Early stage of biofilm assembly on microplastics is structured by substrate size and bacterial motility

Qin, Peng; Han, Chen; Li, Panxin; Wang, Shuaitao; Fan, Shen; Lu, Jie; Sun, Min; Zhang, Heng; Wang, Shougang; Su, Xiaoyan; Fu, Huihui; Hu, Xiaoli; Lin, Jie; Zhang, Yuzhong; Ding, Wei; Zhang, Weipeng

doi:10.1002/imt2.121

Cited by 13 publications

(10 citation statements)

References 35 publications

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“…On the contrary, this study showed that, from a more comprehensive perspective, the taxonomic composition of stable marine bio lms could not be classi ed or predicted according to the type of carbon source. This notion is generally in line with our previous understanding of the principles governing the bio lm development in marine environments 11,23 . By deploying six different types of man-made panels into a cold seep environment, it was shown that the effect of substrate type on the presence of microbial species in bio lm communities decreased with bio lm development 23 .…”

Section: Discussionsupporting

confidence: 87%

“…By deploying six different types of man-made panels into a cold seep environment, it was shown that the effect of substrate type on the presence of microbial species in bio lm communities decreased with bio lm development 23 . Investigating bio lm assembly on microplastics also revealed a stronger correlation between substrate size (i.e., the diameter of microplastics) and taxonomic composition in earlier stages, rather than in later stages 11 . Similarly, a study 24 on microbial colonization of chitin particles in the marine environment found that the chitindegrading taxa were only accumulated selectively during the earlier stages of community assembly, whereas late comers were unable to use the chitin resource.…”

Section: Discussionmentioning

confidence: 96%

“…This was done by examining the distribution pattern of these strains in bio lm metagenomes collected from the Paci c Ocean, the Indian Ocean, and the Atlantic Ocean to obtain a global ecological pro le. Total 131 bio lms were collected, including 18 on metal panels 15 , 13 on rock surfaces 15 , 76 on plastic panels 15 , and 24 on microplastic or glass particles 11 . The detailed information of these bio lms, as well as the metagenomic datasets, have been presented in Supplementary Table 10.…”

Section: Microbial Coexistence In In Situ Marine Bio Lmsmentioning

confidence: 99%

“…The distribution patterns of S1616 and M597 in 131 marine bio lms were analyzed by integrating the genomic and metagenomic analyses. The metagenomic datasets were generated in our previous studies 11,15,16 . These metagenomes were classi ed into four groups based on the substrates of the bio lms.…”

Section: Metagenomic Analyses Of the Coexisted Strain Pairmentioning

confidence: 99%

“…Bio lms are colonies of a single bacterial strain or communities comprised of different bacteria. Bio lms are formed by aggregation of microbial cells after attachment to biotic or abiotic surfaces [9][10][11][12] . It has long been known that the interactions between the microorganisms within a bio lm community are complex.…”

Section: Introductionmentioning

confidence: 99%

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Mutual cross-feeding drives marine biofilm assembly on various carbon sources

Zhang

Cui

Fan

et al. 2023

Preprint

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A major factor affecting the assembly of microbial community is environmental carbon source. It is still unclear, however, to which extent the community structure is determined by the type of carbon source, especially for marine microbiota with high diversity. Here, this research question has been systematically addressed by enrichment culture of a marine biofilm community with 69 different carbon sources, under both aerobic and anaerobic conditions, followed by analysis of 3.2 Tb of metagenomic datasets. The finding revealed that the taxonomic composition of the enrichment cultured communities is not primarily determined by carbon source. Analysis of 535 high-quality metagenome-assembled genomes revealed strong microbial coexistence across different carbon sources. Moreover, co-culture experiments with isolated strains suggested extensive microbial cooperation, which expands the range of available carbon sources. Furthermore, co-culture metabolomics and transcriptomics indicated the presence of an extracellular amino acid pool that facilitate cross-feeding, which is probably regulated by complementary gene expression. Altogether, cross-feeding based on the metabolism of essential elements (e.g., amino acids) lays the foundation of microbial cooperation, diminishing the influence of carbon source on community assembly.

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Section: Discussionsupporting

confidence: 87%

Section: Discussionmentioning

confidence: 96%

Section: Microbial Coexistence In In Situ Marine Bio Lmsmentioning

confidence: 99%

Section: Metagenomic Analyses Of the Coexisted Strain Pairmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Mutual cross-feeding drives marine biofilm assembly on various carbon sources

Zhang

Cui

Fan

et al. 2023

Preprint

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Bioprospecting of culturable marine biofilm bacteria for novel antimicrobial peptides

Fan,

Qin,

et al. 2024

iMeta

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Antimicrobial peptides (AMPs) have become a viable source of novel antibiotics that are effective against human pathogenic bacteria. In this study, we construct a bank of culturable marine biofilm bacteria constituting 713 strains and their nearly complete genomes and predict AMPs using ribosome profiling and deep learning. Compared with previous approaches, ribosome profiling has improved the identification and validation of small open reading frames (sORFs) for AMP prediction. Among the 80,430 expressed sORFs, 341 are identified as candidate AMPs with high probability. Most potential AMPs have less than 40% similarity in their amino acid sequence compared to those listed in public databases. Furthermore, these AMPs are associated with bacterial groups that are not previously known to produce AMPs. Therefore, our deep learning model has acquired characteristics of unfamiliar AMPs. Chemical synthesis of 60 potential AMP sequences yields 54 compounds with antimicrobial activity, including potent inhibitory effects on various drug‐resistant human pathogens. This study extends the range of AMP compounds by investigating marine biofilm microbiomes using a novel approach, accelerating AMP discovery.

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A bacterial symbiont in the gill of the marine scallop Argopecten irradians irradians metabolizes dimethylsulfoniopropionate

Shu

Wang

Wei

et al. 2023

mLife

Self Cite

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Microbial lysis of dimethylsulfoniopropionate (DMSP) is a key step in marine organic sulfur cycling and has been recently demonstrated to play an important role in mediating interactions between bacteria, algae, and zooplankton. To date, microbes that have been found to lyse DMSP are largely confined to free‐living and surface‐attached bacteria. In this study, we report for the first time that a symbiont (termed “Rhodobiaceae bacterium HWgs001”) in the gill of the marine scallop Argopecten irradians irradians can lyse and metabolize DMSP. Analysis of 16S rRNA gene sequences suggested that HWgs001 accounted for up to 93% of the gill microbiota. Microscopic observations suggested that HWgs001 lived within the gill tissue. Unlike symbionts of other bivalves, HWgs001 belongs to Alphaproteobacteria rather than Gammaproteobacteria, and no genes for carbon fixation were identified in its small genome. Moreover, HWgs001 was found to possess a dddP gene, responsible for the lysis of DMSP to acrylate. The enzymatic activity of dddP was confirmed using the heterologous expression, and in situ transcription of the gene in scallop gill tissues was demonstrated using reverse‐transcription PCR. Together, these results revealed a taxonomically and functionally unique symbiont, which represents the first‐documented DMSP‐metabolizing symbiont likely to play significant roles in coastal marine ecosystems.

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Early stage of biofilm assembly on microplastics is structured by substrate size and bacterial motility

Cited by 13 publications

References 35 publications

Mutual cross-feeding drives marine biofilm assembly on various carbon sources

Mutual cross-feeding drives marine biofilm assembly on various carbon sources

Bioprospecting of culturable marine biofilm bacteria for novel antimicrobial peptides

A bacterial symbiont in the gill of the marine scallop Argopecten irradians irradians metabolizes dimethylsulfoniopropionate

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