Genome-wide identification and cold stress-induced expression analysis of the CBF gene family in Liriodendron chinense

Guan, Yuanlin; Liu, Siqin; Wu, Weihuang; Hong, Kaiyue; Li, Rongxue; Zhu, Liming; Liu, Yang; Lu, Ye; Chen, Jinhui; Yang, Liming; Shi, Jisen

doi:10.1007/s11676-020-01275-8

Cited by 24 publications

(15 citation statements)

References 44 publications

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“…Phylogenetic analysis of the BpR2R3-MYBs in this study showed that the genes in the same subgroups or subclades generally contained the same intron pattern, and most genes had no more than two introns. This result is in line with the results for other plants [33]. In addition, four genes had no intron, and BpR2R3-MYB 41 had 12 introns.…”

Section: Discussionsupporting

confidence: 91%

Genome-level analysis of BpR2R3-MYB family genes transcribed in seedlings of Betula platyphylla and BpR2R3- MYB15 enhanced flavonoid production

Zheng

Liu

et al. 2022

Preprint

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Background: Flavonoids have a wide range of biological activities in plant development, stress resistance and human health, etc. R2R3-MYBs are one of the key elements in regulation of flavonoid production, but their functional importance in Betula platyphylla remains elusive.Methods: The full-length transcriptome data of 30-day-old seedlings of Betula platyphylla were used to identify BpR2R3-MYB family genes, and their gene structure, chromosome distribution and syntenic relationships were predicted by bioinformatics methods. Agrobacterium-mediated transient transformation was used to verify the function of BpR2R3-pMYB15 in flavonoid production.Results: 44 BpR2R3-MYB family genes expressed in seedlings of Betula platyphylla were identified and found to be unevenly distributed in 11 chromosomes. Among them, 90.90% of the BpR2R3-MYBs had introns, and only four genes had no introns. Five gene pairs with segment duplication were found, and their Ka/Ks ratios were less than 1. Thirty orthologs between Betula platyphylla and Arabidopsis thaliana and 68 orthologs between Betula platyphylla and Populus trichocarpa were detected. Five BpR2R3-MYBs were clustered with R2R3-MYB genes related to flavonoid synthesis, and BpR2R3-pMYB15 had the highest correlation coefficients between the value of gene expression and flavonoid content. BpR2R3-pMYB15 was cloned, and its transient overexpression obtained using Agrobacterium-mediated transformation positively regulated flavonoid production.Conclusion: This work enriches the collection of R2R3-MYBs related to flavonoid production in seedlings of Betula platyphylla.

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Section: Discussionsupporting

confidence: 91%

Genome-level analysis of BpR2R3-MYB family genes transcribed in seedlings of Betula platyphylla and BpR2R3- MYB15 enhanced flavonoid production

Zheng

Liu

et al. 2022

Preprint

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“…The physicochemical properties of the CBF proteins revealed that the theoretical isoelectric points of TkCBF proteins are in the similar range as those from Punica granatum and Liriodendron chinense ( Guan et al, 2021 ). The predicted subcellular localization indicate that the TkCBFs are localized in the nucleus for biological roles as transcription factors.…”

Section: Discussionmentioning

confidence: 87%

“…CBFs clearly play a key role in cold acclimation ( Liu et al, 2019 ). Many studies have demonstrated that CBFs are involved in the transcriptional regulation in Liriodendron chinense ( Guan et al, 2021 ), Triticum aestivum ( Zan et al, 2020 ), Lactuca sativa ( Park, Shi & Mou, 2020 ), Brassica napus ( Ghorbani et al, 2020 ), Brassica oleracea ( Thamilarasan et al, 2014 ), Betula ( Lv et al, 2020 ), soybean ( Yamasaki & Randall, 2016 ), and strawberry ( Fattash et al, 2021 ). Silencing of the CBF genes significantly reduced the frost tolerance of Betula and Brachypodium distachyon ( Hao et al, 2017 ).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification of CBF genes and their responses to cold acclimation in Taraxacum kok-saghyz

Zhang

Gong

Sun³

et al. 2022

PeerJ

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C-repeat binding factors (CBFs) are transcription factors that are known to play important roles in plant cold acclimation. They are highly conserved in most higher plants. Taraxacum kok-saghyz (TKS) is an herb native to China and Kazakhstan and is well-known for its production of rubber silk with industrial and economic value. To understand cold acclimation mechanisms, we conducted a genome-wide discovery of the CBF family genes in TKS and revealed ten CBF genes. A bioinformatic analysis of the CBF genes was carried out to analyze the phylogenetic relationship, protein conservative motifs, protein physicochemical properties, gene structure, promoter cis-acting elements, and the gene expression patterns under cold acclimation and control conditions. It was found that most of these genes were highly responsive at the late stage of cold acclimation, indicating that they play important roles in the cold acclimation processes of TKS. This study provides a theoretical basis for the study of the molecular functions of the CBF gene family in TKS, and a useful guidance for the genetic improvement of the cold tolerance traits of TKS and other plants, including crops.

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“…Gene ontology (GO) analysis (Figure 1B) of CBFs revealed that their main molecular function is in the binding to cold-responsive genes for cold stress tolerance, through the CRT/DRE binding domains [43]. Recent reports have exhibited several CBF amino acid sequences from other plant species with a higher homology, carrying similarly conserved motifs (Figure 1D) [10,44,45]. Additionally, Novillo et al [46] paraded a negative feedback mechanism of the CBF/DREB1 transcription factors, that CBF2/DREBIC negatively regulates the expression of CBF1/DREB1B and CBF3/DREB1A in Arabidopsis.…”

Section: Introductionmentioning

confidence: 99%

ICE-CBF-COR Signaling Cascade and Its Regulation in Plants Responding to Cold Stress

Hwarari

Guan

Ahmad

et al. 2022

IJMS

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167

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Cold stress limits plant geographical distribution and influences plant growth, development, and yields. Plants as sessile organisms have evolved complex biochemical and physiological mechanisms to adapt to cold stress. These mechanisms are regulated by a series of transcription factors and proteins for efficient cold stress acclimation. It has been established that the ICE-CBF-COR signaling pathway in plants regulates how plants acclimatize to cold stress. Cold stress is perceived by receptor proteins, triggering signal transduction, and Inducer of CBF Expression (ICE) genes are activated and regulated, consequently upregulating the transcription and expression of the C-repeat Binding Factor (CBF) genes. The CBF protein binds to the C-repeat/Dehydration Responsive Element (CRT/DRE), a homeopathic element of the Cold Regulated genes (COR gene) promoter, activating their transcription. Transcriptional regulations and post-translational modifications regulate and modify these entities at different response levels by altering their expression or activities in the signaling cascade. These activities then lead to efficient cold stress tolerance. This paper contains a concise summary of the ICE-CBF-COR pathway elucidating on the cross interconnections with other repressors, inhibitors, and activators to induce cold stress acclimation in plants.

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Genome-wide identification and cold stress-induced expression analysis of the CBF gene family in Liriodendron chinense

Cited by 24 publications

References 44 publications

Genome-level analysis of BpR2R3-MYB family genes transcribed in seedlings of Betula platyphylla and BpR2R3- MYB15 enhanced flavonoid production

Genome-level analysis of BpR2R3-MYB family genes transcribed in seedlings of Betula platyphylla and BpR2R3- MYB15 enhanced flavonoid production

Genome-wide identification of CBF genes and their responses to cold acclimation in Taraxacum kok-saghyz

ICE-CBF-COR Signaling Cascade and Its Regulation in Plants Responding to Cold Stress

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