School of Earth and Space Exploration, Arizona State University, Tempe, United States.
USDA-ARS Crops Pathology and Genetic Research Unit, Davis, United States.
Elife. 2020 Jan 28;9:e49816. doi: 10.7554/eLife.49816.
Several universal genomic traits affect trade-offs in the capacity, cost, and efficiency of the biochemical information processing that underpins metabolism and reproduction. We analyzed the role of these traits in mediating the responses of a planktonic microbial community to nutrient enrichment in an oligotrophic, phosphorus-deficient pond in Cuatro Ciénegas, Mexico. This is one of the first whole-ecosystem experiments to involve replicated metagenomic assessment. Mean bacterial genome size, GC content, total number of tRNA genes, total number of rRNA genes, and codon usage bias in ribosomal protein sequences were all higher in the fertilized treatment, as predicted on the basis of the assumption that oligotrophy favors lower information-processing costs whereas copiotrophy favors higher processing rates. Contrasting changes in trait variances also suggested differences between traits in mediating assembly under copiotrophic versus oligotrophic conditions. Trade-offs in information-processing traits are apparently sufficiently pronounced to play a role in community assembly because the major components of metabolism-information, energy, and nutrient requirements-are fine-tuned to an organism's growth and trophic strategy.
几种普遍的基因组特征影响着支撑代谢和繁殖的生化信息处理的能力、成本和效率之间的权衡。我们分析了这些特征在调节浮游微生物群落对墨西哥四色湖贫营养、缺磷池塘中营养丰富的响应中的作用。这是第一个涉及重复宏基因组评估的全生态系统实验之一。正如基于贫营养有利于降低信息处理成本而富营养有利于提高处理速度的假设所预测的那样，在施肥处理中，细菌基因组大小、GC 含量、tRNA 基因总数、rRNA 基因总数和核糖体蛋白序列中的密码子使用偏性都更高。特征方差的相反变化也表明，在富营养和贫营养条件下，特征在介导组装方面存在差异。信息处理特征的权衡显然明显到足以在群落组装中发挥作用，因为代谢-信息、能量和营养需求的主要组成部分都经过了精心调整，以适应生物体的生长和营养策略。
