Transcriptome analysis of starch and sucrose metabolism across bulb development in Sagittaria sagittifolia

Gao, Mengchun; Zhang, Shangwen; Luo, Cong; He, Xinhua; Wei, Shaolong; Jiang, Wen; He, Fanglian; Lin, Zhicheng; Yan, Meixin; Dong, Weiqong

doi:10.1016/j.gene.2018.01.075

Cited by 30 publications

(27 citation statements)

References 36 publications

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“…Elsewhere, the close association of carbohydrate metabolism with storage root development was also revealed on Lycoris sprengeri [20], sweet potato (Ipomoea batatas.) [32], and Sagittaria sagittifolia [33]. Altogether, these ndings con rmed the important role of starch and sucrose metabolism in bulb formation and development of bulbous plants via transcriptome pro ling method.…”

Section: Discussionsupporting

confidence: 62%

“…INV genes are also signi cant regulators of starch accumulation since INV converts sucrose to glucose and fructose, which join the starch synthesis pathway. Elsewhere, AGPase encoding genes were reported to exhibited the highest expression at the middle and late-swelling stages of the Sagittaria sagittifolia bulb when starch and sucrose metabolism was most pronounced while INV and SBE genes did not [33].…”

Section: Gene Expression During Corm Developmentmentioning

confidence: 99%

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Dynamics and Transcriptome Analysis of Starch and Sucrose Metabolism During Corm Development in Freesia Hybrida

Su-Qin

Yan

et al. 2020

Preprint

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Background Starch and sucrose metabolism plays a crucial role in the formation and development of bulbs in bulbous plants, which, however, remains unclear and unexplored in the corms of Freesia hybrida, one kind of famous bulbous flower. Herein, we investigated the dynamics of the major form of carbohydrates and related enzyme activities and profiled the transcriptome of freesia corms at four developmental stages with the aim to reveal the relation of starch and sucrose metabolism to corm development and the transcriptional regulation of this metabolic process.Results The content of starch, sucrose and soluble sugars followed an overall upward trend across the corm developmental stages. Activities of the adenosine diphosphoglucose pyrophosphorylase, starch branching enzyme and β-amylase generally followed the pattern of the starch and sucrose level. Activities of sucrose phosphate synthase increased from corm formation till the initial swelling stage and subsequently reached a plateau. Activities of invertase and sucrose synthase peaked at the later rapid swelling stage. Transcriptome analysis revealed a total of 100,999 unigenes, out of which 44,405 unigenes were annotated. Analysis based on Clusters of Orthologous Groups suggested that carbohydrate transport and metabolism (9.34% of the sequences) was prominent across the corm developmental process. Totally 3427 differentially expressed genes were identified and the enrichment analysis directed starch and sucrose metabolism a critical pathway in corm development especially at the rapid swelling stage. Genes encoding key carbohydrate-metabolizing enzymes were identified and their differential expression related to corm development was explored.Conclusions The comparative transcriptome analysis discloses essential roles of starch and sucrose metabolism and the genetic mechanism related to the corm development. The results construct a valuable resource pool for further molecular-level studies, which are helpful for metabolic regulation of carbohydrates and improvement in molecular breeding of Freesia hybrida.

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Section: Discussionsupporting

confidence: 62%

Section: Gene Expression During Corm Developmentmentioning

confidence: 99%

Dynamics and Transcriptome Analysis of Starch and Sucrose Metabolism During Corm Development in Freesia Hybrida

Su-Qin

Yan

et al. 2020

Preprint

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“…GO analysis ( 25 ) and KEGG pathway ( 26 ) enrichment analysis of mRNA were performed with the R language version 3.4.4 cluster Profiler ( 27 ), org.Hs.eg.db genome-wide annotation ( ), the topGO package ( ), the pathview R package ( ) and the enrichplot package ( ). The ggplot2 package ( ) was used to create the graphics ( 28 ). Differentially expressed genes were identified with an absolute fold-change ≥2 as the cut off value ( 29 ).…”

Section: Methodsmentioning

confidence: 99%

“…org/packages/topGO/), the pathview R package (https://bioconductor.org/packages/pathview/) and the enrichplot package (https://github.com/GuangchuangYu/enrichplot). The ggplot2 package (http://ggplot2.tidyverse.org) was used to create the graphics (28). Differentially expressed genes were identified with an absolute fold-change ≥2 as the cut off value (29).…”

