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Yuanwen Teng - One of the best experts on this subject based on the ideXlab platform.
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ppygast1 is potentially involved in Bud Dormancy release by integrating the ga biosynthesis and aba signaling in suli pear pyrus pyrifolia white pear group
Environmental and Experimental Botany, 2019Co-Authors: Qinsong Yang, Qingfeng Niu, Songling Bai, Yinxin Tang, Xinhui Yan, Juan Tian, Yuanwen TengAbstract:Abstract Bud Dormancy establishment is essential for perennial plants to survive cold winters, while Dormancy release is important for the resumption of growth and flowering. Gibberellins (GAs) and abscisic acid (ABA) are involved in Bud Dormancy release, but the details of the regulatory pathway are still obscure. First, we measured the GAs contents in pear Buds during Dormancy transition. The content of GA1, one of the bioactive GAs, increased during Dormancy release while GA4 was not detectable. Based on a ‘Suli’ pear (Pyrus pyrifolia White Pear Group) RNA sequencing analysis, we found that PpyGAST1, a GA-stimulated transcripts (GAST) gene family member, was rapidly up-regulated during Dormancy release, with a concurrent up-regulation of PpyGA20OX2 and active GA level. Overexpression of PpyGAST1 in Arabidopsis resulted in earlier seed germination under mock-, ABA- and GA-treatment conditions, but there was no difference under paclobutrazol-treatment conditions, compared with the wild type. Additionally, the transgenic Arabidopsis lines showed higher AtGA20ox2, AtGA3ox1 and AtEXPA1 expression levels. We identified 17 GAST genes differentially expressed during Dormancy transitions, with higher transcript abundancy levels during Dormancy release. The expression levels of some GAST genes in the Buds were regulated by both GA and ABA treatments during Dormancy release. Together, these results indicate that GAST genes may be involved in the ABA- and GA-responsive pathway and their expressions are correlated with pear Bud Dormancy release. Our findings provide new insights into the possible molecular mechanisms integrating GA biosynthesis and ABA signaling during Bud Dormancy release.
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pphb22 a member of hd zip proteins activates ppdam1 to regulate Bud Dormancy transition in suli pear pyrus pyrifolia white pear group
Plant Physiology and Biochemistry, 2018Co-Authors: Qinsong Yang, Qingfeng Niu, Xiaoyan Zheng, Songling Bai, Yuanwen TengAbstract:Abstract Homeodomain-leucine zipper (HD-Zip) proteins, which form one of the largest and most diverse families, regulate many biological processes in plants, including differentiation, flowering, vascular development, and stress signaling. Abscisic acid (ABA) has been proved to be one of the key regulators of Bud Dormancy and to influence several HD-Zip genes expression. However, the role of HD-Zip genes in regulating Bud Dormancy remains unclear. We identified 47 pear (P. pyrifolia White Pear Group) HD-Zip genes, which were classified into four subfamilies (HD-Zip I–IV). We further revealed that gene expression levels of some HD-Zip members were closely related to ABA concentrations in flower Buds during Dormancy transition. Exogenous ABA treatment confirmed that PpHB22 and several other HD-Zip genes responded to ABA. Yeast one-hybrid and dual luciferase assay results combining subcellular localization showed that PpHB22 was present in nucleus and directly induced PpDAM1 (Dormancy associated MADS-box 1) expression. Thus, PpHB22 is a negative regulator of plant growth associated with the ABA response pathway and functions upstream of PpDAM1. These findings enrich our understanding of the function of HD-Zip genes related to the Bud Dormancy transition.
