The Algal Microbiome: Friends and Foes

Risultati finali

D7.1 All ESRs to have completed 3 postgraduate courses and attended 1 scientific conference, as per their PCDP

D7.2 All ESRs to have completed 3 postgraduate courses and attended 1 scientific conference, as per their PCDP

D2.2 [ESR4] Fungal bioassay, transcriptomics and metabolomics of Saccharina and endophyte pathogens
D6.4 PhD awarded to all ALFF ESRs
D3.8 [ESR9] Comparison of the data obtained by the mutant-driven approach with data generated my mass spectrometric identification of signalling molecules
D5.1 [ESR13] strategies for the storage and analysis of temporally- or spatially-resolved metagenomics data.
Supervisory Board of the network
D1.7 [ESR3] Test correlation between Pseudo-nitschzia infections, interrannual variation & toxicity events
D5.6 [ESR15] novel insights into Ectocarpus-Eurychasma interactions and potential effectors

D5.7 [ESR15] novel insights into Ectocarpus-Eurychasma interactions and potential effectors

D3.7 [ESR9] Transposon tagging bacterial mutants failing to induce diatom growth or carbohydrate secretion

D37ESR9 Transposon tagging bacterial mutants failing to induce diatom growth or carbohydrate secretion

D2.6 [ESR6] Functional study of eukaryotic-bacterial interactions using DNA stable-isotope probing
D4.3 [ESR10] Bacterial localization, transcriptomic & metabolomic profiling along a salinity gradient
Attendance to ALFF courses

"All ESRs to have attended the 6 courses organised by ALFF beneficiaries on 1) Algal Cutluring from the field to the lab; 2) ""Commercial Algal Culturing: technologies, markets and business skills""; 3) ""Metabolomics and experimental design in chemical ecology""; 4) ""Systems biology and bioinformatics""; 5) ""Regulatory Water Quality Monitoring""; 6) ""Science into business""."

D2.7 [ESR6] Insights in the ecological/evolutionary principles underlying the assembly & structure of complex microbial communities in Caulerpa
D9.1 All outreach events delivered as per Section 3.3.1

D9.1 All outreach events delivered

D4.5 [ESR11] Transcriptomic & metabolomic profiling of young Ulva germlings during biofilm formation

D4.7 [ESR12] Proteomic analysis of Marinobacter–algal cultures
D4.4 [ESR11] Bioassays on algicidal/beneficial microorganism on development and morphogenesis of Ulva

D44ESR11 Bioassays on algicidalbeneficial microorganism on development and morphogenesis of Ulva

D1.2 Integration of transcriptomics and metabolomics to identify Paraphysoderma nutrients requirements [ESR1] and Seminavis robusta / bacteria [ESR2] interactions.

Integration of transcriptomics and metabolomics to identify Paraphysoderma nutrients requirements [ESR1] and Seminavis robusta / bacteria [ESR2] interactions.

D1.5 [ESR2] Mechanisms and first applications of bacterial interference compounds on diatom signalling

D3.9 [ESR9] Mimicking the effects of identified substances on biofilm formation in biofilm growth chambers
D2.5 [ESR6] Metagenomic characterization & localization of communities in native and invasive Caulerpa species

D25ESR6 Metagenomic characterization localization of communities in native and invasive Caulerpa species

D4.1 [ESR10] List of bacterial species and cultures necessary for E. subulatus acclimation to freshwater

D41ESR10 List of bacterial species and cultures necessary for E subulatus acclimation to freshwater

D5.3 [ESR14] effects of bacterial communities on Nannochloropsis pathways
D4.2 [ESR10] Genome (expected nb: 5) sequencing and annotation of Ectocarpus-associated bacteria

D42ESR10 Genome expected nb 5 sequencing and annotation of Ectocarpusassociated bacteria

D3.4 [ESR8] Community composition and chemical nature of biofilms during cultivation of Nannochloropsis and Isochrysis

D34ESR8 Community composition and chemical nature of biofilms during cultivation of Nannochloropsis and Isochrysis

D8.1 Release of ALFF-derived Open Access resources in collaboration with the UNU-INWEH
D5.4 [ESR14] Public release of upgraded ORCAE platform, incl. systems biology tools & all relevant ALFF datasets
D5.5 [ESR15] Extended ORCAE version with integrated tools for variant (e.g. SNP) analysis

D5.6 [ESR15] Extended ORCAE version with integrated tools for variant (e.g. SNP) analysis

