Electricity-assisted production of caproic acid from grass
© The Author(s) 2017
Received: 26 April 2017
Accepted: 28 June 2017
Published: 11 July 2017
Medium chain carboxylic acids, such as caproic acid, are conventionally produced from food materials. Caproic acid can be produced through fermentation by the reverse β-oxidation of lactic acid, generated from low value lignocellulosic biomass. In situ extraction of caproic acid can be achieved by membrane electrolysis coupled to the fermentation process, allowing recovery by phase separation.
Grass was fermented to lactic acid in a leach-bed-type reactor, which was then further converted to caproic acid in a secondary fermenter. The lactic acid concentration was 9.36 ± 0.95 g L−1 over a 33-day semi-continuous operation, and converted to caproic acid at pH 5.5–6.2, with a concentration of 4.09 ± 0.54 g L−1 during stable production. The caproic acid product stream was extracted in its anionic form, concentrated and converted to caproic acid by membrane electrolysis, resulting in a >70 wt% purity solution. In a parallel test exploring the upper limits of production rate through cell retention, we achieved the highest reported caproic acid production rate to date from a lignocellulosic biomass (grass, via a coupled process), at 0.99 ± 0.02 g L−1 h−1. The fermenting microbiome (mainly consisting of Clostridium IV and Lactobacillus) was capable of producing a maximum caproic acid concentration of 10.92 ± 0.62 g L−1 at pH 5.5, at the border of maximum solubility of protonated caproic acid.
KeywordsGrass Lactic acid Caproic acid Decane Fermentation Chain elongation Electrolysis
Caproic acid is a medium-chain carboxylic acid, its demand has been growing due to its application as chemical commodity, feed additive and more recently as bio-based fuel precursor. The medium-chain carboxylic acid market (caproic acid, caprylic acid, capric acid, and lauric acid) is predicted to reach USD 1.25 billion globally by 2020 . Generally, these medium chain fatty acids (MCFA) are derived from triglycerides of coconut and palm oil by fractional distillation, ozonolysis or catalytic reduction processes . MCFA can also be microbially synthesized from alcohols and carboxylic acids through fermentation. Zhu et al.  recently demonstrated that a solution of lactic acid could enable caproic acid production through the microbial reverse β-oxidation pathway.
Lactic acid is typically formed during the fermentation/ensiling of grass. Grass is a widely available substrate presently underused and often overlooked as a carbon source. In the US, grasslands represent an estimated 2.51 × 106 km2 of available biomass , which is either ensiled or lowly used. A grass-based fermentation can lead to the formation of lactic and acetic acid. In an uncontrolled pH, mesophilic fermentation of grass, a concentration of 12.6 g L−1 lactic acid can be reached, usually along with 2.0 g L−1 of acetic acid . Lactic acid and acetic acid are highly soluble in water, which makes the downstream extraction of lactic acid energy intensive. More hydrophobic products such as caproic acid can be produced through the reverse β-oxidation pathway with ethanol as the most common reducing substrate  and acetic acid as the electron acceptor. Studies have been carried out with pure cultures such as Clostridium kluyveri using ethanol [7, 8] and Megasphaera elsdenii using sugars and lactic acid . Caproic acid production from lignocellulosic material  and a route using lactic acid was first considered in 1956 , with attention returning to this process in recent years, through the reverse β-oxidation pathway pure culture fermentations , and mixed culture community fermentations [3, 13–17]. Zhu et al. proposed the stoichiometry of caproic acid formation via lactic acid as 3 CH3CHOHCOO− + 2 H+ → CH3(CH2)4COO− + H2O + 2 H2 + 3 CO2, with Gibbs free energy of −123.1 kJ mol−1 .
The hydrophobicity and low water solubility of caproic acid allow extraction of caproic acid from the fermentation broth by phase separation. If the concentration of caproic acid in its protonated form exceeds the solubility limit (11.0 g L−1 at 20 °C), caproic acid will form an immiscible layer and phase separate from the fermentation broth along with other hydrophobic chemical species. Recently, Xu et al.  managed to extract n-caproic acid from a bioreactor broth using an in-line membrane electrolysis system, while minimizing caustic and acidic dosing with electrochemistry.
