Literature DB >> 28848238

A microfluidics-based in situ chemotaxis assay to study the behaviour of aquatic microbial communities.

Bennett S Lambert1,2,3, Jean-Baptiste Raina4, Vicente I Fernandez1,2, Christian Rinke5, Nachshon Siboni4, Francesco Rubino5, Philip Hugenholtz5, Gene W Tyson5, Justin R Seymour4, Roman Stocker6,7.   

Abstract

Microbial interactions influence the productivity and biogeochemistry of the ocean, yet they occur in miniscule volumes that cannot be sampled by traditional oceanographic techniques. To investigate the behaviours of marine microorganisms at spatially relevant scales, we engineered an in situ chemotaxis assay (ISCA) based on microfluidic technology. Here, we describe the fabrication, testing and first field results of the ISCA, demonstrating its value in accessing the microbial behaviours that shape marine ecosystems.

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Year:  2017        PMID: 28848238     DOI: 10.1038/s41564-017-0010-9

Source DB:  PubMed          Journal:  Nat Microbiol        ISSN: 2058-5276            Impact factor:   17.745


  16 in total

1.  EcoFABs: advancing microbiome science through standardized fabricated ecosystems.

Authors:  Karsten Zengler; Kirsten Hofmockel; Nitin S Baliga; Scott W Behie; Hans C Bernstein; James B Brown; José R Dinneny; Sheri A Floge; Samuel P Forry; Matthias Hess; Scott A Jackson; Christer Jansson; Stephen R Lindemann; Jennifer Pett-Ridge; Costas Maranas; Ophelia S Venturelli; Matthew D Wallenstein; Elizabeth A Shank; Trent R Northen
Journal:  Nat Methods       Date:  2019-07       Impact factor: 28.547

2.  Chemotaxis may assist marine heterotrophic bacterial diazotrophs to find microzones suitable for N2 fixation in the pelagic ocean.

Authors:  Søren Hallstrøm; Jean-Baptiste Raina; Martin Ostrowski; Donovan H Parks; Gene W Tyson; Philip Hugenholtz; Roman Stocker; Justin R Seymour; Lasse Riemann
Journal:  ISME J       Date:  2022-08-01       Impact factor: 11.217

Review 3.  The ecological roles of bacterial chemotaxis.

Authors:  Johannes M Keegstra; Francesco Carrara; Roman Stocker
Journal:  Nat Rev Microbiol       Date:  2022-03-15       Impact factor: 78.297

4.  Chemotaxis shapes the microscale organization of the ocean's microbiome.

Authors:  Jean-Baptiste Raina; Bennett S Lambert; Donovan H Parks; Christian Rinke; Nachshon Siboni; Anna Bramucci; Martin Ostrowski; Brandon Signal; Adrian Lutz; Himasha Mendis; Francesco Rubino; Vicente I Fernandez; Roman Stocker; Philip Hugenholtz; Gene W Tyson; Justin R Seymour
Journal:  Nature       Date:  2022-04-20       Impact factor: 69.504

5.  Heterologous Expression of Pseudomonas putida Methyl-Accepting Chemotaxis Proteins Yields Escherichia coli Cells Chemotactic to Aromatic Compounds.

Authors:  Clémence Roggo; Estelle Emilie Clerc; Noushin Hadadi; Nicolas Carraro; Roman Stocker; Jan Roelof van der Meer
Journal:  Appl Environ Microbiol       Date:  2018-08-31       Impact factor: 4.792

Review 6.  Machine learning-enabled multiplexed microfluidic sensors.

Authors:  Sajjad Rahmani Dabbagh; Fazle Rabbi; Zafer Doğan; Ali Kemal Yetisen; Savas Tasoglu
Journal:  Biomicrofluidics       Date:  2020-12-11       Impact factor: 2.800

Review 7.  Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation.

Authors:  Gerard C L Wong; Jyot D Antani; Pushkar P Lele; Jing Chen; Beiyan Nan; Marco J Kühn; Alexandre Persat; Jean-Louis Bru; Nina Molin Høyland-Kroghsbo; Albert Siryaporn; Jacinta C Conrad; Francesco Carrara; Yutaka Yawata; Roman Stocker; Yves V Brun; Gregory B Whitfield; Calvin K Lee; Jaime de Anda; William C Schmidt; Ramin Golestanian; George A O'Toole; Kyle A Floyd; Fitnat H Yildiz; Shuai Yang; Fan Jin; Masanori Toyofuku; Leo Eberl; Nobuhiko Nomura; Lori A Zacharoff; Mohamed Y El-Naggar; Sibel Ebru Yalcin; Nikhil S Malvankar; Mauricio D Rojas-Andrade; Allon I Hochbaum; Jing Yan; Howard A Stone; Ned S Wingreen; Bonnie L Bassler; Yilin Wu; Haoran Xu; Knut Drescher; Jörn Dunkel
Journal:  Phys Biol       Date:  2021-06-23       Impact factor: 2.959

8.  The Life Aquatic at the Microscale.

Authors:  Jean-Baptiste Raina
Journal:  mSystems       Date:  2018-03-27       Impact factor: 6.496

Review 9.  Symbiosis in the microbial world: from ecology to genome evolution.

Authors:  Jean-Baptiste Raina; Laura Eme; F Joseph Pollock; Anja Spang; John M Archibald; Tom A Williams
Journal:  Biol Open       Date:  2018-02-22       Impact factor: 2.422

Review 10.  Application of Microfluidics in Experimental Ecology: The Importance of Being Spatial.

Authors:  Krisztina Nagy; Ágnes Ábrahám; Juan E Keymer; Péter Galajda
Journal:  Front Microbiol       Date:  2018-03-20       Impact factor: 5.640

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