DGE-seq analysis of MUR3-related Arabidopsis mutants provides insight into how dysfunctional xyloglucan affects cell elongation

Xu, Zeshui; Wang, Meng; Shi, Dachuan; Zhou, Gongke; Niu, Tiantian; Hahn, Michael G.; O’Neill, Malcolm A.; Kong, Yingzhen

doi:10.1016/j.plantsci.2017.01.005

Cited by 25 publications

(34 citation statements)

References 73 publications

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“…Total RNA was extracted with the EasyPure Plant RNA Kit (TransGen, ER301-01, Beijing, China) and treated with RNase-free DNase I (TransGen, K21109, Beijing, China). First-strand cDNA synthesis and qRT-PCR amplification were performed as previously described [ 43 ]. Expression was calculated using the 2 −∆∆Ct method [ 44 ] and normalized to that of the NtACTIN gene (XM_019370655.1).…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Tobacco (Nicotiana tabacum L.)

Wang

Ding

et al. 2018

Genes

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Xyloglucan endotransglucosylase/hydrolase genes (XTHs) encode enzymes required for the reconstruction and modification of xyloglucan backbones, which will result in changes of cell wall extensibility during growth. A total of 56 NtXTH genes were identified from common tobacco, and 50 cDNA fragments were verified by PCR amplification. The 56 NtXTH genes could be classified into two subfamilies: Group I/II and Group III according to their phylogenetic relationships. The gene structure, chromosomal localization, conserved protein domains prediction, sub-cellular localization of NtXTH proteins and evolutionary relationships among Nicotiana tabacum, Nicotiana sylvestrisis, Nicotiana tomentosiformis, Arabidopsis, and rice were also analyzed. The NtXTHs expression profiles analyzed by the TobEA database and qRT-PCR revealed that NtXTHs display different expression patterns in different tissues. Notably, the expression patterns of 12 NtXTHs responding to environment stresses, including salinity, alkali, heat, chilling, and plant hormones, including IAA and brassinolide, were characterized. All the results would be useful for the function study of NtXTHs during different growth cycles and stresses.

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Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification and Expression Profiling Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Tobacco (Nicotiana tabacum L.)

Wang

Ding

et al. 2018

Genes

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“…The plant materials included sunflower plants (XRQ) [29], Arabidopsis ((Columbia) wild-type (WT) plants and two transgenic lines (HHA4-OE, and HHA11-OE)), as well as Nicotiana benthamiana plants. All the plants were grown in a culture room described in our previous studies [30,31] with a relative constant temperature of 23 ± 1 • C and 16/8 h photoperiod (light/dark). The humidity was controlled at approximately 60%.…”

Section: Plant Materials and Growth Conditionsmentioning

confidence: 99%

“…The full-length CDS sequences of HHA1, HHA4, and HHA11 were amplified by gene-specific primers (Supplementary File S1) using 2× TransStart ® Fast Pfu PCR Super Mix (AS221-01, Transgen, China), and then cloned into the binary pCAM35tlegfps2#4 vector [30] in the space between Kpn1 and BamH1 to generate 35S::HHAs-GFP fusion proteins using a ClonExpress Ultra One Step Cloning Kit (Vazyme, C115-01, China). The positive clones were transferred into Agrobacterium tumefaciens strain GV3101 for transient expression in 3-week-old Nicotiana benthamiana plants using the infiltration method [38].…”

Section: Subcellular Localization Determination Of Hha Proteinsmentioning

confidence: 99%

“…The full-length CDS of HHA4 and HHA11 were amplified with gene-specific primers (Supplementary File S1) and cloned into the 35S promoter-driven vector pCam35tlegfps2#4 with KpnI and XbaI sites [30]. Agrobacterium tumefaciens strain GV3101 was used to transform the Arabidopsis wild type plants using the floral dip method [39].…”

Section: Vector Construction Arabidopsis Transformation and Positivmentioning

confidence: 99%

“…Seeds of WT, HHA4, and HHA11 transgenic T 2 homozygous lines were sprinkled on 1/2 MS medium after surface sterilization [30], and placed in the culture/growth room. Five days later, seedlings with basically the same root length were then transferred to 1/2 MS medium that contained different concentrations of NaCl (0, 100, and 150 mM).…”

Section: Salt Tolerant Experimentsmentioning

confidence: 99%

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Genome-Wide Identification and Analysis of P-Type Plasma Membrane H+-ATPase Sub-Gene Family in Sunflower and the Role of HHA4 and HHA11 in the Development of Salt Stress Resistance

