Comparative transcriptomic analyses of glucosinolate metabolic genes during the formation of Chinese kale seeds

Abstract Background To understand the mechanism of glucosinolates (GSs) accumulation in the specific organs, combined analysis of physiological change and transcriptome sequencing were applied in the current study. Taking Chinese kale as material, seeds and silique walls were divided into different stages based on the development of the embryo in seeds and then subjected to GS analysis and transcriptome sequencing. Results The main GS in seeds of Chinese kale were glucoiberin and gluconapin and their content changed with the development of the seed. During the transition of the embryo from torpedo- to the early cotyledonary-embryo stage, the accumulation of GS in the seed was accompanied by the salient decline of GS in the corresponding silique wall. Thus, the seed and corresponding silique wall at these two stages were subjected to transcriptomic sequencing analysis. 135 genes related to GS metabolism were identified, of which 24 genes were transcription factors, 81 genes were related to biosynthetic pathway, 25 genes encoded catabolic enzymes, and 5 genes matched with transporters. The expression of GS biosynthetic genes was detected both in seeds and silique walls. The high expression of FMOGS-OX and AOP2, which is related to the production of gluconapin by side modification, was noted in seeds at both stages. Interestingly, the expression of GS biosynthetic genes was higher in the silique wall compared with that in the seed albeit lower content of GS existed in the silique wall than in the seed. Combined with the higher expression of transporter genes GTRs in silique walls than in seeds, it was proposed that the transportation of GS from the silique wall to the seed is an important source for seed GS accumulation. In addition, genes related to GS degradation expressed abundantly in the seed at the early cotyledonary-embryo stage indicating its potential role in balancing seed GS content. Conclusions Two stages including the torpedo-embryo and the early cotyledonary-embryo stage were identified as crucial in GS accumulation during seed development. Moreover, we confirmed the transportation of GS from the silique wall to the seed and proposed possible sidechain modification of GS biosynthesis may exist during seed formation.

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Transcriptomic and Metabolic Profiling of High-Temperature Treated Storage Roots Reveals the Mechanism of Saccharification in Sweetpotato (Ipomoea batatas (L.) Lam.)

International Journal of Molecular Sciences ◽

10.3390/ijms22136641 ◽

2021 ◽

Vol 22 (13) ◽

pp. 6641

Author(s):

Chen Li ◽

Meng Kou ◽

Mohamed Hamed Arisha ◽

Wei Tang ◽

Meng Ma ◽

...

Keyword(s):

High Temperature ◽

Metabolic Pathways ◽

Transcriptome Sequencing ◽

Ipomoea Batatas ◽

Sequencing Analysis ◽

Storage Roots ◽

Metabolic Analysis ◽

Cooking Process

The saccharification of sweetpotato storage roots is a common phenomenon in the cooking process, which determines the edible quality of table use sweetpotato. In the present study, two high saccharified sweetpotato cultivars (Y25, Z13) and one low saccharified cultivar (X27) in two growth periods (S1, S2) were selected as materials to reveal the molecular mechanism of sweetpotato saccharification treated at high temperature by transcriptome sequencing and non-targeted metabolome determination. The results showed that the comprehensive taste score, sweetness, maltose content and starch change of X27 after steaming were significantly lower than those of Y25 and Z13. Through transcriptome sequencing analysis, 1918 and 1520 differentially expressed genes were obtained in the two periods of S1 and S2, respectively. Some saccharification-related transcription factors including MYB families, WRKY families, bHLH families and inhibitors were screened. Metabolic analysis showed that 162 differentially abundant metabolites related to carbohydrate metabolism were significantly enriched in starch and sucrose capitalization pathways. The correlation analysis between transcriptome and metabolome confirmed that the starch and sucrose metabolic pathways were significantly co-annotated, indicating that it is a vitally important metabolic pathway in the process of sweetpotato saccharification. The data obtained in this study can provide valuable resources for follow-up research on sweetpotato saccharification and will provide new insights and theoretical basis for table use sweetpotato breeding in the future.

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Single-cell transcriptome sequencing analysis reveals gynaecomastia to breast cancer transition

The Breast ◽

10.1016/s0960-9776(21)00109-0 ◽

2021 ◽

Vol 56 ◽

pp. S26

Author(s):

H. Sun ◽

C. Yang ◽

Z. Wang ◽

L. Shi ◽

T. Xia ◽

...

