TY  - JOUR
AU  - Vidaković, Danijela
AU  - Mayombo, Ntambwe Albert Serge
AU  - Burfeid Castellanos, Andrea
AU  - Kloster, Michael
AU  - Beszteri, Bank
PY  - 2024
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/7386
AB  - Large lowland rivers represent an important type of ecosystem that has been under a constant anthropogenic influence (industry, thermal
power plants, untreated communal water, and agriculture) for centuries, which has led to most of them no longer meeting natural reference
conditions. These pressures affect diatom communities which represent a reliable bioindicator of the overall degradation of water bodies.
The current study provides detailed information about benthic diatoms from the large international lowland rivers Sava and Tisa, analyzed
using digital microscopy. Using the digital method and the BIIGLE 2.0 image annotation system, a total of 205 and 206 diatom taxa in the
Sava and Tisa rivers were identified, belonging to 65 and 63 genera, respectively. Some of the dominant genera in the Sava River were
Achnanthidium, Cocconeis, Gyrosigma, and Navicula, while in the Tisa River, mostly centric diatoms (Discostella, Cyclotella, Stephanodiscus)
were dominant. Most of the recorded species are alkaliphilic and characteristic of running waters with high trophic conditions.
The presence of halophilic taxa was also noted (e.g. Bacillaria paxilifera, Tryblionella species, Nitzschia clausii, Navicula salinarum).
These taxa are sensitive indicators of even short-term changes in lowland lotic ecosystems characterized by elevated conductivity. The
diatom indices showed very consistent ecological status, mainly moderate in terms of the general pollution index IPS, and poor to bad
ecological status according to trophic diatom indices (Rott TI and TDI).
PB  - Taylor & Francis
T2  - Diatom Research
T1  - Assessment of the ecological status of large lowland rivers (Sava and Tisa, Serbia) based on digital microscopic investigation of the diatom communities
DO  - 10.1080/0269249X.2023.2291214
ER  - 

@article{
author = "Vidaković, Danijela and Mayombo, Ntambwe Albert Serge and Burfeid Castellanos, Andrea and Kloster, Michael and Beszteri, Bank",
year = "2024",
abstract = "Large lowland rivers represent an important type of ecosystem that has been under a constant anthropogenic influence (industry, thermal
power plants, untreated communal water, and agriculture) for centuries, which has led to most of them no longer meeting natural reference
conditions. These pressures affect diatom communities which represent a reliable bioindicator of the overall degradation of water bodies.
The current study provides detailed information about benthic diatoms from the large international lowland rivers Sava and Tisa, analyzed
using digital microscopy. Using the digital method and the BIIGLE 2.0 image annotation system, a total of 205 and 206 diatom taxa in the
Sava and Tisa rivers were identified, belonging to 65 and 63 genera, respectively. Some of the dominant genera in the Sava River were
Achnanthidium, Cocconeis, Gyrosigma, and Navicula, while in the Tisa River, mostly centric diatoms (Discostella, Cyclotella, Stephanodiscus)
were dominant. Most of the recorded species are alkaliphilic and characteristic of running waters with high trophic conditions.
The presence of halophilic taxa was also noted (e.g. Bacillaria paxilifera, Tryblionella species, Nitzschia clausii, Navicula salinarum).
These taxa are sensitive indicators of even short-term changes in lowland lotic ecosystems characterized by elevated conductivity. The
diatom indices showed very consistent ecological status, mainly moderate in terms of the general pollution index IPS, and poor to bad
ecological status according to trophic diatom indices (Rott TI and TDI).",
publisher = "Taylor & Francis",
journal = "Diatom Research",
title = "Assessment of the ecological status of large lowland rivers (Sava and Tisa, Serbia) based on digital microscopic investigation of the diatom communities",
doi = "10.1080/0269249X.2023.2291214"
}

Vidaković, D., Mayombo, N. A. S., Burfeid Castellanos, A., Kloster, M.,& Beszteri, B.. (2024). Assessment of the ecological status of large lowland rivers (Sava and Tisa, Serbia) based on digital microscopic investigation of the diatom communities. in Diatom Research
Taylor & Francis..
https://doi.org/10.1080/0269249X.2023.2291214

Vidaković D, Mayombo NAS, Burfeid Castellanos A, Kloster M, Beszteri B. Assessment of the ecological status of large lowland rivers (Sava and Tisa, Serbia) based on digital microscopic investigation of the diatom communities. in Diatom Research. 2024;.
doi:10.1080/0269249X.2023.2291214 .

