Quantifying drift-selection balance using an agent-based biofilm model of identical heterotrophs under low-nutrient conditions.

IF 3.6 3区 生物学 Q1 BIOLOGY
Interface Focus Pub Date : 2023-06-09 eCollection Date: 2023-08-06 DOI:10.1098/rsfs.2023.0010
Joseph Earl Weaver
{"title":"Quantifying drift-selection balance using an agent-based biofilm model of identical heterotrophs under low-nutrient conditions.","authors":"Joseph Earl Weaver","doi":"10.1098/rsfs.2023.0010","DOIUrl":null,"url":null,"abstract":"<p><p>Both deterministic and stochastic forces shape biofilm communities, but the balance between those forces is variable. Quantifying the balance is both desirable and challenging. For example, drift-driven failure, a stochastic force, can be thought of as an organism experiencing 'bad luck' and manipulating 'luck' as a factor in real-world systems is difficult. We used an agent-based model to manipulate luck by controlling seed cevalues governing random number generation. We determined which organism among identical competitors experienced the greatest drift-driven failure, gave it a deterministic growth advantage and re-ran the simulation with the same seed. This enabled quantifying the growth advantage required to overcome drift, e.g. a 50% chance to thrive may require a 10-20% improved growth rate. Further, we found that crowding intensity affected that balance. At moderate spacings, there were wide ranges where neither drift nor selection dominated. Those ranges shrank at extreme spacings; close and loose crowding, respectively, favoured drift and selection. We explain how these results may partially illuminate two conundrums: the fact that a stably operating wastewater treatment plant's microbial community can vary greatly over time and the difference between equivalent and total community size in neutral community assembly models.</p>","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 4","pages":"20230010"},"PeriodicalIF":3.6000,"publicationDate":"2023-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10251119/pdf/","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Interface Focus","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1098/rsfs.2023.0010","RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2023/8/6 0:00:00","PubModel":"eCollection","JCR":"Q1","JCRName":"BIOLOGY","Score":null,"Total":0}
引用次数: 0

Abstract

Both deterministic and stochastic forces shape biofilm communities, but the balance between those forces is variable. Quantifying the balance is both desirable and challenging. For example, drift-driven failure, a stochastic force, can be thought of as an organism experiencing 'bad luck' and manipulating 'luck' as a factor in real-world systems is difficult. We used an agent-based model to manipulate luck by controlling seed cevalues governing random number generation. We determined which organism among identical competitors experienced the greatest drift-driven failure, gave it a deterministic growth advantage and re-ran the simulation with the same seed. This enabled quantifying the growth advantage required to overcome drift, e.g. a 50% chance to thrive may require a 10-20% improved growth rate. Further, we found that crowding intensity affected that balance. At moderate spacings, there were wide ranges where neither drift nor selection dominated. Those ranges shrank at extreme spacings; close and loose crowding, respectively, favoured drift and selection. We explain how these results may partially illuminate two conundrums: the fact that a stably operating wastewater treatment plant's microbial community can vary greatly over time and the difference between equivalent and total community size in neutral community assembly models.

Abstract Image

Abstract Image

Abstract Image

利用基于代理的低营养条件下相同异养生物生物膜模型量化漂移选择平衡。
生物膜群落是由确定性和随机性两种力量形成的,但这两种力量之间的平衡是可变的。量化这种平衡既可取又具有挑战性。例如,漂移驱动的失败(一种随机力量)可被视为生物体遭遇了 "厄运",而在现实世界的系统中,将 "运气 "作为一个因素来操纵是很困难的。我们利用基于代理的模型,通过控制随机数生成的种子数值来操纵运气。我们确定在相同的竞争者中,哪种生物经历了最大的漂移驱动失败,给它一个确定性的生长优势,并用相同的种子重新进行模拟。这样就可以量化克服漂移所需的生长优势,例如,50%的茁壮成长机会可能需要 10-20% 的生长率提高。此外,我们还发现拥挤强度会影响这种平衡。在中等间距下,漂移和选择都不占优势的范围很广。当间距达到极限时,这些范围就会缩小;密集和松散的拥挤分别有利于漂移和选择。我们解释了这些结果如何部分地揭示了两个难题:一个稳定运行的污水处理厂的微生物群落可能随着时间的推移而变化很大,以及中性群落组装模型中等同群落规模和总群落规模之间的差异。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 求助全文
来源期刊
Interface Focus
Interface Focus BIOLOGY-
CiteScore
9.20
自引率
0.00%
发文量
44
审稿时长
6-12 weeks
期刊介绍: Each Interface Focus themed issue is devoted to a particular subject at the interface of the physical and life sciences. Formed of high-quality articles, they aim to facilitate cross-disciplinary research across this traditional divide by acting as a forum accessible to all. Topics may be newly emerging areas of research or dynamic aspects of more established fields. Organisers of each Interface Focus are strongly encouraged to contextualise the journal within their chosen subject.
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
确定
请完成安全验证×
copy
已复制链接
快去分享给好友吧!
我知道了
右上角分享
点击右上角分享
0
联系我们:info@booksci.cn Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。 Copyright © 2023 布克学术 All rights reserved.
京ICP备2023020795号-1
ghs 京公网安备 11010802042870号
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术官方微信