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abscisic acid aba promotes the induction and maintenance of pear pyrus pyrifolia white pear group flower Bud endoDormancy
International Journal of Molecular Sciences, 2018Co-Authors: Qingfeng Niu, Yuanwen Teng, Songling BaiAbstract:Dormancy is an adaptive mechanism that allows temperate deciduous plants to survive unfavorable winter conditions. In the present work, we investigated the possible function of abscisic acid (ABA) on the endoDormancy process in pear. The ABA content increased during pear flower Bud endoDormancy establishment and decreased towards endoDormancy release. In total, 39 putative genes related to ABA metabolism and signal transductions were identified from pear genome. During the para- to endoDormancy transition, PpNCED-2 and PpNCED-3 had high expression levels, while PpCYP707As expression levels were low. However, during endoDormancy, the expression of PpCYP707A-3 sharply increased with increasing cold accumulation. At the same time, the ABA content of pear Buds declined, and the percentage of Bud breaks rapidly increased. On the other hand, the expression levels of PpPYLs, PpPP2Cs, PpSnRK2s, and PpABI4/ABI5s were also changed during the pear flower Bud Dormancy cycle. Furthermore, exogenous ABA application to para-dormant Buds significantly reduced the Bud breaks and accelerated the transition to endoDormancy. During the whole treatment time, the expression level of PpPP2C-12 decreased to a greater extent in ABA-treated Buds than in control. However, the expression levels of PpSnRK2-1, PpSnRK2-4, and PpABI5-1 were higher in ABA-treated Buds. Our results indicated that PpCYP707A-3 and PpNCEDs play pivotal roles on the regulation of endoDormancy release, while ABA signal transduction pathway also appears to be involved in the process. The present work provided the basic information about the function of ABA-related genes during pear flower Bud Dormancy process.
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Dormancy associated mads box genes and micrornas jointly control Dormancy transition in pear pyrus pyrifolia white pear group flower Bud
Journal of Experimental Botany, 2016Co-Authors: Qingfeng Niu, Songling Bai, Yuanwen Teng, Guoqin Liu, Sayed Hussain, Danying Cai, Minjie Qian, Huimin Jia, Xiaoyan ZhengAbstract:Bud Dormancy in perennial plants is indispensable to survival over winter and to regrowth and development in the following year. However, the molecular pathways of endo-Dormancy induction, maintenance, and release are still unclear, especially in fruit crops. To identify genes with roles in regulating endo-Dormancy, 30 MIKC(C)-type MADS-box genes were identified in the pear genome and characterized. The 30 genes were analysed to determine their phylogenetic relationships with homologous genes, genome locations, gene structure, tissue-specific transcript profiles, and transcriptional patterns during flower Bud Dormancy in 'Suli' pear (Pyrus pyrifolia white pear group). The roles in regulating Bud Dormancy varied among the MIKC gene family members. Yeast one-hybrid and transient assays showed that PpCBF enhanced PpDAM1 and PpDAM3 transcriptional activity during the induction of Dormancy, probably by binding to the C-repeat/DRE binding site, while DAM proteins inhibited the transcriptional activity of PpFT2 during Dormancy release. In the small RNA-seq analysis, 185 conserved, 24 less-conserved, and 32 pear-specific miRNAs with distinct expression patterns during Bud Dormancy were identified. Joint analyses of miRNAs and MIKC genes together with degradome data showed that miR6390 targeted PpDAM transcripts and degraded them to release PpFT2. Our data show that cross-talk among PpCBF, PpDAM, PpFT2, and miR6390 played important roles in regulating endo-Dormancy. A model for the molecular mechanism of Dormancy transition is proposed: short-term chilling in autumn activates the accumulation of CBF, which directly promotes DAM expression; DAM subsequently inhibits FT expression to induce endo-Dormancy, and miR6390 degrades DAM genes to release endo-Dormancy.
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transcriptomic analysis of suli pear pyrus pyrifolia white pear group Buds during the Dormancy by rna seq
BMC Genomics, 2012Co-Authors: Guoqin Liu, Penghua Zheng, Lijuan Chen, Dongfeng Liu, Sayed Hussain, Yuanwen TengAbstract:Bud Dormancy is a critical developmental process that allows perennial plants to survive unfavorable environmental conditions. Pear is one of the most important deciduous fruit trees in the world, but the mechanisms regulating Bud Dormancy in this species are unknown. Because genomic information for pear is currently unavailable, transcriptome and digital gene expression data for this species would be valuable resources to better understand the molecular and biological mechanisms regulating its Bud Dormancy. We performed de novo transcriptome assembly and digital gene expression (DGE) profiling analyses of ‘Suli’ pear (Pyrus pyrifolia white pear group) using the Illumina RNA-seq system. RNA-Seq generated approximately 100 M high-quality reads that were assembled into 69,393 unigenes (mean length = 853 bp), including 14,531 clusters and 34,194 singletons. A total of 51,448 (74.1%) unigenes were annotated using public protein databases with a cut-off E-value above 10-5. We mainly compared gene expression levels at four time-points during Bud Dormancy. Between Nov. 15 and Dec. 15, Dec. 15 and Jan. 15, and Jan. 15 and Feb. 15, 1,978, 1,024, and 3,468 genes were differentially expressed, respectively. Hierarchical clustering analysis arranged 190 significantly differentially-expressed genes into seven groups. Seven genes were randomly selected to confirm their expression levels using quantitative real-time PCR. The new transcriptomes offer comprehensive sequence and DGE profiling data for a dynamic view of transcriptomic variation during Bud Dormancy in pear. These data provided a basis for future studies of metabolism during Bud Dormancy in non-model but economically-important perennial species.