Vidaković, Danijela, Mayombo, Ntambwe Albert Serge, Burfeid Castellanos, Andrea, Kloster, Michael, Beszteri, Bank, "Assessment of the ecological status of large lowland rivers (Sava and Tisa, Serbia) based on digital microscopic investigation of the diatom communities" in Diatom Research (2024),
https://doi.org/10.1080/0269249X.2023.2291214 . .

TY  - CONF
AU  - Mayombo, Serge
AU  - Kloster, Michael
AU  - Vidaković, Danijela
AU  - Burfeid Castellanos, Andrea
AU  - Beszteri, Bank
PY  - 2023
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6197
AB  - The Ruhr area in western Germany is characterised by high industrialisation and population density. Located in an alluvial plain, some natural rivers have historically been coerced to carry wastewater through concrete channels, as technology has only recently allowed the use of separate sewage systems. Since the 1990s, the morphological and compositional restoration of these channelized rivers has begun and impacted their ecosystems. Our knowledge of how the restoration affects the ecosystems in general and diatoms, in particular, is still limited. Using molecular and digital light microscopy on samples collected in spring 2021 and 2022 from river sites along the Boye catchment, following a time-since-restoration-gradient, we aimed to analyse the effect of restoration on diatom diversity and community composition. Diatom species richness was not significantly higher in samples from natural urban rivers that never contained sewage or were constrained by concrete channelling than in renatured localities. However, using an 18S-V9 marker to characterise the protist biofilm composition, some differences were highlighted. Diatom communities were similar, with a predominance of Achnanthidium minutissimum (Kützing) Czarnecki, independent of local differences in hydrology and water composition. The natural sites tended to have a greater predominance of Planothidium frequentissimum (Lange-Bertalot in Krammer and Lange-Bertalot) Lange-Bertalot and other taxa. As all sites, from natural to recently restored, are urban rivers and as such are affected by anthropogenic pressures, both microscopy and molecular methods showed some degree of degradation in their ecosystems. The overall water quality of the streams ranged from moderate to very good, indicating the positive impacts of the restoration works conducted in these former sewage channels. In this first study reporting on the recovery of the diatom community in the Boye catchment after restoration following a severe anthropogenic impact, we see that the diatom community is recovering relatively quickly, but only to a stage that indicates that some chemical pollution is likely still present.
PB  - University of Antwerp
C3  - Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium
T1  - Restoration matters: Diatom community response to the time since the restoration of sewage channels of the Boye catchment (Germany)
SP  - 37
EP  - 37
UR  - https://hdl.handle.net/21.15107/rcub_cer_6197
ER  - 

