General Information
- Project ID
- OEP004885
- Project Name
- Cross-feeding interactions among the major degrader and rare non-degraders in a bacterial consortium reveal the role of bacterial dark matter in lignin degradation
- Description
- Lignin is the abundant aromatic carbon polymer on earth. Its bioconversion is essential in global carbon cycle and bioenergy production. Microbial communities, which have evolved versatile enzymes and pathways, undoubtedly play a vital role in lignin biodegradation. The interactions among members in a community greatly affect the performance outcome, yet it's a significant challenge to mechanistically unravel such complex interactions. In this study, we developed the marine lignin degrading bacterial consortium (LD), through “top-down” enrichment. 16s rRNA amplicon sequencing revealed that LD is dominated by Pluralibacter gergoviae (> 98%), a lignin degrader. Further physiological analysis demonstrated that the additional unaddressed members, as the dark matter, hidden behind P. gergoviae to promote growth and lignin degradation. Genome-scale metabolic models were constructed for P. gergoviae and three non-lignin degrading species, which represent the top four members in LD consortium. The integrated in silico simulation predicted that growth/degradation is boosted by metabolic exchanges between members and enable us to construct the “bottom-up” four-species synthetic community. The performance of synthetic consortia validated the predication and revealed that the non-degraders survived on metabolic intermediates from P. gergoviae, including succinate, malate, serine and PCA derivates. In return, the non-degraders fed back glycerol, aspartate, alanine, fumarate to P. gergoviae to stimulate growth and further enhance lignin degradation. Our study uncovered the black-box of LD consortium, in which the dark matter interacts to form a syntrophy with P. gergoviae for lignin catabolism. Also, it provided a valuable step forward in manipulating microbiomes for biotechnology development.
Project information
- Experiments
- 3
- Samples
- 32
Sample ID Sample Name Sample Subject Type Organism Tissue Create Date OES345067 21A.L350_FDSW220367433-1r_1.fq.clean Environment non-host marine metagenome N/A 2023-12-26 OES345068 21A.L350_FDSW220367433-1r_2.fq.clean Environment non-host marine metagenome N/A 2023-12-26 OES345069 Pluralibacter Environment non-host marine metagenome N/A 2023-12-26 OES345070 Vibrio Environment non-host marine metagenome N/A 2023-12-26 OES345071 Aeromonas Environment non-host marine metagenome N/A 2023-12-26 OES345072 Shewanella Environment non-host marine metagenome N/A 2023-12-26 OES345073 T1_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345074 T1_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345075 T11_1_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345076 T11_1_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345077 T11_2_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345078 T11_2_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345079 T11_3_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345080 T11_3_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345083 T21_1_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345084 T21_1_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345085 T21_2_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345086 T21_2_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345087 T21_3_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345088 T21_3_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345089 T41_3_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345090 T41_3_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345091 T31_1_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345092 T31_1_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345093 T31_2_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345094 T31_2_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345095 T31_3_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345096 T31_3_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345097 T41_1_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345098 T41_1_2.fq Environment non-host marine metagenome N/A 2023-12-26 OES345099 T41_2_1.fq Environment non-host marine metagenome N/A 2023-12-26 OES345100 T41_2_2.fq Environment non-host marine metagenome N/A 2023-12-26 - Runs
-
32
Run ID Run Name Experiment Sample Data Num Create Date OER452337 T1_1.fq OEX026785 OES345073 1 2023-12-26 OER452338 T1_2.fq OEX026785 OES345074 1 2023-12-26 OER452339 T11_1_1.fq OEX026785 OES345075 1 2023-12-26 OER452340 T11_1_2.fq OEX026785 OES345076 1 2023-12-26 OER452341 T11_2_1.fq OEX026785 OES345077 1 2023-12-26 OER452342 T11_2_2.fq OEX026785 OES345078 1 2023-12-26 OER452343 T11_3_1.fq OEX026785 OES345079 1 2023-12-26 OER452344 T11_3_2.fq OEX026785 OES345080 1 2023-12-26 OER452347 T21_1_1.fq OEX026785 OES345083 1 2023-12-26 OER452348 T21_1_2.fq OEX026785 OES345084 1 2023-12-26 OER452349 T21_2_1.fq OEX026785 OES345085 1 2023-12-26 OER452350 T21_2_2.fq OEX026785 OES345086 1 2023-12-26 OER452351 T21_3_1.fq OEX026785 OES345087 1 2023-12-26 OER452352 T21_3_2.fq OEX026785 OES345088 1 2023-12-26 OER452353 T21_4_1.fq OEX026785 OES345089 1 2023-12-26 OER452354 T21_4_2.fq OEX026785 OES345090 1 2023-12-26 OER452355 T31_1_1.fq OEX026785 OES345091 1 2023-12-26 OER452356 T31_1_2.fq OEX026785 OES345092 1 2023-12-26 OER452357 T31_2_1.fq OEX026785 OES345093 1 2023-12-26 OER452358 T31_2_2.fq OEX026785 OES345094 1 2023-12-26 OER452359 T31_3_1.fq OEX026785 OES345095 1 2023-12-26 OER452360 T31_3_2.fq OEX026785 OES345096 1 2023-12-26 OER452361 T41_1_1.fq OEX026785 OES345097 1 2023-12-26 OER452362 T41_1_2.fq OEX026785 OES345098 1 2023-12-26 OER452363 T41_2_1.fq OEX026785 OES345099 1 2023-12-26 OER452364 T41_2_2.fq OEX026785 OES345100 1 2023-12-26 OER452335 21A.L350_FDSW220367433-1r_1.fq.clean OEX026786 OES345067 1 2023-12-26 OER452336 21A.L350_FDSW220367433-1r_2.fq.clean OEX026786 OES345068 1 2023-12-26 OER452331 Pluralibacter OEX026787 OES345069 1 2023-12-26 OER452332 Vibrio OEX026787 OES345070 1 2023-12-26 OER452333 Aeromonas OEX026787 OES345071 1 2023-12-26 OER452334 Shewanella OEX026787 OES345072 1 2023-12-26
Author Information
- Create Date
- 2023-12-26
- Last Modified
- 2024-05-07
- Submission
- Qiannan Peng
- Shandng University