Two-species community design of lactic acid bacteria for optimal production of lactate

Microbial communities that metabolise pentose and hexose sugars are useful in producing high-value chemicals, resulting in the effective conversion of raw materials to the product, a reduction in the production cost, and increased yield. Here, we present a computational analysis approach called CAMP...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Maziya Ibrahim, Karthik Raman
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2021
Materias:	Genome-scale metabolic models Constraint-based modelling Metabolic engineering Cross-feeding Microbial consortia Biotechnology TP248.13-248.65
Acceso en línea:	https://doaj.org/article/df2fe62bb7634554a2a95c33ed84a950
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:df2fe62bb7634554a2a95c33ed84a950
record_format	dspace
spelling	oai:doaj.org-article:df2fe62bb7634554a2a95c33ed84a9502021-11-20T05:05:24ZTwo-species community design of lactic acid bacteria for optimal production of lactate2001-037010.1016/j.csbj.2021.11.009https://doaj.org/article/df2fe62bb7634554a2a95c33ed84a9502021-01-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S2001037021004748https://doaj.org/toc/2001-0370Microbial communities that metabolise pentose and hexose sugars are useful in producing high-value chemicals, resulting in the effective conversion of raw materials to the product, a reduction in the production cost, and increased yield. Here, we present a computational analysis approach called CAMP (Co-culture/Community Analyses for Metabolite Production) that simulates and identifies appropriate communities to produce a metabolite of interest. To demonstrate this approach, we focus on the optimal production of lactate from various Lactic Acid Bacteria. We used genome-scale metabolic models (GSMMs) belonging to Lactobacillus, Leuconostoc, and Pediococcus species from the Virtual Metabolic Human (VMH; https://vmh.life/) resource and well-curated GSMMs of L. plantarum WCSF1 and L. reuteri JCM 1112. We analysed 1176 two-species communities using a constraint-based modelling method for steady-state flux-balance analysis of communities. Flux variability analysis was used to detect the maximum lactate flux in the communities. Using glucose or xylose as substrates separately or in combination resulted in either parasitism, amensalism, or mutualism being the dominant interaction behaviour in the communities. Interaction behaviour between members of the community was deduced based on variations in the predicted growth rates of monocultures and co-cultures. Acetaldehyde, ethanol, acetate, among other metabolites, were found to be cross-fed between community members. L. plantarum WCSF1 was found to be a member of communities with high lactate yields. In silico community optimisation strategies to predict reaction knock-outs for improving lactate flux were implemented. Reaction knock-outs of acetate kinase, phosphate acetyltransferase, and fumarate reductase in the communities were found to enhance lactate production.Maziya IbrahimKarthik RamanElsevierarticleGenome-scale metabolic modelsConstraint-based modellingMetabolic engineeringCross-feedingMicrobial consortiaBiotechnologyTP248.13-248.65ENComputational and Structural Biotechnology Journal, Vol 19, Iss , Pp 6039-6049 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Genome-scale metabolic models Constraint-based modelling Metabolic engineering Cross-feeding Microbial consortia Biotechnology TP248.13-248.65
spellingShingle	Genome-scale metabolic models Constraint-based modelling Metabolic engineering Cross-feeding Microbial consortia Biotechnology TP248.13-248.65 Maziya Ibrahim Karthik Raman Two-species community design of lactic acid bacteria for optimal production of lactate
description	Microbial communities that metabolise pentose and hexose sugars are useful in producing high-value chemicals, resulting in the effective conversion of raw materials to the product, a reduction in the production cost, and increased yield. Here, we present a computational analysis approach called CAMP (Co-culture/Community Analyses for Metabolite Production) that simulates and identifies appropriate communities to produce a metabolite of interest. To demonstrate this approach, we focus on the optimal production of lactate from various Lactic Acid Bacteria. We used genome-scale metabolic models (GSMMs) belonging to Lactobacillus, Leuconostoc, and Pediococcus species from the Virtual Metabolic Human (VMH; https://vmh.life/) resource and well-curated GSMMs of L. plantarum WCSF1 and L. reuteri JCM 1112. We analysed 1176 two-species communities using a constraint-based modelling method for steady-state flux-balance analysis of communities. Flux variability analysis was used to detect the maximum lactate flux in the communities. Using glucose or xylose as substrates separately or in combination resulted in either parasitism, amensalism, or mutualism being the dominant interaction behaviour in the communities. Interaction behaviour between members of the community was deduced based on variations in the predicted growth rates of monocultures and co-cultures. Acetaldehyde, ethanol, acetate, among other metabolites, were found to be cross-fed between community members. L. plantarum WCSF1 was found to be a member of communities with high lactate yields. In silico community optimisation strategies to predict reaction knock-outs for improving lactate flux were implemented. Reaction knock-outs of acetate kinase, phosphate acetyltransferase, and fumarate reductase in the communities were found to enhance lactate production.
format	article
author	Maziya Ibrahim Karthik Raman
author_facet	Maziya Ibrahim Karthik Raman
author_sort	Maziya Ibrahim
title	Two-species community design of lactic acid bacteria for optimal production of lactate
title_short	Two-species community design of lactic acid bacteria for optimal production of lactate
title_full	Two-species community design of lactic acid bacteria for optimal production of lactate
title_fullStr	Two-species community design of lactic acid bacteria for optimal production of lactate
title_full_unstemmed	Two-species community design of lactic acid bacteria for optimal production of lactate
title_sort	two-species community design of lactic acid bacteria for optimal production of lactate
publisher	Elsevier
publishDate	2021
url	https://doaj.org/article/df2fe62bb7634554a2a95c33ed84a950
work_keys_str_mv	AT maziyaibrahim twospeciescommunitydesignoflacticacidbacteriaforoptimalproductionoflactate AT karthikraman twospeciescommunitydesignoflacticacidbacteriaforoptimalproductionoflactate
_version_	1718419628693127168

Two-species community design of lactic acid bacteria for optimal production of lactate

Ejemplares similares