Diatom Genus Research Articles

Genetic transformation of the freshwater diatom Cyclotella meneghiniana via bacterial conjugation

Diatoms, the most species-rich algae, produce the main primary productivity of marine and freshwater ecosystems. Though, genetic transformation has been established in a variety of marine diatoms, genetic modification of freshwater diatoms is still difficult to achieve. Centric diatom Cyclotella is a major genus of freshwater diatoms, and C. meneghiniana is the most well-known and intensively studied species in this genus. In this study, episomal plasmids for C. meneghiniana were constructed, and endogenous promoters of fucoxanthin chlorophyll a/c-binding protein 3 gene (Fcp3) or ribosomal protein L14 gene (RL14) were used to drive the expression of blasticidin-S deaminase gene (bsr), enhanced green fluorescent protein gene (eGFP) and β-glucuronidase gene (GUS). The plasmids were introduced into algal cells by bacterial conjugation, and transformants were obtained by screening on solid plates containing 0.2 μg mL−1 blasticidin-S with the transformation efficiency of 9–58 transformants per 106 cells. PCR analysis verified the transfer of the plasmid sequences in the cells, and the fluorescence detection and staining analysis demonstrated that eGFP and GUS proteins were expressed in the cytoplasm, indicating the successful and stable expression of exogenous genes in C. meneghiniana through bacterial conjugation.

Description of Witkowskia famintsinii sp. nov. (Cymbellales, Bacillariophyceae) with morphological investigation of Witkowskia strigosa comb. et stat. nov.

In this study, the morphology of two species of diatoms from the Mường Hoa River, Vietnam, was investigated using LM and SEM. The first species was identified as Navicula similis var. strigosa. The second species has been unknown to science until today. As a result, we concluded that in both species areolae in striae are occluded by tectula, a type of pore occlusions, unique for Witkowskia, a recently erected genus of cymbelloid diatoms. Based on this feature, we propose Witkowskia strigosa comb. et stat. nov. in this paper and describe Witkowskia famintsinii sp. nov. below. The species are morphologically compared with other similar representatives of Witkowskia genus. In addition, we suggest that Witkowskia strigosa comb. et stat. nov. and Naviculadicta nanogomphonema, described from Ecuador, should be treated as synonyms. Thus, the taxonomic problem of the genus Naviculadicta is discussed.

Discovery of novel and known viruses associated with toxigenic and non-toxigenic bloom forming diatoms from the Northern Adriatic Sea

Algal blooms impact trophic interactions, community structure and element fluxes. Despite playing an important role in the demise of phytoplankton blooms, only few viruses infecting diatoms have been cultured. Pseudo-nitzschia is a widespread diatom genus that commonly blooms in coastal waters and contains toxin-producing species. This study describes the characterization of a novel virus infecting the toxigenic species Pseudo-nitzschia galaxiae isolated from the northern Adriatic Sea. The ssRNA virus PnGalRNAV has 29.5 nm ± 1.2 nm icosahedral virions and a genome size of 8.8 kb. It belongs to the picorna-like Marnaviridae family and shows high specificity for P. galaxiae infecting two genetically and morphologically distinct strains. We found two genetically distinct types of this virus and screening of the global virome database revealed matching sequences from the Mediterranean region and China, suggesting its global distribution. Another virus of similar shape and size infecting Pseudo-nitzschia calliantha was found, but its genome could not be determined. In addition, we have obtained and characterized a new virus that infects Chaetoceros tenuissimus. The replicase protein of this virus is very similar to the previously described ChTenDNAV type-II virus, but it has a unique genome and infection pattern. Our study is an important contribution to the collective diatom virus culture collection and will allow further investigation into how these viruses control diatom bloom termination, carbon export and toxin release in the case of Pseudo-nitzschia.

The Diatom Genus Navicula in Spring Ecosystems with the Description of Navicula aquaesuavis sp. nov.

The Diatom Genus Navicula in Spring Ecosystems with the Description of Navicula aquaesuavis sp. nov.