@conference{
author = "Mayombo, Serge and Kloster, Michael and Vidaković, Danijela and Burfeid Castellanos, Andrea and Beszteri, Bank",
year = "2023",
abstract = "The Ruhr area in western Germany is characterised by high industrialisation and population density. Located in an alluvial plain, some natural rivers have historically been coerced to carry wastewater through concrete channels, as technology has only recently allowed the use of separate sewage systems. Since the 1990s, the morphological and compositional restoration of these channelized rivers has begun and impacted their ecosystems. Our knowledge of how the restoration affects the ecosystems in general and diatoms, in particular, is still limited. Using molecular and digital light microscopy on samples collected in spring 2021 and 2022 from river sites along the Boye catchment, following a time-since-restoration-gradient, we aimed to analyse the effect of restoration on diatom diversity and community composition. Diatom species richness was not significantly higher in samples from natural urban rivers that never contained sewage or were constrained by concrete channelling than in renatured localities. However, using an 18S-V9 marker to characterise the protist biofilm composition, some differences were highlighted. Diatom communities were similar, with a predominance of Achnanthidium minutissimum (Kützing) Czarnecki, independent of local differences in hydrology and water composition. The natural sites tended to have a greater predominance of Planothidium frequentissimum (Lange-Bertalot in Krammer and Lange-Bertalot) Lange-Bertalot and other taxa. As all sites, from natural to recently restored, are urban rivers and as such are affected by anthropogenic pressures, both microscopy and molecular methods showed some degree of degradation in their ecosystems. The overall water quality of the streams ranged from moderate to very good, indicating the positive impacts of the restoration works conducted in these former sewage channels. In this first study reporting on the recovery of the diatom community in the Boye catchment after restoration following a severe anthropogenic impact, we see that the diatom community is recovering relatively quickly, but only to a stage that indicates that some chemical pollution is likely still present.",
publisher = "University of Antwerp",
journal = "Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium",
title = "Restoration matters: Diatom community response to the time since the restoration of sewage channels of the Boye catchment (Germany)",
pages = "37-37",
url = "https://hdl.handle.net/21.15107/rcub_cer_6197"
}

Mayombo, S., Kloster, M., Vidaković, D., Burfeid Castellanos, A.,& Beszteri, B.. (2023). Restoration matters: Diatom community response to the time since the restoration of sewage channels of the Boye catchment (Germany). in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium
University of Antwerp., 37-37.
https://hdl.handle.net/21.15107/rcub_cer_6197

Mayombo S, Kloster M, Vidaković D, Burfeid Castellanos A, Beszteri B. Restoration matters: Diatom community response to the time since the restoration of sewage channels of the Boye catchment (Germany). in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium. 2023;:37-37.
https://hdl.handle.net/21.15107/rcub_cer_6197 .

Mayombo, Serge, Kloster, Michael, Vidaković, Danijela, Burfeid Castellanos, Andrea, Beszteri, Bank, "Restoration matters: Diatom community response to the time since the restoration of sewage channels of the Boye catchment (Germany)" in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium (2023):37-37,
https://hdl.handle.net/21.15107/rcub_cer_6197 .

TY  - CONF
AU  - Kloster, Michael
AU  - Burfeid Castellanos, Andrea
AU  - Vidaković, Danijela
AU  - Mayombo, Ntambwe
AU  - Dani, Mimoza
AU  - Venkataramanan, Aishwarya
AU  - Pradalier, Cédric
AU  - Laviale, Martin
AU  - Beszteri, Bank
PY  - 2023
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6598
AB  - Here, we introduce a collection of more than 83,000 light microscopy images of individual diatom valves or frustules, covering a broad range of taxa and morphology by more than 320 samples from 15 different river and lake ecotypes. The diatoms were imaged at high resolution (< 0.1 µm/pixel) by transmitted light bright-field microscopy, with focus stacking to artificially increase focal depth up to 25 µm, allowing simultaneous observation of valve ornamentation and shape. Taken from a real-world setting, the images partly also include debris, mineral particles or other diatoms. Four experts identified over 500 diatom species; more than 100 species are represented by at least 100 specimens and about 150 by at least 50 specimens each. This data set is about one order of magnitude larger than previously published diatom data sets, and its high interspecies similarity makes it a valuable resource e.g. for benchmarking fine-grained out-of-distribution (OOD) detection, on which we present a new approach.
PB  - International Society for Diatom Research
C3  - Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan
T1  - The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)
SP  - 70
EP  - 70
UR  - https://hdl.handle.net/21.15107/rcub_cer_6598
ER  - 