Pubblicazioni

Exploring the Cultivable Ectocarpus Microbiome

Autori: Hetty KleinJan, Christian Jeanthon, Catherine Boyen, Simon M. Dittami
Pubblicato in: Frontiers in Microbiology, Numero 8, 2017, ISSN 1664-302X
Editore: Frontiers Media
DOI: 10.3389/fmicb.2017.02456

Life history determinants of the susceptibility of the blood alga Haematococcu s to infection by Paraphysoderma sedebokerense (Blastocladiomycota)

Autori: Céline C. Allewaert, Noreen Hiegle, Martina Strittmatter, Reinhoud de Blok, Tiago Guerra, Claire M.M. Gachon, Wim Vyverman
Pubblicato in: Algal Research, Numero 31, 2018, Pagina/e 282-290, ISSN 2211-9264
Editore: Elsevier BV
DOI: 10.1016/j.algal.2018.02.015

Biofilm interactions – bacteria modulate sexual reproduction success of the diatom Seminavis robusta

Autori: Emilio Cirri, Wim Vyverman, Georg Pohnert
Pubblicato in: FEMS Microbiology Ecology, 2018, ISSN 0168-6496
Editore: Blackwell
DOI: 10.1093/femsec/fiy161

Genetic mapping of the <i>qSBN7</i> locus, a QTL controlling secondary branch number per panicle in rice

Autori: Sheng-Shan Wang, Rong-Kuen Chen, Kai-Yi Chen, Chu-Yin Liu, Shu-Min Kao, Chia-Lin Chung
Pubblicato in: Breeding Science, Numero 67/4, 2017, Pagina/e 340-347, ISSN 1344-7610
Editore: Japanese Society of Breeding
DOI: 10.1270/jsbbs.17007

Insights into the Evolution of Multicellularity from the Sea Lettuce Genome

Autori: Olivier De Clerck, Shu-Min Kao, Kenny A. Bogaert, Jonas Blomme, Fatima Foflonker, Michiel Kwantes, Emmelien Vancaester, Lisa Vanderstraeten, Eylem Aydogdu, Jens Boesger, Gianmaria Califano, Benedicte Charrier, Rachel Clewes, Andrea Del Cortona, Sofie D’Hondt, Noe Fernandez-Pozo, Claire M. Gachon, Marc Hanikenne, Linda Lattermann, Frederik Leliaert, Xiaojie Liu, Christine A. Maggs, Zoë A. Popper
Pubblicato in: Current Biology, Numero 28/18, 2018, Pagina/e 2921-2933.e5, ISSN 0960-9822
Editore: Cell Press
DOI: 10.1016/j.cub.2018.08.015

Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza

Autori: Joshua C. Stein, Yeisoo Yu, Dario Copetti, Derrick J. Zwickl, Li Zhang, Chengjun Zhang, Kapeel Chougule, Dongying Gao, Aiko Iwata, Jose Luis Goicoechea, Sharon Wei, Jun Wang, Yi Liao, Muhua Wang, Julie Jacquemin, Claude Becker, Dave Kudrna, Jianwei Zhang, Carlos E. M. Londono, Xiang Song, Seunghee Lee, Paul Sanchez, Andrea Zuccolo, Jetty S. S. Ammiraju, Jayson Talag, Ann Danowitz, Luis F. Rivera,
Pubblicato in: Nature Genetics, Numero 50/2, 2018, Pagina/e 285-296, ISSN 1061-4036
Editore: Nature Publishing Group
DOI: 10.1038/s41588-018-0040-0

Analysis of Allelic Imbalance in Rice Hybrids Under Water Stress and Association of Asymmetrically Expressed Genes with Drought-Response QTLs

Autori: Nelzo C. Ereful, Li-Yu Liu, Eric Tsai, Shu-Min Kao, Shalabh Dixit, Ramil Mauleon, Katrina Malabanan, Michael Thomson, Antonio Laurena, David Lee, Ian Mackay, Andy Greenland, Wayne Powell, Hei Leung
Pubblicato in: Rice, Numero 9/1, 2016, ISSN 1939-8425
Editore: Springer Pub. Co.,
DOI: 10.1186/s12284-016-0123-4

Microspongium alariae in Alaria esculenta: a widely-distributed non-parasitic brown algal endophyte that shows cell modifications within its host