Evolution and morphological diversity of the genus Diploneis (Bacillariophyta) in Lake Malawi, with description of six new species

ABSTRACT Lake Malawi, one of the world’s oldest and most important freshwater systems, harbours a remarkable biotic diversity partly due to variable fluctuations in climate and lake level. Over time, these fluctuations have contributed to the emergence and development of different ecological niches and microhabitats that have facilitated diversification within the lake. Despite our extensive knowledge of different animal groups, the evolutionary history of species-rich diatom groups in Africa and, particularly, in Lake Malawi has yet to be studied. Here, we used a combination of morphological, molecular, and paleontological data to assess the species richness and evolutionary processes of the diatom genus Diploneis in this lake. The comprehensive dataset revealed four putative new endemic species from modern and two apparently extinct Diploneis species from the fossil record of the lake, described here as new to science. Morphological analyses showed that all these new species exhibit remarkable differences and unique morphological patterns that were recently discovered in Diploneis species from nearby Lake Tanganyika. Molecular phylogenetic analyses revealed that the four new species now living in Lake Malawi are nested within a clade of Lake Tanganyika Diploneis species but do not form a monophyletic group. This suggests that the new Lake Malawi Diploneis species are derived from one or more Tanganyikan ancestors and that more than one colonization event probably occurred. However, further analyses are needed to elucidate their origin.

First investigation of the temporal distribution of neurotoxin β-N-methylamino-L-alanine (BMAA) and the candidate causative microalgae along the South Sea Coast of Korea

The neurotoxin β-N-methylamino-L-alanine (BMAA), produced by cyanobacteria and diatoms, has been implicated as an environmental risk factor for neurodegenerative diseases. This study first investigated the occurrence and monthly distributions of BMAA and its isomers, 2,4-diaminobutyric acid (DAB) and N-2-aminoethylglycine (AEG), in phytoplankton and mussels from 11 sites along the South Sea Coast of Korea throughout 2021. These toxins were quantified using LC-MS/MS, revealing elevated BMAA concentrations from late autumn to spring, with phase lags observed between phytoplankton and mussels. The highest concentration of BMAA in phytoplankton was detected in November (mean: 1490 ng g-1 dry weight (dw)), while in mussels, it peaked in December (mean: 1240 ng g-1 dw). DAB was detected in phytoplankton but was absent in mussels, indicating limited bioaccumulation potential. In February, the peak mean DAB concentration in phytoplankton was 89 ng g-1 dw. AEG was not detected in any samples. Chlorophyll-a concentrations consistently showed an inverse correlation with BMAA concentrations in mussels throughout the year. Through correlation analysis, four diatom genera, Bacillaria, Hemiaulus, Odontella, and Pleurosigma, were identified as potential causative microalgae of BMAA. This study offers insights into identifying the causative microalgae for BMAA and informs future regulatory efforts regarding unmanaged biotoxins.

Geomorphological controls on estuary hydrodynamics with implications for diatom blooms in deglaciated coastal areas

Understanding local hydraulic conditions is imperative to coastal harmful algal bloom (HAB) monitoring. The research summarized herein describes how the locations and tidal phases selected for coastal hazard sampling can influence measurement results used to guide management decisions for HABs. Our study was conducted in Frenchman Bay, Maine, known for its complex deglaciated coastline, strong tidal influence, and shellfishing activities that are susceptible to problematic HABs such as those produced by some species (spp.) of the diatom genus Pseudo-nitzschia. In-situ measurements of current velocity, density, and turbulence collected over a semidiurnal tidal cycle and a companion numerical model simulation of the study area provide concurrent evidence of two adjacent counter-rotating sub-mesoscale eddies (2–4 km diameter) that persist in the depth-averaged residual circulation. The eddies are generated in the wake of several islands in an area with abrupt bathymetric gradients, both legacy conditions partly derived from deglaciation ∼15 kya. Increased concentrations of Pseudo-nitzschia spp. measured during the semidiurnal survey follow a trend of elevated turbulent dissipation rates near the water surface, indicating that surface sampling alone might not adequately indicate species abundance. Additional measurements of Pseudo-nitzschia spp. from two years of weekly sampling in the region show that algal cell abundance is highest where residual eddies form. These findings provide incentive to examine current practices of HAB monitoring and management by linking coastal geomorphology to hydraulic conditions influencing HAB sampling outcomes, coastal morphometric features to material accumulation hotspots, and millennial time scales to modern hydraulic conditions.

