Diversity of freshwater algal assemblages across the United States as revealed by DNA metabarcoding DOI Creative Commons
Nicholas O. Schulte, Joseph M. Craine, Devin R. Leopold

et al.

Environmental DNA, Journal Year: 2023, Volume and Issue: 6(1)

Published: Oct. 13, 2023

Abstract As freshwater algae respond strongly to environmental conditions, algal communities are routinely used as indicators of aquatic health. Algal bioassessments have historically relied upon microscopy‐based identifications that typically slow, expensive, taxonomically restricted, and inconsistent across analysts time. Metabarcoding water column DNA (environmental DNA, or eDNA) can characterize assemblages more quickly, at lower cost, with higher taxonomic precision than microscopy. such, eDNA metabarcoding has the potential improve bioassessments, but relationships between conditions eDNA‐derived assemblage composition need be determined first. We performed a plastid 23S rRNA gene region for 1230 samples collected from 51 lakes 617 streams conterminous United States test assemblage‐wide patterns may indicate ecological condition. Samples were by citizen, academic, research scientists using standardized commercial kit. This effort constitutes largest published survey yet diversity freshwaters in States. detected 14,943 exact sequence variants (ESVs) 11 divisions. The richness abundance cyanobacteria was lakes, while dominated diatoms. Nationwide, only 1% variation stream explained catchment integrity. remaining, explicable 19% associated forest cover, order, elevation, broad‐scale spatial variables. Nevertheless, select ESVs candidate gradients integrity possible eutrophication. Together, we show measuring condition relative quality. Yet, further sampling along anthropogenic is needed before large‐scale biomonitoring also found 2% could assigned U.S. morphospecies, highlighting importance building comprehensive reference database integrate existing morphospecies autecology eDNA‐based bioassessments.

Language: Английский

Genetic Markers for Metabarcoding of Freshwater Microalgae: Review DOI Creative Commons
Elena Kezlya, Natalia D. Tseplik,

Maxim Kulikovskiy

et al.

Biology, Journal Year: 2023, Volume and Issue: 12(7), P. 1038 - 1038

Published: July 22, 2023

The metabarcoding methods for studying the diversity of freshwater microalgae and routine biomonitoring are actively used in modern research. A lot experience has been accumulated already, many methodological questions have solved (such as influence time sample conservation, DNA extraction bioinformatical processing). reproducibility method tested confirmed. However, one main problems-choosing a genetic marker study-still lacks clear answer. We analyzed 70 publications found out that studies on eukaryotic use 12 markers (different nuclear regions 18S ITS plastids

Language: Английский

Citations

18
Assessing the relevance of DNA metabarcoding compared to morphological identification for lake phytoplankton monitoring DOI Creative Commons
María Mercedes Nicolosi Gelis, Alexis Canino, Agnès Bouchez

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 914, P. 169774 - 169774

Published: Jan. 11, 2024

Language: Английский

Citations

8
Sedimentary DNA and pigments show increasing abundance and toxicity of cyanoHABs during the Anthropocene DOI Creative Commons
Adam J. Heathcote, Zofia E. Taranu, Nicolas Tromas

et al.

Freshwater Biology, Journal Year: 2023, Volume and Issue: 68(11), P. 1859 - 1874

Published: March 18, 2023

Abstract Cyanobacterial harmful algal blooms (cyanoHABs) are assumed to be increasing in abundance and toxicity, but comprehensive analysis of change through time is limited, part, because some key taxa (e.g., Microcystis ) leave ambiguous evidence historical toxicity. Sedimentary DNA ( sed DNA) can allow the reconstruction cyanobacteria community as well frequency genes specific cyanotoxin production, enabling us determine which present their potential for toxin‐production. Using a combination droplet digital polymerase chain reaction (ddPCR) high‐throughput sequencing (HTS), we quantified cyanobacterial known function changes from over last century nine lakes along gradient lake size, depth trophic state Minnesota, U.S.A. ddPCR, associated with microcystin toxin‐producing mcyE ), total (CYA, 16S rRNA) genus (MICR, rRNA). HTS on subset lakes, investigated how this gene covaried composition. We also compared ddPCR data fossil pigments, well‐established palaeolimnological method used track primary producers time. Our results showed significant correlation between MICR quantity toxin‐production potential. The both likewise increased concomitantly Community analyses communities commencing c. 1950 when major land‐use region led productivity, 1990 Dolichospermum genera abundance, subtropical exotic Raphidiopsis raciborskii Sphaerospermopsis aphanizomenoides became abundant. Cyanobacteria pigment reflected these only deeper suggesting issues related benthic production or biomarker preservation shallower systems. This study provides development increasingly toxic cyanoHABs across diverse set illustrates may help link expression potentially genes.

