Figure legends
Figure 1 . Three- and seven-days growth of a marine microbial
community on LDPE, and analysis of biofilm structure and functioning.
ASW+G, artificial seawater supplemented with vitamins, trace metals, and
glucose; BHB+v, Bushnell Haas Broth supplemented with vitamins and trace
metals.
Figure 2. Relative abundance of microbial species found within
the metaproteome at each time point. Calculated using the number of
proteins associated with each genus relative to all the proteins found
in that condition. Values used for doughnut plot shown in table below,
as well as corresponding metagenomic data.
Figure 3. Total differentially regulated proteins
(FC>1.5, P-adj. <0.05) according to function and
taxonomic classification. Positive fold change (purple) in a indicates
greater abundance of proteins on D7 (purple), and negative fold change
(orange) indicates greater expression on D3.
Figure 4. Graphic representation of biologically relevant
processes found within this study’s most abundant bacterial genera from
relative quantification and qualitative analysis of the metaproteomic
dataset. Purple = more expressed on day 7, orange = more expressed on
day 3, black = qualitative results, * = qualitative results with 1
entry, grey = not found, but can be assumed. Colour code indicates all
basal processes active within the genus at that time (>1
protein each). All basal processes active in the largest, annotated
microorganisms. Acronyms: Figure elements : H2O2, hydrogen
peroxide; HGT, horizontal gene transfer; NO, nitric oxide; O2,
superoxide; PE, polyethylene; PHA, polyhydroxyalkanoate granule; Xn,
xenobiotic. Stress (osmotic, oxidative, heat/cold, interspecies
interaction, xenobiotic): Ahp, alkyl hydroperoxide reductase; ArnA,
polymyxin resistance protein; α2M, alpha-2-macroglobulin; β-L,
β-lacatamse; Cap, capsular biosynthesis protein; CAT, catalase; CopA,
copper resistance protein A; CSD, cold shock domain containing protein;
Fhp, flavohemoprotein; FtsH, ATP-dependent zinc metalloprotease; G6PD,
glucose-6-phosphate dehydrogenase; Gpx, glutathione peroxidase; GrpE,
DnaK nucleotide exchange factor; GSH, glutathione; HU, transcriptional
regulator HU; Kat, catalase peroxidase (also PE degradation) ; LonP, lon
protease; MsrP, methionine sulfoxide reductase; OP, 5-oxoprolinase;
OprM, outer membrane efflux system protein; Osm, osmotically inducible
protein; Psp, phage shock protein; RdgC, recombination-associated
protein; RecA, SOS response protein ; SOD, superoxide dismutase; OpuAC,
substrate binding domain of ABC-type glycine betaine transport system;
TerD, tellurium resistance protein; TP, thiol peroxidase; TPx,
thioredoxin peroxidase; Trx, thioredoxin; TrxR, thioredoxin reductase;
Chaperones- ClpA, ClpB, DnaJ, DnaK, HtpG, SurA; Chaperonins- GroEL,
GroES. Virulence and biofilm formation : 1B, hemolysin
co-regulated protein; BepC, outer membrane efflux protein; Ccda, control
of cell death protein; ComEA, competence protein; EL-Tu, elongation
factor Tu; hcp, hemolysin-coregulated protein; Hly, hemolysin
activation/ secretion protein; Omp, outer membrane protein; RND, efflux
resistance-nodulation-division (RND) transporter; SecYEG, translocon;
TISS, type-I secretion system; TIISS, type-II secretion system; TIVSS,
type-IV secretion system; TVISS, type-VI secretion system; VgrG2b, actin
cross-linking spike protein; Translocons- IcmF, Tld/PmbA, Vask, VipB.Starvation : CobW, cobalamin biosynthesis protein; PhaF,
polyhydroxyalkanoate (Pha) granule-associated protein F; Phal, Pha
granule-associated protein L; PHAs, PHA synthase; SSP, stringent
starvation protein. Adhesion : AidA, adhesin; CGC, calcium-gated
channel; CsgG, curli assembly protein G; LAD, large adhesive protein;
LP, lipoprotein; OAA, OAA-family lectin sugar binding domain containing
protein; TrkA, Potassium uptake protein. Aromatic hydrocarbon
degradation : 3-OCoAT, 3-oxoadipate-CoA transferase; 3-HA-CoAd,
3-hydroxyacyl-CoA dehydrogenase; ACC, acetyl-CoA carboxylase; A-CoAAT,
acetyl-CoA acetyltransferase; A-CoAD, acetyl-CoA dehydrogenase; CMBL,
dienelactone hydrolase; PA, pyruvate adolase; PCMH-p, p-crestol
methylhydroxylase (PCMH) type protein; TI, thiolase I; TMPT, thiopurine
s-methyltransferase. PE degradation : AD, alcohol dehydrogenase;
ALDH, aldehyde dehydrogenase.