Engineering the mangrove soil microbiome for selection of polyethylene terephthalate-transforming bacterial consortia

Trends in biotechnology, Journal Year: 2024, Volume and Issue: unknown

Published: Sept. 1, 2024

Language: Английский

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Diversity, connectivity and negative interactions define robust microbiome networks across land, stream, and sea

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 10, 2025

In this era of rapid global change, factors influencing the stability ecosystems and their functions have come into spotlight. For decades relationship between complexity has been investigated in modeled empirical systems, yet results remain largely context dependent. To overcome we leverage a multiscale inventory fungi bacteria ranging from single sites along an environmental gradient, to habitats inclusive land, sea stream, entire watershed. We use networks assess microbiome robustness identify fundamental principles stability. demonstrate that while some facets are positively associated with robustness, others not. Beyond positive biodiversity x relationships find number "gatekeeper" species or those highly connected central within networks, proportion predicted negative interactions universal indicators robust microbiomes. With potential promise engineering address challenges human ecosystem health properties microbiomes for future experimental studies may enhance emphasize features beyond additional characteristics such as adaptability should be considered these efforts.

Language: Английский

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The Role of Micro-biome engineering in Enhancing Food Safety and Quality

Biotechnology Notes, Journal Year: 2025, Volume and Issue: 6, P. 67 - 78

Published: Jan. 1, 2025

Microbiome engineering has emerged as a transformative approach to enhancing food safety and quality by strategically modulating microbial communities. This review critically examines state-of-the-art techniques, including synthetic biology, artificial intelligence (AI), systems that are revolutionizing our ability improve nutritional profiles, extend shelf life, optimize production processes. The further explores complex social, ethical, regulatory considerations, emphasizing the importance of robust public engagement establishment standardized frameworks ensure safe effective implementation. While microbiome holds significant promise for control, research is needed address critical challenges, understanding dynamics in developing harmonized frameworks. By bridging interdisciplinary gaps, this paper underscores necessity collaborative efforts unlock full potential microbiome-driven innovations more resilient sustainable industry.

Language: Английский

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Symbiotic fungi alter plant resource allocation independent of water availability

American Journal of Botany, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 17, 2025

The ability of plants to adapt or acclimate climate change is inherently linked their interactions with symbiotic microbes, notably fungi. However, it unclear whether fungal symbionts from different climates have impacts on the outcome plant-fungal interactions, especially under environmental stress. We tested three provenances inoculum (originating dry, moderate wet environments) one host plant genotype exposed soil moisture regimes (low, and high). Inoculated uninoculated were grown in controlled conditions for 151 days, then shoot root biomass weighed diversity community composition determined via amplicon sequencing. source water regime elicited significant changes resource allocation shoots versus roots, but only specific inocula affected total biomass. Shoot increased high treatment was negatively impacted by all treatments relative controls. opposite true where low led greater proportional biomass, inoculated site fungi allocated significantly more resources growth than dry- moderate-site Fungal communities roots partitioned source, treatment, interaction two. provenance can affect above- belowground, derived extreme environments eliciting strongest responses.

Language: Английский

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The evolution of autonomy from two cooperative specialists in fluctuating environments

Proceedings of the National Academy of Sciences, Journal Year: 2024, Volume and Issue: 121(35)

Published: Aug. 22, 2024

From microbes to humans, organisms perform numerous tasks for their survival, including food acquisition, migration, and reproduction. A complex biological task can be performed by either an autonomous organism or cooperation among several specialized organisms. However, it remains unclear how autonomy evolutionarily switch. Specifically, whether cooperative specialists repair deleted genes through direct genetic exchange, thereby regaining metabolic autonomy. Here, we address this question experimentally evolving a mutualistic microbial consortium composed of two that cooperatively degrade naphthalene. We observed genotypes capable performing the entire naphthalene degradation pathway evolved from dominated community. This evolutionary transition was driven horizontal gene transfer (HGT) between specialists. evolution exclusively in fluctuating environment alternately supplied with pyruvate, where mutualism competition alternated. The naphthalene-supplied exerted selective pressure favors expansion genotypes. pyruvate-supplied promoted coexistence cell density specialists, increasing likelihood HGT. Using mathematical model, quantitatively demonstrate environmental fluctuations facilitate HGT when relative growth rate carrying capacity allow enhanced higher competitive environment. Together, our results exchange under specific conditions,