Keyword(s):

Breast Cancer ◽

Single Cell ◽

Transcriptome Sequencing ◽

Sequencing Analysis ◽

Cell Transcriptome ◽

Single Cell Transcriptome

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A combined small RNA and transcriptome sequencing analysis reveal regulatory roles of miRNAs during anther development of Upland cotton carrying cytoplasmic male sterile Gossypium harknessii (D2) cytoplasm

BMC Plant Biology ◽

10.1186/s12870-018-1446-7 ◽

2018 ◽

Vol 18 (1) ◽

Cited By ~ 6

Author(s):

Bingbing Zhang ◽

Xuexian Zhang ◽

Guoyuan Liu ◽

Liping Guo ◽

Tingxiang Qi ◽

...

Keyword(s):

Small Rna ◽

Upland Cotton ◽

Transcriptome Sequencing ◽

Anther Development ◽

Sequencing Analysis ◽

Male Sterile ◽

Cytoplasmic Male Sterile

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Studies on trans-sutural distraction osteogenesis-related genes based on transcriptome sequencing

10.1101/2020.04.11.037085 ◽

2020 ◽

Author(s):

Baicheng Wang ◽

Hongyu Xue ◽

Haizhou Tong ◽

Peiyang Zhang ◽

Mei Wang ◽

...

Keyword(s):

Cell Cycle ◽

Distraction Osteogenesis ◽

Transcriptome Sequencing ◽

Molecular Mechanisms ◽

Sequencing Analysis ◽

Sprague Dawley ◽

Down Regulation ◽

Important Approach ◽

Immune Pathways ◽

Experimental Group

AbstractTrans-sutural distraction osteogenesis (TSDO) is an important approach to improve mid-face hypoplasia. In recent years, many studies have been carried out on physical mechanisms of TSDO; however, it’s specific cytological and molecular mechanisms are still unclear. In this study, we performed transcriptome sequencing analysis in Sprague Dawley rats at 1 and 2 weeks after suture osteogenesis and compared RNA expression levels between experimental and control groups. At one week, enrichment pathways were mainly up-regulated in muscle- and bone-related pathways. By contrast, pathways of the immune system showed a state of inhibition and down-regulation, especially for B cells; the main immune pathways showed significant down-regulation. However, two weeks later, the experimental group showed positive up-regulation of the pathways related to DNA synthesis and replication, cell cycle, and chromosome replication. At the same time, the immune pathways that were down-regulated in the first week were up-regulated in the second week. In other words, the up-regulated muscle- and bone-related pathways show opposite trends. The expression of bone- and myogenesis-related transcriptome was up-regulated and the immune-related pathways were down-regulated in the experimental group at 1 week. At 2 weeks, the pathways related to bone- and muscle were down-regulated, while those related to cell cycle regulation and DNA replication were up-regulated. These results suggest that musculoskeletal-related molecules may play an important role during suture osteogenesis at 1 week, and immune regulation may be involved in this process; however, at 2 weeks, molecules related to cell proliferation and replication may be a major role.

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RNA Sequencing Analysis of Metopolophium dirhodum (Walker) (Hemiptera: Aphididae) Reveals the Mechanism Underlying Insecticide Resistance

Frontiers in Sustainable Food Systems ◽

10.3389/fsufs.2021.639841 ◽

2021 ◽

Vol 5 ◽

Author(s):

Haifeng Gao ◽

Xun Zhu ◽

Guangkuo Li ◽

Enliang Liu ◽

Yuyang Shen ◽

...

Keyword(s):

Insecticide Resistance ◽

Transcriptome Sequencing ◽

Western China ◽

Sequencing Analysis ◽

Transcriptome Data ◽

Metopolophium Dirhodum ◽

Gene Characterization ◽

Agricultural Regions ◽

Phloem Feeding ◽

Aphid Development

Xinjiang (XJ) and Ningxia (NX) provinces are important agricultural regions in western China. Aphids are one kind of the most devastating pests in both the provinces. Aphids are typical phloem-feeding insects distributed worldwide and can severely damage crops. In this study, two representative Metopolophium dirhodum (Walker) (Hemiptera: Aphididae) populations were collected from the typical agricultural regions of XJ and NX, respectively for a high-throughput transcriptome sequencing analysis. A total of 5,265 differentially expressed genes (DEGs) were identified. The functional annotation of DEGs and the identification of enriched pathways indicated many of the DEGs are involved in processes related to energy metabolism, development, and insecticide resistance. Furthermore, an investigation of insecticide toxicity revealed the NX population is more resistant to insecticide treatments than the XJ population. Thus, the transcriptome data generated in present study can be used for functional gene characterization relevant to aphid development, metabolism, environmental adaptation, and insecticide resistance.

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