Language: Английский

Citations

13
Unrecognized diversity and distribution of soil algae from Maritime Antarctica (Fildes Peninsula, King George Island) DOI Creative Commons
Nataliya Rybalka, Matthias Blanke, Ana Tzvetkova

et al.

Frontiers in Microbiology, Journal Year: 2023, Volume and Issue: 14

Published: June 26, 2023

Eukaryotic algae in the top few centimeters of fellfield soils ice-free Maritime Antarctica have many important effects on their habitat, such as being significant drivers organic matter input into and reducing impact wind erosion by soil aggregate formation. To better understand diversity distribution Antarctic terrestrial algae, we performed a pilot study surface Meseta, an plateau mountain crest Fildes Peninsula, King George Island, hardly influenced marine realm anthropogenic disturbances. It is openly exposed to microbial colonization from outside connected much harsher dryer zones continental Antarctic. A temperate reference site under mild land use, SchF, was included further test for Meseta contrasting environment. We employed paired-end metabarcoding analysis based amplicons highly variable nuclear-encoded ITS2 rDNA region, complemented clone library approach. targeted four algal classes, Chlorophyceae, Trebouxiophyceae, Ulvophyceae, Xanthophyceae, representing key groups cold-adapted algae. surprisingly high 830 OTUs revealed, assigned 58 genera classes. Members green class Trebouxiophyceae predominated communities. The major part biodiversity, 86.1% all OTUs, could not be identified at species level due insufficient representation sequence databases. classes Ulvophyceae Xanthophyceae exhibited most unknown diversity. About 9% shared with that Germany. In small portion which assessed, entire identity references shows likely wide beyond Polar regions. They probably originated propagule banks far southern regions, transported aeolian transport over long distances. dynamics severity environmental conditions surface, determined currents, algae's adaptability harsh may account similarity communities between northern parts Meseta.

Language: Английский

Citations

13
Distribution of toxigenic cyanobacteria in Alpine lakes and rivers as revealed by molecular screening DOI Creative Commons
Maša Jablonska, Leonardo Cerasino, Adriano Boscaini

et al.

Water Research, Journal Year: 2024, Volume and Issue: 258, P. 121783 - 121783

Published: May 15, 2024

The increasing frequency of cyanobacteria blooms in waterbodies caused by ecosystem eutrophication could endanger human health. This risk can be mitigated effective monitoring incorporating molecular methods. To date, most studies on toxigenic have been limited to microcystins (MCs), disregarding other cyanotoxins, freshwater planktic habitats while ignoring benthic habitats, and geographic areas (usually one or a few specific waterbodies). In this study, we used PCR-based methods including PCR product sequencing chemical-analytical (LC-MS/MS) screen many plankton (n = 123) biofilm samples 113) originating from 29 Alpine lakes 18 rivers for their cyanotoxin production potential. Both mcyE (indicating MC synthesis) anaC anatoxin (ATX) gene fragments were able qualitatively predict ATX occurrence. abundance was significantly related concentrations (R

Language: Английский

Citations

4
Linking new DNA sequence data to old scientific names of Parvodinium (Peridiniopsidaceae, Dinophyceae) DOI

Paula M. E. Lehner,

Binbin Zhu,

Marina Stark

et al.

