Comparative transcriptome analysis by RNA-Seq of the regulation of low temperature responses in Dendranthema morifolium

Lü, Jian; Bi, Huitao; Zhang, Aohua; Guo, Tong; Li, Yong; Li, Yonghua

doi:10.1007/s13580-018-0042-y

Cited by 8 publications

(5 citation statements)

References 43 publications

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“…Zhang et al (2017) found by transcriptomic analyses that terpenoid synthase genes respond to cold stress in Santalum album L. Low temperature can change the expression of genes related to terpenoid biosynthesis, but increasing cold tolerance needs further studies. The results of our experiment were obviously different from the KEGG metabolic pathway of chrysanthemum transcriptome under low-temperature stress (special incubator) (Lu et al 2018). Our differential metabolic pathways are fewer than those treated under an indoor thermostat, but both flavonoid biosynthesis and fatty acid metabolic pathways are present.…”

contrasting

confidence: 74%

“…Transcriptomic and metabolomic data show that the gene expression in Thellungiella plants responding to stress in cabinets is different from that in their natural habitats (Guevara et al 2012). In a special incubator, the molecular mechanism of cold tolerance in chrysanthemum has been reported (Lu et al 2018), but the molecular mechanism of cold stress in a natural environment is still unclear.…”

Section: Introductionmentioning

confidence: 99%

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RNA-Seq analysis of ground-cover chrysanthemum provides insights into the basis of natural low-temperature stress

QUAN,

HE,

ZHAO

et al. 2023

Biol. plant.

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Ch -chilling; CK -control; COR -dehydration-responsive element of downstream cold responsive; DEGs -differentially expressed genes; DTGs -quantification of transcripts and identification of differentially transcribed genes; EF1α -cold-dependent gene primer sequences and elongation factor 1α; FC -fold change; FDR -false discovery rate; FPKM -fragments per kilobase of transcript per million fragments mapped; FM -fresh mass; Fr -freezing; GMP -GDP-mannose pyrophosphorylase; GO -gene ontology; KEGG -Kyoto encyclopedia of genes and genomes pathway; LT50 -the half lethal temperature; MDA -malondialdehyde; MF -molecular function; NLP -N-carbamoylputrescine amidohydrolase; NOS -nitric oxide synthase; Nr -NCBI non-redundant protein; POD -peroxidase; Q30 -base ratios with quality values higher than 30 in reads; REC -relative electrical conductivity values; RNA-Seq -high-throughput mRNA sequencing technology; ROS -reactive oxygen species; SOD -superoxide dismutase.

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confidence: 74%

Section: Introductionmentioning

confidence: 99%

RNA-Seq analysis of ground-cover chrysanthemum provides insights into the basis of natural low-temperature stress

QUAN,

HE,

ZHAO

et al. 2023

Biol. plant.

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“…Of these, fructose-1,6-bisphosphate aldolase (FBA, Csa_2G252020)was proved to be positively correlated with cold tolerance in tomatoes ( Cai et al., 2017 ), and it was significantly expressed as a cold-responsive protein in Arabidopsis thaliana ( Li et al., 2014 ). The CML family protein (Csa_1G025020) was detected in transcript profiles of chrysanthemum leaves exposed to −8°C ( Lu et al., 2018 ), and the villin-4 (Csa_2G060390) can respond to low temperature in cotton ( Lv et al., 2021 ).…”

Section: Discussionmentioning

confidence: 99%

Proteome and phosphoproteome analysis of 2,4-epibrassinolide-mediated cold stress response in cucumber seedlings

Zhou

Li²,

Yan³

et al. 2023

Front. Plant Sci.

