Metaproteomics analysis of the functional insights into microbial communities of combined hydrogen and methane production by anaerobic fermentation from reed straw

Abstract

A metaproteomic approach was used to analyse the proteins expressed and provide functional evidence of key metabolic pathways in the combined production of hydrogen and methane by anaerobic fermentation (CHMP-AF) for reed straw utilisation. The functions and structures of bacteria and archaea populations show significant succession in the CHMP-AF process. There are many kinds of bacterial functional proteins, mainly belonging to phyla Firmicutes, Proteobacteria, Actinobacteria and Bacteroidetes, that are involved in carbohydrate metabolism, energy metabolism, lipid metabolism, and amino acid metabolism. Ferredoxin-NADP reductase, present in bacteria in genus Azotobacter, is an important enzyme for NADH/NAD+ equilibrium regulation in hydrogen production. The archaeal functional proteins are mainly involved in methane metabolism in energy metabolism, such as acetyl-CoA decarboxylase, and methyl-coenzyme M reductase, and the acetic acid pathway exhibited the highest proportion of the total. The archaea of genus Methanosarcina in phylum Euryarchaeota can produce methane under the effect of multi-functional proteins through acetic acid, CO2 reduction, and methyl nutrient pathways. The study demonstrates metaproteomics as a new way of uncovering community functional and metabolic activity. The combined information was used to identify the metabolic pathways and organisms crucial for lignocellulosic biomass degradation and biogas production. This also regulates the process from its protein levels and improves the efficiency of biogas production using reed straw biomass.

Metaproteome analysis reveals that syntrophy, competition, and phage-host interaction shape microbial communities in biogas plants

“…The results of this study confirmed the taxonomic and functional composition obtained in previous metaproteome studies [26, 27, 29, 39, 40]. Furthermore, the assignment of the metaproteins to the different metabolic pathway as of the Anaerobic Digestion Model 1 fitted rather well.…”

A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer

“…The new laboratory workflow combined phenol extraction (Heyer et al, 2013), FASP (Wisniewski et al, 2009) and LC-MS/MS measurement (Link et al, 1999). Phenol extraction combined with cell lysis in a ball mill was previously applied to numerous environmental samples (Jia et al, 2017; Thorn et al, 2018; Heyer et al, 2019). For simplicity and robustness, the new workflow omitted sophisticated and time-consuming enrichment of biomass from environmental matrices by centrifugation or filtration (Xiong et al, 2015).…”

Acetate and Lactate Production During Two-Stage Anaerobic Digestion of Food Waste Driven by Lactobacillus and Aeriscardovia

“…Different process conditions at each stage and the resulting spatial separation of key metabolic functions cause the microbial population to differ between single-stage and two-stage processes (Kinnunen et al, 2014). Previous studies have shown that the first stage in two-stage processes is often enriched by members of the phyla Firmicutes, Proteobacteria, Actinobacteria, and Bacteroidetes, but in different proportions depending on the nature of the substrate and the process parameters used (Gonzalez-Martinez et al, 2016;Jia et al, 2017;Tang et al, 2017;Fontana et al, 2018). The phylum Firmicutes is often dominated by the orders Clostridia and Lactobacillales (Gonzalez-Martinez et al, 2016;Jia et al, 2017;Fontana et al, 2018).…”

“…Previous studies have shown that the first stage in two-stage processes is often enriched by members of the phyla Firmicutes, Proteobacteria, Actinobacteria, and Bacteroidetes, but in different proportions depending on the nature of the substrate and the process parameters used (Gonzalez-Martinez et al, 2016;Jia et al, 2017;Tang et al, 2017;Fontana et al, 2018). The phylum Firmicutes is often dominated by the orders Clostridia and Lactobacillales (Gonzalez-Martinez et al, 2016;Jia et al, 2017;Fontana et al, 2018). The bacterial population in the second stage resembles that in single-stage processes and has been shown to be dominated by members of the phyla Bacteriodetes, Firmicutes, Synergistales, Chloroflexi, and Thermotoga (Fontana et al, 2018).…”

“…The bacterial population in the second stage resembles that in single-stage processes and has been shown to be dominated by members of the phyla Bacteriodetes, Firmicutes, Synergistales, Chloroflexi, and Thermotoga (Fontana et al, 2018). The methanogenic community has been found to be dominated by the orders Methanobacteriales and Methanomicrobiales, and the genus Methanosarcina (Gonzalez-Martinez et al, 2016;Jia et al, 2017;Fontana et al, 2018).…”