Results and discussion
Semi-continuous fermentation of lactic acid from grass
The conversion of organic compounds to lactic acid was low relative to our previous study  (0.065 g g−1 in this study compared to 0.136 g g−1 grass volatile solid), while the rate of lactic acid production was 0.197 g L−1 h−1 in this study. The conversion rate and efficiency of biomass to lactic acid were relatively low in this study, which is likely due to the limited pretreatment and reactor design involving a higher ratio of solution volume relative to mass of grass. Pretreatment (e.g. grinding, steam-explosion, alkaline) can be performed to improve the biomass biodegradability, while taking into consideration the cost-benefit-sustainability nexus. For instance, mild pretreatment methods such as lime pretreatment can be applied without introducing excessive cost, to improve conversion efficiency and production rate, and minimize carbon loss . In earlier studies, it was shown that pretreatment, such as extrusion, can improve the degradability of the grass . At the time of this manuscript, the equipment was not available; however, similar results to Khor et al.  can be expected, where a conversion increase of 109% was noted. While pretreatment can enhance biomass biodegradability, it is also necessary to consider the biological impact of the pretreatment. Phenolic compounds and furfural can be released from lignin if the pretreatment is severe (e.g. high temperature, low pH), which can then interfere with fermentative processes and inhibit the growth of microorganisms. Hence, a substrate purification step (e.g. metal catalysts, adsorption or chemical oxidation) to remove inhibitory compounds prior to biological processes could be beneficial to improve product yield. In our study, the protein fraction of grass is assumed to be well retained and not degraded after fermentation due to the short retention time and low pH of the process, and no ammonia gas was detected. In a 2nd generation biorefinery process, complete conversion of lignocellulosic biomass into a single targeted compound is highly unlikely due to the complexity of the substrate. Instead, available fractions of the biomass can be converted into desired compounds at high rate, with the remainder recovered as by-products. For instance, in this case, one could foresee that the hemicellulose/cellulose fraction can be converted into lactic acid, while the remaining protein/amino acid fraction is recovered via an alternate route, such as the Grassa process .
For lactic acid fermentation, community analysis indicated that over time, the population became enriched with lactic acid bacteria such as Lactobacillus spp. (83% relative abundance), Pediococcus and Weissella spp. (Fig. 2b). Lactobacillus, Pediococcus and Weissella species are known for their ability to utilize polysaccharides and monosaccharides with lactic acid as a key outcome, as was observed in our experiments [5, 21].
Semi-continuous elongation of caproic acid through lactic acid
When the grass fermentation effluent was fed into the elongation system, lactic acid was consumed, producing caproic acid (C6), as shown in Fig. 2c, along with butyric acid (C4) and acetic acid (C2). Enanthic acid (C7) and caprylic acid (C8) were not detected, unlike other chain elongation systems . The caproic acid concentration was 4.09 ± 0.54 g L−1 (9.03 ± 1.19 g COD L−1), and 49 ± 9% of products formed was caproic acid during the stable phase (30 day operation, Fig. 2c). The pH of the elongation broth was between 5.5 and 6.2, showing the pH increasing effect of chain elongation.
The stoichiometry of 3 mol lactic acid forming 1 mol caproic acid as proposed by Zhu et al.  was employed to assess the caproic acid production in this study. In terms of lactic acid and caproic acid balance, on average 4.68 ± 0.47 g L−1 (53 ± 5 mM) of lactic acid was fed and the average caproic acid production was 2.05 ± 0.27 g L−1 (18 ± 2 mM). This fits well with the stoichiometry of 3 mol lactate forming 1 mol caproate, or a consumption of 2.32 g lactate per g caproate formed. Lactic acid generated from a low-value substrate can thus act as an effective intermediary for caproic acid production. While caproic acid production can also be achieved via ethanol, this tends to bind one to an integrated biorefinery or other ethanol producing (bio-)processes. Under different circumstances (e.g. substrate availability, market considerations), one can foresee that both pathways (i.e. chain elongation using lactate or ethanol) are interesting.