Pilar Cubas - One of the best experts on this subject based on the ideXlab platform.
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a conserved carbon starvation response underlies Bud Dormancy in woody and herbaceous species
Frontiers in Plant Science, 2017Co-Authors: Carlos Tarancon, Eduardo Gonzalezgrandio, Juan Carlos Oliveros, Michael Nicolas, Pilar CubasAbstract:Plant shoot systems give rise to characteristic above-ground plant architectures. Shoots are formed from axillary meristems and Buds, whose growth and development is modulated by systemic and local signals. These cues convey information about nutrient and water availability, light quality, sink/source organ activity and other variables that determine the timeliness and competence to maintain development of new shoots. This information is translated into a local response, in meristems and Buds, of growth or quiescence. Although some key genes involved in the onset of Bud latency have been identified, the gene regulatory networks (GRNs) controlled by these genes are not well defined. Moreover, it has not been determined whether Bud Dormancy induced by environmental cues, such as a low red-to-far-red light ratio, shares genetic mechanisms with Bud latency induced by other causes, such as apical dominance or a short-day photoperiod. Furthermore, the evolution and conservation of these GRNs throughout angiosperms is not well established. We have reanalyzed public transcriptomic datasets that compare quiescent and active axillary Buds of Arabidopsis, with datasets of axillary Buds of the woody species Vitis vinifera (grapevine) and apical Buds of Populus tremula x Populus alba (poplar) during the Bud growth-to-Dormancy transition. Our aim was to identify potentially common GRNs induced during the process that leads to Bud para-, eco- and endoDormancy. In Arabidopsis Buds that are entering eco- or paraDormancy, we have identified four induced interrelated GRNs that correspond to a carbon (C) starvation syndrome, typical of tissues undergoing C depletion. This response is also detectable in poplar and grapevine Buds before and during the transition to Dormancy. In all eukaryotes, C limiting conditions are coupled to growth arrest and latency like that observed in dormant axillary Buds. Bud Dormancy might thus be partly a consequence of the underlying C starvation syndrome triggered by environmental and endogenous cues that anticipate or signal conditions unfavorable for sustained shoot growth.
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A Conserved Carbon Starvation Response Underlies Bud Dormancy in Woody and Herbaceous Species
Frontiers Media S.A., 2017Co-Authors: Carlos Tarancon, Juan Carlos Oliveros, Michael Nicolas, Eduardo González-grandío, Pilar CubasAbstract:Plant shoot systems give rise to characteristic above-ground plant architectures. Shoots are formed from axillary meristems and Buds, whose growth and development is modulated by systemic and local signals. These cues convey information about nutrient and water availability, light quality, sink/source organ activity and other variables that determine the timeliness and competence to maintain development of new shoots. This information is translated into a local response, in meristems and Buds, of growth or quiescence. Although some key genes involved in the onset of Bud latency have been identified, the gene regulatory networks (GRNs) controlled by these genes are not well defined. Moreover, it has not been determined whether Bud Dormancy induced by environmental cues, such as a low red-to-far-red light ratio, shares genetic mechanisms with Bud latency induced by other causes, such as apical dominance or a short-day photoperiod. Furthermore, the evolution and conservation of these GRNs throughout angiosperms is not well established. We have reanalyzed public transcriptomic datasets that compare quiescent and active axillary Buds of Arabidopsis, with datasets of axillary Buds of the woody species Vitis vinifera (grapevine) and apical Buds of Populus tremula x Populus alba (poplar) during the Bud growth-to-Dormancy transition. Our aim was to identify potentially common GRNs induced during the process that leads to Bud para-, eco- and endoDormancy. In Arabidopsis Buds that are entering eco- or paraDormancy, we have identified four induced interrelated GRNs that correspond to a carbon (C) starvation syndrome, typical of tissues undergoing low C supply. This response is also detectable in poplar and grapevine Buds before and during the transition to Dormancy. In all eukaryotes, C-limiting conditions are coupled to growth arrest and latency like that observed in dormant axillary Buds. Bud Dormancy might thus be partly a consequence of the underlying C starvation syndrome triggered by environmental and endogenous cues that anticipate or signal conditions unfavorable for sustained shoot growth