Marowa

Liu

et al. 2020

Genes

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The P-type plasma membrane (PM) H+-ATPase plays a major role during the growth and development of a plant. It is also involved in plant resistance to a variety of biotic and abiotic factors, including salt stress. The PM H+-ATPase gene family has been well characterized in Arabidopsis and other crop plants such as rice, cucumber, and potato; however, the same cannot be said in sunflower (Helianthus annuus). In this study, a total of thirteen PM H+-ATPase genes were screened from the recently released sunflower genome database with a comprehensive genome-wide analysis. According to a systematic phylogenetic classification with a previously reported species, the sunflower PM H+-ATPase genes (HHAs) were divided into four sub-clusters (I, II, IV, and V). In addition, systematic bioinformatics analyses such as gene structure analysis, chromosome location analysis, subcellular localization predication, conserved motifs, and Cis-acting elements of promoter identification were also done. Semi-quantitative PCR analysis data of HHAs in different sunflower tissues revealed the specificity of gene spatiotemporal expression and sub-cluster grouping. Those belonging to sub-cluster I and II exhibited wide expression in almost all of the tissues studied while sub-cluster IV and V seldom showed expression. In addition, the expression of HHA4, HHA11, and HHA13 was shown to be induced by salt stress. The transgenic plants overexpressing HHA4 and HHA11 showed higher salinity tolerance compared with wild-type plants. Further analysis showed that the Na+ content of transgenic Arabidopsis plants decreased under salt stress, which indicates that PM H+ ATPase participates in the physiological process of Na+ efflux, resulting in salt resistance of the plants. This study is the first to identify and analyze the sunflower PM H+ ATPase gene family. It does not only lay foundation for future research but also demonstrates the role played by HHAs in salt stress tolerance.

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Metabolic network changes during skotomorphogenesis in Arabidopsis thaliana mutant (atdfb‐3)

Meng

Liu

et al. 2022

Plant Direct

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The metabolic networks underlying skotomorphogenesis in seedlings remain relatively unknown. On the basis of our previous study on the folate metabolism in seedlings grown in darkness, the plastidial folylpolyglutamate synthetase gene (AtDFB) T‐DNA insertion Arabidopsis thaliana mutant (atdfb‐3) was examined. Under the nitrate‐sufficient condition, the mutant exhibited deficient folate metabolism and hypocotyl elongation, which affected skotomorphogenesis. Further analyses revealed changes to multiple intermediate metabolites related to carbon and nitrogen metabolism in the etiolated atdfb‐3 seedlings. Specifically, the sugar, polyol, and fatty acid contents decreased in the atdfb‐3 mutant under the nitrate‐sufficient condition, whereas the abundance of various organic acids and amino acids increased. In response to nitrate‐limited stress, multiple metabolites, including sugars, polyols, fatty acids, organic acids, and amino acids, accumulated more in the mutant than in the wild‐type control. The differences in the contents of multiple metabolites between the atdfb‐3 and wild‐type seedlings decreased following the addition of exogenous 5‐F‐THF under both nitrogen conditions. Additionally, the mutant accumulated high levels of one‐carbon metabolites, such as Cys, S‐adenosylmethionine, and S‐adenosylhomocysteine, under both nitrogen conditions. Thus, our data demonstrated that the perturbed folate metabolism in the atdfb‐3 seedlings, which was caused by the loss‐of‐function mutation to AtDFB, probably altered carbon and nitrogen metabolism, thereby modulating skotomorphogenesis. Furthermore, the study findings provide new evidence of the links among folate metabolism, metabolic networks, and skotomorphogenesis.

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DGE-seq analysis of MUR3-related Arabidopsis mutants provides insight into how dysfunctional xyloglucan affects cell elongation

Cited by 25 publications

References 73 publications

Genome-Wide Identification and Expression Profiling Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Tobacco (Nicotiana tabacum L.)

Genome-Wide Identification and Expression Profiling Analysis of the Xyloglucan Endotransglucosylase/Hydrolase Gene Family in Tobacco (Nicotiana tabacum L.)

Genome-Wide Identification and Analysis of P-Type Plasma Membrane H+-ATPase Sub-Gene Family in Sunflower and the Role of HHA4 and HHA11 in the Development of Salt Stress Resistance

Metabolic network changes during skotomorphogenesis in Arabidopsis thaliana mutant (atdfb‐3)

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