Publications by authors named "Yuyan Sun"

23 Publications

  • Page 1 of 1

Vitamin C Inhibits the Metabolic Changes Induced by Tet1 Insufficiency Under High Fat Diet Stress.

Mol Nutr Food Res 2021 Jun 15:e2100417. Epub 2021 Jun 15.

Hubei Key Laboratory of Cell Homeostasis, College of Life Sciences, Wuhan University, Wuhan, 430072, China.

Scope: DNA methylation contributes to obesity, but the role of the DNA demethylase ten-eleven translocation protein 1 (Tet1) in obesity remains unclear. Vitamin C is a cofactor for the Tet family of proteins, but whether vitamin C can be used to treat obesity via Tet1 awaits clarification.

Methods And Results: Tet1 and Tet1 mice are fed a high fat diet (HFD). Higher weight gain and more severe hepatic steatosis, accompanied by reduced 5-hydromethylcytosine (5hmC) levels, are found in the white adipose tissue and liver of Tet1 mice. Accumulated lipids are observed in palmitic acid or oleic acid treated primary hepatocytes derived from Tet1 mice, which are rescued by Tet1 overexpression or vitamin C treatment. Bisulfite sequencing reveals higher DNA methylation levels on lipolysis related genes in the liver of Tet1 mice. Notably, oral intake of vitamin C normalizes DNA methylation levels, promotes lipolysis, and decreases obesity in HFD-fed Tet1 mice.

Conclusions: The results reveal a novel function of Tet1 in obesity and provide a new mechanism for the beneficial role of vitamin C in metabolic diseases through enhanced Tet1 activity.
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http://dx.doi.org/10.1002/mnfr.202100417DOI Listing
June 2021

The incessant increase curve during oral glucose tolerance tests in Chinese adults with type 2 diabetes and its association with gut hormone levels.

Peptides 2021 Jun 8;143:170595. Epub 2021 Jun 8.

Department of Endocrinology, Beijing Shijitan Hospital, Capital Medical University, Beijing, 100038, China.

Glucose curve shapes during oral glucose tolerance tests (OGTTs) are mainly classified as incessant increase, monophasic and biphasic. Youth with an incessant increase curve have worse β-cell function. The aim of this paper was to investigate the incessant increase curve in Chinese adults with type 2 diabetes (T2DM), and its association with β-cell function and gut hormone levels. Eighty-nine Chinese patients (59 males and 30 females) were included in this study with a mean age of 50.56 ± 16.00 years. They were all recently diagnosed with T2DM and underwent 180-min OGTTs. Data on demographics, β-cell function, and insulin sensitivity were also collected. Gut hormones, including glucagon-like peptide-1 (GLP-1), glucose-dependent insulinotropic polypeptide (GIP), and ghrelin, were also detected during the OGTT. A total of 39.3 % of subjects had an incessant increase in the glucose response curve, while 59.6 % had a monophasic curve. Because only one curve was classified as biphasic, patients with a biphasic curve were omitted from further research. Lower plasma C-peptide, HOMA2-β, area under the curve (AUC) of C-peptide, and ratio of AUC of insulin to AUC of glucose were found in patients with incessant increase curves compared to those with monophasic curves (P < 0.05). Higher glycated hemoglobin (HbA) was found in subjects with an incessant increase curve (P < 0.05). Importantly, fasting plasma ghrelin was lower and incremental ghrelin at 120 min was higher in the incessant increase group (P < 0.05), irrespective of age, sex, body mass index (BMI), fasting glucose, and fasting insulin. Time to peak is also a parameter of the OGTT curve shape. In the late-peak group, GLP-1 at 120 min and the AUC of GLP-1 were elevated compared with those in the early-peak group (P < 0.05). In Chinese adults with T2DM, the incessant increase in OGTT shape indicated impaired insulin secretion. Lower fasting ghrelin and absence of ghrelin drops after glucose load may be associated with the incessant increase OGTT shape. In addition, compensatory elevated GLP-1 dose not prevent peak delay in the OGTT curve. Gut hormones may have an effect on OGTT shapes in T2DM adults.
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http://dx.doi.org/10.1016/j.peptides.2021.170595DOI Listing
June 2021

Emotional State and Feedback-Related Negativity Induced by Positive, Negative, and Combined Reinforcement.

Front Psychol 2021 10;12:647263. Epub 2021 May 10.