European Journal of Phycology, Journal Year: 2025, Volume and Issue: unknown, P. 1 - 20

Published: Jan. 30, 2025

Language: Английский

Citations

0
Recent spread of <i>Raphidiopsis raciborskii</i> in the lake district south of the Alps DOI Creative Commons
Martina Austoni,

Adriano Boscaini,

Fabio Buzzi

et al.

Advances in Oceanography and Limnology, Journal Year: 2025, Volume and Issue: 16(1)

Published: April 22, 2025

In recent years, there has been a rise in cyanobacterial blooms, and climate warming is believed to be key driver sustaining these changes. Climate change may affect the geographic distribution of potentially toxigenic species cyanobacteria, leading appearance new threats previously unexposed areas. Recently, toxic cyanobacterium Raphidiopsis (Cylindrospermopsis) raciborskii, known for forming increased its presence, particularly temperate regions. this work, we expanded knowledge about R. raciborskii Northern Italy. Specifically, reported observations recorded during last decade based on investigations carried out framework scientific government monitoring large biogeographical surveys whole Alpine Space area. The detection Italy highlights importance closely freshwater quality implementing measures prevent spread harmful organisms.

Language: Английский

Citations

0
Environmental DNA metabarcoding reveals the effect of environmental selection on phytoplankton community structure along a subtropical river DOI Open Access

Luping Zeng,

Jing Wen,

Bangjie Huang

et al.

Environmental Research, Journal Year: 2023, Volume and Issue: 243, P. 117708 - 117708

Published: Nov. 21, 2023

Language: Английский

Citations

10
Salinity matters the most: How environmental factors shape the diversity and structure of cyanobacterial mat communities in high altitude arid ecosystems DOI Creative Commons
Małgorzata Sandzewicz, Nataliia Khomutovska, Łukasz Łach

et al.

Frontiers in Microbiology, Journal Year: 2023, Volume and Issue: 14

Published: April 13, 2023

Microbial mats are complex communities of benthic microorganisms that occur at the soil-water interphase in lakes' shores, streams, and ponds. In cold, mountainous desert Eastern Pamir (Tajikistan), where scarce water bodies influenced by extreme environmental conditions, photosynthetic cyanobacteria form diverse mats. The characterized different morphology thickness. Their habitats exhibit a wide range conditions; from oligosaline to hypersaline, oligotrophic hypertrophic, cold ponds hot springs. aim present study was reveal taxonomic composition structure these examine which factors influence them.Fifty-one were collected small around Bulunkul, Karakul, Rangkul Lakes 2015 2017. physical chemical properties measured situ, while concentration nutrients analyzed ex-situ. To mats, hypervariable V3-V4 region 16S rRNA gene examined using NGS technology.The results bioinformatic analyses compared with microscopic observations. They showed Cyanobacteria dominant phylum, constituting on average 35% bacterial ASVs, followed Proteobacteria (28%), Bacteroidota (11%), Firmicutes (9%). Synechococcales, Oscillatoriales, Nostocales orders prevailed Oxyphotobacteria, low contribution Chroococcales, Gloeobacterales, Chroococcidiopsidales. Occasionally non-photosynthetic Vampirivibrionia (Melainabacteria) Sericytochromatia sister clades Oxyphotobacteria noted samples. Moreover, there high percentage unidentified cyanobacterial sequences, as well recently described Hillbrichtia pamiria gen. et sp. nov., one Salinity, Na K concentrations, correlated positively levels abundance all ASVs.The suggests investigated possibly host more novel endemic species. Among factors, salinity most. Overall, microenvironmental i.e. conditions each reservoirs seemed have larger impact diversity microbial than "subregional" related altitude, mean annual air temperature distance between subregions.

Language: Английский

Citations

9
Comparative identification of phytoplankton taxonomic and functional group approach in karst lakes using classical microscopy and eDNA metabarcoding for ecological status assessment DOI
Nikola Hanžek, Marija Gligora Udovič, Katarina Kajan

et al.

Hydrobiologia, Journal Year: 2023, Volume and Issue: 851(4), P. 1015 - 1034

Published: Sept. 21, 2023

Language: Английский

Citations

8