Diversity and distribution of species of the planktonic diatom genus Pseudo-nitzschia (Bacillariophyceae) from the Gulf of Tehuantepec, southern Mexican Pacific

Diversity and distribution of species of the planktonic diatom genus Pseudo-nitzschia (Bacillariophyceae) from the Gulf of Tehuantepec, southern Mexican Pacific

Light and Scanning Observations on a Denticula species reported from South Africa and endemism of the diatom genus Tetralunata (Rhopalodiales, Bacillariophyceae)

Denticula costata Hustedt was originally described from fossil material from Sumatra and later assigned to the genus Tetralunata. Although Tetralunata was thought to be endemic to Indonesia, D. costata has been reported from wetwalls from South Africa. This disparity in locality prompted us to investigate the D. costata in South Africa further. D. costata (now T. costata) specimens and the species reported from South Africa were different in size, shape, and structure of the raphe system. These differences, as well as comparisons to other Denticula species, allowed us to determine that the South African specimens have not been described previously. Valve ultrastructure, including the canal raphe, areolae with volate occlusions, and presence/structure of the septa suggest this new species belongs to the genus Tetralunata. This is the first report of Tetralunata from outside of Indonesia. Herein, we describe Tetraluanata schoemanii sp. nov. and its systematic placement close to, but separate from, Epithemia. This first report of Tetralunata from outside of Indonesia, increases our understanding of the genus range and displays a unique biogeographical pattern that warrants further investigation in the future.

Molecular phylogeny of the marine diatom genus Druehlago (Bacillariophyceae) from Japan

SUMMARYThe diatom genus Druehlago was established to differentiate the type species from Craspedostauros and Achnanthes, on the basis of unique heteropolar, cuneate frustules and numerous lenticular plastids. The phylogenetic placement of Druehlago has, until now, relied solely on morphological evidence, suggesting a close relationship with the genus Craspedostauros. In the present study, we discovered a population of Druehlago cf. cuneata along the coast of Japan and established a cultured strain. Molecular phylogenetic analysis based on rbcL, psbC and 18S rRNA genes was conducted to explore the phylogenetic position and classification of Druehlago. Our results revealed that D. cf. cuneata belongs to the Craspedostauros clade, but with weak statistical support, which is, in turn, sister to Achnanthes. Given the lack of support for various nodes within the Craspedostauros clade, constrained trees were constructed based on several hypotheses regarding the phylogenetic position of Druehlago. The hypothesis inferring monophyly of Druehlago and Achnanthes was statistically rejected, which highlights the close relationship between Druehlago and Craspedostauros. However, our topology tests provided no further resolution regarding the phylogenetic position of Druehlago within or outside Craspedostauros. Furthermore, the treatment of the specimens is discussed through a morphological comparison with the type of material.

Physico-chemical characterisation of irrigation basin waters and inventory study of their algal communities.

To cope with the water shortage in Sous Massa region of Morocco, agricultural producers in the region have resorted to different types of water supply basins, known as "irrigation basins" but the phenomenon of eutrophication has hindered the continuity of agricultural productivity by altering the quality of the water used for irrigation on the one hand, and causing economic damage to agricultural producers due to the clogging of the water pumping network on the other. We began by characterising the physico-chemical quality of the water to determine the causes of its high nutrient content, then we determined the taxonomy of the algal species in the irrigation basins to which we had access. A qualitative study of the water in the irrigation basins in order to better explain the inventory obtained from the taxonomic identification of the algal biomass collected, which proved the existence of new species, not previously identified, characterising the freshwaters of the Moroccan region, is under the scope of this work. The species studied belong mainly to the following groups: green algae (11 genera of Chlorophyta and 7 genera of Charophyta), blue algae (7 genera of Cyanobacteria), brown algae (7 genera of Diatoms), and one genus of Euglenophyta.

Distribution of eukaryotic environmental DNA in global subseafloor sediments

The analysis of eukaryotic environmental DNA (eDNA) in sediment has the potential for understanding past ecosystems, even for taxa lacking skeletons or preserved only as a part of necromass. Despite the paleoenvironmental and ecological importance of eukaryotic eDNA in marine sediment, the duration of remaining eDNA and the species of eDNA present in marine sediment has not been well investigated. Here, we analyzed eDNA extracted from 299 sediment samples down to 678 m below the seafloor at 40 geologically distinct sites. The results showed that eukaryotic eDNA was amplified from more than 80% of the sediments with a depositional age of less than 100,000 years. The eDNA was well conserved in anoxic sediments than in oxic sediments, with PCR success rates of 48% and 18%, respectively. The eukaryotic communities include non-benthic organisms such as marine plankton, including diatoms, dinoflagellates, and coccolithophores. A freshwater diatom genus Aulacoseira was detected in the Baltic Sea sediments from the last glacial lacustrine environment. These results provide new insights into the global-scale distribution of the past eukaryotic eDNA preserved in marine sediment.