MOE Key Laboratory of Modern Teaching Technology, Shaanxi Normal University, Xi'an, China.

Reinforcement learning relies on the reward prediction error (RPE) signals conveyed by the midbrain dopamine system. Previous studies showed that dopamine plays an important role in both positive and negative reinforcement. However, whether various reinforcement processes will induce distinct learning signals is still unclear. In a probabilistic learning task, we examined RPE signals in different reinforcement types using an electrophysiology index, namely, the feedback-related negativity (FRN). Ninety-four participants were randomly assigned into four groups: base (no money incentive), positive reinforcement (presentation of money rewards), negative reinforcement (removal of money losses), and combined reinforcement (money rewards and removal of money losses) groups. In addition, in order to evaluate the engagement of emotional activity in the different reinforcement processes, Positive and Negative Affect Schedule-Expanded Form (PANAS-X) scales were applied before and after the experiment to detect the emotional changes. The results showed that there was no difference between groups in the dopamine-related learning bias. However, compared to the other three groups, negative reinforcement elicited smaller FRN (the difference-wave measure) during the learning, stronger positive affect and joviality, and less fatigue after the learning, in which the difference between the negative and positive reinforcement groups was smaller. The results indicated that pure avoidance motivation may induce distinct emotional fluctuations, which influence the feedback processing.
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http://dx.doi.org/10.3389/fpsyg.2021.647263DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8141566PMC
May 2021

Role of LncRNA score and PVT1 in primary hyperparathyroidism-- a preliminary study.

J Otolaryngol Head Neck Surg 2021 Apr 28;50(1):30. Epub 2021 Apr 28.

Department of Endocrinology, Beijing Shijitan Hospital, Capital Medical University, No.10 Tieyi Road, Haidian District, Beijing, 100038, China.

Background: Dysregulated lncRNA score and PVT1 expression may be involved in cancer. However, relationships of lncRNAs with hyperparathyroidism and parathyroid cancer (PC) diagnosis remain mysterious.

Methods: Using quantitative real-time polymerase chain reaction (RT-qPCR), expression profile of PVT1 was evaluated in 57 patients with primary hyperparathyroidism, including 11 with parathyroid cancer (PC) and 46 with parathyroid adenoma (PA).

Results: Higher levels of lncRNA score and PVT1 expression were associated with increased serum calcium level after water ingestion and PC risk (P < 0.05). Accordingly, lncRNA score and PVT1 expression were increased with varying degrees of hypercalcemia in PC. A higher level of lncRNA score (but not PVT1) was an independent risk factor of PC, with an AUC up to 0.872 (95% CI: 0.756-0.945, P < 0.001). Moreover, lncRNA score was more valuable (with AUC 0.974, sensitivity of 85.71% and specificity of 100%, respectively) than intact parathyroid hormone (iPTH) in predicting risk of PC among patients with hypercalcemia (especially based on greater AUC, P = 0.010).

Conclusion: Increased lncRNA score is correlated with an elevated level of serum calcium, which may serve as a potential biomarker for PC diagnosis, especially with hypercalcemia.
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http://dx.doi.org/10.1186/s40463-021-00509-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8082613PMC
April 2021

A mutation in the intron splice acceptor site of a GA3ox gene confers dwarf architecture in watermelon (Citrullus lanatus L.).

Sci Rep 2020 09 10;10(1):14915. Epub 2020 Sep 10.

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China.

Dwarf architecture is an important trait associated with plant yield, lodging resistance and labor cost. Here, we aimed to identify a gene causing dwarfism in watermelon. The 'w106' (dwarf) and 'Charleston Gray' (vine) were used as parents to construct F and F progeny. Dwarf architecture of 'w106' was mainly caused by longitudinal cell length reduction and was controlled by a single recessive gene. Whole-genome sequencing of two parents and two bulk DNAs of F population localized this gene to a 2.63-Mb region on chromosome 9; this was further narrowed to a 541-kb region. Within this region, Cla015407, encoding a gibberellin 3β-hydroxylase (GA3ox), was the candidate gene. Cla015407 had a SNP mutation (G → A) in the splice acceptor site of the intron, leading to altered splicing event and generating two splicing isoforms in dwarf plants. One splicing isoform retained the intron sequences, while the other had a 13-bp deletion in the second exon of GA3ox transcript, both resulting in truncated proteins and loss of the functional Fe2OG dioxygenase domain in dwarf plants. RNA-Seq analysis indicated that expression of Cla015407 and other GA biosynthetic and metabolic genes were mostly up-regulated in the shoots of dwarf plants compared with vine plants in F population. Measurement of endogenous GA levels indicated that bioactive GA was significantly decreased in the shoots of dwarf plants. Moreover, the dwarf phenotype can be rescued by exogenous applications of GA or GA, with the latter having a more distinct effect than the former. Subcellular localization analyses of GA3ox proteins from two parents revealed their subcellular targeting in nucleus and cytosol. Here, a GA3ox gene controlling dwarf architecture was identified, and loss function of GA3ox leads to GA reduction and dwarfism phenotype in watermelon.
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http://dx.doi.org/10.1038/s41598-020-71861-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7483442PMC
September 2020

