Numerical analysis of small Arctic diatoms (Bacillariophyceae) representing the Staurosira and Staurosirella species complexes

Paull, T.; Hamilton, Paul B.; Gajewski, Konrad; LeBlanc, Michelle G.

doi:10.2216/07-17.1

Cited by 42 publications

(28 citation statements)

References 20 publications

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“…The large diversity of Staurosiralike diatoms was already reported by Stoof- Leichsenring et al (2014Leichsenring et al ( , 2015 with respect to changes in haplotype appearances across tundra-northern taiga transects, and is corroborated by the results of our study. The taxonomy of Staurosira-like diatom taxa, as revealed by morphological analyses is still in revision (Williams and Round 1987;Paull et al 2008;Stoof-Leichsenring et al 2014). For example, one confusing reference description is S. elliptica (accession number HQ828193) and its likely synonym S. pinnata, used in morphological analyses.…”

Section: Discussionmentioning

confidence: 99%

Sedimentary DNA versus morphology in the analysis of diatom-environment relationships

et al. 2016

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The Arctic treeline ecotone is characterised by a steep vegetation gradient from arctic tundra to northern taiga forests, which is thought to influence the water chemistry of thermokarst lakes in this region. Environmentally sensitive diatoms respond to such ecological changes in terms of variation in diatom diversity and richness, which so far has only been documented by microscopic surveys. We applied next-generation sequencing to analyse the diatom composition of lake sediment DNA extracted from 32 lakes across the treeline in the Khatanga region, Siberia, using a short fragment of the rbcL chloroplast gene as a genetic barcode. We compared diatom richness and diversity obtained from the genetic approach with diatom counts from traditional microscopic analysis. Both datasets were employed to investigate diversity and relationships with environmental variables, using ordination methods. After effective filtering of the raw data, the two methods gave similar results for diatom richness and composition at the genus level (DNA 12 taxa; morphology 19 taxa), even though there was a much higher absolute number of sequences obtained per genetic sample (median 50,278), compared with microscopic counts (median 426). Dissolved organic carbon explained the highest percentage of variance in both datasets (14.2 % DNA; 18.7 % morphology), reflecting the compositional turnover of diatom assemblages along the tundra-taiga transition. Differences between the two approaches are mostly a consequence of the filtering process of genetic data and limitations of genetic references in the database, which restricted the determination of genetically identified sequence types to the genus level. The morphological approach, however, allowed identifications mostly to species level, which permits better ecological interpretation of the diatom data. Nevertheless, because of a rapidly increasing reference database, the genetic approach with sediment DNA will, in the future, enable reliable Electronic supplementary material The online version of this article (doi:10.1007/s10933-016-9926-y) contains supplementary material, which is available to authorized users. 123J Paleolimnol DOI 10.1007/s10933-016-9926-y investigations of diatom composition from lake sediments that will have potential applications in both paleoecology and environmental monitoring.

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Section: Discussionmentioning

confidence: 99%

Sedimentary DNA versus morphology in the analysis of diatom-environment relationships

et al. 2016

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“…This relatively new tool constitutes a promising approach for detecting minute fragilarioid diatoms that are difficult to identify in microscopic investigations. The advantage of genetic applications is that we can achieve finer taxonomic resolution (below species level), which can be important in identifying species that are morphologically hard to distinguish or morphologically very variable and for which the taxonomy is uncertain (Paull et al 2008). Paull et al (2008) pointed to the morphological similarity between the small Arctic fragilarioid taxa S. venter and S. pinnata and claimed this similarity may have caused identification problems and led to false interpretations.…”

Section: Usability Of Sedimentary Dna For Diatom Identification In Pamentioning

confidence: 99%

“…A reliable reconstruction of environmental variables can only be achieved if the diatom species are correctly identified. Paull et al (2008) illustrated the difficulties encountered in the identification of small fragilarioid forms: distinguishing between Pseudostaurosira elliptica (Schumann) Edlund et al (synonym: Fragilaria elliptica Schumann), Staurosira venter (Ehrenberg) Cleve and Möller, and Staurosirella pinnata (Ehrenberg) Williams and Round can be problematic, as these species have very similar, small, elliptic forms in cold waters.…”

Section: Introductionmentioning

confidence: 99%

A combined paleolimnological/genetic analysis of diatoms reveals divergent evolutionary lineages of Staurosira and Staurosirella (Bacillariophyta) in Siberian lake sediments along a latitudinal transect

et al. 2014

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Diatom diversity in lakes of northwest Yakutia (Siberia) was investigated by microscopic and genetic analysis of surface and cored lake sediments, to evaluate the use of sedimentary DNA for paleolimnological diatom studies and to identify obscure genetic diversity that cannot be detected by microscopic methods. Two short (76 and 73 bp) and one longer (577 bp) fragments of the ribulose 1,5-bisphosphate carboxylase/oxygenase (rbcL) gene, encoding the large subunit of the rbcL, were used as genetic markers. Diverse morphological assemblages of diatoms, dominated by small benthic fragilarioid taxa, were retrieved from the sediments of each lake. These minute fragilarioid taxa were examined by scanning electron microscopy, revealing diverse morphotypes in Staurosira and Staurosirella from the different lakes. Genetic analyses indicated a dominance of haplotypes that were assigned to fragilarioid taxa and less genetic diversity in other diatom taxa. The long rbcL_577 amplicon identified considerable diversification among haplotypes clustering within the Staurosira/Staurosirella genera, revealing 19 different haplotypes whose spatial distribution appears to be primarily related to the latitude of the lakes, which corresponds to a vegetation and climate gradient. Our rbcL markers are valuable tools Electronic supplementary material The online version of this article

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“…Morales & Manoylov, which are large, elliptic and rarely oval, with rounded extremities. Paull et al (2008) concluded that it is very difficult to distinguish Staurosira venter (Ehrenberg) Cleve & Müller from S. pinnata and that reliable characters are the width of the valve (mean: S. venter: 4.7 μm, S. pinnata: 3.7 μm) and the length of the areolae of the margin (mean: S. venter: 0.2 μm, S. pinnata: 0.5 μm), which can be visualized with a high-quality optical microscope.…”

Section: Staurosirella Pinnatamentioning

confidence: 99%

Coscinodiscophyceae and Fragilariophyceae (Diatomeae) in the Iguaçu River, Paraná, Brazil

et al. 2014

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A taxonomic survey was carried out on Coscinodiscophyceae and Fragilariophyceae found in the Iguaçu River catchment area within Iguaçu National Park, in the state of Paraná, Brazil. Between September 2007 and August 2008, we collected 24 samples from two stations on the Iguaçu River, upstream and downstream of the falls. We identified 37 taxa, including 22 specific and infraspecific taxa of Coscinodiscophyceae, together with 15 specific and infraspecific taxa of Fragilariophyceae. Melosira ruttneri Hustedt and Fragilaria alpestris Krasske ex Hustedt represent new records for Brazil.

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Numerical analysis of small Arctic diatoms (Bacillariophyceae) representing the Staurosira and Staurosirella species complexes

Cited by 42 publications

References 20 publications

Sedimentary DNA versus morphology in the analysis of diatom-environment relationships

Sedimentary DNA versus morphology in the analysis of diatom-environment relationships

A combined paleolimnological/genetic analysis of diatoms reveals divergent evolutionary lineages of Staurosira and Staurosirella (Bacillariophyta) in Siberian lake sediments along a latitudinal transect

Coscinodiscophyceae and Fragilariophyceae (Diatomeae) in the Iguaçu River, Paraná, Brazil

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