@conference{
author = "Kloster, Michael and Burfeid Castellanos, Andrea and Vidaković, Danijela and Mayombo, Ntambwe and Dani, Mimoza and Venkataramanan, Aishwarya and Pradalier, Cédric and Laviale, Martin and Beszteri, Bank",
year = "2023",
abstract = "Here, we introduce a collection of more than 83,000 light microscopy images of individual diatom valves or frustules, covering a broad range of taxa and morphology by more than 320 samples from 15 different river and lake ecotypes. The diatoms were imaged at high resolution (< 0.1 µm/pixel) by transmitted light bright-field microscopy, with focus stacking to artificially increase focal depth up to 25 µm, allowing simultaneous observation of valve ornamentation and shape. Taken from a real-world setting, the images partly also include debris, mineral particles or other diatoms. Four experts identified over 500 diatom species; more than 100 species are represented by at least 100 specimens and about 150 by at least 50 specimens each. This data set is about one order of magnitude larger than previously published diatom data sets, and its high interspecies similarity makes it a valuable resource e.g. for benchmarking fine-grained out-of-distribution (OOD) detection, on which we present a new approach.",
publisher = "International Society for Diatom Research",
journal = "Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan",
title = "The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)",
pages = "70-70",
url = "https://hdl.handle.net/21.15107/rcub_cer_6598"
}

Kloster, M., Burfeid Castellanos, A., Vidaković, D., Mayombo, N., Dani, M., Venkataramanan, A., Pradalier, C., Laviale, M.,& Beszteri, B.. (2023). The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I). in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan
International Society for Diatom Research., 70-70.
https://hdl.handle.net/21.15107/rcub_cer_6598

Kloster M, Burfeid Castellanos A, Vidaković D, Mayombo N, Dani M, Venkataramanan A, Pradalier C, Laviale M, Beszteri B. The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I). in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan. 2023;:70-70.
https://hdl.handle.net/21.15107/rcub_cer_6598 .

Kloster, Michael, Burfeid Castellanos, Andrea, Vidaković, Danijela, Mayombo, Ntambwe, Dani, Mimoza, Venkataramanan, Aishwarya, Pradalier, Cédric, Laviale, Martin, Beszteri, Bank, "The new University of Duisburg-Essen freshwater diatom image data set (UDE Diatoms I)" in Abstractt book - 26th International Diatom Symposium, 28. Aug - 2. Sept. 2023, Yamagata, Japan (2023):70-70,
https://hdl.handle.net/21.15107/rcub_cer_6598 .

TY  - CONF
AU  - Vidaković, Danijela
AU  - Levkov, Zlatko
AU  - Krizmanić, Jelena
AU  - Beszteri, Bank
AU  - Gavrilović, Bojan
AU  - Ćirić, Miloš
PY  - 2023
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6148
AB  - Soda pans located in the northern part of Serbia are alkaline and very shallow water habitats influenced by seasonal drying. Due to the rareness, vulnerability, and specific biota, these saline habitats have high conservation priority according to the EU Habitats Directive (92/43/EC).
Since 2017, ten soda pans have been intensively studied with the aim to determine the diatom biodiversity and to evaluate ecological conditions. Diatom samples were collected from mud and reed, and samples for molecular analyses were additionally collected in 2021.
The diatom community is mostly composed of species that prefer alkaline conditions and high conductivity. Some of the most dominant genera are Nitzschia and Navicula. Among the recorded diatoms, Mayamaea permitis and one unknown Mayamaea species were recorded in two soda pans (Okanj bara and Bela bara). The unknown Mayamaea can easily be distinguished from similar species by the valve outline and shape of the central area using light and scanning electron microscopy. In a metabarcoding (partial 18S rRNA gene sequence) data set from the same sample, we could identify two amplicon sequence variants showing affinities to the genus Mayamaea, one of them matching published sequences from M. permitis, the other without exact matches in the Diat.barcode and NCBI databases. We conclude that the latter probably belongs to the new Mayamaea species observed by microscopy, which indicates that the unknown Mayamaea species is closely related to but different from Mayamaea terrestris.
Based on morphological features and molecular analyses, we consider the unknown Mayamaea species as a species new to science. Bearing in mind the vulnerability of soda pans due to anthropogenic threats and climate change, knowing which species inhabit these habitats is the first step in preserving these unique ecosystems.
PB  - University of Antwerp
C3  - Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium
T1  - Metabarcoding and morphological data of Mayamaea species from soda pans in Serbia
SP  - 94
EP  - 94
UR  - https://hdl.handle.net/21.15107/rcub_cer_6148
ER  - 