Disease Prevention Knowledge, Anxiety, and Professional Identity during COVID-19 Pandemic in Nursing Students in Zhengzhou, China.

J Korean Acad Nurs 2020 Aug;50(4):533-540

School of Nursing, Xinxiang Medical University, Xinxiang, China.

Purpose: This study aimed to evaluate nursing students' understanding of the prevention of COVID-19, as well as their anxiety towards the disease and their perception of their professional identity in the wake of the pandemic, in Zhengzhou, China.

Methods: A cross-sectional study was designed to investigate 474 nursing students by cluster sampling using a stratified questionnaire from February 15 to March 31, 2020. Multiple linear regression was used to identify the factors affecting professional identity. Binary and multiple logistic regression were used to identify the factors affecting anxiety.

Results: Responders with a high level of understanding of COVID-19 and frequent use of behavioral strategies for its prevention comprised 93.2% and 30.0% of the cohort, respectively. Professional identity was significantly associated with gender and anxiety ( < .050). The prevalence of anxiety among nursing students was 12.4%. Male (odds ratio [OR] = 2.39; 95% confidence interval [CI] = 1.26~4.52), sophomores (OR = 5.30; 95% CI = 1.61~7.45), and infrequent use of prevention measures (OR = 3.49; 95% CI = 1.16~5.19) had a significant effect on anxiety.

Conclusion: Anxiety during the COVID-19 epidemic gives an adverse effect on the professional identity of nursing in students. Nursing education institutions need to provide psychological counseling services for nursing students, in addition to improving their teaching of COVID-19 prevention strategies.
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http://dx.doi.org/10.4040/jkan.20125DOI Listing
August 2020

Genome-wide identification of long non-coding RNAs and circular RNAs reveal their ceRNA networks in response to cucumber green mottle mosaic virus infection in watermelon.

Arch Virol 2020 May 30;165(5):1177-1190. Epub 2020 Mar 30.

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China.

Long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) play vital roles in plant defense responses against viral infections. However, there is no systematic understanding of lncRNAs and circRNAs and their competing endogenous RNA (ceRNA) networks in watermelon under cucumber green mottle mosaic virus (CGMMV) stress. Here, we present the characterization and expression profiles of lncRNAs and circRNAs in watermelon leaves 48-h post-inoculation (48 hpi) with CGMMV, with mock inoculation as a control. Deep sequencing analysis revealed 2373 lncRNAs and 606 circRNAs in the two libraries. Among them, 67 lncRNAs (40 upregulated and 27 downregulated) and 548 circRNAs (277 upregulated and 271 downregulated) were differentially expressed (DE) in the 48 hpi library compared with the control library. Furthermore, 263 cis-acting matched lncRNA-mRNA pairs were detected for 49 of the DE-lncRNAs. KEGG pathway analysis of the cis target genes of the DE-lncRNAs revealed significant associations with phenylalanine metabolism, the citrate cycle (TCA cycle), and endocytosis. Additionally, 30 DE-lncRNAs were identified as putative target mimics of 33 microRNAs (miRNAs), and 153 DE-circRNAs were identified as putative target mimics of 88 miRNAs. Furthermore, ceRNA networks of lncRNA/circRNA-miRNA-mRNA in response to CGMMV infection are described, with 12 DE-lncRNAs and 65 DE-circRNAs combining with 22 miRNAs and competing for the miRNA binding sites on 29 mRNAs. The qRT-PCR validation of selected lncRNAs and circRNAs showed a general correlation with the high-throughput sequencing results. This study provides a valuable resource of lncRNAs and circRNAs involved in the response to CGMMV infection in watermelon.
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http://dx.doi.org/10.1007/s00705-020-04589-4DOI Listing
May 2020

Reduced pim-1 expression increases chemotherapeutic drug sensitivity in human androgen-independent prostate cancer cells by inducing apoptosis.

