Literature DB >> 30938044

Time series are critical to understand microbial plankton diversity and ecology.

David Moreira1, Purificación López-García1.   

Abstract

How diverse are marine planktonic protist communities? How much seasonality do they exhibit? For a very long time, these two old and challenging questions in the field of plankton ecology could be addressed only for large-size protist species, based on cell counting under the microscope. The recent application of molecular techniques, notably massive marker-gene amplicon sequencing approaches (metabarcoding), has allowed investigating with unprecedented level of resolution the small-sized (<20 µm) planktonic eukaryotes too. An amazing diversity of these tiny organisms has been unveiled but details about their temporal dynamics remain much more elusive. In a From the Cover article in this issue of Molecular Ecology, Giner et al. (2019) introduce a new Recurrence Index (RI) to specifically look for seasonality in time-series metabarcoding data. They inspected the temporal dynamics of all operational taxonomic units (OTUs) in a rich sequence data set of pico- and nanoplanktonic eukaryotes in samples collected monthly during 10 years. Although most OTUs did not show seasonality, some abundant ones did, which explains why some averaging methods can find seasonality at the less detailed level of whole planktonic communities. Not surprisingly, the very complex small-sized eukaryotic plankton communities are composed of organisms with miscellaneous temporal dynamics.
© 2019 John Wiley & Sons Ltd.

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Year:  2019        PMID: 30938044      PMCID: PMC6697531          DOI: 10.1111/mec.15015

Source DB:  PubMed          Journal:  Mol Ecol        ISSN: 0962-1083            Impact factor:   6.185


  10 in total

1.  Oceanic 18S rDNA sequences from picoplankton reveal unsuspected eukaryotic diversity.

Authors:  S Y Moon-van der Staay; R De Wachter; D Vaulot
Journal:  Nature       Date:  2001-02-01       Impact factor: 49.962

2.  Unexpected diversity of small eukaryotes in deep-sea Antarctic plankton.

Authors:  P López-García; F Rodríguez-Valera; C Pedrós-Alió; D Moreira
Journal:  Nature       Date:  2001-02-01       Impact factor: 49.962

Review 3.  The molecular ecology of microbial eukaryotes unveils a hidden world.

Authors:  David Moreira; Purificación López-García
Journal:  Trends Microbiol       Date:  2002-01       Impact factor: 17.079

4.  Study of genetic diversity of eukaryotic picoplankton in different oceanic regions by small-subunit rRNA gene cloning and sequencing.

Authors:  B Díez; C Pedrós-Alió; R Massana
Journal:  Appl Environ Microbiol       Date:  2001-07       Impact factor: 4.792

5.  Large variability of bathypelagic microbial eukaryotic communities across the world's oceans.

Authors:  Massimo C Pernice; Caterina R Giner; Ramiro Logares; Júlia Perera-Bel; Silvia G Acinas; Carlos M Duarte; Josep M Gasol; Ramon Massana
Journal:  ISME J       Date:  2015-10-09       Impact factor: 10.302

6.  Marine microbial diversity: can it be determined?

Authors:  Carlos Pedrós-Alió
Journal:  Trends Microbiol       Date:  2006-05-06       Impact factor: 17.079

7.  Monthly to interannual variability of microbial eukaryote assemblages at four depths in the eastern North Pacific.

Authors:  Diane Y Kim; Peter D Countway; Adriane C Jones; Astrid Schnetzer; Warren Yamashita; Christine Tung; David A Caron
Journal:  ISME J       Date:  2013-10-31       Impact factor: 10.302

8.  Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean.

Authors:  Colomban de Vargas; Stéphane Audic; Nicolas Henry; Johan Decelle; Frédéric Mahé; Ramiro Logares; Enrique Lara; Cédric Berney; Noan Le Bescot; Ian Probert; Margaux Carmichael; Julie Poulain; Sarah Romac; Sébastien Colin; Jean-Marc Aury; Lucie Bittner; Samuel Chaffron; Micah Dunthorn; Stefan Engelen; Olga Flegontova; Lionel Guidi; Aleš Horák; Olivier Jaillon; Gipsi Lima-Mendez; Julius Lukeš; Shruti Malviya; Raphael Morard; Matthieu Mulot; Eleonora Scalco; Raffaele Siano; Flora Vincent; Adriana Zingone; Céline Dimier; Marc Picheral; Sarah Searson; Stefanie Kandels-Lewis; Silvia G Acinas; Peer Bork; Chris Bowler; Gabriel Gorsky; Nigel Grimsley; Pascal Hingamp; Daniele Iudicone; Fabrice Not; Hiroyuki Ogata; Stephane Pesant; Jeroen Raes; Michael E Sieracki; Sabrina Speich; Lars Stemmann; Shinichi Sunagawa; Jean Weissenbach; Patrick Wincker; Eric Karsenti
Journal:  Science       Date:  2015-05-22       Impact factor: 47.728

9.  Quantifying long-term recurrence in planktonic microbial eukaryotes.

Authors:  Caterina R Giner; Vanessa Balagué; Anders K Krabberød; Isabel Ferrera; Albert Reñé; Esther Garcés; Josep M Gasol; Ramiro Logares; Ramon Massana
Journal:  Mol Ecol       Date:  2019-02-04       Impact factor: 6.185

10.  Marked seasonality and high spatial variability of protist communities in shallow freshwater systems.

Authors:  Marianne Simon; Purificación López-García; Philippe Deschamps; David Moreira; Gwendal Restoux; Paola Bertolino; Ludwig Jardillier
Journal:  ISME J       Date:  2015-03-13       Impact factor: 10.302

  10 in total
  2 in total

1.  A Metabarcoding Protocol to Analyze Coastal Planktic Communities Collected by Desalination Plant Filters: From Sampling to Bioinformatic Exploratory Analyses.

Authors:  Matteo Cecchetto; Andrea Di Cesare; Ester Eckert; Isabella Moro; Diego Fontaneto; Stefano Schiaparelli
Journal:  Methods Mol Biol       Date:  2022

2.  Lake Ecosystem Robustness and Resilience Inferred from a Climate-Stressed Protistan Plankton Network.

Authors:  Dominik Forster; Zhishuai Qu; Gianna Pitsch; Estelle P Bruni; Barbara Kammerlander; Thomas Pröschold; Bettina Sonntag; Thomas Posch; Thorsten Stoeck
Journal:  Microorganisms       Date:  2021-03-06
  2 in total

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