scholarly journals Monitoring the ecological status of rivers with diatom eDNA metabarcoding: A comparison of taxonomic markers and analytical approaches for the inference of a molecular diatom index

2020 ◽  
Author(s):  
Laure Apothéloz‐Perret‐Gentil ◽  
Agnès Bouchez ◽  
Tristan Cordier ◽  
Arielle Cordonier ◽  
Julie Guéguen ◽  
...  
Keyword(s):  
Ecological Status ◽  
Diatom Index ◽  
Taxonomic Markers ◽  
Analytical Approaches

A multimetric diatom index to assess the ecological status of coastal Galician rivers (NW Spain)

Hydrobiologia ◽  
2010 ◽  
Vol 644 (1) ◽  
pp. 371-384 ◽  
Author(s):  
Cristina Delgado ◽  
Isabel Pardo ◽  
Liliana García
Keyword(s):  
Ecological Status ◽  
Nw Spain ◽  
Diatom Index

scholarly journals The Application of Benthic Diatoms in Water Quality Assessment (Mlava River, Serbia)

2016 ◽  
Vol 75 (2) ◽  
pp. 199-205 ◽  
Author(s):  
Olga S. Jakovljević ◽  
Slađana S. Popović ◽  
Danijela P. Vidaković ◽  
Katarina Z. Stojanović ◽  
Jelena Ž. Krizmanić
Keyword(s):  
Water Quality ◽  
Ecological Status ◽  
Detrended Correspondence Analysis ◽  
Pollution Index ◽  
Water Hardness ◽  
Nutrient Concentrations ◽  
Sensitivity Index ◽  
Temperature Conductivity ◽  
Diatom Index ◽  
Diatom Indices

AbstractThe main objective of this study was to assess the ecological status of the Mlava River based on epilithic diatoms and to test the use of diatom indices as a tool for estimating the quality of flowing waters in Serbia. Quantitative analysis showed that in AprilAchnanthidium minutissimumwas dominant at each site, except at the fifth site, whereAmphora pediculuswas dominant. In July and September,Achnanthidium minutissimum, Achnanthidium pyrenaicum,Amphora pediculus,Denticula tenuis,Diatoma vulgaris,Gomphonema elegantissimum,Cocconeis pseudolineataandCocconeis placentulavar.lineatadominated. Detrended correspondence analysis (DCA) was used to detect the major patterns of variation in species composition. The first DCA axis summarizes the distribution of the diatom community, mainly through temperature, conductivity, oxygen and water hardness gradient. The second DCA axis was weakly correlated with few variables. Based on the average values of the pollution sensitivity index (IPS), commission for economical community metric (CEE) and biological diatom index (IBD), the water of the Mlava River belonged to water class I during all three seasons. Values of the diatom-based eutrophication/pollution index (EPI-D) indicated class II water quality. According to calculated trophic diatom index (TDI) values, water of the Mlava River was characterized by intermediate nutrient concentrations during three seasons. Principal components analysis was used to represent the correlation between diatom indices, and the highest correlation among the selected diatom indices is seen between EPI-D, IPS and IBD.

scholarly journals Diatom diversity and water quality of a suburban stream: a case study of the Rzeszów city in SE Poland

2016 ◽  
Vol 41 (1) ◽  
pp. 19-34 ◽  
Author(s):  
Teresa Noga ◽  
Jadwiga Stanek-Tarkowska ◽  
Urszula Kloc ◽  
Natalia Kochman-Kędziora ◽  
Mateusz Rybak ◽  
...  
Keyword(s):  
Water Quality ◽  
Ecological Status ◽  
Sensitivity Index ◽  
Diatom Assemblages ◽  
Diatom Index ◽  
Se Poland ◽  
Physicochemical Factors ◽  
Index Index ◽  
The City