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branched1 promotes axillary Bud Dormancy in response to shade in arabidopsis
The Plant Cell, 2013Co-Authors: Eduardo Gonzalezgrandio, Cesar Pozacarrion, Carlos Oscar S. Sorzano, Pilar CubasAbstract:Plants interpret a decrease in the red to far-red light ratio (R:FR) as a sign of impending shading by neighboring vegetation. This triggers a set of developmental responses known as shade avoidance syndrome. One of these responses is reduced branching through suppression of axillary Bud outgrowth. The Arabidopsis thaliana gene BRANCHED1 (BRC1), expressed in axillary Buds, is required for branch suppression in response to shade. Unlike wild-type plants, brc1 mutants develop several branches after a shade treatment. BRC1 transcription is positively regulated 4 h after exposure to low R:FR. Consistently, BRC1 is negatively regulated by phytochrome B. Transcriptional profiling of wild-type and brc1 Buds of plants treated with simulated shade has revealed groups of genes whose mRNA levels are dependent on BRC1, among them a set of upregulated abscisic acid response genes and two networks of cell cycle– and ribosome-related downregulated genes. The downregulated genes have promoters enriched in TEOSINTE BRANCHED1, CYCLOIDEA, and PCF (TCP) binding sites, suggesting that they could be transcriptionally regulated by TCP factors. Some of these genes respond to BRC1 in seedlings and Buds, supporting their close relationship with BRC1 activity. This response may allow the rapid adaptation of plants to fluctuations in the ratio of R:FR light.
Qingfeng Niu - One of the best experts on this subject based on the ideXlab platform.
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ppygast1 is potentially involved in Bud Dormancy release by integrating the ga biosynthesis and aba signaling in suli pear pyrus pyrifolia white pear group
Environmental and Experimental Botany, 2019Co-Authors: Qinsong Yang, Qingfeng Niu, Songling Bai, Yinxin Tang, Xinhui Yan, Juan Tian, Yuanwen TengAbstract:Abstract Bud Dormancy establishment is essential for perennial plants to survive cold winters, while Dormancy release is important for the resumption of growth and flowering. Gibberellins (GAs) and abscisic acid (ABA) are involved in Bud Dormancy release, but the details of the regulatory pathway are still obscure. First, we measured the GAs contents in pear Buds during Dormancy transition. The content of GA1, one of the bioactive GAs, increased during Dormancy release while GA4 was not detectable. Based on a ‘Suli’ pear (Pyrus pyrifolia White Pear Group) RNA sequencing analysis, we found that PpyGAST1, a GA-stimulated transcripts (GAST) gene family member, was rapidly up-regulated during Dormancy release, with a concurrent up-regulation of PpyGA20OX2 and active GA level. Overexpression of PpyGAST1 in Arabidopsis resulted in earlier seed germination under mock-, ABA- and GA-treatment conditions, but there was no difference under paclobutrazol-treatment conditions, compared with the wild type. Additionally, the transgenic Arabidopsis lines showed higher AtGA20ox2, AtGA3ox1 and AtEXPA1 expression levels. We identified 17 GAST genes differentially expressed during Dormancy transitions, with higher transcript abundancy levels during Dormancy release. The expression levels of some GAST genes in the Buds were regulated by both GA and ABA treatments during Dormancy release. Together, these results indicate that GAST genes may be involved in the ABA- and GA-responsive pathway and their expressions are correlated with pear Bud Dormancy release. Our findings provide new insights into the possible molecular mechanisms integrating GA biosynthesis and ABA signaling during Bud Dormancy release.
