to compare them with paired unregulated control sites. We analysed benthic diatom assemblage structure and a set of derived indices, including ecological guilds, in tandem with multiple spatio-temporal variables to disclose patterns of ecological responses to reservoirs beyond the site-specific scale. Diatom assemblage structure at sites downstream of water supply reservoirs was significantly different to control sites, with the effect being most evident at the regional scale. We found that regional influences were important drivers of differences in assemblage structure at the national scale, although this effect was weaker at downstream sites, indicating the homogenising effect of river impoundment on diatom assemblages. Sites downstream of reservoirs typically exhibited a higher taxonomic richness, with the strongest increases found within the motile guild. In addition, Trophic Diatom Index (TDI) values were typically higher at downstream sites. Water quality gradients appeared to be an important driver of diatom assemblages, but the influence of other abiotic factors could not be ruled out and should be investigated further. Our results demonstrate the value of diatom assemblage data from national-scale biomonitoring networks to detect the effects of water supply reservoirs on instream communities at large spatial scales. This information may assist water resource managers with the future implementation of mitigation measures such as setting environmental flow targets.