Abstract The aim of this work was to investigate the diversity of diatom assemblages developed in the Przyrwa stream, to assess water quality based on benthic diatoms and to make an attempt at the identification of physicochemical factors having the greatest impact on the differentiation of diatom assemblages. Studies were conducted in 2011-2012 on the Przyrwa stream, a left-side tributary of the Wisłok River flowing through the city of Rzeszów and with its spring section located on the borders of the city. A total of 259 diatom taxa were identified in the Przyrwa stream during three studied seasons. At all investigated sites, the most abundant population consisted of Ulnaria ulna (Nitzsch) Compère, Cocconeis pediculus Ehrenb., Achnanthidium minutissimum (Kütz.) Czarnecki var. minutissimum, Navicula gregaria Donkin, Planothidium frequentissimum (Lange-Bert.) Lange-Bert., P. lanceolatum (Brébisson) Lange-Bert., Navicula lanceolata (C. Agardh) Ehrenb., Amphora pediculus (Kütz.) Grunow, Eolimna minima, (Grunow) Lange-Bert., Melosira varians C. Agardh and Cyclotella meneghiniana Kütz. Based on IPS (Specific Pollution Sensitivity Index) and GDI (Generic Diatom Index) indices, the ecological status of the Przyrwa stream was assessed as moderate to poor (mostly III-IV class of water quality), while the TDI (Trophic Diatom Index) index indicated a poor to bad ecological status (mainly IV-V class of water quality).

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

2021 ◽  
Vol 4 ◽  
Author(s):  
Mónika Duleba ◽  
Angéla Földi ◽  
Adrienn Micsinai ◽  
Anita Mohr ◽  
Rita Sipos ◽  
...  
Keyword(s):  
Ecological Status ◽  
Benthic Diatom ◽  
Reference Database ◽  
Sensitivity Index ◽  
Running Waters ◽  
Diatom Assemblages ◽  
Diatom Index ◽  
Rivers And Streams ◽  
Ecological Status Assessment ◽  
Status Assessment

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.

The use of the Biological Diatom Index (BDI) for the assessment of water quality in the Pilica River, Poland

2013 ◽  
Vol 42 (2) ◽  
Author(s):  
Bogusław Szulc ◽  
Katarzyna Szulc
Keyword(s):  
Water Quality ◽  
Chemical Analysis ◽  
Surface Waters ◽  
Ecological Status ◽  
Central Section ◽  
Diatom Index ◽  
Quality Of Water ◽  
Physico Chemical ◽  
Good Ecological Status

AbstractThe main aim of this study was to assess the usefulness of the Biological Diatom Index (BDI) (Lenoir & Coste 1996) for the estimation of water quality in the central section of the Pilica River, located in central Poland in Łódź province. The BDI has never been used before to monitor Polish surface waters. An analysis of the correlations between the values of the BDI and selected physico-chemical parameters was performed, as was an assessment of water quality using the BDI. On the basis of value ranges proposed by Descy and Ector (1996), a good ecological status in the Pilica River was obtained, but this did not correspond with the results achieved from the physico-chemical analysis. This study proposes new value ranges for the BDI. With these new values, the ecological state of the Pilica River changed from good to moderate, which corresponded with the physico-chemical analysis of the water. The new, proposed value ranges for the BDI assess more precisely the quality of water in lowland Polish rivers.

scholarly journals Eco-Assessment of Streams of Konya Closed River Basin (Turkey) Using Various Ecoregional Diatom Indices

2021 ◽  
Author(s):  
Abuzer Çelekli ◽  
Ömer Lekesiz ◽  
Tolga Çetin
Keyword(s):  
River Basin ◽  
Environmental Sustainability ◽  
Ecological Status ◽  
Freshwater Ecosystems ◽  
Diatom Species ◽  
Species List ◽  
Future Studies ◽  
Diatom Index ◽  
Diatom Indices ◽  
Dry Seasons

Abstract Ecological assessments of freshwater ecosystems based on diatom metrics are an important issue to attain environmental sustainability. The present study aimed to evaluate differences in the diatom-stressors relationship in relatively least disturbed streams in the Konya closed river basin using multivariate analyses and to bio-assess streams by application of different ecoregional diatom indices. Cocconeis euglypta, Cymbella excisa, Cocconeis placentula, and Achnanthidium minutissimum are the most contributing species to the dissimilarity of sampling stations between rainy and dry seasons and also between altitude (A2 800-<1600 m and A3 ≥1600 m) groups. A strong (82.8%) correlation between diatom species and stressors was expressed by the first two axes of canonical correspondence analysis. Diatom species displayed distinct responses to environmental variables (electrical conductivity, Ni, Cu, B, and altitude) playing important roles on the distribution of diatom species. Diatom indices indicated different ecological statuses of stations from a bad to a high. European diatom indices except Duero Diatom Index-DDI and Trophic Diatom Index-TDI showed well responses to the eco-assessment of streams and indicated high ecological status for the least disturbed sampling stations symbolized as S16, S20, S24, S25, S27-29, S37, and 39. These results were also supported by abiotic evaluation. Among diatom indices, although TIT was more competitive in the bio-assessment of streams, it is necessary to increase its species list by determining their trophic weights in future studies. This indicates that the revision of ecoregional specific diatom metrics with the enhancement of diatom species numbers according to their ecological preferences is needed to correctly interpret the water quality.

