Similarity and diversity of the Desmodesmus spp. microalgae isolated from associations with White Sea invertebrates

Gorelova, Olga; Baulina, O. I.; Solovchenko, Alexei; Chekanov, Konstantin; Чивкунова, О. Б.; Fedorenko, T. A.; Лобакова, Е. С.

doi:10.1007/s00709-014-0694-0

Cited by 46 publications

(9 citation statements)

References 59 publications

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“… Demodesmus sp. ITS1-5.8S-ITS2 reference barcode sequences reported by Fawley et al (2011) [ 53 ] and Gorelova et al (2014) [ 54 ] were included in the analysis together with Embrapa|LBA#2–3, #22–23, #26, #30 and #35–36 strains sequences and their respectively closest sequences at GenBank. Identical sequences were omitted for simplification.…”

Section: Resultsmentioning

confidence: 99%

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DNA Barcoding Green Microalgae Isolated from Neotropical Inland Waters

et al. 2016

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This study evaluated the feasibility of using the Ribulose Bisphosphate Carboxylase Large subunit gene (rbcL) and the Internal Transcribed Spacers 1 and 2 of the nuclear rDNA (nuITS1 and nuITS2) markers for identifying a very diverse, albeit poorly known group, of green microalgae from neotropical inland waters. Fifty-one freshwater green microalgae strains isolated from Brazil, the largest biodiversity reservoir in the neotropics, were submitted to DNA barcoding. Currently available universal primers for ITS1-5.8S-ITS2 region amplification were sufficient to successfully amplify and sequence 47 (92%) of the samples. On the other hand, new sets of primers had to be designed for rbcL, which allowed 96% of the samples to be sequenced. Thirty-five percent of the strains could be unambiguously identified to the species level based either on nuITS1 or nuITS2 sequences’ using barcode gap calculations. nuITS2 Compensatory Base Change (CBC) and ITS1-5.8S-ITS2 region phylogenetic analysis, together with morphological inspection, confirmed the identification accuracy. In contrast, only 6% of the strains could be assigned to the correct species based solely on rbcL sequences. In conclusion, the data presented here indicates that either nuITS1 or nuITS2 are useful markers for DNA barcoding of freshwater green microalgae, with advantage for nuITS2 due to the larger availability of analytical tools and reference barcodes deposited at databases for this marker.

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Section: Resultsmentioning

confidence: 99%

“…MEGA5 software was used for calculation. The taxon samplings used were reference nu ITS1, nu ITS2 and rbc L sequences derived from recent taxonomic revisions of the Chlorella and Desmodesmus genera [ 14 , 53 , 54 ] ( S1 – S3 Tables). The maximum intraspecific distances and minimum interspecific distances obtained were computed.…”

Section: Methodsmentioning

confidence: 99%

DNA Barcoding Green Microalgae Isolated from Neotropical Inland Waters

et al. 2016

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“…IPPAS S-2014 earlier referred as Desmodesmus sp. 3Dp86E-1 (see [27,39]) and a cyanobacterium Nostoc sp. PCC 7118.…”

Section: Methodsmentioning

confidence: 99%

A new simple method for quantification and locating P and N reserves in microalgal cells based on energy-filtered transmission electron microscopy (EFTEM) elemental maps

