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Gran-Stadniczeñko, S., Supraha, L., Egge, E. D. & Edvardsen, B. (2017). Haptophyte diversity and vertical distribution explored by 18S and 28S ribosomal RNA gene metabarcoding and scanning electron microscopy. Journal of Eukaryotic Microbiology, 64(4), 514-532.
Open this publication in new window or tab >>Haptophyte diversity and vertical distribution explored by 18S and 28S ribosomal RNA gene metabarcoding and scanning electron microscopy
2017 (English)In: Journal of Eukaryotic Microbiology, ISSN 1066-5234, E-ISSN 1550-7408, Vol. 64, no 4, p. 514-532Article in journal (Refereed) Published
Abstract [en]

Haptophyta encompasses more than 300 species of mostly marine pico- and nanoplanktonic flagellates. Our aims were to investigate the Oslofjorden haptophyte diversity and vertical distribution by metabarcoding, and to improve the approach to study haptophyte community composition, richness and proportional abundance by comparing two rRNA markers and scanning electron microscopy (SEM). Samples were collected in August 2013 at the Outer Oslofjorden, Norway. Total RNA/cDNA was amplified by haptophyte-specific primers targeting the V4 region of the 18S, and the D1-D2 region of the 28S rRNA. Taxonomy was assigned using curated haptophyte reference databases and phylogenetic analyses. Both marker genes showed Chrysochromulinaceae and Prymnesiaceae to be the families with highest number of Operational Taxonomic Units (OTUs), as well as proportional abundance. The 18S rRNA data setalso contained OTUs assigned to eight supported and defined clades consisting of environmental sequences only, possibly representing novel lineages from family to class. We also recorded new species for the area. Comparing coccolithophores by SEM with metabarcoding shows a good correspondence with the 18S rRNA gene proportional abundances. Our results contribute to link morphological and molecular data and 28S to 18S rRNA gene sequences of haptophytes without cultured representatives, and to improve metabarcoding methodology.

Keyword
Abundance, coccolithophores, high-throughput sequencing, Oslofjorden, phylogeny, richness
National Category
Biological Sciences Biological Systematics Biochemistry and Molecular Biology
Identifiers
urn:nbn:se:uu:diva-302898 (URN)10.1111/jeu.12388 (DOI)000406102000010 ()27973742 (PubMedID)
Note

De två första författarna delar förstaförfattarskapet.

Available from: 2016-09-12 Created: 2016-09-12 Last updated: 2017-11-02Bibliographically approved
Korlević, M., Šupraha, L., Ljubešić, Z., Henderiks, J., Ciglenečki, I., Dautović, J. & Orlić, S. (2016). Bacterial diversity across a highly stratified ecosystem: A salt-wedge Mediterranean estuary. Systematic and Applied Microbiology, 39(6), 398-408.
Open this publication in new window or tab >>Bacterial diversity across a highly stratified ecosystem: A salt-wedge Mediterranean estuary
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2016 (English)In: Systematic and Applied Microbiology, ISSN 0723-2020, E-ISSN 1618-0984, Vol. 39, no 6, p. 398-408Article in journal (Refereed) Published
Abstract [en]

Highly stratified Mediterranean estuaries are unique environments where the tidal range is low and the tidal currents are almost negligible. The main characteristics of these environments are strong salinity gradients and other environmental parameters. In this study, 454 pyrosequencing of the 16S rRNA gene in combination with catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH) was used to estimate the bacterial diversity across the Krka estuary in February and July 2013. The comparison of the data derived from these two techniques resulted in a significant but weak positive correlation (R = 0.28) indicating a substantial difference in the bacterial community structure, depending on the applied method. The phytoplankton bloom observed in February was identified as one of the main factors shaping the bacterial community structure between the two environmentally contrasting sampling months. Roseobacter, Bacteroidetes and Gammaproteobacteria differed substantially between February and July. Typical freshwater bacterial classes (Actinobacteria and Betaproteobacteria) showed strong vertical distribution patterns depending on the salinity gradient. Cyanobacteria decreased in abundance in February due to competition with phytoplankton, while the SAR11 clade increased its abundance in July as a result of a better adaptation toward more oligotrophic conditions. The results provided the first detailed insight into the bacterial diversity in a highly stratified Mediterranean karstic estuary.