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The 2, 4-epibrassinolide (EBR) significantly increased plants cold tolerance. However, mechanisms of EBR in regulating cold tolerance in phosphoproteome and proteome levels have not been reported. The mechanism of EBR regulating cold response in cucumber was studied by multiple omics analysis. In this study, phosphoproteome analysis showed that cucumber responded to cold stress through multi-site serine phosphorylation, while EBR further upregulated single-site phosphorylation for most of cold-responsive phosphoproteins. Association analysis of the proteome and phosphoproteome revealed that EBR reprogrammed proteins in response to cold stress by negatively regulating protein phosphorylation and protein content, and phosphorylation negatively regulated protein content in cucumber. Further functional enrichment analysis of proteome and phosphoproteome showed that cucumber mainly upregulated phosphoproteins related to spliceosome, nucleotide binding and photosynthetic pathways in response to cold stress. However, different from the EBR regulation in omics level, hypergeometric analysis showed that EBR further upregulated 16 cold-up-responsive phosphoproteins participated photosynthetic and nucleotide binding pathways in response to cold stress, suggested their important function in cold tolerance. Analysis of cold-responsive transcription factors (TFs) by correlation between proteome and phosphoproteome showed that cucumber regulated eight class TFs may through protein phosphorylation under cold stress. Further combined with cold-related transcriptome found that cucumber phosphorylated eight class TFs, and mainly through targeting major hormone signal genes by bZIP TFs in response to cold stress, while EBR further increased these bZIP TFs (CsABI5.2 and CsABI5.5) phosphorylation level. In conclusion, the EBR mediated schematic of molecule response mechanisms in cucumber under cold stress was proposed.

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“…respect to the regulation of the innate immune response (Zhan et al, 2018). It was proved that MAPK signaling pathway was activated by high temperature to break pupal diapause in the flesh fly (Fujiwara and Denlinger, 2007) and involved in the responses of Dendranthema morifolium to low temperature (Lu et al, 2018). Surprisingly, the majority of DEGs within the MAPK signaling pathway were up-regulated in HTAS adults, suggesting these humoral immune-related pathways were activated in response to the heat stress acclimation (Chen et al, 2017;.…”

Section: Validation Of Data Through Real-time Pcr (Qrt-pcr)mentioning

confidence: 99%

Comparative Transcriptome and Proteome Analysis of Heat Acclimation in Predatory Mite Neoseiulus barkeri

Tian

Huang

et al. 2020

Front. Physiol.

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In our previous study, we reported a high temperature adapted strain (HTAS) of the predatory mite Neoseiulus barkeri was artificially selected via a long-term heat acclimation (35 • C) and frequent heat hardenings. To understand the molecular basis of heat acclimation, 'omics' analyses were performed to compare the differences between HTAS female adults to conventional strain (CS) at transcriptional and translational levels. We obtained a total of 5,374 differentially expressed genes and 500 differentially expressed proteins. Among them, 119 transcripts had concurrent transcription and translation profiles. It's conserved that some processes, such as high expression of heat shock protein (HSP) genes, involved in heat tolerance of transcriptome analyses, while many protective enzymes including glutathione S-transferase, superoxide dismutase, peroxidase, and cytochrome P450 displayed down-regulated expression. KEGG analysis mapped 4,979 and 348 differentially expressed genes and proteins, to 299 and 253 pathways, respectively. The mitogen-activated protein kinases (MAPK) signaling pathway may provide new insights for the investigation of the molecular mechanisms of heat tolerance. Correlation enriched pathways indicated that there were four pathways associated with heat acclimation involving in energy metabolism and immunity. In addition, the expression patterns of ten randomly selected genes including HSP were consistent with the transcriptome results obtained through quantitative realtime PCR. Comparisons between transcriptome and proteome results indicated the upregulation of HSPs and genes participated in ATP production, immunity and energy metabolism process. A majority of antioxidant-related genes and detoxication-related genes were down-regulated suggesting a fitness cost of heat acclimation. Our results demonstrated that heat tolerance during a long-time acclimation of N. barkeri is a fairly complicated process of physiological regulations. These findings also contribute to a better understanding of the mechanisms of thermal responses of phytoseiid mites which could provide useful information for biological control through natural enemies.

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Comparative transcriptome analysis by RNA-Seq of the regulation of low temperature responses in Dendranthema morifolium

Cited by 8 publications

References 43 publications

RNA-Seq analysis of ground-cover chrysanthemum provides insights into the basis of natural low-temperature stress

RNA-Seq analysis of ground-cover chrysanthemum provides insights into the basis of natural low-temperature stress

Proteome and phosphoproteome analysis of 2,4-epibrassinolide-mediated cold stress response in cucumber seedlings

Comparative Transcriptome and Proteome Analysis of Heat Acclimation in Predatory Mite Neoseiulus barkeri

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