In the elongation system, a different community developed from the initial fermentation, despite influx via the substrate. Firmicutes dominated the population (81% relative abundance), in which Clostridium IV- and Lactobacillus-related species were most prevalent. Coriobacteriaceae and Anaerococcus spp. were other highly abundant species (Fig. 2d). Clostridium species, including Clostridium IV, Clostridium Sensu Stricto and Clostridium XIVa spp. identified in this study, are the archetype organisms known to perform reverse β-oxidation [22, 23], and also utilize lactic acid. Although being weakly fermentative, Anaerococcus spp. is known to be able to metabolize carbohydrate and produce butyric acid and lactic acid as major metabolic end products. Some genus have butyric acid and caproic acid as major end products , which fits very well in this context. Coriobacteriaceae spp. has been mostly reported to be saccharolytic; however, its genus such as Olsenella spp. is able to convert glucose into lactic acid as major product . The family of Actinomycetaceae spp. are also able to produce lactic acid and acetic acid under fermentative condition . The bacterial composition of the inoculum and the elongation system were similar (Additional file 1: Fig. S1a; Fig. 2d). This showed that introduction of bacterial community from the fermentation system did not change the bacterial community of the elongation system significantly.
Maximum rate of caproic acid production and maximum concentration of caproic acid test
Microbial chain elongation operation and maximum rate of medium chain fatty acid production
Maximum rate of production (g L−1 h−1)
Synthetic medium containing acetate, ethanol, and yeast extract, with CO2 gas flow
Mixed (non-sterilized, mainly Clostridium kluyveri)
(medium chain fatty acids)
Grass fermentation effluent containing lactic acid
Mixed (non-sterilized, mainly Clostridium cluster IV)
0.99 (caproic acid)
Synthetic medium containing galactitol, yeast extract, with in situ extraction
Pure (Clostridium sp. BS-1)
0.34 (caproic acid)
Dilute ethanol and acetate, with in-line extraction
Mixed (non-sterilized, mainly Clostridium spp.)
0.33 (caprylic acid)
Synthetic medium containing acetate and ethanol
Mixed (non-sterilized, mainly Clostridium kluyveri)
0.20 (caproic acid)
Mixed (non-sterilized, mainly Clostridium kluyveri)
0.19 (caproic acid)
Yeast fermentation beer
Mixed (non-sterilized, mainly Clostridium kluyveri)
0.14 (caproic acid)
Diluted yellow water
Mixed (non-sterilized, mainly Clostridium cluster IV)
0.12 (caproic acid)
The maximum caproic acid production rate achieved in this study is high compared to literature, such as the study of Grootscholten et al. where 4.5 g L−1 day−1 (0.19 g L−1 h−1) was achieved with mixed culture up-flow anaerobic filter system using castor oil, at pH between 6.5 and 7 . Comparable rates as reported here were thus far only obtained with synthetic media, with the highest from acetic acid and ethanol, 57.4 g L−1 day−1 (2.39 g L−1 h−1) , albeit with a considerable higher loading rate. Our value considers only the rate of the lactic acid-rich reactor effluent, and biomass hydrolysis is broadly recognized as a rate limiting step in conversion of ‘real’, complex substrates. Further, it is important to note that to achieve this rate, Grootscholten et al. used a neutral pH between 6.5 and 7.2 , thus requiring dosing of base which was not the case in our study.
Cell density is often unreported in mixed culture fermentations, and cell retention and maximizing the density in the fermenters can potentially improve conversion dramatically. The production rate achieved here is partially a result of high microbial density, lack of pH controlling salts such as sodium hydroxide and the used substrate (real versus synthetic). Anaerococcus spp. (32% relative abundance) became the most dominant species (Additional file 1: Figure S1b), during the maximum rate of caproic acid production test with cell retention, followed by Lactobacillus spp., while Clostridium IV spp. was merely 6% relative abundance. Anaerococcus are typically found in anaerobic conditions and were recently identified under methanogenic conditions , and have not been implicated in chain elongation to our knowledge. Clostridium IV spp. have been broadly implicated in reverse β-oxidation with lactic acid as an intermediary [3, 6, 17].
