Molecular Phylogeny of Amphora sensu lato (Bacillariophyta): An Investigation into the Monophyly and Classification of the Amphoroid Diatoms

Stepanek, Joshua G.; Kociolek, John Patrick

doi:10.1016/j.protis.2014.02.002

Cited by 42 publications

(67 citation statements)

References 38 publications

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“…In the current topology (Fig. 15), the Halamphora genus is considered monophyletic (BP 100%), as was also found in the study of Stepanek & Kociolek (2014) and Jiang et al (2015) based on analysis of sequences of the nuclear region (SSU rDNA and 18S rDNA) and the chloroplast (rbcL and psbC). The results showed that the 18S sequences of H. oceanica were associated with two sequences of H. montana (KC736615 & AJ243061).…”

Section: Discussionsupporting

confidence: 66%

Halamphora oceanica (Catenulaceae, Bacillariophyta), a new species from the epipelagic region of the southwestern Gulf of Mexico

et al. 2017

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In the oceanic zones of the Gulf of Mexico a new species of diatom was found belonging to the genus Halamphora. Live cells were isolated using basic microbiological techniques for culturing and DNA analysis. Observations to determine morphological and morphometric characteristics were performed by both light and scanning electron microscopy. In addition, a phylogeny was built based on the expression and sequencing of the small subunit of the 18S gene. As a result of these observations, we conclude that this pennate diatom is a new species here proposed as Halamphora oceanica.

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Section: Discussionsupporting

confidence: 66%

Halamphora oceanica (Catenulaceae, Bacillariophyta), a new species from the epipelagic region of the southwestern Gulf of Mexico

et al. 2017

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“…( Figure 2) . Stepanek and Kociolek (2014) have already shown that Amphora as a genus is polyphyletic and requires a thorough revision based on frustule and chloroplast as well as DNA sequence data.…”

Section: Yellow Sea Sitesmentioning

confidence: 99%

Multigene Assessment of Biodiversity of Diatom(Bacillariophyceae) Assemblages from the Littoral Zone of the Bohai and Yellow Seas in Yantai Region of Northeast China with some Remarks on Ubiquitous Taxa

Witkowski

Zgłobicka

et al. 2016

Journal of Coastal Research

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Diatoms are important contributors to the benthic microeukaryote flora. This manuscript lays the foundation for future metagenomic and environmental sequencing projects off coastal China by curating diatom DNA sequences from the Yantai region of the Bohai and Yellow Seas ( Northeast China) . These studies are based on cultures established from samples collected in different seasons from marine littoral and supralittoral zones in 2013 and 2014. Thirty-six diatom strains were cultured successfully and identification of these clones was determined by light and scanning electron microscopy( LM and SEM) and DNA sequencing of the nuclear-encoded small subunit ribosomal RNA ( SSU) and chloroplast-encoded rbcL and psbC genes. The strains primarily represent raphid pennate genera, such as Amphora, Amphora ( Oxyamphora) , Caloneis, Diploneis, Halamphora, Navicula, Nitzschia, Parlibellus, Pleurosigma, Surirella and Tryblionella. When the DNA markers from these strains were analysed in a multi-gene phylogeny, we found that some clones-particularly within the genera Amphora, Navicula and Nitzschia-show greater than expected genetic diversity despite their very similar morphology and morphometrics. We also compared the molecular and morphological identities of several seemingly ubiquitous marine littoral taxa in the genera Amphora and Nitzschia from the Indian Ocean and Atlantic Ocean, the Red Sea and Adriatic Sea to their Yellow Sea counterparts.

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“…Although a considerable number of taxa have been transferred out of Amphora, recent molecular phylogenetic work has demonstrated that the genus, as it is currently conceived, continues to be non-monophyletic, with taxa dispersed widely across raphid diatom lineages (Stepanek & Kociolek 2014). Although Amphora as a whole is non-monophyletic, Stepanek & Kociolek (2014) demonstrated that there are several monophyletic groups outside Amphora s.s. One such group corresponds to Mereschkowsky's Tetramphora and includes several species still placed within Amphora.…”

Section: Introductionmentioning

confidence: 99%

“…Although Amphora as a whole is non-monophyletic, Stepanek & Kociolek (2014) demonstrated that there are several monophyletic groups outside Amphora s.s. One such group corresponds to Mereschkowsky's Tetramphora and includes several species still placed within Amphora. We present a reexamination of Tetramphora, using light microscope (LM) and scanning electron microscope (SEM) observations of taxa collected from coastal and inland waters of the United States and Japan.…”

Section: Introductionmentioning

confidence: 99%

Re-examination of Mereschkowsky’s genus Tetramphora (Bacillariophyta) and its separation from Amphora

Stepanek

Kociolek

2016

Diatom Research

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The raphid diatom genus Amphora has been subject to considerable revision over the previous 30 years, with many species transferred to newly created or existing genera. Despite these efforts, recent work has demonstrated that taxa presently assigned to the genus continue to be non-monophyletic and further revision is required. This investigation re-examines Mereschkowsky's genus Tetramphora, which he described as including all Amphora species with four chloroplasts, arranged in pairs linked by large pyrenoids. Although largely ignored over the last 100 years, recent work has shown that taxa aligning with Tetramphora are monophyletic and distinct from Amphora sensu stricto. Nine species belonging to Tetramphora are illustrated and described, based on light and scanning electron microscope observations, as well as a preliminary molecular phylogeny for the group. From these observations, we designate Mereschkowsky's T. ostrearia as the generitype of Tetramphora, recognize T. lineolata, and transfer the Amphora taxa, A. decussata, A. sulcata, A. rhombica, A. intermedia and A. securicula, and the Halamphora taxon H. chilensis to Tetramphora. In addition, three new species, T. fontinalis, T. lineolatoides and T. robusta, are described.

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Molecular Phylogeny of Amphora sensu lato (Bacillariophyta): An Investigation into the Monophyly and Classification of the Amphoroid Diatoms

Cited by 42 publications

References 38 publications

Halamphora oceanica (Catenulaceae, Bacillariophyta), a new species from the epipelagic region of the southwestern Gulf of Mexico

Halamphora oceanica (Catenulaceae, Bacillariophyta), a new species from the epipelagic region of the southwestern Gulf of Mexico

Multigene Assessment of Biodiversity of Diatom(Bacillariophyceae) Assemblages from the Littoral Zone of the Bohai and Yellow Seas in Yantai Region of Northeast China with some Remarks on Ubiquitous Taxa

Re-examination of Mereschkowsky’s genus Tetramphora (Bacillariophyta) and its separation from Amphora

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