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. 2022 Jun;8(6):mgen000842.
doi: 10.1099/mgen.0.000842.

Insights into plastic biodegradation: community composition and functional capabilities of the superworm (Zophobas morio) microbiome in styrofoam feeding trials

Affiliations

Insights into plastic biodegradation: community composition and functional capabilities of the superworm (Zophobas morio) microbiome in styrofoam feeding trials

Jiarui Sun et al. Microb Genom. 2022 Jun.

Erratum in

Abstract

Plastics are inexpensive and widely used organic polymers, but their high durability hinders biodegradation. Polystyrene, including extruded polystyrene (also known as styrofoam), is among the most commonly produced plastics worldwide and is recalcitrant to microbial degradation. In this study, we assessed changes in the gut microbiome of superworms (Zophobas morio) reared on bran, polystyrene or under starvation conditions over a 3 weeks period. Superworms on all diets were able to complete their life cycle to pupae and imago, although superworms reared on polystyrene had minimal weight gains, resulting in lower pupation rates compared to bran reared worms. The change in microbial gut communities from baseline differed considerably between diet groups, with polystyrene and starvation groups characterized by a loss of microbial diversity and the presence of opportunistic pathogens. Inferred microbial functions enriched in the polystyrene group included transposon movements, membrane restructuring and adaptations to oxidative stress. We detected several encoded enzymes with reported polystyrene and styrene degradation abilities, supporting previous reports of polystyrene-degrading bacteria in the superworm gut. By recovering metagenome-assembled genomes (MAGs) we linked phylogeny and functions and identified genera including Pseudomonas, Rhodococcus and Corynebacterium that possess genes associated with polystyrene degradation. In conclusion, our results provide the first metagenomic insights into the metabolic pathways used by the gut microbiome of superworms to degrade polystyrene. Our results also confirm that superworms can survive on polystyrene feed, but this diet has considerable negative impacts on host gut microbiome diversity and health.

Keywords: bacteria; degradation; metagenomics; microbial; plastic; polystyrene; styrofoam; worm.

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Conflict of interest statement

The authors declare that there are no conflicts of interest.