@conference{
author = "Vidaković, Danijela and Levkov, Zlatko and Krizmanić, Jelena and Beszteri, Bank and Gavrilović, Bojan and Ćirić, Miloš",
year = "2023",
abstract = "Soda pans located in the northern part of Serbia are alkaline and very shallow water habitats influenced by seasonal drying. Due to the rareness, vulnerability, and specific biota, these saline habitats have high conservation priority according to the EU Habitats Directive (92/43/EC).
Since 2017, ten soda pans have been intensively studied with the aim to determine the diatom biodiversity and to evaluate ecological conditions. Diatom samples were collected from mud and reed, and samples for molecular analyses were additionally collected in 2021.
The diatom community is mostly composed of species that prefer alkaline conditions and high conductivity. Some of the most dominant genera are Nitzschia and Navicula. Among the recorded diatoms, Mayamaea permitis and one unknown Mayamaea species were recorded in two soda pans (Okanj bara and Bela bara). The unknown Mayamaea can easily be distinguished from similar species by the valve outline and shape of the central area using light and scanning electron microscopy. In a metabarcoding (partial 18S rRNA gene sequence) data set from the same sample, we could identify two amplicon sequence variants showing affinities to the genus Mayamaea, one of them matching published sequences from M. permitis, the other without exact matches in the Diat.barcode and NCBI databases. We conclude that the latter probably belongs to the new Mayamaea species observed by microscopy, which indicates that the unknown Mayamaea species is closely related to but different from Mayamaea terrestris.
Based on morphological features and molecular analyses, we consider the unknown Mayamaea species as a species new to science. Bearing in mind the vulnerability of soda pans due to anthropogenic threats and climate change, knowing which species inhabit these habitats is the first step in preserving these unique ecosystems.",
publisher = "University of Antwerp",
journal = "Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium",
title = "Metabarcoding and morphological data of Mayamaea species from soda pans in Serbia",
pages = "94-94",
url = "https://hdl.handle.net/21.15107/rcub_cer_6148"
}

Vidaković, D., Levkov, Z., Krizmanić, J., Beszteri, B., Gavrilović, B.,& Ćirić, M.. (2023). Metabarcoding and morphological data of Mayamaea species from soda pans in Serbia. in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium
University of Antwerp., 94-94.
https://hdl.handle.net/21.15107/rcub_cer_6148

Vidaković D, Levkov Z, Krizmanić J, Beszteri B, Gavrilović B, Ćirić M. Metabarcoding and morphological data of Mayamaea species from soda pans in Serbia. in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium. 2023;:94-94.
https://hdl.handle.net/21.15107/rcub_cer_6148 .

Vidaković, Danijela, Levkov, Zlatko, Krizmanić, Jelena, Beszteri, Bank, Gavrilović, Bojan, Ćirić, Miloš, "Metabarcoding and morphological data of Mayamaea species from soda pans in Serbia" in Book of Abstracts - 14th European Diatom Meeting, 09-11 May 2023, Meise Botanic Garden, Belgium (2023):94-94,
https://hdl.handle.net/21.15107/rcub_cer_6148 .