et al. 2018

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We established a new simple approach to study phosphorus (P) and nitrogen (N) reserves at subcellular level potentially applicable to various types of cells capable of accumulating P- and/or N-rich inclusions. Here, we report on using this approach for locating and assessing the abundance of the P and N reserves in microalgal and cyanobacterial cells. The approach includes separation of the signal from P- or N-rich structures from noise on the energy-filtered transmission electron microscopy (EFTEM) P- or N-maps. The separation includes (i) relative entropy estimation for each pixel of the map, (ii) binary thresholding of the map, and (iii) segmenting the image to assess the inclusion relative area and localization in the cell section. The separation is based on comparing the a posteriori probability that a pixel of the map contains information about the sample vs. Gaussian a priori probability that the pixel contains noise. The difference is expressed as relative entropy value for the pixel; positive values are characteristic of the pixels containing the payload information about the sample. This is the first known method for quantification and locating at a subcellular level P-rich and N-rich inclusions including tiny (< 180 nm) structures. We demonstrated the applicability of the proposed method both to the cells of eukaryotic green microalgae and cyanobacteria. Using the new method, we elucidated the heterogeneity of the studied cells in accumulation of P and N reserves across different species. The proposed approach will be handy for any cytological and microbiological study requiring a comparative assessment of subcellular distribution of cyanophycin, polyphosphates or other type of P- or N-rich inclusions. An added value is the potential of this approach for automation of the data processing and evaluation enabling an unprecedented increase of the EFTEM analysis throughput.

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“…Phylogenetic analyses could not be conclusive down to the species level as their DNA was amplified only with ITS region primers. Moreover, morphology did not allow species delimitation, owing to morphological criteria we could not point out, due to the phenotypic plasticity of Desmodesmus and the similarity of structures between Desmodesmus species [31, 44]. In the 18S rRNA and ITS phylogeny all sequences that clustered together into well-supported clades with the strain TAU-MAC 3410 are Desmodesmus communis [also known with the traditional name Scenedesmus quadricauda Turp.…”

Section: Discussionmentioning

confidence: 99%

Polyphasic taxonomy of green algae strains isolated from Mediterranean freshwaters

Lortou

Gkelis

2019

J of Biol Res-Thessaloniki

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BackgroundTerrestrial, freshwater and marine green algae constitute the large and morphologically diverse phylum of Chlorophyta, which gave rise to the core chlorophytes. Chlorophyta are abundant and diverse in freshwater environments where sometimes they form nuisance blooms under eutrophication conditions. The phylogenetic relationships among core chlorophyte clades (Chlorodendrophyceae, Ulvophyceae, Trebouxiophyceae and Chlorophyceae), are of particular interest as it is a species-rich phylum with ecological importance worldwide, but are still poorly understood. In the Mediterranean ecoregion, data on molecular characterization of eukaryotic microalgae strains are limited and current knowledge is based on ecological studies of natural populations. In the present study we report the isolation and characterization of 11 green microalgae strains from Greece contributing more information for the taxonomy of Chlorophyta. The study combined morphological and molecular data.ResultsPhylogenetic analysis based on 18S rRNA, internal transcribed spacer (ITS) region and the large subunit of the ribulose-bisphosphate carboxylase (rbcL) gene revealed eight taxa. Eleven green algae strains were classified in four orders (Sphaeropleales, Chlorellales, Chlamydomonadales and Chaetophorales) and were represented by four genera; one strain was not assigned to any genus. Most strains (six) were classified to the genus Desmodesmus, two strains to genus Chlorella, one to genus Spongiosarcinopsis and one filamentous strain to genus Uronema. One strain is placed in a separate independent branch within the Chlamydomonadales and deserves further research.ConclusionsOur study reports, for the first time, the presence of Uronema in an aquatic environment up to 40 °C and reveals new diversity within the Chlamydomonadales. The results from the ITS region and the rbcL gene corroborated those obtained from 18S rRNA without providing further information or resolving the phylogenetic relationships within certain genera, due to the limited number of ITS and rbcL sequences available. The comparison of molecular and morphological data showed that they were congruent. Cosmopolitan genera with high worldwide distribution inhabit Greek freshwaters.

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Similarity and diversity of the Desmodesmus spp. microalgae isolated from associations with White Sea invertebrates

Cited by 46 publications

References 59 publications

DNA Barcoding Green Microalgae Isolated from Neotropical Inland Waters

DNA Barcoding Green Microalgae Isolated from Neotropical Inland Waters

A new simple method for quantification and locating P and N reserves in microalgal cells based on energy-filtered transmission electron microscopy (EFTEM) elemental maps

Polyphasic taxonomy of green algae strains isolated from Mediterranean freshwaters

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