Exp Ther Med 2019 Oct 7;18(4):2731-2738. Epub 2019 Aug 7.

Department of Surgery of Chinese Medicine, Yangzhou Traditional Chinese Medicine Hospital Affiliated to Nanjing University of Chinese Medicine, Yangzhou, Jiangsu 225002, P.R. China.

Chemotherapeutic drug resistance is an obstacle for the successful therapy of prostate cancer. The aim of the present study was to identify the effects of proto-oncogene serine/threonine-protein kinase pim-1 (pim-1) in the proliferation of chemotherapeutic drug-resistant prostate cancer cells. Androgen-independent human prostate cancer cell lines PC3 and DU145 were used in the current study. Cisplatin-sensitive PC3 cells and cisplatin-resistant PC3/DDP cells were used in drug-resistance assays. The expression levels of pim-1, permeability glycoprotein (p-gp), caspase-3 and cleaved caspase-3 were determined using western blotting analysis; pim-1 was knocked down using pim-1-specific short hairpin RNA (shRNA); cell viability was determined using MTT assay and IC values of the chemotherapeutic drugs in human prostate cancer cells tested were calculated using GraphPad 5 software. Androgen-independent human prostate cancer cell lines PC3 and DU145 were transfected with pim-1-targeted or control shRNA, and MTT results revealed that pim-1 knockdown significantly inhibited PC3 and DU145 cell viability in a time-dependent manner (P<0.01). Cisplatin-resistant cells PC3/DDP exhibited higher levels of pim-1 and p-gp expression compared with cisplatin-sensitive PC3 cells; and pim-1 knockdown markedly increased chemotherapeutic drug sensitivity in PC3/DDP cells. In addition, pim-1 knockdown increased chemotherapeutic drug sensitivity in PC3/DDP cells. The molecular mechanism of drug sensitivity was discovered to be partly due to pim-1 knockdown, as it significantly increased apoptosis in cisplatin-resistant PC3/DDP cells. The present study may provide a new strategy for the therapy of prostate cancer.
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http://dx.doi.org/10.3892/etm.2019.7862DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6755443PMC
October 2019

DNA Methylation Analysis of the Response to Infection by Whole-Genome Bisulfite Sequencing.

Genes (Basel) 2019 05 7;10(5). Epub 2019 May 7.

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.

DNA methylation is an important epigenetic mark associated with plant immunity, butlittle is known about its roles in viral infection of watermelon. We carried out whole-genomebisulfite sequencing of watermelon leaves at 0 h (ck), 48 h, and 25 days post-inoculation with (CGMMV). The number of differentially methylated regions(DMRs) increased during CGMMV infection and 2788 DMR-associated genes (DMGs) werescreened out among three libraries. Most DMRs and DMGs were obtained under the CHH context.These DMGs were significantly enriched in the Kyoto Encyclopedia of Genes and Genomes (KEGG)pathways of secondary biosynthesis and metabolism, plant-pathogen interactions, Toll-likereceptor signaling, and ABC transporters. Additionally, DMGs encoding PR1a, CaMs, calciumbindingprotein, RIN4, BAK1, WRKYs, RBOHs, STKs, and RLPs/RLKs were involved in thewatermelon-CGMMV interaction and signaling. The association between DNA methylation andgene expression was analyzed by RNA-seq and no clear relationship was detected. Moreover,downregulation of genes in the RdDM pathway suggested the reduced RdDM-directed CHHmethylation plays an important role in antiviral defense in watermelon. Our findings providegenome-wide DNA methylation profiles of watermelon and will aid in revealing the molecularmechanism in response to CGMMV infection at the methylation level.
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http://dx.doi.org/10.3390/genes10050344DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6562589PMC
May 2019

Transcriptome analyses reveal key genes involved in skin color changes of 'Xinlimei' radish taproot.

Plant Physiol Biochem 2019 Jun 11;139:528-539. Epub 2019 Apr 11.

Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences; Key Laboratory of Biology and Genetic Improvement of Horticultural Crops, Ministry of Agriculture, Beijing, PR China. Electronic address:

The color of radish (Raphanus sativus) taproot skin is an important visual quality. 'Xinlimei' radish is a red-fleshed cultivar with skin that changes color from red to white and finally to green at the mature stage, and appearance quality is strongly affected if the red color does not fade completely on a single taproot or simultaneously among different taproots. In the present study, anthocyanin and chlorophyll contents and the transcriptome of radish taproot skin at three distinct coloration stages were analyzed to explore the mechanism of color changes. The results showed that decreased anthocyanin and increased chlorophyll contents correlated with the color-fading process. Kyoto Encyclopedia of Genes and Genomes enrichment analysis of differentially expressed genes indicated that anthocyanin and chlorophyll metabolism pathways play important roles in color changes. In red color-fading process, the expression levels of anthocyanin biosynthetic genes (except PAL and C4H), a transport gene (RsTT19), and two anthocyanin biosynthesis transcription factors (TFs), RsMYB1 and RsTT8, were significantly downregulated, whereas peroxidase-encoding genes were significantly upregulated. In the skin-greening process, expression of most chlorophyll biosynthetic genes and two TFs (RsGLK1 and RsGLK2) that likely positively regulate chlorophyll biosynthesis was significantly upregulated. Thus, changes in the expression of these genes may be responsible for the color changes that occur in 'Xinlimei' taproot skin. This is the first report on the roles of chlorophyll metabolism genes and their dynamic relationship with anthocyanin metabolism genes in radish. The findings provide valuable information and theoretical guidelines for improving the appearance quality of 'Xinlimei' radish taproots.
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http://dx.doi.org/10.1016/j.plaphy.2019.04.006DOI Listing
June 2019

Transcriptome Analysis of Watermelon Leaves Reveals Candidate Genes Responsive to Infection.

Int J Mol Sci 2019 Jan 31;20(3). Epub 2019 Jan 31.

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China.

(CGMMV) is a member of the genus , which cause diseases in cucurbits, especially watermelon. In watermelon, symptoms develop on the whole plant, including leaves, stems, peduncles, and fruit. To better understand the molecular mechanisms of watermelon early responses to CGMMV infection, a comparative transcriptome analysis of 24 h CGMMV-infected and mock-inoculated watermelon leaves was performed. A total of 1641 differently expressed genes (DEGs) were identified, with 886 DEGs upregulated and 755 DEGs downregulated after CGMMV infection. A functional analysis indicated that the DEGs were involved in photosynthesis, plant⁻pathogen interactions, secondary metabolism, and plant hormone signal transduction. In addition, a few transcription factor families, including WRKY, MYB, HLH, bZIP and NAC, were responsive to the CGMMV-induced stress. To confirm the high-throughput sequencing results, 15 DEGs were validated by qRT-PCR analysis. The results provide insights into the identification of candidate genes or pathways involved in the responses of watermelon leaves to CGMMV infection.
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http://dx.doi.org/10.3390/ijms20030610DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6387395PMC
January 2019

Genome-Wide Analysis of Watermelon HSP20s and Their Expression Profiles and Subcellular Locations under Stresses.

Int J Mol Sci 2018 Dec 20;20(1). Epub 2018 Dec 20.

Zhejiang Academy of Agricultural Sciences, Institute of Vegetables, Hangzhou 310021, China.

Watermelon ( L.), which is an economically important cucurbit crop that is cultivated worldwide, is vulnerable to various adverse environmental conditions. Small heat shock protein 20s (HSP20s) are the most abundant plant HSPs and they play important roles in various biotic and abiotic stress responses. However, they have not been systematically investigated in watermelon. In this study, we identified 44 watermelon genes and analyzed their gene structures, conserved domains, phylogenetic relationships, chromosomal distributions, and expression profiles. All of the watermelon HSP20 proteins have a conserved the α-crystallin (ACD) domain. Half of the arose through gene duplication events. Plant HSP20s were grouped into 18 subfamiles and a new subfamily, nucleo-cytoplasmic XIII (CXIII), was identified in this study. Numerous stress- and hormone-responsive -elements were detected in the putative promoter regions of the watermelon genes. Different from that in other species, half of the watermelon were repressed by heat stress. Plant displayed diverse responses to different virus infections and most of the were generally repressed by (CGMMV). Some exhibited similar transcriptional responses to abscisic acid, melatonin, and CGMMV. Subcellular localization analyses of six selected HSP20- green fluorescence protein fusion proteins revealed diverse subcellular targeting. Some ClHSP20 proteins were affected by CGMMV, as reflected by changes in the size, number, and distribution of fluorescent granules. These systematic analyses provide a foundation for elucidating the physiological functions and biological roles of the watermelon HSP20 gene family.
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http://dx.doi.org/10.3390/ijms20010012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6337729PMC
December 2018

Enhanced Resistance of Triploid Crucian Carp to Cadmiuminduced Oxidative and Endoplasmic Reticulum Stresses.

