Cao Yunpeng, Hong Jiayi, Zhao Yun, Li Xiaoxu, Feng Xiaofeng, Wang Han, Zhang Lin, Lin Mengfei, Cai Yongping, Han Yuepeng
State Key Laboratory of Plant Diversity and Specialty Crops, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430074, China.
College of Life Sciences, Anhui Agricultural University, Hefei 230036, China.
Hortic Res. 2024 Sep 5;11(12):uhae252. doi: 10.1093/hr/uhae252. eCollection 2024 Dec.
genes can evolve "from scratch" from noncoding sequences, acquiring novel functions in organisms and integrating into regulatory networks during evolution to drive innovations in important phenotypes and traits. However, identifying genes is challenging, as it requires high-quality genomes from closely related species. According to the comparison with nine closely related genomes, we determined at least 178 genes in "baifeng". The distinct differences were observed between and conserved genes in gene characteristics and expression patterns. Gene ontology enrichment analysis suggested that Type I genes originated from sequences related to plastid modification functions, while Type II genes were inferred to have derived from sequences related to reproductive functions. Finally, transcriptome sequencing across different tissues and developmental stages suggested that genes have been evolutionarily recruited into existing regulatory networks, playing important roles in plant growth and development, which was also supported by WGCNA analysis and quantitative trait loci data. This study lays the groundwork for future research on the origins and functions of genes in and related taxa.
基因可以从非编码序列“从头”进化而来,在生物体中获得新功能,并在进化过程中整合到调控网络中,以推动重要表型和性状的创新。然而,鉴定基因具有挑战性,因为这需要来自密切相关物种的高质量基因组。通过与九个密切相关的基因组进行比较,我们在“白凤”中确定了至少178个基因。在基因特征和表达模式方面,在[此处原文缺失相关比较对象]与保守基因之间观察到了明显差异。基因本体富集分析表明,I型基因起源于与质体修饰功能相关的序列,而II型基因被推断源自与生殖功能相关的序列。最后,跨不同组织和发育阶段的转录组测序表明,[此处原文缺失相关基因名称]基因已在进化过程中被纳入现有的调控网络,在植物生长和发育中发挥重要作用,这也得到了加权基因共表达网络分析和数量性状位点数据的支持。本研究为未来关于[此处原文缺失相关基因名称]及相关类群中基因的起源和功能研究奠定了基础。