First record of Chelonian coprolites from the Early-Middle Miocene Kutch Basin, western India, and their palaeodietary and palaeobiological implications

In this paper, we provide the first data on large (cm-sized) coprolites (represented by three morphotypes) comprising a rare occurrence of eight specimens from a total of three vertebrate-bearing horizons identified within the Early Miocene (Aquitanian) Khari Nadi Formation and Middle Miocene (Burdigalian-Langhian) Chassra Formation, Kutch Basin, western India. The geochemical data confirm the phosphatic character of the investigated ichnofossils. The dominance of partly digested bone matter and presence of plant remains in all the three coprolite morphotypes reflects the omnivorous diet of the producers, which were most likely chelonians. The occurrence of an inclusion (in a coprolite specimen recorded in this study) showcasing an ultrastructure similar to mammalian dental enamel is a rarity in Neogene coprolite records. Additional biotic inclusions observed in the investigated coprolites include ostracods (assigned to genera Paractinocythereis, Hermanites, and Propontocypris); large planispiral benthic foraminifera including the genus Quinqueloculina; uniserial and biserial benthic foraminifera belonging to genus Textularia; marine calcareous algae genus Actinoporella; chrysophytes (resting spores or cysts of planktonic algae); sponge spicules (represented by the morphotypes Acanthoxea and Strongyle); freshwater diatom genus Aulacoseira; unidentified fungal remains; and phytoliths. Taken together, the biotic and abiotic (e.g., pyrite) inclusions, geochemical data and associated microbiota suggest that these ichnofossils were deposited in a dominantly coastal marine (intertidal) setting linked to a lacustrine/palustrine environment.

Phytoplankton Species Composition in the Turkish Coast of the Aegean Sea between 2014 and 2016

The research was carried out between 2014 and 2016, within the scope of the ‘National Integrated Marine Pollution Monitoring Program,’ in a total of five seasonal cruises at 22 stations along the Turkish coast of the Aegean Sea. A total of 296 phytoplankton species and one subspecies belonging to 12 classes were identified from samples collected during the five seasonal cruises. The highest diversity was observed in the summer of 2015, with 204 species recorded, while the lowest was 137 species in the summer of 2016. Dinoflagellates dominated the species composition, accounting for 51% of the species, followed by diatoms (44%), and other groups (5%). At the genus level, Chaetoceros, Thalassiosira, Bacteriastrum, and Coscinodiscus were the most dominant diatom genus, whereas Protoperidinium, Tripos, Dinophysis, Oxytoxum, and Prorocentrum were dominant among dinoflagellates. Amphisolenia schauinslandii Lemmermann 1899 and Ceratoperidinium margalefii A.R. Loeblich III 1980 were recorded for the first time along the Turkish coast of the Aegean Sea. This study provides a comprehensive assessment of the phytoplankton taxonomic diversity in the region from to 2014-2016.

Unusual Hemiaulus bloom influences ocean productivity in Northeastern US Shelf waters

Abstract. Because of its temperate location, high dynamic range of environmental conditions, and extensive human activity, the long-term ecological research site in the coastal Northeastern US Shelf (NES) of the northwestern Atlantic Ocean offers an ideal opportunity to understand how productivity shifts in response to changes in planktonic community composition. Ocean production and trophic transfer rates, including net community production (NCP), net primary production (NPP), gross oxygen production (GOP), and microzooplankton grazing rates, are key metrics for understanding marine ecosystem dynamics and associated impacts on biogeochemical cycles. Although small phytoplankton usually dominate phytoplankton community composition and Chl a concentration in the NES waters during the summer, in August 2019, a bloom of the large diatom genus Hemiaulus, with N2-fixing symbionts, was observed in the mid-shelf region. NCP was 2.5 to 9 times higher when Hemiaulus dominated phytoplankton carbon compared to NCP throughout the same geographic area during the summers of 2020–2022. The Hemiaulus bloom in summer 2019 also coincided with higher trophic transfer efficiency from phytoplankton to microzooplankton and higher GOP and NPP than in the summers 2020–2022. This study suggests that the dominance of an atypical phytoplankton community that alters the typical size distribution of primary producers can significantly influence productivity and trophic transfer, highlighting the dynamic nature of the coastal ocean. Notably, summer 2018 NCP levels were also high, although the size distribution of Chl a was typical and an atypical phytoplankton community was not observed. A better understanding of the dynamics of the NES in terms of biological productivity is of primary importance, especially in the context of changing environmental conditions due to climate processes.