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pphb22 a member of hd zip proteins activates ppdam1 to regulate Bud Dormancy transition in suli pear pyrus pyrifolia white pear group
Plant Physiology and Biochemistry, 2018Co-Authors: Qinsong Yang, Qingfeng Niu, Xiaoyan Zheng, Songling Bai, Yuanwen TengAbstract:Abstract Homeodomain-leucine zipper (HD-Zip) proteins, which form one of the largest and most diverse families, regulate many biological processes in plants, including differentiation, flowering, vascular development, and stress signaling. Abscisic acid (ABA) has been proved to be one of the key regulators of Bud Dormancy and to influence several HD-Zip genes expression. However, the role of HD-Zip genes in regulating Bud Dormancy remains unclear. We identified 47 pear (P. pyrifolia White Pear Group) HD-Zip genes, which were classified into four subfamilies (HD-Zip I–IV). We further revealed that gene expression levels of some HD-Zip members were closely related to ABA concentrations in flower Buds during Dormancy transition. Exogenous ABA treatment confirmed that PpHB22 and several other HD-Zip genes responded to ABA. Yeast one-hybrid and dual luciferase assay results combining subcellular localization showed that PpHB22 was present in nucleus and directly induced PpDAM1 (Dormancy associated MADS-box 1) expression. Thus, PpHB22 is a negative regulator of plant growth associated with the ABA response pathway and functions upstream of PpDAM1. These findings enrich our understanding of the function of HD-Zip genes related to the Bud Dormancy transition.
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abscisic acid aba promotes the induction and maintenance of pear pyrus pyrifolia white pear group flower Bud endoDormancy
International Journal of Molecular Sciences, 2018Co-Authors: Qingfeng Niu, Yuanwen Teng, Songling BaiAbstract:Dormancy is an adaptive mechanism that allows temperate deciduous plants to survive unfavorable winter conditions. In the present work, we investigated the possible function of abscisic acid (ABA) on the endoDormancy process in pear. The ABA content increased during pear flower Bud endoDormancy establishment and decreased towards endoDormancy release. In total, 39 putative genes related to ABA metabolism and signal transductions were identified from pear genome. During the para- to endoDormancy transition, PpNCED-2 and PpNCED-3 had high expression levels, while PpCYP707As expression levels were low. However, during endoDormancy, the expression of PpCYP707A-3 sharply increased with increasing cold accumulation. At the same time, the ABA content of pear Buds declined, and the percentage of Bud breaks rapidly increased. On the other hand, the expression levels of PpPYLs, PpPP2Cs, PpSnRK2s, and PpABI4/ABI5s were also changed during the pear flower Bud Dormancy cycle. Furthermore, exogenous ABA application to para-dormant Buds significantly reduced the Bud breaks and accelerated the transition to endoDormancy. During the whole treatment time, the expression level of PpPP2C-12 decreased to a greater extent in ABA-treated Buds than in control. However, the expression levels of PpSnRK2-1, PpSnRK2-4, and PpABI5-1 were higher in ABA-treated Buds. Our results indicated that PpCYP707A-3 and PpNCEDs play pivotal roles on the regulation of endoDormancy release, while ABA signal transduction pathway also appears to be involved in the process. The present work provided the basic information about the function of ABA-related genes during pear flower Bud Dormancy process.