Curr Mol Med 2018 ;18(6):400-408

State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Normal University, Changsha, 410081, Hunan, China.

Background: Cadmium is a major heavy metal pollutant. Even at low concentrations in waste water Cadmium can accumulate in algae and sediments, and it is absorbed by both plants and aquatic animals, like shellfish and fish. Triploid crucian carp is an important economic fish, and have been farmed on a large scale in China.

Objective: to explore the molecular mechanisms underlying Cadmium stress of triploid crucian carp.

Method: we applied following experimental method to conduct research: transcriptomes analysis, histological observation, Quantitative real-time PCR and enzyme activity analysis et al. Results: in the present study, we obtained following important results: 1) Under Cd stress, the mortality and abnormality rates in triploid crucian carp were lower than those of diploid strains and the effects of Cadmium treatment on the liver were revealed by histological observation; 2) the liver transcriptomes of triploid crucian carp were obtained and the data was analyzed; 3) 14 genes related to algae and sediments stress were screened from transcriptome data, and the expression of these genes was verified by Quantitative real-time PCR. The results were consistent with the gene results in transcriptome data; 4) Quantitative real-time PCR and enzyme activity analysis all confirmed triploid crucian carp resistance to Cadmium stress was regulated by both oxidative stress and ER stress responses; 5) We found that IRE-1 and PERK, not ATF- 6, were involved in the enhance Cadmium resistance of triploid crucian carp.

Conclusion: these studies demonstrate that triploid crucian carp have strong resistance to Cadmium.
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http://dx.doi.org/10.2174/1566524018666181113105018DOI Listing
September 2019

Transcription factor 7 functions as an unfavorable prognostic marker of glioblastoma multiforme by promoting proliferation by upregulating c-Myc.

Neuroreport 2018 06;29(9):745-752

Department of Clinical Laboratory Science, School of Laboratory Medicine, Chengdu Medical College, Chengdu, China.

Transcription factor 7 (TCF7) is an oncogenic transcription factor in several kinds of cancers. However, the clinical significance of TCF7 in glioblastoma multiforme (GBM) has not been well elucidated. A total of 107 patients with surgical resection of GBM were enrolled in our study. TCF7 expression in these cases was detected by immunohistochemistry and the difference in TCF7 mRNA levels between tumor tissues and adjacent tissues was compared with a real-time PCR. The correlation between TCF7 expression and the clinicopathologic factors was analyzed using the χ-test. Moreover, the prognostic value of TCF7 was evaluated by univariate and multivariate analyses. In addition, the influence of TCF7 on the proliferation of the GBM cell line U251 was detected using an MTT assay after regulating TCF7 and its target gene c-Myc. The high and low expressions of TCF7 accounted for 54.21 and 45.79%, respectively, in all cases. The mRNA level of TCF7 in GBM tissues was markedly higher than that in adjacent tissues, indicating the oncogenic role of TCF7 in GBM. High expression of TCF7 was associated significantly with high Ki67 percentage and the sex of the patients, and it was identified as an independent prognostic factor for patients with GBM. With experiments in vitro, TCF7 was shown to promote cell proliferation by increasing c-Myc expression in GBM. TCF7 could be considered an independent prognostic factor in GBM, and could enhance GBM cell proliferation by upregulating c-Myc, indicating that it may be a potential and promising molecular drug target for GBM.
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http://dx.doi.org/10.1097/WNR.0000000000001026DOI Listing
June 2018

Identification of 'Xinlimei' radish candidate genes associated with anthocyanin biosynthesis based on a transcriptome analysis.

Gene 2018 May 6;657:81-91. Epub 2018 Mar 6.

Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China. Electronic address:

Radish is an economically important vegetable crop belonging to the family Brassicaceae. The high anthocyanin content of the 'Xinlimei' radish roots has been associated with diverse health benefits. However, there is a lack of transcript-level information regarding anthocyanin biosynthesis. In the present study, the 'Xinlimei' radish root transcriptome was analyzed by RNA sequencing at five developmental stages. A total of 222,384,034 clean reads were obtained and 32,253 unigenes were annotated. Expression profiles revealed 10,890 differentially expressed genes (DEGs) among the five analyzed libraries. The DEGs were predominantly involved in KEGG pathways related to the biosynthesis of phenylpropanoids, flavonoids, flavone, and flavonol. The transcriptome data revealed 44 structural and 182 transcription factor genes (TFs) associated with the anthocyanin biosynthetic pathway. Ten structural genes (i.e., 4CL3, CHSB2, CHS1, CHS3, F3H1, F3'H, DFR, DFR1, ANS, and UFGT) and two MYB genes, which were highly and differentially expressed during root development, may be critical for anthocyanin biosynthesis. Additionally, the co-expression of TFs and structural genes was analyzed. Three structural genes (i.e., DFR, ANS, and UFGT) were validated by molecular cloning. The qRT-PCR results indicated that the expression profiles of DEGs were generally consistent with the high-throughput sequencing results. These findings helped identify candidate genes involved in anthocyanin biosynthesis and may be useful for clarifying the molecular mechanism underlying the accumulation of anthocyanins in radish roots.
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http://dx.doi.org/10.1016/j.gene.2018.03.001DOI Listing
May 2018

Exploration of the molecular mechanism of prostate cancer based on mRNA and miRNA expression profiles.

Onco Targets Ther 2017 29;10:3225-3232. Epub 2017 Jun 29.

Surgery of Chinese Medicine, Yangzhou TCM Hospital, Nanjing University of Chinese Medicine, Yangzhou, People's Republic of China.

Prostate cancer, the second most common cancer in men, has been rarely explored by integrating mRNA and miRNA expression profiles. In this study, we combined two mRNA expression datasets and six documented miRNAs to uncover the comprehensive molecular mechanism of prostate cancer. Results showed that a total of 30 genes were significantly differentially expressed in 49 tumor samples by comparing with 22 normal samples. Importantly, all samples from the two datasets can be clearly classified into two groups, tumor group and normal group, based on the selected differentially expressed genes (DEGs). The miRNA-mRNA regulation network indicated that 4 out of 30 DEGs can be regulated by three miRNAs. In addition, prognostic performance validation using in silico databases showed that the DEGs can significantly differentiate between low-risk and high-risk prostate cancer. In summary, multiple biological processes are probably involved in the development and progression of prostate cancer. First, dysregulation of SV2 can regulate transporter and transmembrane transporter activity and then provide the necessary nutrients for tumor cell proliferation. Second, HOXD10 can induce cell proliferation via TCF-4. Finally, dysregulation of CACNA1D can further suppress tumor apoptosis in prostate cancer. The identification of critical genes and valuable biological processes can be useful for the understanding of the molecular mechanism of prostate cancer.
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http://dx.doi.org/10.2147/OTT.S135764DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5499856PMC
June 2017

Genome-wide identification of cucumber green mottle mosaic virus-responsive microRNAs in watermelon.

Arch Virol 2017 Sep 9;162(9):2591-2602. Epub 2017 May 9.

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, People's Republic of China.

Cucumber green mottle mosaic virus (CGMMV) is a damaging pathogen that attacks crop plants belonging to the family Cucurbitaceae. Little is known about the regulatory role of microRNAs (miRNAs) in response to CGMMV infection. To identify CGMMV-responsive miRNAs, two sRNA libraries from mock-inoculated and CGMMV-infected watermelon leaves were constructed and sequenced using Solexa sequencing technology. In total, 471 previously known and 1,809 novel miRNAs were obtained, of which 377 known and 246 novel miRNAs were found to be differentially expressed during CGMMV infection. The target genes for the CGMMV-responsive known miRNAs are active in diverse biological processes, including cell wall modulation, plant hormone signaling, defense-related protein induction, primary and secondary metabolism, regulation of virus replication, and intracellular transport. The expression patterns of some CGMMV-responsive miRNAs and their corresponding targets were confirmed by RT-qPCR. One target gene for miR156a-5p was verified by 5'-RNA-ligase-mediated rapid amplification of cDNA ends (5'-RLM-RACE) analysis. The results of this study provide further insights into the miRNA-mediated regulatory network involved in the response to viral infection in watermelon and other cucurbit crops.
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http://dx.doi.org/10.1007/s00705-017-3401-6DOI Listing
September 2017

Real-time eutrophication status evaluation of coastal waters using support vector machine with grid search algorithm.

