Grain, Forage and Bioenergy Research Unit, Agricultural Research Service, United States Department of Agriculture, University of Nebraska Lincoln, NE, USA ; Department of Agronomy and Horticulture, University of Nebraska at Lincoln Lincoln, NE, USA.
Front Plant Sci. 2013 Jun 19;4:202. doi: 10.3389/fpls.2013.00202. eCollection 2013.
Herbaceous perennial plants selected as potential biofuel feedstocks had been understudied at the genomic and functional genomic levels. Recent investments, primarily by the U.S. Department of Energy, have led to the development of a number of molecular resources for bioenergy grasses, such as the partially annotated genome for switchgrass (Panicum virgatum L.), and some related diploid species. In its current version, the switchgrass genome contains 65,878 gene models arising from the A and B genomes of this tetraploid grass. The availability of these gene sequences provides a framework to exploit transcriptomic data obtained from next-generation sequencing platforms to address questions of biological importance. One such question pertains to discovery of genes and proteins important for biotic and abiotic stress responses, and how these components might affect biomass quality and stress response in plants engineered for a specific end purpose. It can be expected that production of switchgrass on marginal lands will expose plants to diverse stresses, including herbivory by insects. Class III plant peroxidases have been implicated in many developmental responses such as lignification and in the adaptive responses of plants to insect feeding. Here, we have analyzed the class III peroxidases encoded by the switchgrass genome, and have mined available transcriptomic datasets to develop a first understanding of the expression profiles of the class III peroxidases in different plant tissues. Lastly, we have identified switchgrass peroxidases that appear to be orthologs of enzymes shown to play key roles in lignification and plant defense responses to hemipterans.
作为有潜力的生物燃料原料的草本多年生植物，在基因组和功能基因组水平上的研究还不够充分。最近，美国能源部的主要投资，为生物能源草种开发了许多分子资源，例如柳枝稷（Panicum virgatum L.）的部分注释基因组，以及一些相关的二倍体物种。在当前版本中，柳枝稷基因组包含 65878 个源自四倍体草种 A 和 B 基因组的基因模型。这些基因序列的可用性为利用来自下一代测序平台获得的转录组数据来解决具有重要生物学意义的问题提供了一个框架。其中一个问题涉及到发现对生物和非生物胁迫反应重要的基因和蛋白质，以及这些成分如何影响为特定最终目的而设计的植物的生物量质量和胁迫反应。可以预期，在边缘土地上生产柳枝稷将使植物面临各种压力，包括昆虫的取食。III 类植物过氧化物酶已被牵连到许多发育反应中，如木质化以及植物对昆虫取食的适应性反应中。在这里，我们分析了柳枝稷基因组编码的 III 类过氧化物酶，并挖掘了可用的转录组数据集，以初步了解 III 类过氧化物酶在不同植物组织中的表达谱。最后，我们鉴定了柳枝稷过氧化物酶，这些酶似乎是在木质化和植物对半翅目昆虫防御反应中起关键作用的酶的同源物。
