Literature DB >> 29265528

Deconvolution model to resolve cytometric microbial community patterns in flowing waters.

Stefano Amalfitano1, Stefano Fazi1, Elisabet Ejarque2, Anna Freixa3, Anna M Romaní4, Andrea Butturini5.   

Abstract

Flow cytometry is suitable to discriminate and quantify aquatic microbial cells within a spectrum of fluorescence and light scatter signals. Using fixed gating and operational settings, we developed a finite distribution mixture model, followed by the Voronoi tessellation, to resolve bivariate cytometric profiles into cohesive subgroups of events. This procedure was applied to outline recurrent patterns and quantitative changes of the aquatic microbial community along a river hydrologic continuum. We found five major subgroups within each of the commonly retrieved populations of cells with Low and High content of Nucleic Acids (namely, LNA, and HNA cells). Moreover, the advanced analysis allowed assessing changes of community patterns perturbed by a wastewater feed. Our approach for cytometric data deconvolution confirmed that flow cytometry could represent a prime candidate technology for assessing microbial community patterns in flowing waters.
© 2017 International Society for Advancement of Cytometry. © 2017 International Society for Advancement of Cytometry.

Keywords:  bacteria; cytometric fingerprinting; flow cytometry; prokaryotes; river continuum

Mesh:

Substances:

Year:  2017        PMID: 29265528     DOI: 10.1002/cyto.a.23304

Source DB:  PubMed          Journal:  Cytometry A        ISSN: 1552-4922            Impact factor:   4.355


  8 in total

1.  Characterizing Microbiome Dynamics - Flow Cytometry Based Workflows from Pure Cultures to Natural Communities.

Authors:  Johannes Lambrecht; Florian Schattenberg; Hauke Harms; Susann Mueller
Journal:  J Vis Exp       Date:  2018-07-12       Impact factor: 1.355

2.  Quantitative Flow Cytometry to Understand Population Heterogeneity in Response to Changes in Substrate Availability in Escherichia coli and Saccharomyces cerevisiae Chemostats.

Authors:  Anna-Lena Heins; Ted Johanson; Shanshan Han; Luisa Lundin; Magnus Carlquist; Krist V Gernaey; Søren J Sørensen; Anna Eliasson Lantz
Journal:  Front Bioeng Biotechnol       Date:  2019-08-05

3.  flowEMMi: an automated model-based clustering tool for microbial cytometric data.

Authors:  Joachim Ludwig; Christian Höner Zu Siederdissen; Zishu Liu; Peter F Stadler; Susann Müller
Journal:  BMC Bioinformatics       Date:  2019-12-09       Impact factor: 3.169

4.  Effects of a Simulated Acute Oil Spillage on Bacterial Communities from Arctic and Antarctic Marine Sediments.

Authors:  Carmen Rizzo; Roberta Malavenda; Berna Gerçe; Maria Papale; Christoph Syldatk; Rudolf Hausmann; Vivia Bruni; Luigi Michaud; Angelina Lo Giudice; Stefano Amalfitano
Journal:  Microorganisms       Date:  2019-11-30

Review 5.  Computational Analysis of Microbial Flow Cytometry Data.

Authors:  Peter Rubbens; Ruben Props
Journal:  mSystems       Date:  2021-01-19       Impact factor: 6.496

6.  High concentrations of dissolved biogenic methane associated with cyanobacterial blooms in East African lake surface water.

Authors:  Stefano Fazi; Stefano Amalfitano; Stefania Venturi; Nic Pacini; Eusebi Vazquez; Lydia A Olaka; Franco Tassi; Simona Crognale; Peter Herzsprung; Oliver J Lechtenfeld; Jacopo Cabassi; Francesco Capecchiacci; Simona Rossetti; Michail M Yakimov; Orlando Vaselli; David M Harper; Andrea Butturini
Journal:  Commun Biol       Date:  2021-07-07

7.  Uncovering the release of micro/nanoplastics from disposable face masks at times of COVID-19.

Authors:  Silvia Morgana; Barbara Casentini; Stefano Amalfitano
Journal:  J Hazard Mater       Date:  2021-06-26       Impact factor: 10.588

8.  Randomized Lasso Links Microbial Taxa with Aquatic Functional Groups Inferred from Flow Cytometry.

Authors:  Peter Rubbens; Marian L Schmidt; Ruben Props; Bopaiah A Biddanda; Nico Boon; Willem Waegeman; Vincent J Denef
Journal:  mSystems       Date:  2019-09-10       Impact factor: 6.496

  8 in total

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