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Processes
Special Issues
Microbial Community Modeling: Prediction of Microbial Interactions and Community Dynamics
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Microbial Community Modeling: Prediction of Microbial Interactions and Community Dynamics

A special issue of Processes (ISSN 2227-9717). This special issue belongs to the section "Biological Processes and Systems".

Deadline for manuscript submissions: closed (31 December 2017) | Viewed by 143350

Printed Edition Available!
A printed edition of this Special Issue is available here.

Special Issue Editor

Dr. Hyun-Seob Song

E-Mail Website
Guest Editor
Department of Biological Systems Engineering, Department of Food Science and Technology, Nebraska Food for Health Center, University of Nebraska, 1400 R St, Lincoln, NE 68588, USA
Interests: microbial community modeling; metabolic modeling; metabolic network analysis; system optimization
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Interest in engineering microbial communities for application in biotechnology and biomedical science has rapidly grown over the last decade. The design and control of microbial communities still remains a grand challenge, particularly due to the complexity of interspecies interactions that require mathematical modeling and computational analysis as essential tools.

This Special Issue calls for contributions across a broad range of areas that address recent computational and modeling developments for predicting species interactions and community dynamics and functions. Modeling frameworks of interest include metabolic network analysis, flux balance analysis, trait-based modeling, Lotka-Volterra modeling, evolutionary game theory, the cybernetic approach, functional gene-based modeling, thermodynamically-based modeling, individual-based modeling, integrative multiscale modeling, and other relevant approaches. We also welcome papers on data-driven inference of species interaction networks or gene co-expression networks in microbial communities.

Dr. Hyun-Seob Song
Guest Editor

Review related to the special issue： Song, H.-S.; Cannon, W.R.; Beliaev, A.S.; Konopka, A. Mathematical Modeling of Microbial Community Dynamics: A Methodological Review. Processes 2014, 2, 711-752. (https://www.mdpi.com/2227-9717/2/4/711)

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Processes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2400 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • microbial community dynamics
  • microbial interaction networks
  • mathematical modeling
  • data-driven inference

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Published Papers (14 papers)

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3 pages, 157 KiB  
Editorial
Special Issue: Microbial Community Modeling: Prediction of Microbial Interactions and Community Dynamics
Processes 2018, 6(5), 41; https://doi.org/10.3390/pr6050041 - 24 Apr 2018
14 pages, 1148 KiB  
Article
In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi
Processes 2018, 6(1), 7; https://doi.org/10.3390/pr6010007 - 15 Jan 2018
21 pages, 726 KiB  
Article
Individual-Based Modelling of Invasion in Bioaugmented Sand Filter Communities
Processes 2018, 6(1), 2; https://doi.org/10.3390/pr6010002 - 1 Jan 2018
29 pages, 2724 KiB  
Article
Dynamics of the Bacterial Community Associated with Phaeodactylum tricornutum Cultures
Processes 2017, 5(4), 77; https://doi.org/10.3390/pr5040077 - 7 Dec 2017
14 pages, 2848 KiB  
Article
An Integrated Mathematical Model of Microbial Fuel Cell Processes: Bioelectrochemical and Microbiologic Aspects
Processes 2017, 5(4), 73; https://doi.org/10.3390/pr5040073 - 20 Nov 2017
18 pages, 3848 KiB  
Article
Dispersal-Based Microbial Community Assembly Decreases Biogeochemical Function
Processes 2017, 5(4), 65; https://doi.org/10.3390/pr5040065 - 1 Nov 2017
19 pages, 265 KiB  
Opinion
Modeling Microbial Communities: A Call for Collaboration between Experimentalists and Theorists
Processes 2017, 5(4), 53; https://doi.org/10.3390/pr5040053 - 25 Sep 2017
31 pages, 6397 KiB  
Article
Stoichiometric Network Analysis of Cyanobacterial Acclimation to Photosynthesis-Associated Stresses Identifies Heterotrophic Niches
Processes 2017, 5(2), 32; https://doi.org/10.3390/pr5020032 - 19 Jun 2017
23 pages, 2300 KiB  
Article
Byproduct Cross Feeding and Community Stability in an In Silico Biofilm Model of the Gut Microbiome
Processes 2017, 5(1), 13; https://doi.org/10.3390/pr5010013 - 18 Mar 2017
40 pages, 858 KiB  
Article
Photorespiration and Rate Synchronization in a Phototroph-Heterotroph Microbial Consortium
Processes 2017, 5(1), 11; https://doi.org/10.3390/pr5010011 - 2 Mar 2017
17 pages, 393 KiB  
Article
Modeling Biofilms: From Genes to Communities
Processes 2017, 5(1), 5; https://doi.org/10.3390/pr5010005 - 23 Jan 2017
17 pages, 2129 KiB  
Article
Species Coexistence in Nitrifying Chemostats: A Model of Microbial Interactions
Processes 2016, 4(4), 51; https://doi.org/10.3390/pr4040051 - 14 Dec 2016
2 pages, 101 KiB  
Correction
Song, H.-S., et al. Mathematical Modeling of Microbial Community Dynamics: A Methodological Review. Processes 2014, 2, 711–752
Processes 2015, 3(3), 699-700; https://doi.org/10.3390/pr3030699 - 14 Sep 2015
42 pages, 9136 KiB  
Review
Mathematical Modeling of Microbial Community Dynamics: A Methodological Review
Processes 2014, 2(4), 711-752; https://doi.org/10.3390/pr2040711 - 17 Oct 2014
Correction
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