Complex patterns in phytoplankton and microeukaryote diversity along the estuarine continuum

Bazin, Pauline; Jouenne, Fabien; Deton-Cabanillas, Anne-Flore; Pérez-Ruzafa, Ángel; Véron, Benoı̂t

doi:10.1007/s10750-013-1761-9

Cited by 25 publications

(23 citation statements)

References 80 publications

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“…green flagellates) in the surface layer, while cryptophytes dominated at the halocline. Another bloom of the cryptophyte identified as Plagioselmis prolonga was recently given by Bazin et al (2014). The bloom was detected in the early spring at the halocline of the Segura River estuary, with cell counts reaching 156×10 6 cells l -1 .…”

Section: Discussionmentioning

confidence: 97%

“…However, cryptophyte blooms in the Mediterranean Sea are very rare and exceptional events. The only reports to date were given by Andreoli et al (1986) and Bazin et al (2014), who investigated the red tides in the Po River delta (northern Adriatic Sea) and the Segura River estuary (western Mediterranean Sea), respectively. Cryptophytes that dominated these blooms were identified under light and electron microscope as the members of Plagioselmis (Butcher 1967), a common and widespread genus in the Mediterranean Sea (Novarino 2005).…”

Section: Introductionmentioning

confidence: 99%

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Cryptophyte bloom in a Mediterranean estuary: High abundance of Plagioselmis cf. prolonga in the Krka River estuary (eastern Adriatic Sea)

et al. 2014

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Summary:During the June 2010 survey of phytoplankton and physicochemical parameters in the Krka River estuary (eastern Adriatic Sea), a cryptophyte bloom was observed. High abundance of cryptophytes (maximum 7.9×10 6 cells l -1 ) and high concentrations of the class-specific biomarker pigment alloxanthine (maximum 2312 ng l -1 ) were detected in the surface layer and at the halocline in the lower reach of the estuary. Taxonomical analysis revealed that the blooming species was Plagioselmis cf. prolonga. Analysis of the environmental parameters in the estuary suggested that the bloom was supported by the slower river flow as well as the increased orthophosphate and ammonium concentrations. The first record of a cryptophyte bloom in the Krka River estuary may indicate that large-scale changes are taking place in the phytoplankton community. Such changes could have a major impact on the natural ecosystem dynamics and the mariculture production in the area.Keywords: estuarine ecosystem; phytoplankton bloom; cryptophytes; chemotaxonomy; Mediterranean Sea; Krka River estuary.Proliferación de una criptófita en un estuario mediterráneo: alta abundancia de Plagioselmis cf. prolonga en el estuario del río Krka (Adriático) Resumen: Se observó una proliferación de una criptófita durante el estudio del fitoplancton y de los parámetros fisicoquími-cos en el estuario del río Krka (Adriático) en junio de 2010. La abundancia más alta de criptofitas (máximo 7.9×10 6 células l -1 ) y las mayores concentraciones del pigmento marcador específico de la clase, la aloxantina (máximo 2312 ng l -1 ), fueron detectados en la capa superficial y en la haloclina en el tramo inferior de la ría. El análisis taxonómico reveló que la especie que proliferó fue Plagioselmis cf. prolonga. El análisis de los parámetros ambientales del estuario sugirió que la proliferación estaba favorecida por el caudal lento del río, así como el aumento de las concentraciones de ortofosfato y amonio. El hecho de registrar por primera vez una proliferación de una criptófita en el estuario del río Krka podría indicar cambios a gran escala en la comunidad de fitoplancton. Tales cambios podrían tener un impacto importante en la dinámica de los ecosistemas naturales y la producción de la maricultura en la zona.Palabras clave: estuario; proliferación de fitoplancton; criptófitas; quimiotaxonomía; mar Mediterráneo; estuario del río Krka.Citation/Como citar este artículo: Šupraha L., Bosak S.,

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Section: Discussionmentioning

confidence: 97%

Section: Introductionmentioning

confidence: 99%

Cryptophyte bloom in a Mediterranean estuary: High abundance of Plagioselmis cf. prolonga in the Krka River estuary (eastern Adriatic Sea)

et al. 2014

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“…Previous studies have targeted various regions of the rrn operon (e.g., 5.8S plus internal transcribed spacer 2 [ITS-2] [24,25], 18S [8,[26][27][28][29], and 23S [30] regions), mitochondrial genes (e.g., cytochrome c oxidase 1 [COI] [31]), and chloroplast genes (e.g., the rbcL gene which encodes the large subunit for ribulose-1,5-bisphosphate carboxylase/oxygenase [RuBisCO] [32][33][34] and the 16S rRNA gene [35]), but these studies have been predominately limited to marine phytoplankton (e.g., references 29,36,37) and occasionally focused on freshwater phytoplankton (e.g., reference 38). The 18S rRNA gene is commonly amplified and offers the advantage of numerous alternating hypervariable (V1 to V9) and conserved regions.…”

