Characterization of an A-type cyclin-dependent kinase gene from Dendrobium candidum

Zhang, Gang; Song, Chao; Zhao, Mingming; Li, Biao; Guo, Shun‐Xing

doi:10.2478/s11756-012-0016-y

Cited by 6 publications

(6 citation statements)

References 46 publications

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“…Three substitutions were recorded in where serine, isoleucine and threonine in the consensus sequence where replaced with arginine, Lysine and alanine. The same substitutions were also recorded in Jerusalem artichoke (44), coconut palm (45), Dendrobium candidum (46) and Lolium temulentum (47).…”

Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3supporting

confidence: 70%

“…3-D models ( Fig. 5 and Table 4) supported with negative Z-score also showed the pattern described for such kinases consisting of joined couple of αhelices and β-strands (46). In conclusion, in silico analyses provided a time and cost effective tool to highlight valuable genetic variations in wild relatives of rice.…”

Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3supporting

confidence: 64%

“…Except for O. longistaminata with molecular weight of 31.29 KDa and isoelecteric point of 6.22 (Table 1), physiochemical characteristics of the mined CDKAs in other taxa showed narrow ranges of molecular weights (33.56 -33.69 KDa) and isoelecteric points (6.38 -6.97). CDKAs having similar characteristics were identified in Physcomitrella patens (31), Dendrobium candidum (46), maize endosperm (48) and Arabidopsis thaliana (49).…”

Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3mentioning

confidence: 69%

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In Silico Characterization of a Cyclin Dependent Kinase -A (CDKA) and its Coding Gene in some Oryza Species

Fouad

AlSobeai

2020

Baghdad Sci.J

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Rice (Oryza sativa) is a fundamental food for the majority of world population. Cyclin Dependent Kinase -A (CDKA) accelerates transition through different stages of cell cycle and contributes in gametes formation. In the present investigation, a CDKA encoding gene along with the corresponding protein were characterized in O. sativa Indica Group, O. glaberrima, O. barthii, O. brachyantha, O. glumipatula, O. longistaminata, O. meridionalis, O. nivara, O. punctata and O. rufipogon using in silico analyses. The results reflected little variation in most species except O. longistaminata and O. brachyantha. Compared with the remaining species, O. longistaminata lacked a negative regulatory binding site and had a modified cyclin binding site (PSTAICE instead of PSTAIRE) that may lead to future characterization of a new distinct subclass of CDKAs. O. brachyantha had a modified SUC/CKS (suppressor of CDC2/cyclin dependent-kinase regulatory subunit)-binding motif. The observed variations can be exploited through traditional breeding or molecular approaches to manipulate cell division and growth of cultivated Oryza species.

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Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3supporting

confidence: 70%

Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3supporting

confidence: 64%

Section: Threonine (T) and Tyrosine (Y) Residues 2 Pstaire Motif 3mentioning

confidence: 69%

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In Silico Characterization of a Cyclin Dependent Kinase -A (CDKA) and its Coding Gene in some Oryza Species

Fouad

AlSobeai

2020

Baghdad Sci.J

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“…The assay mix (final volume 25 μL) contained 12.5 µL 2× SYBR ® Premix Ex Taq TM Master Mix (Takara Bio, Dalian, China), 0.5 µL each primer (10 µM), 0.5 µL ROX Reference Dye, 2 µL cDNA template, and 9 µL ddH 2 O. The thermal cycling conditions were as follows: 95° C for 30 s, followed by 40 cycles of 95° C 15 s and 60° C 40 s. The relative expression was calculated as the ratio of target gene expression normalized to GAPDH expression [26]. All standards were amplified in duplicate, and samples were amplified in triplicate.…”

Section: Methodsmentioning

confidence: 99%

ESTs Analysis Reveals Putative Genes Involved in Symbiotic Seed Germination in Dendrobium officinale

