The proteome reveals the involvement of serine/threonine kinase in the recognition of self- incompatibility in almond

Xu, Yeting; Zhang, Qiuping; Zhang, Xiao; Wang, Jian; Ayup, Mubarek; Yang, Bo; Guo, Chen; Gong, Ping; Dong, Wenxu

doi:10.1016/j.jprot.2022.104505

Cited by 6 publications

(4 citation statements)

References 63 publications

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“…Present studies reveal differential regulation of serine/threonine protein kinase genes. Recently, the involvement of serine/threonine protein kinases was reported in the recognition of selfincompatibility in almonds (Xu et al 2022). Hence, the differential regulation of the protein kinase genes observed in our studies probably indicates differential incompatibility reactions in the two cultivars under study.…”

Section: Discussionsupporting

confidence: 51%

Transcriptomic analysis of almond (Prunus dulcis) cultivars with differential flowering time

Mir,

Raina,

Sharma

et al. 2024

IJGPB

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Almond is one of the oldest and major tree nut crops consumed for its nutritious kernels. Since transcriptome analysis is crucial to identifying genes controlling important agronomic, an attempt was made for comparative transcriptomic analysis to identify the genetic differences in almond cultivars Waris and Ferralise, varying in blooming dates. Sequencing data from Illumina TruSeq libraries was processed using the FASTQC-Trimmomatic-HISAT2-Stringtie-Stringtie merge-DESeq2 pipeline. Overall alignment rates for different libraries ranged from 82.04-91.33%. DESeq2 analysis identified 3707 differentially expressed genes, out of which 1558 genes were up-regulated while the 2149 genes were down-regulated in Waris compared to Ferralise. Differential regulation of genes associated with the auxin signaling pathway, ubiquitin ligases, serine/threonine-protein phosphatases, proteasomes, translation initiation factors, phosphatidylinositol signaling and pentose phosphate pathway provides new insights into the molecular regulation of blooming in almonds. These findings will pave the way for molecularly differentiating early and late flowering almond cultivars and have implications in breeding late-blooming almond cultivars

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Section: Discussionsupporting

confidence: 51%

Transcriptomic analysis of almond (Prunus dulcis) cultivars with differential flowering time

Mir,

Raina,

Sharma

et al. 2024

IJGPB

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“…Notably, in our results, the significantly upregulated and SI-related transcripts (F-box and thioredoxin gene families) were associated with the metabolites (succinate, methylmalonate and 3-hydroxypropionate) in the corresponding pathway, and were all significantly downregulated. Other research has found that metabolites are associated with the expression of transcripts, which are related to plant SI [8,80,93]. Therefore, we speculate that these metabolites, genes, and SI-related TFs are associated with the inhibition of pollen growth and the occurrence of SI in A. mangium (Figure 7).…”

Section: Model-based Prediction Of Transcripts and Metabolites Relate...mentioning

confidence: 71%

“…The growth of pollen tubes and SI are tightly connected. In recent years, research on this related gene has found that sequences encoding Ca 2+ /calcium-dependent protein kinases, the 26S proteasome, and serine/threonine kinase proteins have been shown to be involved in the reaction of pollen tubes to recognize non-self and self S-RNase proteins [78][79][80]. Moreover, two MADS-box transcription factors have also been proven to be close to the S-locus in HIS [81].…”

Section: Transcriptomic Analysismentioning

confidence: 99%

Comparative Physiological, Transcriptomic, and Metabolomic Analyses of Acacia mangium Provide New Insights into Its Molecular Mechanism of Self-Incompatibility

Zhang,

Huang,

Zeng

2023

Forests

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Acacia mangium is well known as a valuable commercial tree species in the Acacia genus. A. mangium was recently found to be self-incompatible (SI), but its SI mechanism is not clear, which has hindered the progress of genetic improvement of A. mangium with strong resistance. To confirm the SI type of A. mangium, pollen germination was observed via fluorescence microscopy at 0 h, 3 h, 6 h, 9 h, 12 h, and 24 h after self-pollination. We found over ninety percent of the pollen grains produced no pollen tube growth on the stigma/style. To further explore the SI molecular mechanism of A. mangium, tests of the transcriptome and metabolome were carried out after self-pollination. Observations of pollen germination after self-pollination using fluorescence microscopy suggested that the SI type of A. mangium is gametophytic self-incompatibility (GSI). A combined transcriptomic and metabolomic analysis showed that DEGs (differentially expressed genes) related to SI (6 S-glycoproteins, 93 F-box proteins, 69 26S proteasomes, 38 calcium-dependent protein kinases/calmodulin and 41 thioredoxin genes) were significantly enriched in six KEGG (sulfur metabolism, tyrosine metabolism, phenylalanine metabolism, butanoate metabolism, and valine, leucine, and isoleucine degradation). Further analysis of these six pathways revealed the enrichment of SI-related DEGs corresponding to succinate, methylmalonate, and 3-hydroxypropane. These three metabolites were significantly downregulated. The analysis of transcripts and metabolites suggested that transcripts of SI-related gene families (thioredoxin and F-box protein) were significantly upregulated under the regulation of transcription factors (TFs) after self-pollination, leading to a decrease in metabolites (such as succinate, methylmalonate, and 3-hydroxypropionate). We also further speculated that TFs (MYB, HB-HD-ZIP, AP2/ERF-ERF, and bZIP) and gene families (thioredoxin and F-box protein) were important factors related to the SI of A. mangium.

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“…For establishing the proteomics model, hBMSCs were cultured in 60-mm dishes (triplicate of each model) and treated with Tan IIA (1 μM, experimental samples) or blank control (culture medium, control samples) for 24 h. Then, collecting cells for quantitative proteomic analysis at 48 hpi as previously described [ 33 , 34 ]. Briefly, the samples were added with 4 × volume cold lysis buffer (containing 1% protease inhibitor, 8 M urea) and lysed by sonication on ice.…”

Section: Methodsmentioning

confidence: 99%

Proteomics reveals the potential mechanism of Tanshinone IIA in promoting the Ex Vivo expansion of human bone marrow mesenchymal stem cells

Pan

Qin

Wei

et al. 2022

Regenerative Therapy

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The proteome reveals the involvement of serine/threonine kinase in the recognition of self- incompatibility in almond

Cited by 6 publications

References 63 publications

Transcriptomic analysis of almond (Prunus dulcis) cultivars with differential flowering time

Transcriptomic analysis of almond (Prunus dulcis) cultivars with differential flowering time

Comparative Physiological, Transcriptomic, and Metabolomic Analyses of Acacia mangium Provide New Insights into Its Molecular Mechanism of Self-Incompatibility

Proteomics reveals the potential mechanism of Tanshinone IIA in promoting the Ex Vivo expansion of human bone marrow mesenchymal stem cells

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