Genome-wide analysis of lncRNA and mRNA expression and endogenous hormone regulation during tension wood formation in Catalpa bungei

Abstract

Background: Phytohormones are the key factors regulating vascular development in plants, and they are also involved in tension wood (TW) formation. Although the theory of hormone distribution in TW formation is widely supported, the effects of endogenous hormones on TW formation have not yet been assessed. In this study, TW formation was induced in Catalpa bungei by artificial bending. The phytohormone content of TW, opposite wood (OW) and normal wood (NW) was determined using liquid chromatography-mass spectrometry (LC-MS), and transcriptome sequencing was performed. The hormone content and related gene expression data were comprehensively analyzed. Results: The results of analyses of the plant hormone contents indicated significantly higher levels of cis-zeatin (cZ), indoleacetic acid (IAA) and abscisic acid (ABA) in TW than in OW. Genes involved in the IAA and ABA synthesis pathways, such as ALDH (evm.model.group5.1511) and UGT (evm.model.scaffold36.20), were significantly upregulated in TW. and the expression levels of ARF (evm.model.group5.1332), A-ARR (evm.model.group0.1600), and TCH4 (evm.model.group2.745), which participate in IAA, cZ and Brassinolide (BR) signal transduction, were significantly increased in TW. In particular, ARF expression may be regulated by long noncoding RNAs (lncRNAs) and the HD-ZIP transcription factor ATHB-15. Conclusions: We constructed a multiple hormone-mediated network of C. bungei TW formation based on hormone levels and transcriptional expression profiles were identified during TW formation.

RNA Sequencing Reveals Phenylpropanoid Biosynthesis Genes and Transcription Factors for Hevea brasiliensis Reaction Wood Formation

“…Previous research has shown that many factors are involved in reaction wood formation, such as non-coding RNA, single nucleotide polymorphisms etc. Xiao et al (2020) previously reported that long non-coding RNAs (lncRNAs) might participate in Catalpa bungei tension wood formation by regulating genes involved in indoleacetic acid (IAA) and abscisic acid (ABA) synthesis. Similarly, microRNA (miRNA)-and lncRNA-mediated regulatory networks widely participate in reaction wood formation of Populus tomentosa (Pto), and single nucleotide polymorphisms of miRNAs and their target genes also influence this process (Chen et al, 2015b;Chen et al, 2016).…”

Genome-wide Identification of Long Non-coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis

“…And it was found that a large number of auxin and gibberellin related lncRNA-mRNA coexpression networks were identi ed (Fig. 6), which was similar with endogenous hormone regulation in secondary xylem and during tension wood formation in Catalpa bungei [17]. Therefore, lncRNAs were widely involved in the lignin, avonoid metabolism and plant growth of Pd and Ps and affects their differences.…”

“…FLINC lncRNA participated in ambient temperature-mediated owering time of Arabidopsis [15]. LncRNAs in uence the formation of tension wood by regulating ARFs in Catalpa bungei [17]. LncRNAs are widely involved in the secondary growth, GA response, heat tolerance, low nitrogen stress and other life processes of poplar [18][19][20][21].…”

Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis

“…The auxin-mediated Aux/IAA-ARF-HB signal cascade regulates the development of the secondary xylem of poplar ( Xu et al, 2019 ). And it was found that a large number of auxin- and gibberellin-related lncRNA–mRNA coexpression networks were identified ( Figure 6 ), which was similar to endogenous hormone regulation in the secondary xylem and during tension wood formation in Catalpa bungei ( Xiao et al, 2020 ). Therefore, lncRNAs were widely involved in lignin and flavonoid metabolism and plant growth of Pd and Ps, and they affect their differences.…”

“…FLINC lncRNA participates in ambient temperature–mediated flowering time of Arabidopsis ( Severing et al, 2018 ). lncRNAs influence the formation of tension wood by regulating ARF s in Catalpa bungei ( Xiao et al, 2020 ). lncRNAs are widely involved in the secondary growth, GA response, heat tolerance, low nitrogen stress, salt stress, and other life processes of poplar ( Chen et al, 2016 ; Tian et al, 2016 ; Ci et al, 2019 ; Ma et al, 2019 ; Song et al, 2020 ).…”