Metabolic-network-driven analysis of bacterial ecological strategies.
Metabolic-network-driven analysis of bacterial ecological strategies.
复制标题
DOI：
10.1186/gb-2009-10-6-r61
复制
发表时间：
2009
期刊：
影响因子：
12.3
通讯作者：
Ruppin E
中科院分区：
文献类型：
--
作者：
Freilich S;Kreimer A;Borenstein E;Yosef N;Sharan R;Gophna U;Ruppin E
代谢网络分析揭示的细菌生态策略表明，生态多样性与代谢灵活性、更快的生长速度和强烈的共生关系有关。生物的生长速度是一个重要的表型特征，直接影响其在特定环境中的生存能力。在这里，我们提出了113种细菌物种的生态策略和生长速度之间的关联的第一个大规模计算研究，占据各种代谢栖息地。基因组数据用于重建物种的代谢网络和可居住的代谢环境。然后，这些重建被用来研究生物采取的典型生态策略，根据两种基本的物种特异性措施：代谢变异性-物种在各种不同环境中生存的能力；共同居住得分向量——共同居住在每个环境中的其他物种的分布。我们发现，生长速度与代谢变异性和生物体所遇到的共生（即竞争）水平显著相关。大多数细菌有机体采用两种主要的生态策略之一：一个特殊的生态位，很少共存，通常生长速度较慢；或者是高度共存的生态多样性，伴随着典型的快速增长。观察到的模式表明了一个普遍的原则，即代谢灵活性与快速生长的需要有关，可能是在面对竞争时。这种对生长速率-代谢-群落关系进行定量描述的新能力为研究群落代谢生活的各个方面奠定了计算基础。
Bacterial ecological strategies revealed by metabolic network analysis show that ecological diversity correlates with metabolic flexibility, faster growth rate and intense co-habitation. The growth-rate of an organism is an important phenotypic trait, directly affecting its ability to survive in a given environment. Here we present the first large scale computational study of the association between ecological strategies and growth rate across 113 bacterial species, occupying a variety of metabolic habitats. Genomic data are used to reconstruct the species' metabolic networks and habitable metabolic environments. These reconstructions are then used to investigate the typical ecological strategies taken by organisms in terms of two basic species-specific measures: metabolic variability - the ability of a species to survive in a variety of different environments; and co-habitation score vector - the distribution of other species that co-inhabit each environment. We find that growth rate is significantly correlated with metabolic variability and the level of co-habitation (that is, competition) encountered by an organism. Most bacterial organisms adopt one of two main ecological strategies: a specialized niche with little co-habitation, associated with a typically slow rate of growth; or ecological diversity with intense co-habitation, associated with a typically fast rate of growth. The pattern observed suggests a universal principle where metabolic flexibility is associated with a need to grow fast, possibly in the face of competition. This new ability to produce a quantitative description of the growth rate-metabolism-community relationship lays a computational foundation for the study of a variety of aspects of the communal metabolic life.
登录
查看更多内容
影响因子：
5.6
作者：
Babu, MM;Teichmann, SA;Aravind, L
通讯作者：
Aravind, L
影响因子：
48
作者：
Mavromatis, Konstantinos;Ivanova, Natalia;Kyrpides, Nikos C.
通讯作者：
Kyrpides, Nikos C.
影响因子：
5.8
作者：
Joseph, Biju;Goebel, Werner
通讯作者：
Goebel, Werner
影响因子：
56.9
作者：
Horn, M;Collingro, A;Wagner, M
通讯作者：
Wagner, M
影响因子：
9.9
作者：
通讯作者：
--