Keyword
16S amplicon, CARD FISH, Estuaries, Gradient, Phytoplankton bloom, Diversity
National Category
Microbiology Ecology
Research subject
Microbiology
Identifiers
urn:nbn:se:uu:diva-301115 (URN)10.1016/j.syapm.2016.06.006 (DOI)000383305000006 ()27475818 (PubMedID)
Funder
Knut and Alice Wallenberg Foundation, 2009.0287
Available from: 2016-08-18 Created: 2016-08-18 Last updated: 2017-11-28Bibliographically approved
Gran Stadniczenko, S., Šupraha, L., Egge, E. & Edvardsen, B. (2016). Comparing high-throughput sequencing and scanning electron microscopy to investigate haptophyte communities in Oslofjorden (Skagerrak). In: : . Paper presented at EMBO/EMBL Symposium: A New Age of Discovery for Aquatic Microeukaryotes. .
Open this publication in new window or tab >>Comparing high-throughput sequencing and scanning electron microscopy to investigate haptophyte communities in Oslofjorden (Skagerrak)
2016 (English)Conference paper, Poster (with or without abstract) (Refereed)
National Category
Microbiology Ecology
Identifiers
urn:nbn:se:uu:diva-275746 (URN)
Conference
EMBO/EMBL Symposium: A New Age of Discovery for Aquatic Microeukaryotes
Available from: 2016-02-05 Created: 2016-02-05 Last updated: 2016-02-05
Šupraha, L., Gerecht, A. C., Probert, I. & Henderiks, J. (2016). The adaptive strategies of coccolithophores and their biogeochemical implications. In: : . Paper presented at EMBO/EMBL Symposium: A New Age of Discovery for Aquatic Microeukaryotes. .
Open this publication in new window or tab >>The adaptive strategies of coccolithophores and their biogeochemical implications
2016 (English)Conference paper, Poster (with or without abstract) (Refereed)
National Category
Evolutionary Biology
Identifiers
urn:nbn:se:uu:diva-275745 (URN)
Conference
EMBO/EMBL Symposium: A New Age of Discovery for Aquatic Microeukaryotes
Available from: 2016-02-05 Created: 2016-02-05 Last updated: 2016-02-05
Mejdandzic, M., Mihanovic, H., Silovic, T., Henderiks, J., Supraha, L., Polovic, D., . . . Ljubesic, Z. (2015). Biomarker Pigment Divinyl Chlorophyll a as a Tracer of Water Masses?. Paper presented at 6th European Phycological Congress (EPC6), 23-28 August, 2015, London, UK. European journal of phycology, 50(Suppl. 1), 162-163.
Open this publication in new window or tab >>Biomarker Pigment Divinyl Chlorophyll a as a Tracer of Water Masses?
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2015 (English)In: European journal of phycology, ISSN 0967-0262, E-ISSN 1469-4433, Vol. 50, no Suppl. 1, p. 162-163Article in journal, Meeting abstract (Other academic) Published
National Category
Psychology
Identifiers
urn:nbn:se:uu:diva-264493 (URN)000360244400293 ()
Conference
6th European Phycological Congress (EPC6), 23-28 August, 2015, London, UK
Note

Meeting Abstract: 8PO.12

Available from: 2015-10-19 Created: 2015-10-13 Last updated: 2017-12-01Bibliographically approved
Šupraha, L., Ljubešić, Z. & Henderiks, J. (2015). Combination coccospheres from the eastern Adriatic coast (Mediterranean Sea). In: : . Paper presented at 15th International Nannoplankton Association Meeting, Bohol Island, Philippines (pp. 81). , 35.
Open this publication in new window or tab >>Combination coccospheres from the eastern Adriatic coast (Mediterranean Sea)
2015 (English)Conference paper, Poster (with or without abstract) (Other academic)
National Category
Earth and Related Environmental Sciences
Identifiers
urn:nbn:se:uu:diva-253372 (URN)
Conference
15th International Nannoplankton Association Meeting, Bohol Island, Philippines
Available from: 2015-05-26 Created: 2015-05-26 Last updated: 2015-05-26
Šupraha, L., Gerecht, A. C., Probert, I. & Henderiks, J. (2015). Eco-physiological adaptation shapes the response of calcifying algae to nutrient limitation. Scientific Reports, 5, Article ID 16499.
Open this publication in new window or tab >>Eco-physiological adaptation shapes the response of calcifying algae to nutrient limitation
2015 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 5, article id 16499Article in journal (Refereed) Published
Abstract [en]

The steady increase in global ocean temperature will most likely lead to nutrient limitation in the photic zone. This will impact the physiology of marine algae, including the globally important calcifying coccolithophores. Understanding their adaptive patterns is essential for modelling carbon production in a low-nutrient ocean. We investigated the physiology of Helicosphaera carteri, a representative of the abundant but under-investigated flagellated functional group of coccolithophores. Two strains isolated from contrasting nutrient regimes (South Atlantic and Mediterranean Sea) were grown in phosphorus-replete and phosphorus-limited batch cultures. While growing exponentially in a phosphorus-replete medium, the Mediterranean strain exhibited on average 24% lower growth rate, 36% larger coccosphere volume and 21% lower particulate inorganic carbon (PIC) production than the Atlantic strain. Under phosphorus limitation, the same strain was capable of reaching a 2.6 times higher cell density than the Atlantic strain due to lower phosphorus requirements. These results suggest that local physiological adaptation can define the performance of this species under nutrient limitation.

