Wuhan Institute of Biomedical Sciences, School of Medicine, Jianghan University, Wuhan 430056, China.
Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China.
Genes (Basel). 2024 Jun 26;15(7):839. doi: 10.3390/genes15070839.
species are well-known as plant pathogens that cause red rust or algae spot diseases in many economically cultivated plants that grow in shady and humid environments. Despite their prevalence, the adaptive evolution of these pathogens remains poorly understood. We sequenced and characterized three (, , and ) chloroplast genomes, and compared them with seven previously reported chloroplast genomes. The chloroplast sequences of , , and were 480,613 bp, 383,846 bp, and 472,444 bp in length, respectively. These chloroplast genomes encoded 94 genes, including 27 tRNA genes, 3 rRNA genes, and 64 protein-coding genes. Comparative analysis uncovered that the variation in genome size was principally due to the length of intergenic spacer sequences, followed by introns. Furthermore, several highly variable regions (, , , , , , , , , , , , and ) were identified. Codon bias analysis revealed that the codon usage pattern of is predominantly shaped by natural selection. Additionally, six chloroplast protein-coding genes (, , , , , and ) were determined to be under positive selection, suggesting they may play a vital roles in the adaptation of to low-light intensity habitats.
种是众所周知的植物病原体，它们会导致许多在阴凉潮湿环境中生长的经济作物患上红锈病或藻斑病。尽管它们很普遍，但这些病原体的适应性进化仍知之甚少。我们对三个（、和）叶绿体基因组进行了测序和特征描述，并与之前报道的七个叶绿体基因组进行了比较。、和的叶绿体序列分别长 480613bp、383846bp 和 472444bp。这些叶绿体基因组共编码 94 个基因，包括 27 个 tRNA 基因、3 个 rRNA 基因和 64 个蛋白质编码基因。比较分析发现，基因组大小的变化主要是由于基因间间隔序列的长度，其次是内含子。此外，还鉴定了几个高度可变的区域（、、、、、、、、、、和）。密码子偏好分析表明，的密码子使用模式主要受自然选择的影响。此外，确定了六个叶绿体蛋白质编码基因（、、、、、和）受到正选择，表明它们可能在适应低光照强度环境方面发挥着重要作用。