Zhao

Zhang

et al. 2013

PLoS ONE

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Dendrobium officinale (Orchidaceae) is one of the world’s most endangered plants with great medicinal value. In nature, D . officinale seeds must establish symbiotic relationships with fungi to germinate. However, the molecular events involved in the interaction between fungus and plant during this process are poorly understood. To isolate the genes involved in symbiotic germination, a suppression subtractive hybridization (SSH) cDNA library of symbiotically germinated D . officinale seeds was constructed. From this library, 1437 expressed sequence tags (ESTs) were clustered to 1074 Unigenes (including 902 singletons and 172 contigs), which were searched against the NCBI non-redundant (NR) protein database (E-value cutoff, e-5). Based on sequence similarity with known proteins, 579 differentially expressed genes in D . officinale were identified and classified into different functional categories by Gene Ontology (GO), Clusters of orthologous Groups of proteins (COGs) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. The expression levels of 15 selected genes emblematic of symbiotic germination were confirmed via real-time quantitative PCR. These genes were classified into various categories, including defense and stress response, metabolism, transcriptional regulation, transport process and signal transduction pathways. All transcripts were upregulated in the symbiotically germinated seeds (SGS). The functions of these genes in symbiotic germination were predicted. Furthermore, two fungus-induced calcium-dependent protein kinases (CDPKs), which were upregulated 6.76- and 26.69-fold in SGS compared with un-germinated seeds (UGS), were cloned from D . officinale and characterized for the first time. This study provides the first global overview of genes putatively involved in D . officinale symbiotic seed germination and provides a foundation for further functional research regarding symbiotic relationships in orchids.

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“…The parameters for the reactions were 95°C for 30 s, 40 cycles of 95°C for 5 s, and 60°C for 30s. The cDNA libraries were standardized to housekeeping gene 18S rRNA ( Zhang et al, 2012 ). The 2 −ΔΔCt method was used for evaluating gene expression.…”

Section: Methodsmentioning

confidence: 99%

The Plant Growth-Promoting Fungus MF23 (Mycena sp.) Increases Production of Dendrobium officinale (Orchidaceae) by Affecting Nitrogen Uptake and NH4+ Assimilation

Shan

Zhou

et al. 2021

Front. Plant Sci.

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Dendrobium officinale Kimura et Migo is a traditional and scarce medicinal orchid in China. Mycorrhizal fungi could supply nitrogen (N) to orchids for seed germination and seedling recruitment. However, the N transport mechanism between orchids and the fungus is poorly understand. Early studies found that the fungus MF23 (Mycena sp.) could promote the growth of D. officinale. To better dissect the molecular interactions involved in N transport between D. officinale and MF23, transcriptome and metabolome analyses were conducted on conventional and mycorrhizal cultivations of D. officinale. Moreover, validation tests were carried out in the greenhouse to measure net fluxes of NO3− and NH4+ of roots by a non-invasive micro-test technology (NMT), determine N assimilation enzyme activity by the ELISA, and analyze the expression level of differentially expressed genes (DEGs) of N transporters and DEGs involved in N metabolism by RT-qPCR. Combined transcriptome and metabolome analyses showed that MF23 may influence N metabolism in D. officinale. The expression of DoNAR2.1 (nitrate transporter-activating protein), DoAMT11 (ammonium transporter), DoATFs (amino acid transporters), DoOPTs (oligopeptide transporters), and DoGDHs (glutamate dehydrogenases) in symbiotic D. officinale was upregulated. NMT results showed a preference for NH4+ in D. officinale and indicated that MF23 could promote the uptake of NO3− andNH4+, especially for NH4+. ELISA results showed that MF23 could increase the activity of glutamine synthetase (GS) and glutamate dehydrogenase. This study suggested that MF23 increases the production of D. officinale by affecting N uptake and NH4+ assimilation capacity.

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Characterization of an A-type cyclin-dependent kinase gene from Dendrobium candidum

Cited by 6 publications

References 46 publications

In Silico Characterization of a Cyclin Dependent Kinase -A (CDKA) and its Coding Gene in some Oryza Species

In Silico Characterization of a Cyclin Dependent Kinase -A (CDKA) and its Coding Gene in some Oryza Species

ESTs Analysis Reveals Putative Genes Involved in Symbiotic Seed Germination in Dendrobium officinale

The Plant Growth-Promoting Fungus MF23 (Mycena sp.) Increases Production of Dendrobium officinale (Orchidaceae) by Affecting Nitrogen Uptake and NH4+ Assimilation

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