Language: Английский

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Metabolic modeling of synthetic microbial communities for bioremediation

Critical Reviews in Environmental Science and Technology, Journal Year: 2023, Volume and Issue: 53(24), P. 2092 - 2111

Published: May 31, 2023

The genome-scale metabolic model (GEM), a mathematical representation of whole-cell metabolism, enables in silico high-throughput simulations flux distribution under different conditions. As mechanistic and quantitative framework at the system level, GEMs have been applied to investigate microbial interactions provide guidelines for rational design synthetic communities that can perform desired functions novel strategies bioremediation. Here, we review types their research progress environmental remediation. detailed process GEM reconstruction current main automatic programs as well knowledge databases are summarized. Exciting recent application studies combining models, omics, machine learning approaches also presented. combination these methods improves predictive ability broadens applications GEMs. However, extensive work is still needed deeply understand arbitrarily use describe apply them pollutant biodegradation. Finally, an in-depth discussion challenges limitations models provides us with outlook future development science, especially microbiology.

Language: Английский

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Engineering microbiomes to transform plastics

Trends in biotechnology, Journal Year: 2023, Volume and Issue: 42(3), P. 265 - 268

Published: Oct. 14, 2023

Language: Английский

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The Good, the Bad, and the Useable Microbes within the Common Alder (Alnus glutinosa) Microbiome—Potential Bio-Agents to Combat Alder Dieback

Microorganisms, Journal Year: 2023, Volume and Issue: 11(9), P. 2187 - 2187

Published: Aug. 30, 2023

Common Alder (

Language: Английский

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Global WWTP Microbiome-based Integrative Information Platform: From experience to intelligence

Environmental Science and Ecotechnology, Journal Year: 2023, Volume and Issue: 20, P. 100370 - 100370

Published: Dec. 18, 2023

Domestic and industrial wastewater treatment plants (WWTPs) are facing formidable challenges in effectively eliminating emerging pollutants conventional nutrients. In microbiome engineering, two approaches have been developed: a top-down method focusing on domesticating seed microbiomes into engineered ones, bottom-up strategy that synthesizes from microbial isolates. However, these face substantial hurdles limit their real-world applicability engineering. Addressing this gap, we propose the creation of Global WWTP Microbiome-based Integrative Information Platform, inspired by untapped engineering data WWTPs advancements artificial intelligence (AI). This open platform integrates information globally utilizes AI-driven tools for identifying new plants, providing technical upgrades existing facilities, deploying accidental pollution remediation. Beyond its practical applications, has significant scientific social value, supporting multidisciplinary research, documenting evolution, advancing Wastewater-Based Epidemiology, enhancing global resource sharing. Overall, is expected to enhance WWTPs' performance control, safeguarding harmonious healthy future human society natural environment.

Language: Английский

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The significance of microbiota in New Zealand seaweed aquaculture

New Zealand Journal of Marine and Freshwater Research, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 28

Published: July 8, 2024

Seaweed-associated microbes are the metabolic heavy lifters in symbiotic relationship between seaweed microbiome and their host macroalgae. In exchange for fixed carbon an exclusive niche habitat offered by host, microbial consort performs a litany of crucial functions including vitamin production, nitrogen fixation, growth reproductive signalling, pathogen resistance mitigation environmental stressors. Metabolic dependence interactions terrestrial plants associated have been leveraged agriculture with great success. The growing New Zealand Seaweed aquaculture industry is poised to benefit similarly from identification utilisation beneficial bacteria (SBB) releasing, example, alga growth- morphogenesis-promoting factor. capability SBB ameliorating aquaculture, as innate modulators components, also demonstrates potential extracting desired products during processing biomass. Here, we present current position knowledge regarding SBB, applications enhancement biomass generate high-value products. We outline future directions required leverage aquaculture.

Language: Английский

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