Morphology and molecular phylogeny of two marine diatom species, Falcula cf. media and F. rectangularis sp. nov. (Bacillariophyta) from Japan

ABSTRACT Two members of the marine diatom genus Falcula, which has been little known for a long time, were found from the surface of some Japanese seaweeds; one was assigned to F. cf. media and the other was described as a new species, F. rectangularis sp. nov. Aside from the arcuate valves and slit-like apical fields, typical of the genus, detailed morphological observations using light and scanning electron microscopy revealed resemblance between F. cf. media and F. rectangularis in areolae, stria density and lack of costae. However, the two species can be distinguished based on several morphological features, including the valve length, plastid arrangement, and frustules in girdle view. A three-gene molecular phylogeny recovered these two species as monophyletic with a high interspecific rbcL difference, which in turn were sister to the clade containing taxa that belong to the orders Cyclophorales and Protoraphidales with low support. The members in this poorly supported assemblage share apical fields composed of slits. The two species of Falcula were phylogenetically distinct from Pseudofalcula hyalina, a member previously assigned to Falcula.

Comparative analysis of organelle genomes provides conflicting evidence between morphological similarity and phylogenetic relationship in diatoms

Diatoms (Bacillariophyta) are abundant phytoplankton groups in marine environments, which contribute approximately 20% of global carbon fixation through photosynthesis. Moreover, diatoms exhibit the highest species diversity (approximately 18,000 diatom species) among marine photosynthetic eukaryotes, which were identified by morphological characteristics. Molecular phylogenetic analyses could shed new insights into the evolutionary relationships of diverse diatom species. Nevertheless, a comprehensive understanding of the phylogenetic relationships of diatom species still remains unclear because the available molecular data are insufficient compared with their high species diversity. Furthermore, several novel diatom species were reported from field samples with no molecular evidence. In particular, the phylogenies of diatom species constructed using organelle genomes revealed that several diatom genera are paraphyletic with high supporting values. We constructed high-resolution phylogenetic trees of diatom species using organelle genomes (plastids and mitochondria) and compared the morphologies in several paraphyletic diatom genera. Especially, the clades Nitzschia and Thalassiosira include several different diatom genera with high phylogenetic supports. Our study demonstrated that some morphological characteristics (e.g., genus characters) of several diatom genera could not represent current genus boundaries. Based on the results, we highlight the necessity for taxonomic reinvestigation. To reestablish this in diatoms, it will be essential to incorporate more genome data from a broader range of taxon samples, along with a comparison of morphological characteristics.

The diatom genus Ctenophora: A discussion on its morphology, relationships, and some species

The diatom genus Ctenophora is examined for its morphological characters and its relationships. Some aspects of the nomenclature of the genus are clarified with respect to various specimens identified as Ctenophora pulchella, Ctenophora saxonica and Ctenophora vertebrata. The focus is on the structure of the valves and girdle rather than a complete account of the species-level diversity in Ctenophora. General conclusions are (1) Ctenophora is not a monotypic genus; (2) the relationships of Ctenophora will include ‘Fragilaria’ famelica, Catacombas (= Synedra) and the various groups within the paraphyletic Tabularia.

Distribution and morphology of the diatom genus Olifantiella Riaux-Gobin & Compère in Indonesian and Australian waters, including the description of O.gondwanensis sp. nov.

Samples from coastal tropical waters of Central Sulawesi, Bangka Island and Bawean Island in Indonesia and from the Great Barrier Reef at Fitzroy Island in Queensland, Australia were analysed for species composition of diatom assemblages with a focus on Olifantiella. Whereas samples from Fitzroy Island littoral in Australia retrieved only one species of Olifantiella, in Poso Bay, Indonesia, we observed at least six species. All established taxa were documented with light (LM) and scanning electron microscope (SEM) and principal component analysis (PCA) analysis was used to compare the species, based on the basic valve parameters of length, width, length to width ratio and striae density. A new species of the genus Olifantiella, O.gondwanensis is described from Australia. In addition, we showed the distinct nature of O.pilosellavar.rhizophorae permitting to species status. Particular attention is placed on girdle bands in this genus.

Two New Species of the Diatom Genus Praestephanos from the Pliocene Ueno Formation, Kobiwako Group, Mie Prefecture, Japan

Two New Species of the Diatom Genus Praestephanos from the Pliocene Ueno Formation, Kobiwako Group, Mie Prefecture, Japan