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Dormancy associated mads box genes and micrornas jointly control Dormancy transition in pear pyrus pyrifolia white pear group flower Bud
Journal of Experimental Botany, 2016Co-Authors: Qingfeng Niu, Songling Bai, Yuanwen Teng, Guoqin Liu, Sayed Hussain, Danying Cai, Minjie Qian, Huimin Jia, Xiaoyan ZhengAbstract:Bud Dormancy in perennial plants is indispensable to survival over winter and to regrowth and development in the following year. However, the molecular pathways of endo-Dormancy induction, maintenance, and release are still unclear, especially in fruit crops. To identify genes with roles in regulating endo-Dormancy, 30 MIKC(C)-type MADS-box genes were identified in the pear genome and characterized. The 30 genes were analysed to determine their phylogenetic relationships with homologous genes, genome locations, gene structure, tissue-specific transcript profiles, and transcriptional patterns during flower Bud Dormancy in 'Suli' pear (Pyrus pyrifolia white pear group). The roles in regulating Bud Dormancy varied among the MIKC gene family members. Yeast one-hybrid and transient assays showed that PpCBF enhanced PpDAM1 and PpDAM3 transcriptional activity during the induction of Dormancy, probably by binding to the C-repeat/DRE binding site, while DAM proteins inhibited the transcriptional activity of PpFT2 during Dormancy release. In the small RNA-seq analysis, 185 conserved, 24 less-conserved, and 32 pear-specific miRNAs with distinct expression patterns during Bud Dormancy were identified. Joint analyses of miRNAs and MIKC genes together with degradome data showed that miR6390 targeted PpDAM transcripts and degraded them to release PpFT2. Our data show that cross-talk among PpCBF, PpDAM, PpFT2, and miR6390 played important roles in regulating endo-Dormancy. A model for the molecular mechanism of Dormancy transition is proposed: short-term chilling in autumn activates the accumulation of CBF, which directly promotes DAM expression; DAM subsequently inhibits FT expression to induce endo-Dormancy, and miR6390 degrades DAM genes to release endo-Dormancy.
Songling Bai - One of the best experts on this subject based on the ideXlab platform.
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ppygast1 is potentially involved in Bud Dormancy release by integrating the ga biosynthesis and aba signaling in suli pear pyrus pyrifolia white pear group
Environmental and Experimental Botany, 2019Co-Authors: Qinsong Yang, Qingfeng Niu, Songling Bai, Yinxin Tang, Xinhui Yan, Juan Tian, Yuanwen TengAbstract:Abstract Bud Dormancy establishment is essential for perennial plants to survive cold winters, while Dormancy release is important for the resumption of growth and flowering. Gibberellins (GAs) and abscisic acid (ABA) are involved in Bud Dormancy release, but the details of the regulatory pathway are still obscure. First, we measured the GAs contents in pear Buds during Dormancy transition. The content of GA1, one of the bioactive GAs, increased during Dormancy release while GA4 was not detectable. Based on a ‘Suli’ pear (Pyrus pyrifolia White Pear Group) RNA sequencing analysis, we found that PpyGAST1, a GA-stimulated transcripts (GAST) gene family member, was rapidly up-regulated during Dormancy release, with a concurrent up-regulation of PpyGA20OX2 and active GA level. Overexpression of PpyGAST1 in Arabidopsis resulted in earlier seed germination under mock-, ABA- and GA-treatment conditions, but there was no difference under paclobutrazol-treatment conditions, compared with the wild type. Additionally, the transgenic Arabidopsis lines showed higher AtGA20ox2, AtGA3ox1 and AtEXPA1 expression levels. We identified 17 GAST genes differentially expressed during Dormancy transitions, with higher transcript abundancy levels during Dormancy release. The expression levels of some GAST genes in the Buds were regulated by both GA and ABA treatments during Dormancy release. Together, these results indicate that GAST genes may be involved in the ABA- and GA-responsive pathway and their expressions are correlated with pear Bud Dormancy release. Our findings provide new insights into the possible molecular mechanisms integrating GA biosynthesis and ABA signaling during Bud Dormancy release.
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pphb22 a member of hd zip proteins activates ppdam1 to regulate Bud Dormancy transition in suli pear pyrus pyrifolia white pear group
Plant Physiology and Biochemistry, 2018Co-Authors: Qinsong Yang, Qingfeng Niu, Xiaoyan Zheng, Songling Bai, Yuanwen TengAbstract:Abstract Homeodomain-leucine zipper (HD-Zip) proteins, which form one of the largest and most diverse families, regulate many biological processes in plants, including differentiation, flowering, vascular development, and stress signaling. Abscisic acid (ABA) has been proved to be one of the key regulators of Bud Dormancy and to influence several HD-Zip genes expression. However, the role of HD-Zip genes in regulating Bud Dormancy remains unclear. We identified 47 pear (P. pyrifolia White Pear Group) HD-Zip genes, which were classified into four subfamilies (HD-Zip I–IV). We further revealed that gene expression levels of some HD-Zip members were closely related to ABA concentrations in flower Buds during Dormancy transition. Exogenous ABA treatment confirmed that PpHB22 and several other HD-Zip genes responded to ABA. Yeast one-hybrid and dual luciferase assay results combining subcellular localization showed that PpHB22 was present in nucleus and directly induced PpDAM1 (Dormancy associated MADS-box 1) expression. Thus, PpHB22 is a negative regulator of plant growth associated with the ABA response pathway and functions upstream of PpDAM1. These findings enrich our understanding of the function of HD-Zip genes related to the Bud Dormancy transition.
