The complete chloroplast genome of japonica type weedy rice (Oryza sativa f. spontanea)

Yiyu Hu; Chenfeng Dong; Chuyu Ye; Longjiang Fan; Wei Tang

doi:10.1080/23802359.2022.2106160

The complete chloroplast genome of japonica type weedy rice (Oryza sativa f. spontanea)

Mitochondrial DNA B Resour. 2022 Aug 1;7(8):1418-1420. doi: 10.1080/23802359.2022.2106160. eCollection 2022.

Authors

Yiyu Hu^{1

2}, Chenfeng Dong², Chuyu Ye², Longjiang Fan¹, Wei Tang³

Affiliations

¹ Zhongyuan Institute, Zhejiang University, Zhengzhou, China.
² Institute of Crop Sciences, College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, China.
³ State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou, China.

Abstract

As a noxious weed, weedy rice (Oryza sativa f. spontanea Roshev. 1931) has threatened global food security and sustainable crop production. On the other hand, weedy rice has a strong tolerance for abiotic stresses and the potential to provide rich resources for rice genetic improvement. Thus, for a more comprehensive understanding of its speciation, we sequenced and assembled the first complete chloroplast genome of Oryza sativa f. spontanea (japonica type). The complete chloroplast genome was 134,555 bp in length and encoded 133 genes, including 83 protein-coding genes, 42 tRNA genes and 8 rRNA genes. Phylogenetic analysis revealed that the indica-japonica differentiation of weedy rice was closely related to cultivated rice, and Oryza sativa f. spontanea (japonica type) was genetically more closely clustered with cultivated rice O. sativa (japonica type) than O. nivara or other wild rice.

Keywords: Oryza sativa f. spontanea; chloroplast genome; weedy rice.

Grants and funding

This work was supported by the Jiangsu Collaborative Innovation Center for Modern Crop Production and the Innovation Method Project of China [2018IM0301002].