Insights Into the Molecular Mechanisms of Late Flowering in Prunus sibirica by Whole-Genome and Transcriptome Analyses

Wanyu Xu; Wanyu Xu; Wanyu Xu; Wenquan Bao; Huimin Liu; Huimin Liu; Huimin Liu; Chen Chen; Chen Chen; Chen Chen; Haikun Bai; Haikun Bai; Haikun Bai; Mengzhen Huang; Mengzhen Huang; Mengzhen Huang; Gaopu Zhu; Gaopu Zhu; Gaopu Zhu; Han Zhao; Han Zhao; Han Zhao; Ningning Gou; Ningning Gou; Ningning Gou; Yixiao Chen; Yixiao Chen; Yixiao Chen; Lin Wang; Lin Wang; Lin Wang; Ta-na Wuyun; Ta-na Wuyun; Ta-na Wuyun

doi:10.3389/fpls.2021.802827

Frontiers in Plant Science (Jan 2022)

Insights Into the Molecular Mechanisms of Late Flowering in Prunus sibirica by Whole-Genome and Transcriptome Analyses

Wanyu Xu,
Wanyu Xu,
Wanyu Xu,
Wenquan Bao,
Huimin Liu,
Huimin Liu,
Huimin Liu,
Chen Chen,
Chen Chen,
Chen Chen,
Haikun Bai,
Haikun Bai,
Haikun Bai,
Mengzhen Huang,
Mengzhen Huang,
Mengzhen Huang,
Gaopu Zhu,
Gaopu Zhu,
Gaopu Zhu,
Han Zhao,
Han Zhao,
Han Zhao,
Ningning Gou,
Ningning Gou,
Ningning Gou,
Yixiao Chen,
Yixiao Chen,
Yixiao Chen,
Lin Wang,
Lin Wang,
Lin Wang,
Ta-na Wuyun,
Ta-na Wuyun,
Ta-na Wuyun

Affiliations

Wanyu Xu: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Wanyu Xu: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Wanyu Xu: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Wenquan Bao: College of Forestry, Inner Mongolia Agricultural University, Hohhot, China
Huimin Liu: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Huimin Liu: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Huimin Liu: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Chen Chen: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Chen Chen: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Chen Chen: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Haikun Bai: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Haikun Bai: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Haikun Bai: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Mengzhen Huang: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Mengzhen Huang: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Mengzhen Huang: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Gaopu Zhu: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Gaopu Zhu: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Gaopu Zhu: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Han Zhao: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Han Zhao: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Han Zhao: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Ningning Gou: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Ningning Gou: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Ningning Gou: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Yixiao Chen: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Yixiao Chen: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Yixiao Chen: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Lin Wang: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Lin Wang: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Lin Wang: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China
Ta-na Wuyun: State Key Laboratory of Tree Genetics and Breeding, Non-timber Forest Research and Development Center, Chinese Academy of Forestry, Zhengzhou, China
Ta-na Wuyun: Kernel-Apricot Engineering and Technology Research Center of State Forestry and Grassland Administration, Zhengzhou, China
Ta-na Wuyun: Key Laboratory of Non-timber Forest Germplasm Enhancement and Utilization of National Forestry and Grassland Administration, Zhengzhou, China

DOI: https://doi.org/10.3389/fpls.2021.802827
Journal volume & issue: Vol. 12

Abstract

Read online

Freezing during the flowering of Prunus sibirica is detrimental to fruit production. The late flowering (LF) type, which is delayed by 7–15 days compared with the normal flowering (NF) type, avoids damages at low temperature, but the molecular mechanism of LF remains unclear. Therefore, this study was conducted to comprehensively characterize floral bud differentiation. A histological analysis showed that initial floral bud differentiation was delayed in the LF type compared to the NF type. Genome-wide associated studies (GWAS) showed that a candidate gene (PaF106G0600023738.01) was significantly associated with LF type. It was identified as trehalose-6-phosphate phosphatase (PsTPPF), which is involved in trehalose-6-phosphate (Tre6P) signaling pathway and acts on floral transition. A whole-transcriptome RNA sequencing analysis was conducted, and a total of 6,110 differential expression (DE) mRNAs, 1,351 DE lncRNAs, and 148 DE miRNAs were identified. In addition, 24 DE mRNAs related with floral transition were predicted, and these involved the following: three interactions between DE lncRNAs and DE mRNAs of photoperiod pathway with two mRNAs (COP1, PaF106G0400018289.01 and CO3, MXLOC_025744) and three lncRNAs (CCLR, LTCONS_00031803, COCLR1, LTCONS_00046726, and COCLR2, LTCONS_00046731); one interaction between DE miRNAs and DE mRNAs with one mRNA, encoding trehalose-6-phosphate synthase (PsTPS1, PaF106G0100001132.01), and one miRNA (miRNA167h). Combined with the expression profiles and Tre6P levels, functions of PsTPPF and PsTPS1 in Tre6P regulation were considered to be associated with flowering time. A new network of ceRNAs correlated with LF was constructed, and it consisted of one mRNA (PsTPS1), one lncRNA (TCLR, LTCONS_00034157), and one miRNA (miR167h). This study provided insight into the molecular regulatory mechanism of LF in Prunus sibirica.

Published in Frontiers in Plant Science

ISSN: 1664-462X (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Agriculture: Plant culture
Website: https://www.frontiersin.org/journals/plant-science

About the journal

Abstract

Keywords