Figures

Fig. 1.
Fig. 1.
Superworm polystyrene utilization, survival rates and weight changes. (a) A group of superworms eating their way into a polystyrene block. (b) Superworm survival rates for the three groups: bran (BR, blue), polystyrene (PR, red) and the starvation control group (CO, green) during the duration of the 3 week feeding trial. (c) Scanning electron micrograph of the extruded polystyrene (styrofoam) as supplied by the manufacturer. (d) Polystyrene particle recovered from the gut of a superworm in the PS group. Note several holes (H), and microbial cells (M). (e) Weight change of the superworms in the three groups. Day 1 to day 7 represents the acclimatization period (ACC) and the end of the ACC is indicated by a dashed line. (f) Overall weight change of the superworms in each group at the end of the feeding trial. Asterisks indicate that the weight change between BR and PS, BR and CO, and PS and CO was significantly different (Table S3). Box plots show the median (bold line), first and third quartile (box outline), 10th and 90th percentile (lower and upper whisker boundaries), and outliers (circles).
Fig. 2.
Fig. 2.
Abundant bacterial taxa in the superworm gut microbiome. The community profile is based on SSU rRNA short read alignments against the Silva r132_99 database. (a) Taxonomic lineages with a relative abundance >1 % were included in the heatmap. Abbreviations: CO1–3 (replicates of the starvation control group without feed), PS1–3 (replicates of the polystyrene group), ACC1–3 (replicates of the acclimation baseline group sampled before the feeding trial), BR1–3 (replicates of the wheat bran group), Feces-PS (polystyrene faeces), Feces-BR (bran faeces). MAGs recovered from our samples are indicated with a circle (feeding groups) or a square (polystyrene and bran faeces samples) next to the assigned lineages. (b) Eight lineages with a relative abundance <1 % from which we recovered MAGs. The highest assigned taxonomic rank is provided for each lineage, and phylum assignments are indicated on the right. In addition, within Firmicutes the class Bacillus is indicated by a dashed line. Bar, square root-transformed relative abundances from the lowest (zero) to the highest (>6) value.
Fig. 3.
Fig. 3.
Gut microbiome lineages with significant differences in abundances between feeding trial groups. Estimated log2fold changes with an adjusted P-value of <0.1 (colour filled bars) and <0.05 (white filled bars) comparing the feeding trials: (a) bran vs acclimatization, (b) polystyrene vs acclimatization, (c) starvation vs acclimatization, (d) bran vs polystyrene, (e) bran vs starvation, and (f) polystyrene vs starvation. The highest assigned taxonomic rank is provided for each lineage and phylum and class assignments are given in parentheses. PS, polystyrene. Colour code: bran (blue), polystyrene (red) and the starvation control group (green). Note that the log2fold change value indicates how much the abundance has changed between the comparison and reference groups, and that each panel is labelled with the comparison group, followed by a dash and the control group (e.g. ‘Bran - PS’ in d). Here, a positive log2fold change value indicates that a taxon has a significantly higher abundance in the comparison group, and a negative log2fold change value means a taxon has a significantly higher abundance in the reference group.
Fig. 4.
Fig. 4.
Functional profiles of superworm microbiomes. (a) PCA of genes assigned to bacterial KEGG Orthologs (KO identifiers), showing a clear separation of all three feeding trials, including bran (BR; blue dots), polystyrene (PS; red dots), starvation control group (CO; green dots), as well as polystyrene faeces (PSF; red squares) and bran faeces (BRF; blue squares). (b) KEGG modules enriched and depleted in the polystyrene (PS) group based on rarefied gene counts. Shown are the KEGG modules, the number of KOs per module and the module completeness (0–100 %) reported for the bran samples (BR1, BR2), polystyrene samples (PS2, PS3), and the starvation control samples (CO2, CO3). Modules present in the PS group but absent in the bran group are highlighted in bold. (c) Differential abundant genes, with KO identifiers, enriched in the PS group compared to the starvation control (CO) and bran group, respectively. Note that gene counts were rarefied to 8255 for the module comparison in (b).
Fig. 5.
Fig. 5.
Potential pathways and enzymes of bacterial polystyrene and styrene degradation. Initially, abiotic chemical and physical factors, and potentially also extracellular enzymes such as hydroxylases and dehydrogenases, attack the polystyrene polymer creating carbonyl groups. Next, extracellular enzymes such as serine hydrolase and triacylglycerol lipase degrade the polymer to styrene monomers. A putative transmembrane protein StyE/PorA can import styrene monomers into the cell, where it is degraded via the vinyl side chain oxygenation or the direct ring cleavage pathway. In the vinyl side chain oxygenation pathway, styrene is broken down to phenylacetate using enzymes of the styABCD operon: styrene monooxygenase (StyA/SMO), styrene monooxygenase reductase component (StyB), styrene oxide isomerase (StyC/SOI) and phenylacetadehyde dehydrogenase (StyD/PAD/FeaB/ TynC). Styrene can also form 2-phenylethylamines and 2-phenylethanols as intermediates, through modifications of vinyl side chain pathway by the enzymes aminotransferase (AT), alanine dehydrogenase (alaDH) and alcohol dehydrogenase (ADH). The direct ring cleavage pathway converts styrene into Krebs cycle intermediates via meta cleavage breakdown or to muconic acid. Involved key enzymes are styrene dioxygenase (DO), 2,3-dihydrodiol dehydrogenase/cis glycol dehydrogenase (GDH), catechol-1,2-dioxygenase (C1,2DO) and catechol-2,3-dioxygenase (C2,3DO). Dashed arrows indicate hypothetical reactions.

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