Identification of novel C-repeat binding factor (CBF) genes in rye (Secale cereale L.) and expression studies

Jung, Woo Joo; Seo, Yong Weon

doi:10.1016/j.gene.2018.10.055

Cited by 29 publications

(19 citation statements)

References 46 publications

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“…As the most frost tolerant crop among the Triticeae 67 , rye is an ideal model to investigate the genetic architecture of low temperature tolerance (LTT) in cereals. Genetic mapping has revealed a locus Fr2 on the group 5 chromosomes controlling LTT 68 in rye 69 , T. monococcum 70 , bread wheat 71,72 , and barley 73 . In cold-tolerant varieties, the Fr2 locus up-regulates LTT-implicated Cbf genes during seedling development under cold conditions 74 .…”

Section: Resultsmentioning

confidence: 99%

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

Rabanus‐Wallace

Hackauf

Mascher

et al. 2019

Preprint

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We present a chromosome-scale annotated assembly of the rye (Secale cereale L. inbred line ‘Lo7’) genome, which we use to explore Triticeae genomic evolution, and rye’s superior disease and stress tolerance. The rye genome shares chromosome-level organization with other Triticeae cereals, but exhibits unique retrotransposon dynamics and structural features. Crop improvement in rye, as well as in wheat and triticale, will profit from investigations of rye gene families implicated in pathogen resistance, low temperature tolerance, and fertility control systems for hybrid breeding. We show that rye introgressions in wheat breeding panels can be characterised in high-throughput to predict the yield effects and trade-offs of rye chromatin.

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Section: Resultsmentioning

confidence: 99%

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

Rabanus‐Wallace

Hackauf

Mascher

et al. 2019

Preprint

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“…The importance of HvCBF14 in FR has been demonstrated via association and expression studies leading to the conclusions that transcript accumulation is induced by temperature shifts independently from light conditions, and that the effects of temperature and light treatments are additive [41,75,76]. Rye ScCBF14 showed similar expression patterns in response to the treatment when studied using RTq-PCR [77]. Based on these data, it can be assumed that the level of CBF14 expression and temperature/light stimuli are relayed byvia separate signaling routes [41].…”

Section: Discussionmentioning

confidence: 99%

Influence of CNV on transcript levels of HvCBF genes at Fr-H2 locus revealed by resequencing in resistant barley cv. ‘Nure’ and expression analysis

et al. 2020

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Resequencing in resistant cultivar 'Nure' and structural comparison with the same region of susceptible 'Morex' was performed in order to gain a better insight into barley Frost-resistance-H2 locus. Accurate annotation showed copy number variation (CNV) in the proximal part of the locus. In 'Nure', two exact copies of the HvCBF4-HvCBF2A region and one of the HvCBF4-HvCBF2B segment were observed, while in 'Morex' the corresponding region harboured a single HvCBF4-HvCBF2A (22 kb) segment. Abundance and diversity of repetitive element classes, gene function gain/losses, regulatory motifs and SNPs in gene sequences were identified. An expression study of key HvCBFs with/without CNV on selected genotypes contrasting for frost resistance and estimated HvCBF4-HvCBF2B copy number (2-10 copies) was also performed. Under light stimulus at warm temperature (23°C), CNV of HvCBF2A and HvCBF4 correlated with their expression levels and reported frost resistance of genotypes; moreover, expression levels of HvCBF2A and HvCBF14 were strongly correlated (r=0.908, p<0.01). On the other hand, frost resistance correlated to HvCBF14 expression (r=0.871, p<0.01) only after cold induction (6°C) in the dark. A complex interplay of HvCBFs expression levels under different light/temperature stimuli is discussed in light of CNV and presence/number of regulatory elements that integrate different signal transduction pathways.

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“…Here, we obtained five CBF genes in the tea plant genome, of which CsCBF5 is identical to the previously published sequence [26], and the remaining four are newly identified CsCBF genes. The number of CBFs in tea plants is slightly more than that in Arabidopsis [15], but much less than that in many monocots [43,44,45].…”

Section: Discussionmentioning

confidence: 99%

“…However, three AtCBF genes showed constitutively high expression after transfer to low temperature and peaked within 1 h to 2 h [15]. A recent work proposed that the expression of CBF genes is interrelated and that some early expressed CBFs may regulate the expression of other orthologs [45]. The expression level of CsCBF3 was too low to be reliably detected, indicating that it may be similar to AtCBF4 that is not induced by cold [19].…”

Section: Discussionmentioning

confidence: 99%

Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature

Wang

Chen

Guo

et al. 2019

IJMS

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C-repeat binding factors (CBFs) are key signaling genes that can be rapidly induced by cold and bind to the C-repeat/dehydration-responsive motif (CRT/DRE) in the promoter region of the downstream cold-responsive (COR) genes, which play a vital role in the plant response to low temperature. However, the CBF family in tea plants has not yet been elucidated, and the possible target genes regulated by this family under low temperature are still unclear. In this study, we identified five CsCBF family genes in the tea plant genome and analyzed their phylogenetic tree, conserved domains and motifs, and cis-elements. These results indicate that CsCBF3 may be unique in the CsCBF family. This is further supported by our findings from the low-temperature treatment: all the CsCBF genes except CsCBF3 were significantly induced after treatment at 4 • C. The expression profiles of eight tea plant tissues showed that CsCBFs were mainly expressed in winter mature leaves, roots and fruits. Furthermore, 685 potential target genes were identified by transcriptome data and CRT/DRE element information. These target genes play a functional role under the low temperatures of winter through multiple pathways, including carbohydrate metabolism, lipid metabolism, cell wall modification, circadian rhythm, calcium signaling, transcriptional cascade, and hormone signaling pathways. Our findings will further the understanding of the stress regulatory network of CsCBFs in tea plants.

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Identification of novel C-repeat binding factor (CBF) genes in rye (Secale cereale L.) and expression studies

Cited by 29 publications

References 46 publications

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

Chromosome-scale genome assembly provides insights into rye biology, evolution, and agronomic potential

Influence of CNV on transcript levels of HvCBF genes at Fr-H2 locus revealed by resequencing in resistant barley cv. ‘Nure’ and expression analysis

Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature

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