De novo gene integration into regulatory networks via interaction with conserved genes in peach
文献类型： 外文期刊
作者： Cao, Yunpeng 1 ; Hong, Jiayi 2 ; Zhao, Yun 1 ; Li, Xiaoxu 3 ; Feng, Xiaofeng 1 ; Wang, Han 4 ; Zhang, Lin 5 ; Lin, Mengfei 6 ; Cai, Yongping 2 ; Han, Yuepeng 1 ;
作者机构： 1.Chinese Acad Sci, State Key Lab Plant Divers & Specialty Crops, Wuhan Bot Garden, Wuhan 430074, Peoples R China
2.Anhui Agr Univ, Coll Life Sci, Hefei 230036, Peoples R China
3.Beijing Life Sci Acad, Beijing 102209, Peoples R China
4.Anhui Acad Agr Sci, Inst Hort, Key Lab Hort Crop Germplasm Innovat & Utilizat, Coconstruct Minist & Prov, Hefei 230000, Peoples R China
5.Hubei Univ Chinese Med, Sch Basic Med Sci, Hubei Shizhen Lab, Hubei Key Lab Theory & Applicat Res Liver & Kidney, Wuhan 430065, Peoples R China
6.Jiangxi Acad Sci, Inst Biol Resources, Jiangxi Prov Key Lab Plantat & High Valued Utiliza, Nanchang 330224, Jiangxi, Peoples R China
期刊名称：HORTICULTURE RESEARCH （ 影响因子：8.5； 五年影响因子：9.1 ）
ISSN： 2662-6810
年卷期： 2024 年 11 卷 12 期
页码：
收录情况： SCI
摘要： De novo 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 de novo genes is challenging, as it requires high-quality genomes from closely related species. According to the comparison with nine closely related Prunus genomes, we determined at least 178 de novo genes in P. persica "baifeng". The distinct differences were observed between de novo and conserved genes in gene characteristics and expression patterns. Gene ontology enrichment analysis suggested that Type I de novo 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 de novo 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 Prunus and related taxa.
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