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confidence: 99%

Design and Evaluation of Illumina MiSeq-Compatible, 18S rRNA Gene-Specific Primers for Improved Characterization of Mixed Phototrophic Communities

Bradley

Pinto

Guest

2016

Appl Environ Microbiol

209

142

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The use of high-throughput sequencing technologies with the 16S rRNA gene for characterization of bacterial and archaeal communities has become routine. However, the adoption of sequencing methods for eukaryotes has been slow, despite their significance to natural and engineered systems. There are large variations among the target genes used for amplicon sequencing, and for the 18S rRNA gene, there is no consensus on which hypervariable region provides the most suitable representation of diversity. Additionally, it is unclear how much PCR/sequencing bias affects the depiction of community structure using current primers. The present study amplified the V4 and V8-V9 regions from seven microalgal mock communities as well as eukaryotic communities from freshwater, coastal, and wastewater samples to examine the effect of PCR/sequencing bias on community structure and membership. We found that degeneracies on the 3= end of the current V4-specific primers impact read length and mean relative abundance. Furthermore, the PCR/sequencing error is markedly higher for GC-rich members than for communities with balanced GC content. Importantly, the V4 region failed to reliably capture 2 of the 12 mock community members, and the V8-V9 hypervariable region more accurately represents mean relative abundance and alpha and beta diversity. Overall, the V4 and V8-V9 regions show similar community representations over freshwater, coastal, and wastewater environments, but specific samples show markedly different communities. These results indicate that multiple primer sets may be advantageous for gaining a more complete understanding of community structure and highlight the importance of including mock communities composed of species of interest. IMPORTANCEThe quantification of error associated with community representation by amplicon sequencing is a critical challenge that is often ignored. When target genes are amplified using currently available primers, differential amplification efficiencies result in inaccurate estimates of community structure. The extent to which amplification bias affects community representation and the accuracy with which different gene targets represent community structure are not known. As a result, there is no consensus on which region provides the most suitable representation of diversity for eukaryotes. This study determined the accuracy with which commonly used 18S rRNA gene primer sets represent community structure and identified particular biases related to PCR amplification and Illumina MiSeq sequencing in order to more accurately study eukaryotic microbial communities.T he use of high-throughput sequencing technologies (1, 2) has transformed the field of microbial ecology by contributing to a significant body of work that has changed our understanding of microbially diverse populations in a range of ecosystems. This is particularly true for investigations of bacterial and archaeal communities that target the 16S rRNA gene (1, 3-5). However, amplicon sequencing approaches for eukaryotes hav...

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“…It flows through the driest region of the Iberian Peninsula from the northwest to the southeast over a distance of 325 km. At its terminal part, the mean annual temperature is around 18 °C and the mean annual rainfall is below 300 mm (Bazin et al, 2014). At the river mouth, the water is hyperhaline (36 psu at surface), and the area located 2-3 km upstream from the mouth is polyhaline (19-23 psu) (Bazin et al, 2014).…”

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confidence: 99%

“…It has been described that blue crab growth is strongly temperaturedependent, with growth ceasing below temperatures of approximately 11 °C. Therefore, this species could grow year-round in the Segura River mouth, considering the temperatures described by Bazin et al (2014) (minimum temperatures around 11.6 °C). The presence of seaweeds in this area also favors the settlement of C. sapidus larvae and juveniles: the sea grass meadows and macroalgal beds are considered critical nursery habitats for this invasive species, though its habitat preferences change with age, size, and sex (Hines, 2007;Castejón and Guerao, 2014).…”

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confidence: 99%

First record of the Atlantic blue crab Callinectes sapidus (Crustacea: Brachyura: Portunidae) in the Segura River mouth (Spain, southwestern Mediterranean Sea)

González‐Wangüemert¹,

Pujol²

2016

Turk J Zool

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Complex patterns in phytoplankton and microeukaryote diversity along the estuarine continuum

Cited by 25 publications

References 80 publications

Cryptophyte bloom in a Mediterranean estuary: High abundance of <em>Plagioselmis</em> cf. <em>prolonga</em> in the Krka River estuary (eastern Adriatic Sea)

Cryptophyte bloom in a Mediterranean estuary: High abundance of <em>Plagioselmis</em> cf. <em>prolonga</em> in the Krka River estuary (eastern Adriatic Sea)

Design and Evaluation of Illumina MiSeq-Compatible, 18S rRNA Gene-Specific Primers for Improved Characterization of Mixed Phototrophic Communities

First record of the Atlantic blue crab Callinectes sapidus (Crustacea: Brachyura: Portunidae) in the Segura River mouth (Spain, southwestern Mediterranean Sea)

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