Autori: Pedro Murúa, Frithjof C. Küpper, Liliana A. Muñoz, Miriam Bernard, Akira F. Peters
Pubblicato in: Botanica Marina, Numero 61/4, 2018, Pagina/e 343-354, ISSN 0006-8055
Editore: Walter de Gruyter GmbH & Co. KG
DOI: 10.1515/bot-2017-0095

A gene transfer event suggests a long-term partnership between eustigmatophyte algae and a novel lineage of endosymbiotic bacteria

Autori: Tatiana Yurchenko, Tereza Ševčíková, Pavel Přibyl, Khalid El Karkouri, Vladimír Klimeš, Raquel Amaral, Veronika Zbránková, Eunsoo Kim, Didier Raoult, Lilia M. A. Santos, Marek Eliáš
Pubblicato in: The ISME Journal, Numero 12/9, 2018, Pagina/e 2163-2175, ISSN 1751-7362
Editore: Nature Publishing Group
DOI: 10.1038/s41396-018-0177-y

Identification of Metallophores and Organic Ligands in the Chemosphere of the Marine Macroalga Ulva (Chlorophyta) and at Land-Sea Interfaces

Autori: Thomas Wichard
Pubblicato in: Frontiers in Marine Science, Numero 3, 2016, ISSN 2296-7745
Editore: Frontiers in Marine Science
DOI: 10.3389/fmars.2016.00131

Novel species of the oomycete Olpidiopsis potentially threaten European red algal cultivation

Autori: Yacine Badis, Tatyana A. Klochkova, Martina Strittmatter, Andrea Garvetto, Pedro Murúa, J. Craig Sanderson, Gwang Hoon Kim, Claire M. M. Gachon
Pubblicato in: Journal of Applied Phycology, 2018, ISSN 0921-8971
Editore: Kluwer Academic Publishers
DOI: 10.1007/s10811-018-1641-9

Novel Widespread Marine Oomycetes Parasitising Diatoms, Including the Toxic Genus Pseudo-nitzschia: Genetic, Morphological, and Ecological Characterisation

Autori: Andrea Garvetto, Elisabeth Nézan, Yacine Badis, Gwenael Bilien, Paola Arce, Eileen Bresnan, Claire M. M. Gachon, Raffaele Siano
Pubblicato in: Frontiers in Microbiology, Numero 9, 2018, ISSN 1664-302X
Editore: Frontiers Media
DOI: 10.3389/fmicb.2018.02918

Rediscovering Zygorhizidium affluens Canter: Molecular Taxonomy, Infectious Cycle, and Cryopreservation of a Chytrid Infecting the Bloom-Forming Diatom Asterionella formosa

Autori: Cecilia Rad-Menéndez, Mélanie Gerphagnon, Andrea Garvetto, Paola Arce, Yacine Badis, Télesphore Sime-Ngando, Claire M. M. Gachon
Pubblicato in: Applied and Environmental Microbiology, Numero 84/23, 2018, ISSN 0099-2240
Editore: American Society for Microbiology
DOI: 10.1128/aem.01826-18

Diversity, biogeography and host specificity of kelp endophytes with a focus on the genera Laminarionema and Laminariocolax (Ectocarpales, Phaeophyceae)

Autori: Miriam S. Bernard, Martina Strittmatter, Pedro Murúa, Svenja Heesch, Ga Youn Cho, Catherine Leblanc, Akira F. Peters
Pubblicato in: European Journal of Phycology, Numero 54/1, 2018, Pagina/e 39-51, ISSN 0967-0262
Editore: Taylor & Francis
DOI: 10.1080/09670262.2018.1502816

Plastid Genomes and Proteins Illuminate the Evolution of Eustigmatophyte Algae and Their Bacterial Endosymbionts

Autori: Tereza Ševčíková, Tatiana Yurchenko, Karen P Fawley, Raquel Amaral, Hynek Strnad, Lilia M A Santos, Marvin W Fawley, Marek Eliáš
Pubblicato in: Genome Biology and Evolution, Numero 11/2, 2019, Pagina/e 362-379, ISSN 1759-6653
Editore: Oxford University Press
DOI: 10.1093/gbe/evz004

A community perspective on the concept of marine holobionts: state-of-the-art, challenges, and future directions

