Transcriptome Analysis of Sucrose Metabolism during Bulb Swelling and Development in Onion (Allium cepa L.)

Zhang, Chunsha; Zhang, Hongwei; Zhan, Zongxiang; Liu, Bingjiang; ZhenTai, Chen; Liang, Yi

doi:10.3389/fpls.2016.01425

Cited by 63 publications

(32 citation statements)

References 66 publications

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“…Transcriptome analysis of carbohydrate metabolism during bulb development, though relatively less addressed, was carried out in a number of bulbous or tuberous plants. Zhang et al [14] performed transcriptome analysis of sucrose metabolism in onion (Allium cepa L.) bulbs and found 7% of COG annotated unigenes were involved in carbohydrate transport and metabolism. And KEGG pathway enrichment analysis of DEGs revealed that "starch and sucrose metabolism" was the primary metabolism pathway in the integrated library from three developmental stages of onion bulbs and was most active at rapidly expanding stage, in line with the outcomes in the present work.…”

Section: Discussionmentioning

confidence: 99%

“…Sucrose phosphate synthases (SPS) promote sucrose synthesis and invertases (INV), including neutral invertases (NI) and acid invertases (AI), are responsible for irreversible degradation of sucrose. SuSy and INV synergistically break down sucrose into fructose and glucose, which can subsequently join in starch synthesis pathways [7,14]. Adenosine diphosphoglucose pyrophosphorylase (APGase) initiates the synthesis of starch by catalyzing the formation of adenosine diphosphate glucose (ADPG), a precursor of starch synthesis [15].…”

Section: Introductionmentioning

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: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

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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“…Carbohydrate metabolism, such as sucrose metabolism and glycolysis, not only supplies energy but also generates a carbon skeleton for the formation of organic compounds, including natural rubber ( Tang et al, 2010 ). The SUT and NIN or sucrose synthase take part in sucrose transport and decomposition or synthesis, respectively ( Zhang C. et al, 2016 ). Recently, Liu et al (2015) cloned three invertases ( HbNIN1-3 ) in the latex of the rubber tree and identified that HbNIN2 is the crucial isoform for latex regeneration.…”

Section: Discussionmentioning

confidence: 99%

Transcript Profiling of Hevea brasiliensis during Latex Flow

et al. 2017

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Latex exploitation enhances latex regeneration in rubber trees. The latex exploitation-caused latex flow lasts from 10 min to a few hours, which is convenient for exploring the transcript profiling of latex metabolism-related genes at the different stages of latex flow. In the present study, the expression pattern of 62 latex metabolism-related genes involved in water transportation, carbohydrate metabolism, natural rubber biosynthesis, hormone signaling, ROS generation and scavenging, and latex coagulum across three stages of latex flow between rubber tree clones CATAS7-33-97 and CATAS8-79 were comparatively analyzed by quantitative real-time PCR. The two clones show differences in latex regeneration and have a different duration of latex flow. The results showed that the expression levels of 38 genes were significantly higher in CATAS8-79 latex than in CATAS7-33-97 during latex regeneration, while 45 genes had a notably higher expression level in CATAS8-79 latex during latex flow. Together with the activation of the MEP pathway and jasmonate pathway in CATAS8-79 latex, HbPIP1;3, HbPIP1;4, HbSUT3, HbSus3, HbHMGS1-2, HbMK should contribute to the high latex regeneration ability. The up-regulation of ethylene signaling and Hb44KD and the down-regulation of latex coagulation-related genes in CATAS8-79 latex might contribute to its longer latex flow duration. This study provides some cues for revealing the regulation of latex metabolism in rubber trees.

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“…Several recent studies have utilized transcriptomics-based gene ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis for establishing a theoretical basis to understand the metabolic framework underlying complex developmental processes or organismal responses to external cues in tomato and other species [23][24][25][26][27][28].…”

Section: Gene Ontology and Kegg Pathway Analysis Related To Phytonutrmentioning

confidence: 99%

Concomitant phytonutrient and transcriptome analysis of mature fruit and leaf tissues of tomato (Solanum lycopersicum L. cv. Oregon Spring) grown using organic and conventional fertilizer

et al. 2020

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Enhanced levels of antioxidants, phenolic compounds, carotenoids and vitamin C have been reported for several crops grown under organic fertilizer, albeit with yield penalties. As organic agricultural practices continue to grow and find favor it is critical to gain an understanding of the molecular underpinnings of the factors that limit the yields in organically farmed crops. Concomitant phytochemical and transcriptomic analysis was performed on mature fruit and leaf tissues derived from Solanum lycopersicum L. 'Oregon Spring' grown under organic and conventional fertilizer conditions to evaluate the following hypotheses. 1. Organic soil fertilizer management results in greater allocation of photosynthetically derived resources to the synthesis of secondary metabolites than to plant growth, and 2. Genes involved in changes in the accumulation of phytonutrients under organic fertilizer regime will exhibit differential expression, and that the growth under different fertilizer treatments will elicit a differential response from the tomato genome. Both these hypotheses were supported, suggesting an adjustment of the metabolic and genomic activity of the plant in response to different fertilizers. Organic fertilizer treatment showed an activation of photoinhibitory processes through differential activation of nitrogen transport and assimilation genes resulting in higher accumulation of phytonutrients. This information can be used to identify alleles for breeding crops that allow for efficient utilization of organic inputs.

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Transcriptome Analysis of Sucrose Metabolism during Bulb Swelling and Development in Onion (Allium cepa L.)

Cited by 63 publications

References 66 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

Transcript Profiling of Hevea brasiliensis during Latex Flow

Concomitant phytonutrient and transcriptome analysis of mature fruit and leaf tissues of tomato (Solanum lycopersicum L. cv. Oregon Spring) grown using organic and conventional fertilizer

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