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      Direct Conversion of Food Waste Extract into Caproate: Metagenomics Assessment of Chain Elongation Process

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          Abstract

          In a circular economy strategy, waste resources can be used for the biological production of high added-value substances, such as medium chain fatty acids (MCFAs), thus minimising waste and favouring a sustainable process. This study investigates single-stage fermentation processes for the production of MCFAs in a semi-continuous reactor treating the extract of real food waste (FW), without the addition of external electron donors. Two sequential acidogenic fermentation tests were carried out at an organic loading rate (OLR) of 5 and 15 gCOD L −1d −1 with a hydraulic retention time of 4 days and pH controlled at 6 ± 0.2. The highest level of caproate (4.8 g L −1) was observed at OLR of 15 gCOD L −1d −1 with a microbiome mainly composed by lactate-producing Actinomyces, Atopobium, and Olsenella species and caproate-producing Pseudoramibacter. Metagenomic analysis revealed the presence of key enzymes for the production of lactate, such as lactate dehydrogenase and pyruvate ferredoxin oxidoreductase, as well as several enzymes involved in the reverse β-oxidation pathway, thus suggesting the occurrence of a lactate-based chain elongation process.

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          A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score. Recent mathematical results on the stochastic properties of MSP scores allow an analysis of the performance of this method as well as the statistical significance of alignments it generates. The basic algorithm is simple and robust; it can be implemented in a number of ways and applied in a variety of contexts including straightforward DNA and protein sequence database searches, motif searches, gene identification searches, and in the analysis of multiple regions of similarity in long DNA sequences. In addition to its flexibility and tractability to mathematical analysis, BLAST is an order of magnitude faster than existing sequence comparison tools of comparable sensitivity.
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            DADA2: High resolution sample inference from Illumina amplicon data

            We present DADA2, a software package that models and corrects Illumina-sequenced amplicon errors. DADA2 infers sample sequences exactly, without coarse-graining into OTUs, and resolves differences of as little as one nucleotide. In several mock communities DADA2 identified more real variants and output fewer spurious sequences than other methods. We applied DADA2 to vaginal samples from a cohort of pregnant women, revealing a diversity of previously undetected Lactobacillus crispatus variants.
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              Cutadapt removes adapter sequences from high-throughput sequencing reads

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                Author and article information

                Contributors
                Role: Academic Editor
                Journal
                Microorganisms
                Microorganisms
                microorganisms
                Microorganisms
                MDPI
                2076-2607
                05 February 2021
                February 2021
                : 9
                : 2
                : 327
                Affiliations
                Water Research Institute, National Research Council of Italy (IRSA-CNR), Via Salaria, km 29.300, 00185 Roma, Italy; crognale@ 123456irsa.cnr.it (S.C.); gallipoli@ 123456irsa.cnr.it (A.G.); gianico@ 123456irsa.cnr.it (A.G.); rossetti@ 123456irsa.cnr.it (S.R.); montecchio@ 123456irsa.cnr.it (D.M.)
                Author notes
                [* ]Correspondence: braguglia@ 123456irsa.cnr.it ; Tel.: +39-069-067-2765
                Author information
                https://orcid.org/0000-0001-5088-3794
                https://orcid.org/0000-0002-3735-0800
                Article
                microorganisms-09-00327
                10.3390/microorganisms9020327
                7915914
                33562834
                70ecb082-965e-462b-9e9c-d27a49576b80
                © 2021 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 14 January 2021
                : 03 February 2021
                Categories
                Article

                medium chain fatty acids,microbial chain elongation,caproate,waste valorisation,metagenomics

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