National Category
Ecology Cell Biology Evolutionary Biology Earth and Related Environmental Sciences
Identifiers
urn:nbn:se:uu:diva-253354 (URN)10.1038/srep16499 (DOI)000364487200001 ()26560531 (PubMedID)
Funder
Knut and Alice Wallenberg FoundationThe Royal Swedish Academy of Sciences
Available from: 2015-05-26 Created: 2015-05-26 Last updated: 2017-12-04Bibliographically approved
Bosak, S., Šupraha, L., Nanjappa, D., Kooistra, W. H. .. & Sarno, D. (2015). Morphology and phylogeny of four species from the genus Bacteriastrum (Bacillariophyta). Phycologia, 54(2), 130-148.
Open this publication in new window or tab >>Morphology and phylogeny of four species from the genus Bacteriastrum (Bacillariophyta)
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2015 (English)In: Phycologia, Vol. 54, no 2, p. 130-148Article in journal (Refereed) Published
National Category
Biological Systematics
Identifiers
urn:nbn:se:uu:diva-253637 (URN)10.2216/14-62 (DOI)
Available from: 2015-05-29 Created: 2015-05-29 Last updated: 2015-05-29
Jordan, R. W., Abe, K., Cruz, J., Eriksen, R., Guerreiro, C., Hagino, K., . . . Young, J. R. (2015). Observations on the morphological diversity and distribution of two siliceous nannoplankton genera, Hyalolithus and Petasaria. Paper presented at INA Workshop on Extant Coccolithophores Research (Coccolithophores), OCT 05-10, 2014, Hellen Ctr Marine Res, Crete, GREECE. Micropaleontology, 61(6), 439-455.
Open this publication in new window or tab >>Observations on the morphological diversity and distribution of two siliceous nannoplankton genera, Hyalolithus and Petasaria
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2015 (English)In: Micropaleontology, ISSN 0026-2803, E-ISSN 1937-2795, Vol. 61, no 6, p. 439-455Article in journal, Meeting abstract (Refereed) Published
Abstract [en]

Scale-bearing siliceous nannoplankton are occasionally encountered in surface seawater samples, but are rarely identified or illustrated. In this study, the morphological diversity of the haptophyte Hyalolithus neolepis and the enigmatic Petasaria heterolepis are investigated in scanning and transmission electron microscopes using materials from around the world. Results show that H. neolepis scales exhibit variation in the width of the marginal hyaline area, but intermediate specimens make separation of the two morphologies difficult. Petasaria heterolepis scales also show differences, in the presence of tubercle rows in the hyaline area and degree of hyaline areal coverage, but separation into discrete varieties is difficult at present. However, specimens with scales bearing a protuberance are considered to be distinct enough to warrant the erection of a new species, Petasaria protuberans Jordan,Malinverno, Å upraha, Thomsen et Young sp. nov.

National Category
Biological Systematics Other Earth and Related Environmental Sciences
Identifiers
urn:nbn:se:uu:diva-288902 (URN)000374703600004 ()
Conference
INA Workshop on Extant Coccolithophores Research (Coccolithophores), OCT 05-10, 2014, Hellen Ctr Marine Res, Crete, GREECE
Available from: 2016-04-28 Created: 2016-04-28 Last updated: 2017-11-30Bibliographically approved
Supraha, L. (2015). Phenotypic variation and adaptive strategies in calcifying marine phytoplankton (Coccolithophores). (Licentiate dissertation). Uppsala universitet.
Open this publication in new window or tab >>Phenotypic variation and adaptive strategies in calcifying marine phytoplankton (Coccolithophores)
2015 (English)Licentiate thesis, comprehensive summary (Other academic)
Place, publisher, year, edition, pages
Uppsala universitet, 2015
National Category
Ecology Evolutionary Biology Cell Biology
Identifiers
urn:nbn:se:uu:diva-253357 (URN)
Presentation
2015-04-24, Hambergsalen, Villavägen 16, Uppsala, 15:34 (English)
Opponent
Available from: 2015-06-02 Created: 2015-05-26 Last updated: 2016-02-09Bibliographically approved
Organisations
Identifiers
ORCID iD: ORCID iD iconorcid.org/0000-0003-2613-945x

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