Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes.
Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes.
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DOI：
10.1146/annurev-bioeng-082120-022836
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发表时间：
2021-07-13
影响因子：
9.7
通讯作者：
Venturelli OS
中科院分区：
文献类型：
--
作者：
Leggieri PA;Liu Y;Hayes M;Connors B;Seppälä S;O'Malley MA;Venturelli OS
微生物组是复杂且无处不在的微生物网络，其看似无限的化学转化可以被利用来造福农业，医学和生物技术。微生物组组成和功能的时空变化受到多种分子和生态因素的影响。这种复杂性在设计合成微生物组和以可控、可预测的方式干扰天然微生物组方面产生了多功能性和挑战。在这篇综述中，我们描述了引起新兴的空间和时间微生物组特性的因素，以及可用于在细胞和系统水平上理解微生物组的元组学和计算建模工具。我们还描述了设计和工程微生物群以增强或建立新功能的策略。在整个综述中，我们讨论了阐明网络和破译微生物组工程关键控制点的关键知识和技术差距，并强调了可以整合多种组学和建模方法以解决这些差距的例子。
Microbiomes are complex and ubiquitous networks of microorganisms whose seemingly limitless chemical transformations could be harnessed to benefit agriculture, medicine, and biotechnology. The spatial and temporal changes in microbiome composition and function are influenced by a multitude of molecular and ecological factors. This complexity yields both versatility and challenges in designing synthetic microbiomes and perturbing natural microbiomes in controlled, predictable ways. In this review, we describe factors that give rise to emergent spatial and temporal microbiome properties and the meta-omics and computational modeling tools that can be used to understand microbiomes at the cellular and system levels. We also describe strategies for designing and engineering microbiomes to enhance or build novel functions. Throughout the review, we discuss key knowledge and technology gaps for elucidating the networks and deciphering key control points for microbiome engineering and highlight examples where multiple omics and modeling approaches can be integrated to address these gaps.
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影响因子：
14.9
作者：
Chen IA;Chu K;Palaniappan K;Pillay M;Ratner A;Huang J;Huntemann M;Varghese N;White JR;Seshadri R;Smirnova T;Kirton E;Jungbluth SP;Woyke T;Eloe-Fadrosh EA;Ivanova NN;Kyrpides NC
通讯作者：
Kyrpides NC
影响因子：
4.4
作者：
Behrens, Sebastian;Loesekann, Tina;Spormann, Alfred M.
通讯作者：
Spormann, Alfred M.
影响因子：
5.4
作者：
Almen, Markus Sallman;Nordstrom, Karl J. V.;Schioth, Helgi B.
通讯作者：
Schioth, Helgi B.
影响因子：
16.6
作者：
Abreu, Clare I.;Friedman, Jonathan;Gore, Jeff
通讯作者：
Gore, Jeff
影响因子：
16.6
作者：
Barlow, Jacob T.;Bogatyrev, Said R.;Ismagilov, Rustem F.
通讯作者：
Ismagilov, Rustem F.