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MetabolomicsAdaptive laboratory evolution of microbial co-cultures for improved metabolite secretion

Adaptive laboratory evolution has proven highly effective for obtaining microorganisms with enhanced capabilities. Yet, this method is inherently restricted to the traits that are positively linked to cell fitness, such as nutrient utilization. Here, we introduce coevolution of obligatory mutuali...

2021-07-02 | MTBLS2217 | MetaboLights
MetabolomicsThe Kalanchoe genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism
Crassulacean acid metabolism (CAM) is a water-use efficient adaptation of photosynthesis that has evolved independently many times in diverse lineages of flowering plants. We hypothesize that convergent evolution of protein sequence and temporal gene expression underpins the independent emergences o...
2018-01-09 | MTBLS519 | MetaboLights
MetabolomicsGut microbiota within-host evolution enforces colonization resistance against enteric infection

Limited resource availability in the gut promotes competitive interactions between bacteria, which drive adaptive within-host evolution. While the role of bacterial adaptive evolution of bacterial communities has been extensively studied, its functional implications for host physiology remain unk...

2026-08-03 | MTBLS10327 | MetaboLights
MetabolomicsChromosome‐level genome of Camellia lanceoleosa provides a valuable resource for understanding genome evolution and self‐incompatibility

The section Oleifera (Theaceae) has attracted attention for the high levels of unsaturated fatty acids found in its seeds. Here, we report the chromosome-scale genome of the sect. Oleifera using diploid wild Camellia lanceoleosa with a final size of 3.00 Gb and an N50 s...

2022-07-14 | MTBLS3769 | MetaboLights
MetabolomicsHarnessing a Germ-Free Mouse Gut Bioreactor for Directed Evolution of Probiotics to Combat NAFLD

The data uploaded in this study were obtained from an interventional experiment in which non-alcoholic fatty liver disease (NAFLD) model mice were treated with either the original or adapted bacterial strains, followed by fecal sample collection and targeted bile acid metabolomic analysis.

2026-01-20 | MTBLS13718 | MetaboLights
ProteomicsRewiring the metabolic network to increase docosahexaenoic acid productivity in Crypthecodinium cohnii by fermentation supernatant-based adaptive laboratory evolution
To overcome the inhibition caused by the fermentation supernatant in the late fermentation stage of docosahexaenoic acid (DHA)-producing Crypthecodinium cohnii, fermentation supernatant-based adaptive laboratory evolution (FS-ALE) was conducted. The cell growth and DHA productivity of the evolved st...
ORGANISM(S): Crypthecodinium Cohnii 
2021-11-27 | PXD030028 |
ProteomicsSimultaneous Optimization of Multi-lignocellulosic-sugar Catabolism via Systematic Laboratory Evolution in Dynamic Conditions
The development of microbial bioproduction is challenged by the complexity and variability of industrial feedstocks. This study aimed to systematically and simultaneously optimize catabolism of multiple sugars present in common renewable lignocellulose by adaptive laboratory evolution (ALE) using dy...
ORGANISM(S): Pseudomonas putida KT2440 
2026-06-29 | PXD055215 | Pride
Pseudomonas putida Adaptive laboratory evolution (ale) Proteomics Lignocellulose 
TranscriptomicsBP001-002: The genomic landscape of compensatory evolution
Adaptive evolution is generally assumed to progress through the accumulation of beneficial mutations. However, deleterious mutations may also have an important role by promoting adaptive genetic changes that are otherwise inaccessible. Here we study the capacity of the bakerM-bM-^@M-^Ys yeast genome...
ORGANISM(S): Saccharomyces cerevisiae BY4741 
2014-08-27 | E-GEOD-55373 | biostudies-arrayexpress
ProteomicsProteomics characterization of evolved Lactococcus lactis mutants obtained from laboratory evolution showed elevated vitamin K2 content and enhanced resistance to oxidative stress
This study aimed to obtain Lactococcus lactis strains with high vitamin K2 content via a non-GM approach, i.e., adaptive laboratory evolution, and to characterize the evolved strains.
ORGANISM(S): Lactococcus lactis subsp. cremoris MG1363 
2021-11-02 | PXD028721 | Pride
Adaptive laboratory evolution Food fermentation Lactic acid bacteria Vitamin enrichment Non-gm approach 
ProteomicsProtein Abundances can Distinguish Between Naturally-occurring and Laboratory Strains of Yersinia pestis, the Causative Agent of Plague
The rapid pace of bacterial evolution enables organisms to adapt to the laboratory environment with repeated passage and thus diverge from naturally-occurring environmental (“wild”) strains. Distinguishing wild and laboratory strains is clearly important for biodefense and bioforensics; however, DNA...
ORGANISM(S): Yersinia pestis KIM D27 Yersinia pestis CO92 
2017-09-08 | PXD007254 | Pride
Machine learning Evolution Laboratory adaptation Yersinia pestis 
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