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abscisic acid aba promotes the induction and maintenance of pear pyrus pyrifolia white pear group flower Bud endoDormancy
International Journal of Molecular Sciences, 2018Co-Authors: Qingfeng Niu, Yuanwen Teng, Songling BaiAbstract:Dormancy is an adaptive mechanism that allows temperate deciduous plants to survive unfavorable winter conditions. In the present work, we investigated the possible function of abscisic acid (ABA) on the endoDormancy process in pear. The ABA content increased during pear flower Bud endoDormancy establishment and decreased towards endoDormancy release. In total, 39 putative genes related to ABA metabolism and signal transductions were identified from pear genome. During the para- to endoDormancy transition, PpNCED-2 and PpNCED-3 had high expression levels, while PpCYP707As expression levels were low. However, during endoDormancy, the expression of PpCYP707A-3 sharply increased with increasing cold accumulation. At the same time, the ABA content of pear Buds declined, and the percentage of Bud breaks rapidly increased. On the other hand, the expression levels of PpPYLs, PpPP2Cs, PpSnRK2s, and PpABI4/ABI5s were also changed during the pear flower Bud Dormancy cycle. Furthermore, exogenous ABA application to para-dormant Buds significantly reduced the Bud breaks and accelerated the transition to endoDormancy. During the whole treatment time, the expression level of PpPP2C-12 decreased to a greater extent in ABA-treated Buds than in control. However, the expression levels of PpSnRK2-1, PpSnRK2-4, and PpABI5-1 were higher in ABA-treated Buds. Our results indicated that PpCYP707A-3 and PpNCEDs play pivotal roles on the regulation of endoDormancy release, while ABA signal transduction pathway also appears to be involved in the process. The present work provided the basic information about the function of ABA-related genes during pear flower Bud Dormancy process.
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Dormancy associated mads box genes and micrornas jointly control Dormancy transition in pear pyrus pyrifolia white pear group flower Bud
Journal of Experimental Botany, 2016Co-Authors: Qingfeng Niu, Songling Bai, Yuanwen Teng, Guoqin Liu, Sayed Hussain, Danying Cai, Minjie Qian, Huimin Jia, Xiaoyan ZhengAbstract:Bud Dormancy in perennial plants is indispensable to survival over winter and to regrowth and development in the following year. However, the molecular pathways of endo-Dormancy induction, maintenance, and release are still unclear, especially in fruit crops. To identify genes with roles in regulating endo-Dormancy, 30 MIKC(C)-type MADS-box genes were identified in the pear genome and characterized. The 30 genes were analysed to determine their phylogenetic relationships with homologous genes, genome locations, gene structure, tissue-specific transcript profiles, and transcriptional patterns during flower Bud Dormancy in 'Suli' pear (Pyrus pyrifolia white pear group). The roles in regulating Bud Dormancy varied among the MIKC gene family members. Yeast one-hybrid and transient assays showed that PpCBF enhanced PpDAM1 and PpDAM3 transcriptional activity during the induction of Dormancy, probably by binding to the C-repeat/DRE binding site, while DAM proteins inhibited the transcriptional activity of PpFT2 during Dormancy release. In the small RNA-seq analysis, 185 conserved, 24 less-conserved, and 32 pear-specific miRNAs with distinct expression patterns during Bud Dormancy were identified. Joint analyses of miRNAs and MIKC genes together with degradome data showed that miR6390 targeted PpDAM transcripts and degraded them to release PpFT2. Our data show that cross-talk among PpCBF, PpDAM, PpFT2, and miR6390 played important roles in regulating endo-Dormancy. A model for the molecular mechanism of Dormancy transition is proposed: short-term chilling in autumn activates the accumulation of CBF, which directly promotes DAM expression; DAM subsequently inhibits FT expression to induce endo-Dormancy, and miR6390 degrades DAM genes to release endo-Dormancy.