TY  - JOUR
AU  - Vidaković, Danijela
AU  - Levkov, Zlatko
AU  - Krizmanić, Jelena
AU  - Beszteri, Bank
AU  - Gavrilović, Bojan
AU  - Ćirić, Miloš
PY  - 2023
UR  - https://cer.ihtm.bg.ac.rs/handle/123456789/6140
AB  - Combining morphological and molecular approaches, a new diatom species is described in the genus Mayamaea from a Special Nature Reserve, Okanj bara in Serbia, an alkaline and subsaline soda pan with pronounced seasonal drying. Mayamaea pannonica sp. nov. possesses typical characteristics of the genus Mayamaea, such as uniseriate striae and hymenes that cover the areolae from the outside. It can easily be distinguished from similar species by the valve outline and shape of the central area.
Although presently no culture of the species is available, we identified in an amplicon data set from the
same sample a partial 18S rRNA gene sequence that is thought to represent the new species, with high
probability. A comparison of our sequence to those present in the Diat.barcode and NCBI databases
showed that the sequence is closely related to, but significantly different from, that of Mayamaea
terrestris. Natural saline habitats in Serbia and neighbouring countries are under anthropogenic threat
and climate change, so knowing which species live here is the first step in preserving these unique
habitats.
PB  - Taylor & Francis
T2  - Phycologia
T1  - A new small-celled naviculoid diatom species, Mayamaea pannonica sp. nov. (Bacillariophyceae) from soda pans in Serbia
VL  - 62
IS  - 3
SP  - 268
EP  - 276
DO  - 10.1080/00318884.2023.2193121
ER  - 

@article{
author = "Vidaković, Danijela and Levkov, Zlatko and Krizmanić, Jelena and Beszteri, Bank and Gavrilović, Bojan and Ćirić, Miloš",
year = "2023",
abstract = "Combining morphological and molecular approaches, a new diatom species is described in the genus Mayamaea from a Special Nature Reserve, Okanj bara in Serbia, an alkaline and subsaline soda pan with pronounced seasonal drying. Mayamaea pannonica sp. nov. possesses typical characteristics of the genus Mayamaea, such as uniseriate striae and hymenes that cover the areolae from the outside. It can easily be distinguished from similar species by the valve outline and shape of the central area.
Although presently no culture of the species is available, we identified in an amplicon data set from the
same sample a partial 18S rRNA gene sequence that is thought to represent the new species, with high
probability. A comparison of our sequence to those present in the Diat.barcode and NCBI databases
showed that the sequence is closely related to, but significantly different from, that of Mayamaea
terrestris. Natural saline habitats in Serbia and neighbouring countries are under anthropogenic threat
and climate change, so knowing which species live here is the first step in preserving these unique
habitats.",
publisher = "Taylor & Francis",
journal = "Phycologia",
title = "A new small-celled naviculoid diatom species, Mayamaea pannonica sp. nov. (Bacillariophyceae) from soda pans in Serbia",
volume = "62",
number = "3",
pages = "268-276",
doi = "10.1080/00318884.2023.2193121"
}

Vidaković, D., Levkov, Z., Krizmanić, J., Beszteri, B., Gavrilović, B.,& Ćirić, M.. (2023). A new small-celled naviculoid diatom species, Mayamaea pannonica sp. nov. (Bacillariophyceae) from soda pans in Serbia. in Phycologia
Taylor & Francis., 62(3), 268-276.
https://doi.org/10.1080/00318884.2023.2193121

Vidaković D, Levkov Z, Krizmanić J, Beszteri B, Gavrilović B, Ćirić M. A new small-celled naviculoid diatom species, Mayamaea pannonica sp. nov. (Bacillariophyceae) from soda pans in Serbia. in Phycologia. 2023;62(3):268-276.
doi:10.1080/00318884.2023.2193121 .

Vidaković, Danijela, Levkov, Zlatko, Krizmanić, Jelena, Beszteri, Bank, Gavrilović, Bojan, Ćirić, Miloš, "A new small-celled naviculoid diatom species, Mayamaea pannonica sp. nov. (Bacillariophyceae) from soda pans in Serbia" in Phycologia, 62, no. 3 (2023):268-276,
https://doi.org/10.1080/00318884.2023.2193121 . .