In order to determine the maximum concentration of caproic acid the community could sustain without a substrate limitation, an excess of lactic acid was fed to the fermenter. The maximum concentration of caproic acid reached was 10.92 ± 0.62 g L−1 (n = 3). By molar concentration, caproic acid consisted of 57 ± 4% of the products formed (Additional file 1: Figure S2), compared to 34 ± 9% during normal elongation operation in this study. While chain elongation is often preferred at neutral pH (6.5–7.2) to avoid toxicity of caproic acid, the highest concentration achieved in this study was under acidic conditions (pH 5.5–6), suggesting some tolerance of the community to the usually anti-microbial caproic acid. During the maximum concentration of caproic acid test in which excess lactic acid was provided, Clostridium IV spp. remained the most dominant (Additional file 1: Figure S1c), and other species reduced in terms of abundance. This provides additional evidence that Clostridium IV spp. are generating caproic acid through the lactic acid intermediate, and indicates that Clostridium IV spp. can tolerate a caproic acid concentration at least up to 10.92 g L−1, at the border of the solubility limit. The mixed population showed functional stability between experiments, while the community members differed.
Electrochemical extraction of caproic acid and decane production through Kolbe electrolysis
Effluent from the elongation system was sent to the cathodic chamber of an electrochemical system for extraction and concentration of caproic acid, with an applied current of 0.4 A (resulting in 25 A m−2). When current was applied, the anion exchange membrane allowed anions such as carboxylates, sulphate, chloride and phosphate to migrate from the cathodic to anodic compartment through the membrane to complete the circuit. The pH dropped at the anodic compartment as protons were generated due to water electrolysis, and carboxylates formed their undissociated counterparts and thus accumulated in the anodic compartment. Over time, the caproic acid phase-separated from the anodic broth as the concentration exceeded its maximum (11 g L−1 at 20 °C in water), forming a lower density, hydrophobic layer on top of the solution (Additional file 1: Figure S3), similar to that of Xu et al. .
Compared to the literature, Kolbe electrolysis performed at current density of 0.13 A cm−2 and temperature of 293 K, using synthetic caproic acid solution and sono-emulsion system in the presence of 190 W cm−2 ultrasound, yields 24 ± 3% of the Kolbe dimer . In this study, the efficiencies of conversion were lower, likely due to the complexity of the fermentation broth and the unoptimized conditions. Increasing current density can potentially result in a higher yield; Wadhawan et al. reported an improvement from 24 to 45% when current density was increased from 0.13 to 0.18 A m−2 . Integration of power ultrasound can improve mass transport and help remove the products formed from the electrode surface, resulting in higher conversion efficiency. This study demonstrates that the mixed solution of caproic acid (alongside other carboxylic acids and other salts) can still be converted to alkanes, which is a promising route for carboxylic acid fermentation streams. The tendency for microbial communities to form side products is a challenging issue in biorefinery production from wastes, and effective conversion processes that are unimpeded by side products are valuable to explore.
Grass to chemicals and fuels: preliminary economic assessment
Grass was used as substrate to produce chemicals such as lactic acid, caproic acid and decane. Here, the process was performed in discrete steps, whereas in future phases the caproic acid fermentation and extraction will be directly coupled, and potentially the Kolbe electrolysis can be performed directly in the anode of the extraction cell, pending reactor and electrode design. The system could thus be simplified to two fermenters and a coupled electrochemical system which will likely entail efficiency increases.
Material, energy and costs required to produce 1 kg of lactic acid, caproic acid or decane
Material (kg TS)
Selling price ($ kg−1)
In 2005, it was estimated that 2.5 × 1011 kg of municipal solid waste was generated in the United States, in which a significant fraction of the organic material was yard trimmings . Assuming 10% municipal solid waste is made up of yard trimming, this gives an estimation of 1 × 109 kg (1.35 × 109 L) of fuel which can optimistically be produced in a green manner, and contribute to the approximately 78 × 109 L of aviation fuel consumption in year 2012 in the US . Today, the market size and need for energy-dense liquid fuel combined with present non-sustainable fuel production practices will continue to drive development of sustainable fuel production processes outcome.
Here we demonstrated that a lignocellulosic biomass such as grass can be converted without addition of chemicals with electrochemical processes into an energy-dense chemical, through the production and utilization of a lactic acid intermediary towards caproic acid. The system can produce up to a maximum concentration in the fermentation of 10.92 ± 0.62 g L−1 caproic acid and achieved a production rate of 0.99 ± 0.02 g L−1 h−1, unmatched thus far for real substrates and at pH values relevant for fermentation. Despite a lower amount of end product as compared to lactic acid, caproic acid is simpler to harvest through phase separation, avoiding heat-based extraction. This process also opens an avenue towards the sustainable production of decane, a Kolbe electrolysis derivative of caproic acid.
