Complex Physical Structure of Complete Mitochondrial Genome of Quercus acutissima (Fagaceae): A Significant Energy Plant

Dan Liu; Haili Guo; Jingle Zhu; Kai Qu; Ying Chen; Yingtian Guo; Ping Ding; Haiping Yang; Ting Xu; Qi Jing; Shangjun Han; Wei Li; Boqiang Tong

doi:10.3390/genes13081321

Complex Physical Structure of Complete Mitochondrial Genome of Quercus acutissima (Fagaceae): A Significant Energy Plant

Genes (Basel). 2022 Jul 24;13(8):1321. doi: 10.3390/genes13081321.

Authors

Dan Liu^{1

2}, Haili Guo², Jingle Zhu³, Kai Qu¹, Ying Chen⁴, Yingtian Guo⁵, Ping Ding², Haiping Yang², Ting Xu², Qi Jing², Shangjun Han², Wei Li¹, Boqiang Tong²

Affiliations

¹ National Engineering Laboratory of Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants of Ministry of Education, The Tree and Ornamental Plant Breeding and Biotechnology Laboratory of National Forestry and Grassland Administration, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China.
² Shandong Provincial Center of Forest and Grass Germplasm Resources, Jinan 250102, China.
³ Research Institute of Non-Timber Forestry, Chinese Academy of Forestry, Zhengzhou 450003, China.
⁴ Forestry Protection and Development Service Center of Shandong Province, Jinan 250109, China.
⁵ College of Agriculture and Forestry, Linyi University, Linyi 276000, China.

Abstract

Quercus acutissima Carruth. is a Chinese important energy plant with high ecological and economic values. While the species chloroplast genome has been reported, its mitochondrial genome (mitogenome) is still unexplored. Here, we assembled and annotated the Q. acutissima mitogenome, and we compared its characteristic differences with several closely related species. The Q. acutissima mitogenome's main structure is branched with three distinguished contigs (linear molecule 1, circular molecule 2, and circular molecule 3) with 448,982 bp total length and 45.72% GC content. The mitogenome contained 51 genes, including 32 protein-coding, 16 tRNA and 3 rRNA genes. We examined codon usage, repeated sequences, genome recombination, chloroplast to mitochondrion DNA transformation, RNA editing, and synteny in the Q. acutissima mitogenome. Phylogenetic trees based on 29 species mitogenomes clarified the species classification. Our results provided comprehensive information of Q. acutissima mitogenome, and they are expected to provide valuable information for Fagaceae evolutionary biology and to promote the species germplasm utilization.

Keywords: Quercus acutissima; genome recombination; mitochondrial genome; phylogenetic relationship; repeated sequences.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Base Composition
Genome, Chloroplast*
Genome, Mitochondrial* / genetics
Phylogeny
Quercus* / genetics

Grants and funding

This research was funded by the Q. variabilis Excellent Germplasm Resources Collection and Breeding Technology Research (No. CAFYBB2018ZB001-11), the Biosafety and Genetic Resources Management Project of State Forestry and Grassland Administration “Collection and arrangement of genetic resources and genetic diversity evaluation of Q. acutissima (No. KJZXSA202111)”, the Subject of Key R & D Plan of Shandong Province (Major Scientific and Technological Innovation Project) “Mining and Accurate Identification of Forest Tree Germplasm Resources (No. 2021LZGC023)”, and Project of National Forest Germplasm Resources Sharing Service Platform Construction and Operation (No. 2005-DKA21003).