Isolation Chip Increases Culturable Bacterial Diversity and Reduces Cultivation Bias

Liu, Xingwu; Fang, Yuan; Nie, Yong; Wu, Xiao‐Lei

doi:10.1007/s00284-021-02474-0

Cited by 6 publications

(4 citation statements)

References 38 publications

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“…To experimentally test whether emigration would enhance the Shannon diversity of microbial communities at high immigration levels, we assembled a synthetic consortium containing 20 bacterial isolates from a soil sample taken near Weiming Lake at Peking University (Fig. S1) 33 . To mimic its assembly process, we passaged the consortium across six daily growth/dilution cycles.…”

Section: Resultsmentioning

confidence: 99%

High immigration rates critical for establishing emigration-driven diversity in microbial communities

Chen

Wang

Luo

et al. 2023

Preprint

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Unraveling the mechanisms governing the diversity of ecological communities is a central goal in ecology. While microbial dispersal (including the emigration and immigration process) constitutes an important ecological process, the coupling effects of dispersal and microbial competition in microbial diversity are poorly understood. Here, we investigated how microbial dispersal affects the diversity of microbial communities in the presence of inter-species competition, using a generalized Lotka-Volterra model in combination with experimental investigations. Our model shows that emigration reduces the diversity induced by immigration at low immigration rates. We surprisingly find that it increases the diversity of the community when the immigration rates cross a defined threshold, which we identified as Ineutral. We also found that at high immigration rates, emigration weakens the relative abundance of fast-growing species, and thus enhances the mass effect and increases the diversity. We experimentally confirmed this finding using cocultures of 20 bacterial strains isolated from the soil. Our model further showed that Ineutral exists over a wide range of species pool sizes, growth rates, and interspecies interactions, and decreases with the increasing of species pool size, growth rate, and interspecies interaction. Our work deepens the understanding of the effects of dispersal on diversity of natural communities.

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Section: Resultsmentioning

confidence: 99%

High immigration rates critical for establishing emigration-driven diversity in microbial communities

Chen

Wang

Luo

et al. 2023

Preprint

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Section: Confirmation Of Our Model Observations By Testing a Syntheti...mentioning

confidence: 99%

High immigration rates critical for establishing emigration-driven diversity in microbial communities

Chen,

Wang,

Luo

et al. 2024

Cell Systems

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“…This chip can then be placed in the natural environment to serve as a cultivation chamber in situ ( Berdy et al, 2017 ). Among others, the Antarctic bacterium Aequorivita sp., possessing antimicrobial and anthelmintic activity, was isolated using the iChip system ( Esposito et al, 2018 ; Liu et al, 2021 ). The iChip has also aided in the cultivation of antibiotic-producing bacteria, such as the bacterium Eleftheria terrae , which produces the antibiotic teixobactin ( Ling et al, 2015 ).…”

Section: Do You Want To Stay In Your Neighborhood?mentioning

confidence: 99%

Reaching unreachables: Obstacles and successes of microbial cultivation and their reasons

2023

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In terms of the number and diversity of living units, the prokaryotic empire is the most represented form of life on Earth, and yet it is still to a significant degree shrouded in darkness. This microbial “dark matter” hides a great deal of potential in terms of phylogenetically or metabolically diverse microorganisms, and thus it is important to acquire them in pure culture. However, do we know what microorganisms really need for their growth, and what the obstacles are to the cultivation of previously unidentified taxa? Here we review common and sometimes unexpected requirements of environmental microorganisms, especially soil-harbored bacteria, needed for their replication and cultivation. These requirements include resuscitation stimuli, physical and chemical factors aiding cultivation, growth factors, and co-cultivation in a laboratory and natural microbial neighborhood.

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Isolation Chip Increases Culturable Bacterial Diversity and Reduces Cultivation Bias

Cited by 6 publications

References 38 publications

High immigration rates critical for establishing emigration-driven diversity in microbial communities

High immigration rates critical for establishing emigration-driven diversity in microbial communities

High immigration rates critical for establishing emigration-driven diversity in microbial communities

Reaching unreachables: Obstacles and successes of microbial cultivation and their reasons

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