Substrate and microorganisms
Farmland grass was harvested from a meadow on January 2016 (East Flanders, Belgium). The grass was air-dried at 28 °C to total solid content of 0.836 ± 0.006 g g−1 grass (volatile solid 0.728 ± 0.011 g g−1 grass) and stored at 4 °C until used. To make the grass more accessible for fermentation, size reduction was performed with a blender (Philips Daily HR2100/90) before fermentation. The grass particles sizes were between 24 and 453 µm, with a mean of 98 ± 74 µm over 200 measurements. The bacterial culture for lactic acid fermentation was native to the grass itself without extra inoculation. The microbiome for elongation, dominated by Clostridium- and Lactobacillus spp.-related species, was obtained from a continuous reactor producing caproic acid from thin stillage containing both ethanol and lactate . 25 mL of thin stillage reactor effluent was collected and centrifuged at 5000g for 5 min. The supernatant was removed and the pellet obtained was washed 3 times with tap water and dissolved in 10 mL tap water before it was used as inoculum for elongation test.
The semi-continuous fermentation test for grass to lactic acid consisted of a 100-mL reactor filled with 50 mL of tap water and 10 g (wet weight) of grass. The grass was packed in 2 bags made of AISI 316 stainless steel mesh (44 µm mesh size, 33 µm wire thickness), each containing 5 g (wet weight) of grass. The experiment was run under anaerobic condition for 33 days at 32 °C. Steady-state values are reported as the average of 20 samples taken over a stable period (7% variation) of 20 days (i.e. 10 HRTs). The substrate in one of the stainless steel bags was replaced every day (2 days of solid retention time). Half of the liquid phase was removed and refilled with tap water (2 days of hydraulic retention time). The system was sparged with nitrogen each time during substrate and liquid replacement and flushed with nitrogen after substrate replacement to ensure anaerobic condition. Samples were collected every day for carboxylic acids analysis. Samples were collected at day 0 and 33 for bacterial community analysis. pH was between 4.8 and 5.8, and it was not adjusted or controlled throughout the experiment.
The semi-continuous elongation test consisted of a 100-mL reactor filled with 50 mL of elongation broth. Half of the solution was replaced with effluent from the fermentation test every day, resulting in 2 days of hydraulic retention time (HRT). The experiment was run under anaerobic condition for 30 days at 32 °C. Steady-state values are reported as the average of 20 samples taken over a stable period (13% variation) of 20 days (i.e. 10 HRTs). Samples were collected every day for carboxylic acids analysis. The system was sparged with nitrogen each time during substrate replacement and flushed with nitrogen after substrate replacement. Samples were collected at day 0, 9, 16 and 30 for bacterial community analysis. pH was between 5.5 and 6.3, and was not adjusted or controlled throughout the experiment. At the end of experiment, the elongation broth was split into six parts, which served as the inoculum for biologically independent replicates to determine maximum caproic acid concentration (n = 3) and maximum rate of caproic acid production (n = 3).
Maximum rate of caproic acid production test
This test was performed (n = 3) in 50-mL Falcon tubes, each containing 30 mL of elongation broth. Half of the solution was replaced with effluent from the fermentation test every day for 4 days, for each replacement it was expressed as 1 cycle. From the 5th to 8th cycle, cells were retained by centrifugation. Before replacement of solution, the Falcon tubes were centrifuged at 5000g for 5 min to retain the cells in the elongation broth. The tubes were then left unattended for 1 week. After that, the operation resumed with cell retention for the 9th to 14th cycle. Samples were collected at 0, 1 and 24 h for carboxylic acids analysis. 1 mL of sample was collected for volatile suspended solid analysis, before the solution was centrifuged and replaced.
Maximum concentration of caproic acid test
The test was performed (n = 3) in 50-mL Falcon tubes, each containing 30 mL of elongation broth. 1.135 mL of 50% sodium lactate (VWR) solution was added to the elongation broth to give an extra 20 g L−1 lactate in the tubes. In addition to the lactate coming from the lactic acid fermentation, the resulting lactate concentration in the tubes was approximately 25 g L−1. Samples were taken at 0, 2, 4, 6, 8, 12, 24 and 48 h for carboxylic acids analysis.