Autori: Simon M Dittami, Enrique Arboleda, Jean-Christophe Auguet, Arite Bigalke, Enora Briand, Paco Cárdenas, Ulisse Cardini, Johan Decelle, Aschwin Engelen, Damien Eveillard, Claire M.M. Gachon, Sarah Griffiths, Tilmann Harder, Ehsan Kayal, Elena Kazamia, François H Lallier, Mónica Media, Ezequiel M. Marzinelli, Teresa Morganti, Laura Núñez Pons, Soizic Prado, José Pintado, Mahasweta Saha, Marc
Pubblicato in: Peer J, 2019, ISSN 2167-8359
Editore: PeerJ
DOI: 10.7287/peerj.preprints.27519v1

qPCR-based relative quantification of the brown algal endophyte Laminarionema elsbetiae in Saccharina latissima: variation and dynamics of host—endophyte interactions

Autori: Miriam Bernard, Sylvie Rousvoal, Bertrand Jacquemin, Marion Ballenghien, Akira F. Peters, Catherine Leblanc
Pubblicato in: Journal of Applied Phycology, Numero 30/5, 2018, Pagina/e 2901-2911, ISSN 0921-8971
Editore: Kluwer Academic Publishers
DOI: 10.1007/s10811-017-1367-0

N -Acyl Homoserine Lactone Derived Tetramic Acids Impair Photosynthesis in Phaeodactylum tricornutum

Autori: Frederike Stock, Michail Syrpas, Shiri Graff van Creveld, Simon Backx, Lander Blommaert, Lachlan Dow, Willem Stock, Ewout Ruysbergh, Bernard Lepetit, Benjamin Bailleul, Koen Sabbe, Norbert De Kimpe, Anne Willems, Peter G. Kroth, Assaf Vardi, Wim Vyverman, Sven Mangelinckx
Pubblicato in: ACS Chemical Biology, Numero 14/2, 2019, Pagina/e 198-203, ISSN 1554-8929
Editore: American Chemical Society
DOI: 10.1021/acschembio.8b01101

Time Course Exo-Metabolomic Profiling in the Green Marine Macroalga Ulva (Chlorophyta) for Identification of Growth Phase-Dependent Biomarkers

Autori: Taghreed Alsufyani, Anne Weiss, Thomas Wichard
Pubblicato in: Marine Drugs, Numero 15/1, 2017, Pagina/e 14, ISSN 1660-3397
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/md15010014

A solid phase extraction based non-disruptive sampling technique to investigate the surface chemistry of macroalgae

Autori: Emilio Cirri, Katharina Grosser, Georg Pohnert
Pubblicato in: Biofouling, Numero 32/2, 2016, Pagina/e 145-153, ISSN 0892-7014
Editore: Taylor & Francis
DOI: 10.1080/08927014.2015.1130823

The plastid genome of some eustigmatophyte algae harbours a bacteria-derived six-gene cluster for biosynthesis of a novel secondary metabolite

Autori: Tatiana Yurchenko, Tereza Ševčíková, Hynek Strnad, Anzhelika Butenko, Marek Eliáš
Pubblicato in: Open Biology, Numero 6/11, 2016, Pagina/e 160249, ISSN 2046-2441
Editore: Royal Society Publishing
DOI: 10.1098/rsob.160249

Macroalgal-bacterial interactions: Role of dimethylsulfoniopropionate in microbial gardening by Ulva (Chlorophyta)

Autori: Kessler, Ralf W.; Weiss, Anne; Kuegler, Stefan; Hermes, Cornelia; Wichard, Thomas
Pubblicato in: Molecular Ecology, Numero 2, 2018, ISSN 1365-294X
Editore: Wiley
DOI: 10.5281/zenodo.2580629

Protocols for Macroalgae Research

Autori: Emilio Cirri, Georg Pohnert
Pubblicato in: Protocols for Macroalgae Research, 2018, Pagina/e 31-321, ISBN 9781-351132954
Editore: Taylor & Francis
DOI: 10.1201/b21460

Preparation of axenic cultures in Ulva (Chlorophyta)

Autori: Gianmaria Califano, Thomas Wichard
Pubblicato in: Protocols for Macroalgae Research, 2018
Editore: Francis & Taylor Group
DOI: 10.5281/zenodo.2578236

Metabolomics of intra- and extracellular metabolites from micro- and macroalgae using GC-MS and LC-MS

Autori: C Kuhlisch, G Califano, T Wichard, G Pohnert
Pubblicato in: Protocols for Macroalgae Research, 2018
Editore: Francis & Taylor Group
DOI: 10.5281/zenodo.2578249

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