Section: Gene Ontology (Go) Analysis and Kyoto Encyclopedia Of Genes mentioning

confidence: 99%

Linalool inhibits the growth of human T cell acute lymphoblastic leukemia cells with involvement of the MAPK signaling pathway

et al. 2020

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Linalool can inhibit the malignant proliferation of numerous human malignant solid tumors, including hepatocellular carcinoma, breast cancer, small cell carcinoma and malignant melanoma. However, the role of linalool in T cell acute lymphoblastic leukaemia (T-ALL) remains unclear. In the present study, human TALL cell lines (Jurkat, H9, Molt-4 and Raji cells) and peripheral blood mononuclear cells (PBMCs) from healthy donors were treated with various concentrations of linalool (3.75, 7.50, 15.00, 30.00, 60.00 and 120.00 µM, respectively). A CCK-8 assay was used to analyse cell viability and it demonstrated that linalool inhib ited the growth of TALL cells in a dose-dependent manner, but did not significantly affect normal PBMCs. Flow cytometry was used to detect the cell cycle and apoptosis and demonstrated that linalool reduced the percentage of TALL cells at the G 0 /G 1 phase, and induced the apoptosis of TALL cells. RNA sequencing was conducted on an Illumina HiSeq X Series 2500 before and after treatment with linalool followed by Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis. It was demonstrated that the mitogen-activated protein kinase (MAPK) pathway was involved in the effect of linalool on TALL cells. Real-time quantitative PCR and western blotting were performed to verify the mRNA and protein levels, respectively of the genes in the signaling pathway identified. In addition, it was found that linalool significantly inhibited phosphorylated (p)-ERK1/2 protein expression and enhanced p-JNK protein expression of TALL cells. In conclusion, the present study revealed that linalool inhibits TALL cell survival with involvement of the MAPK signaling pathway. JNK activation and ERK inhibition may play a functional role in apoptosis induction of TALL cells. Linalool may be developed as a novel anti TALL agent.

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“…Gene expression is the process by which information from a gene is used in the synthesis of a functional gene product. These products are often proteins, but in non-protein coding genes such as transfer RNA (tRNA) or small nuclear RNA (snRNA) genes, the product is a functional RNA [156][157][158][159][160][161][162]. In onion, the physiology of the bulb beginning was precisely defined by Mettananda and Fordham [163]; photoperiodic conditions mark bulb beginning, similar to the photoperiodic switch of flowering in other species [20,164].…”

Section: Gene Expression and Bulb Enlargementmentioning

confidence: 99%

Mechanism of Allium Crops Bulb Enlargement in Response to Photoperiod: A Review

Atif

Ahanger

Amin

et al. 2020

IJMS

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The photoperiod marks a varied set of behaviors in plants, including bulbing. Bulbing is controlled by inner signals, which can be stimulated or subdued by the ecological environment. It had been broadly stated that phytohormones control the plant development, and they are considered to play a significant part in the bulb formation. The past decade has witnessed significant progress in understanding and advancement about the photoperiodic initiation of bulbing in plants. A noticeable query is to what degree the mechanisms discovered in bulb crops are also shared by other species and what other qualities are also dependent on photoperiod. The FLOWERING LOCUS T (FT) protein has a role in flowering; however, the FT genes were afterward reported to play further functions in other biological developments (e.g., bulbing). This is predominantly applicable in photoperiodic regulation, where the FT genes seem to have experienced significant development at the practical level and play a novel part in the switch of bulb formation in Alliums. The neofunctionalization of FT homologs in the photoperiodic environments detects these proteins as a new class of primary signaling mechanisms that control the growth and organogenesis in these agronomic-related species. In the present review, we report the underlying mechanisms regulating the photoperiodic-mediated bulb enlargement in Allium species. Therefore, the present review aims to systematically review the published literature on the bulbing mechanism of Allium crops in response to photoperiod. We also provide evidence showing that the bulbing transitions are controlled by phytohormones signaling and FT-like paralogues that respond to independent environmental cues (photoperiod), and we also show that an autorelay mechanism involving FT modulates the expression of the bulbing-control gene. Although a large number of studies have been conducted, several limitations and research gaps have been identified that need to be addressed in future studies.

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Transcriptome analysis of starch and sucrose metabolism across bulb development in Sagittaria sagittifolia

Cited by 30 publications

References 36 publications

Dynamics and Transcriptome Analysis of Starch and Sucrose Metabolism During Corm Development in Freesia Hybrida

Dynamics and Transcriptome Analysis of Starch and Sucrose Metabolism During Corm Development in Freesia Hybrida

Linalool inhibits the growth of human T cell acute lymphoblastic leukemia cells with involvement of the MAPK signaling pathway

Mechanism of Allium Crops Bulb Enlargement in Response to Photoperiod: A Review

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