scholarly journals Bioindication on the basis of benthic diatoms: Advantages and disadvantages of the Polish phytobenthos lake assessment method (IOJ – the Diatom Index for Lakes) / Bioindykacja na podstawie okrzemek bentosowych: Mocne i słabe strony polskiej metody oceny jezior na podstawie fitobentosu (IOJ – Indeks Okrzemkowy Jezior)

2015 ◽  
Vol 26 (4) ◽  
pp. 48-55 ◽  
Author(s):  
Aleksandra Bielczyńska
Keyword(s):  
Scientific Literature ◽  
Ecological Status ◽  
Assessment Method ◽  
Sampling Procedure ◽  
The European Union ◽  
Anthropogenic Pressures ◽  
Diatom Index ◽  
Advantages And Disadvantages ◽  
Diatom Indices ◽  
Status Assessment

Abstract Diatoms are widely used for bioindication because of their sensitivity to anthropogenic pressures (e.g. eutrophication or acidity of waters). In many countries in the world, work has been undertaken to develop and implement diatom indices. Since 2000, in the Member States of the European Union, this has been done as part of the implementation of the Water Framework Directive. The results of lake assessment obtained using the Polish method based on epiphytic diatoms (IOJ - Indeks Okrzemkowy Jezior = the Diatom Index for Lakes) are greatly different from those provided by the other ecological status assessment methods. The purpose of this article is to review the scientific literature on the use of phytobenthos for bioindication in order to identify the advantages and disadvantages of the Polish IOJ method and to indicate the possible directions of improvements in this method. The literature evidencing the variability of phytobenthos related to its habitat, the spatial variability at the scale of a lake and the variability in the growing season was reviewed. The cited writings indicate that the further specification of guidelines for the sampling procedure and an increase in the number of survey sites could enhance the functionality of the Polish lake assessment method. It has also been suggested that it may be useful to test the effect of the seasonal variability of a phytobenthos assemblage on its bioindicator value.

scholarly journals Benthic Diatoms as Valuable Indicators of Anthropogenic Eutrophication in Biomonitoring of Ribbon Lake

2019 ◽  
Vol 26 (4) ◽  
pp. 709-726
Author(s):  
Beata Messyasz ◽  
Ewa Treska
Keyword(s):  
Ecological Status ◽  
Benthic Diatoms ◽  
Taxonomic Structure ◽  
Lake Basin ◽  
Anthropogenic Pressure ◽  
Diatom Index ◽  
Quality Of Water ◽  
Steep Slopes

Abstract In Europe the monitoring of lakes with regard to benthic diatoms is still conducted in line with the European Water Framework Directive. Ribbon lakes are a special case as extremely steep slopes of the lake basin cause their littoral zone to be narrow. The Durowskie ribbon lake was chosen as a model for the assessment of the ecological status of waters based on its Diatom Index. Given its use in recreation, it is under heavy anthropogenic pressure. Physicochemical and biological parameters were monitored in the peak of the vegetational season (July, August) between 2010 and 2018 at 12 varied littoral sites across the full length of the shoreline. This long-term analysis of the Diatom Index, despite showing an improvement in the quality of water, demonstrated the ecological state of Lake Durowskie to be weak (southern, deep part) to moderate (north, shallow part). The taxonomic structure of diatoms (referral and indicator taxa) in phytobenthos communities allowed to show the changes in physicochemical parameters of the environment such as pH, oxygen dissolved in water and its trophic status. Research results are shown in relation to the anthropogenic changes to the lake’s direct catchment area and the results of the physicochemical monitoring of waters.

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