The electrochemical cell was constructed from Perspex™, consisting of an anode chamber (20 × 5 × 0.3 cm3) and a cathode chamber (20 × 5 × 2.6 cm3), separated by an anion exchange membrane (Fujifilm Manufacturing B.V., Netherlands) with a surface area of 0.01 m2. The cathode was an AISI Type 316L stainless steel felt (20 × 5 × 0.15 cm3) with 1-mm wire thickness (LierFilter Ltd., China), and the anode was a mixed metal oxide iridium oxide-coated titanium electrode (IrO2/TaO2: 0.65/0.35), 20 cm × 5 cm, with a centrally attached, perpendicular current collector (Magneto Special Anodes BV, The Netherlands). The cathode chamber was filled with effluent from the elongation system, and the anode chamber was filled with tap water. The extraction was performed in batch, a recirculation flow rate of 1.67 mL s−1 was maintained for both cathode and anode chambers to ensure mixing. 0.4 A of current was applied using a potentiostat (VSP, Biologic, France) in chronopotentiometry mode to drive the extraction operation, resulting in a current density of 25 A m−2 (membrane area). The pH of cathode chamber was controlled at pH 5.5 ± 0.3 by electrochemical water reduction and dosing of 2 M sulphuric acid solution with a pH controller.
The Kolbe electrolysis process was performed according to the study of Wadhawan et al. . 50-mL one chamber dimerization reactor consisted of a spiral wire platinum anode (0.5 mm diameter, 3 cm2 surface area, Bio-Logic, France), a stainless steel plate cathode (12.5 cm2 surface area, height 5 cm × length 2.5 cm, and width 0.5 cm), and an Ag/AgCl reference electrode (filled with 3 M KCl solution). The chamber was filled with either control (0.5 M sodium sulphate in distilled water), synthetic solution (0.1 M caproic acid and 0.5 M sodium sulphate) or real solution (electrochemical extraction anolyte, containing 26 mM caproic acid), with pH adjusted to 7. Before electrolysis, cyclic voltammetry (CV, 10 mV s−1), with ohmic drop compensation, was performed on the broth using a potentiostat (SP-50, BioLogic, France), at 25 °C. Kolbe electrolysis experiments were performed at chronopotentiometry mode at a fixed current density of 0.133 A cm−2 (i = 0.4 A) for 24 h. Liquid phase of reactor was sampled at time 0, 2, and 24 h for analysis.
Bacterial community analysis
DNA extraction was performed as previously reported . Samples were taken from initial inoculum, initial substrate and end of fermentation broth for analysis. 1.5 mL samples were centrifuged at 11,000g for 300 s in a 2-mL Lysing Matrix E tube (Qbiogene, Alexis Biochemicals, Carlsbad, CA). Pelleted cells were re-suspended in 1 mL of lysis buffer containing Tris/HCl (100 mM at pH 8.0), 100 mM EDTA, 100 mM NaCl, 1% (w vol−1) polyvinylpyrrolidone and 2% (w vol−1) sodium dodecyl sulphate. Cells were lysed using 0.2 cm3 beads of 0.1 mm size in a Fast Prep-96 homogenizer for 40 s at 1600 rpm twice. Samples were centrifuged at 18,000g for 60 s at room temperature and washed with phenol/chloroform (1:1) and chloroform. After centrifugation, nucleic acids (supernatant) were precipitated with 1 volume of isopropanol at −20 °C and 1:10 volume of 3 M sodium acetate. After centrifugation and washing with 80% ethanol, the pellet was re-suspended in 20 µL of Milli-Q water. The quality and quantity of DNA samples were analysed using Illumina sequencing primers by polymerase chain reaction (PCR). Amplified sequences were separated by electrophoresis on 1% agarose gels.