Guoqin Liu - One of the best experts on this subject based on the ideXlab platform.
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Dormancy associated mads box genes and micrornas jointly control Dormancy transition in pear pyrus pyrifolia white pear group flower Bud
Journal of Experimental Botany, 2016Co-Authors: Qingfeng Niu, Songling Bai, Yuanwen Teng, Guoqin Liu, Sayed Hussain, Danying Cai, Minjie Qian, Huimin Jia, Xiaoyan ZhengAbstract:Bud Dormancy in perennial plants is indispensable to survival over winter and to regrowth and development in the following year. However, the molecular pathways of endo-Dormancy induction, maintenance, and release are still unclear, especially in fruit crops. To identify genes with roles in regulating endo-Dormancy, 30 MIKC(C)-type MADS-box genes were identified in the pear genome and characterized. The 30 genes were analysed to determine their phylogenetic relationships with homologous genes, genome locations, gene structure, tissue-specific transcript profiles, and transcriptional patterns during flower Bud Dormancy in 'Suli' pear (Pyrus pyrifolia white pear group). The roles in regulating Bud Dormancy varied among the MIKC gene family members. Yeast one-hybrid and transient assays showed that PpCBF enhanced PpDAM1 and PpDAM3 transcriptional activity during the induction of Dormancy, probably by binding to the C-repeat/DRE binding site, while DAM proteins inhibited the transcriptional activity of PpFT2 during Dormancy release. In the small RNA-seq analysis, 185 conserved, 24 less-conserved, and 32 pear-specific miRNAs with distinct expression patterns during Bud Dormancy were identified. Joint analyses of miRNAs and MIKC genes together with degradome data showed that miR6390 targeted PpDAM transcripts and degraded them to release PpFT2. Our data show that cross-talk among PpCBF, PpDAM, PpFT2, and miR6390 played important roles in regulating endo-Dormancy. A model for the molecular mechanism of Dormancy transition is proposed: short-term chilling in autumn activates the accumulation of CBF, which directly promotes DAM expression; DAM subsequently inhibits FT expression to induce endo-Dormancy, and miR6390 degrades DAM genes to release endo-Dormancy.
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transcriptomic analysis of suli pear pyrus pyrifolia white pear group Buds during the Dormancy by rna seq
BMC Genomics, 2012Co-Authors: Guoqin Liu, Penghua Zheng, Lijuan Chen, Dongfeng Liu, Sayed Hussain, Yuanwen TengAbstract:Bud Dormancy is a critical developmental process that allows perennial plants to survive unfavorable environmental conditions. Pear is one of the most important deciduous fruit trees in the world, but the mechanisms regulating Bud Dormancy in this species are unknown. Because genomic information for pear is currently unavailable, transcriptome and digital gene expression data for this species would be valuable resources to better understand the molecular and biological mechanisms regulating its Bud Dormancy. We performed de novo transcriptome assembly and digital gene expression (DGE) profiling analyses of ‘Suli’ pear (Pyrus pyrifolia white pear group) using the Illumina RNA-seq system. RNA-Seq generated approximately 100 M high-quality reads that were assembled into 69,393 unigenes (mean length = 853 bp), including 14,531 clusters and 34,194 singletons. A total of 51,448 (74.1%) unigenes were annotated using public protein databases with a cut-off E-value above 10-5. We mainly compared gene expression levels at four time-points during Bud Dormancy. Between Nov. 15 and Dec. 15, Dec. 15 and Jan. 15, and Jan. 15 and Feb. 15, 1,978, 1,024, and 3,468 genes were differentially expressed, respectively. Hierarchical clustering analysis arranged 190 significantly differentially-expressed genes into seven groups. Seven genes were randomly selected to confirm their expression levels using quantitative real-time PCR. The new transcriptomes offer comprehensive sequence and DGE profiling data for a dynamic view of transcriptomic variation during Bud Dormancy in pear. These data provided a basis for future studies of metabolism during Bud Dormancy in non-model but economically-important perennial species.