DNA sequencing and bioinformatics processing
DNA sequencing was performed as previously reported . The V3–4 region of the bacterial 16S rRNA gene was sequenced with Illumina sequencing Miseq v3 Reagent kit (http://www.illumina.com/products/miseq-reagent-kit-v3.ilmn, by LGC Genomics GmbH, Berlin, Germany) using 2 × 300 bp paired-end reads, and primers 341F (5′-NNNNNNNNTCCTACGGGNGGCWGCAG) and 785R (5′-NNNNNNNNTGACTACHVGGGTATCTAAKCC). Each PCR included DNA extract (~5 ng), forward and reverse primer (~15 pmol for each) and MyTaq buffer (20 μL containing 1.5 units MyTaq DNA polymerase (Bioline) and 2 μL of BioStabII PCR Enhancer). 8-nt barcode sequence was performed for both forward and revers primers of each sample. PCRs were carried out for 96 °C pre-denaturation for 120 s and 30 cycles using the following parameters: 96 °C for 15 s, 50 °C for 30 s and 72 °C for 60 s. DNA concentration of amplicons of interest was determined by gel electrophoresis. Amplicon DNA of each sample (~20 ng) were pooled for up to 48 samples carrying different barcodes. PCRs showing low yields were further amplified for 5 cycles. The amplicon pools were purified with one volume AMPure XP beads (Agencourt) to remove primer dimer and other small mispriming products, followed by an additional purification on MinElute columns (Qiagen). Each purified amplicon pool DNA (~100 ng) was used to construct Illumina libraries using the Ovation Rapid DR Multiplex System 1–96 (NuGEN). Illumina libraries were pooled and size selected by preparative gel electrophoresis. Sequencing was done on an Illumina MiSeq using v3 Chemistry (Illumina).
16S rRNA sequence analysis was performed with mothur community pipeline and clustering into operational taxonomic units (OTUs). The analysis was initiated by clipping 16S rRNA sequences from primers. The fragments after removing the primer sequences were combined into forward and reverse primer orientation sequences. The sequences were then processed to remove wrong size sequence and identify unique sequences. Sequences which were not matched or overhung were removed by aligning with a V3–V4 customized SILVA database v123. Chimera were removed using UCHIME algorithm. Taxonomical classification of sequences and removal of non-bacterial sequences were done using Silva database v123. OTU were picked by clustering at 97% identity level using the cluster split method.
Determination of fermentation products including organic acids (lactic acid, acetic acid, propionic acid, butyric acid) was performed with Metrohm ion chromatography equipped with Metrosep organic acids column and Metrosep organic acids guard column, and an ion chromatography conductivity detector, using 1 mM H2SO4 as eluent at flow rate of 0.0083 mL s−1, oven temperature at 35 °C, and 500 mM LiCl as regenerant for suppressor. Caproic acid in aqueous phase was measured by gas chromatography (GC-2014, Shimadzu®, The Netherlands) with DB-FFAP 123-3232 column (30 m × 0.32 mm × 0.25 µm; Agilent, Belgium) and a flame ionization detector. Total solids (TS), volatile solids (VS) and volatile suspended solids (VSS) were measured via the standard method . The particle size of blended grass was determined using a Zeiss Axioskop microscope and Image-Pro Insight software. Phase-separated caproic acid and decane were measured using nuclear magnetic resonance (NMR) spectroscopy. 1H NMR and 13C NMR were performed at 400 and 100 MHz, respectively, on a Bruker Avance III Nanobay 400 MHz spectrometer. 400 µL DMSO-d6 was added to 25 mg of caproic acid and decane sample, stirred and transferred to an NMR tube. Quantification was performed relative to caproic acid and decane as standard (0.2 M in DMSO-d6), contained in a NORELL 100 µL capillary insert. 1H NMR experiments were run with 8 scans and 1-s relaxation delay.
WCK designed and performed the experiment, analysed the data and wrote the manuscript. SA designed the experiment and revised the manuscript. VH and KR revised the manuscript and supervised the project. All authors read and approved the final manuscript.
The authors would like to thank Pieter Naert for NMR analysis, Antonin Prévoteau and Xu Zhang for assisting in electrochemistry operation, Greet Van de Velde (CMET, UGent) for the analysis using ion chromatography, Tim Lacoere for illustration of graphical abstract and analysis using gas chromatography, Mike Taghon for his support, and the Department of Biochemical and Microbial Technology, Ghent University.
The authors declare that they have no competing interests.
Availability of data and materials
All data generated or analysed during this study are included in this published article and its supplementary information files.
This work was funded by Special Research Fund (BOF, Project Number: DEF13/AOF/010) of the University of Ghent (Belgium). The funder has no role in study design, data collection and interpretation, or the decision to submit the work for publication. SA is supported by Ghent University Multidisciplinary Research Partnership (MRP)-Biotechnology for a sustainable economy (01 MRA 510 W). KR is supported by European Research Council Starter Grant ELECTROTALK.
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