Mar Pollut Bull 2017 Jun 23;119(1):307-319. Epub 2017 Apr 23.

Key Laboratory of Marine Chemistry Theory and Technology, Ministry of Education Ocean University of China, Qingdao 266100, China.

The development of techniques for real-time monitoring of the eutrophication status of coastal waters is of great importance for realizing potential cost savings in coastal monitoring programs and providing timely advice for marine health management. In this study, a GS optimized SVM was proposed to model relationships between 6 easily measured parameters (DO, Chl-a, C1, C2, C3 and C4) and the TRIX index for rapidly assessing marine eutrophication states of coastal waters. The good predictive performance of the developed method was indicated by the R between the measured and predicted values (0.92 for the training dataset and 0.91 for the validation dataset) at a 95% confidence level. The classification accuracy of the eutrophication status was 86.5% for the training dataset and 85.6% for the validation dataset. The results indicated that it is feasible to develop an SVM technique for timely evaluation of the eutrophication status by easily measured parameters.
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http://dx.doi.org/10.1016/j.marpolbul.2017.04.022DOI Listing
June 2017

Identification of anthocyanin biosynthesis related microRNAs in a distinctive Chinese radish (Raphanus sativus L.) by high-throughput sequencing.

Mol Genet Genomics 2017 Feb 5;292(1):215-229. Epub 2016 Nov 5.

Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.

Anthocyanins are widely distributed water-soluble phytochemical pigments belonging to the flavonoid group. To date, limited knowledge is available about the regulatory roles of miRNAs in anthocyanin biosynthesis in plants. To identify the miRNAs associated with anthocyanin biosynthesis in radish, five small RNA (sRNA) libraries constructed from 'Xinlimei' radish roots at 11, 21, 44, 56 and 73 days (d) were examined using high-throughput sequencing technology. A total of 102.02 million (M) clean reads were generated, from which 483 known and 1415 novel miRNAs were identified. Combined with target prediction and annotation, 72 differentially expressed miRNAs (52 known and 20 novel miRNAs) were more likely to participate in anthocyanin biosynthesis. Several target genes for these miRNAs encode a few transcription factors, including Myb domain (MYB), basic helix-loop-helix (bHLH), WD40 repeat, squamosa promoter binding protein like (SPL), auxin response factor (ARF), ethylene insensitive 3 (EIN3), WRKY and MADS-box proteins. Furthermore, the expression patterns of some anthocyanin biosynthesis related miRNAs and their corresponding targets were validated by RT-qPCR. Based on the characterization of anthocyanin biosynthesis related miRNAs and their target genes, a putative miRNA-target module regulating anthocyanin biosynthesis was proposed. This study represents the first genome-wide identification of miRNAs associated with anthocyanin biosynthesis in radish, and provides insights into the molecular mechanisms underlying regulation of anthocyanin biosynthesis in radish and other crops.
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http://dx.doi.org/10.1007/s00438-016-1268-yDOI Listing
February 2017

Expression of ADP-ribosyltransferase 1 Is Associated with Poor Prognosis of Glioma Patients.

Tohoku J Exp Med 2016 08;239(4):269-78

Department of Neurology, Yidu Central Hospital of Weifang.

Glioma has a poor prognosis due to its rapid overgrowth, diffuse invasion, and chemotherapy resistance. The improvements in clinical outcome are still limited and the identification of novel biomarkers involved in the progression of gliomas is still under critical demands. Amino acid ADP-ribosyltransferase 1 (ART1) is an enzyme that catalyzes the mono-ADP-ribosylation, a reversible post-translational modification. For example, the mono-ADP-ribosylation of transcription factors can affect their binding to target gene promoters. However, the functional significance of ART1 in glioma has not been reported. We collected 107 glioma cases from Qianfoshan Hospital and Yidu Central Hospital of Weifang between April 2008 and September 2015 to analyze the prognosis value of ART1 in gliomas. RT-qPCR analysis showed that the expression level of ART1 mRNA in glioma tissues was 4-fold higher than that in normal brain tissues. According to the immunohistochemical staining results, 44 patients (41.1%) were categorized as ART1 positive (≥ 20% of stained glioma cells), while the other 63 patients (58.9%) categorized as ART1 negative (< 20% of stained glioma cells). Moreover, the mean percentage of ART1-positive cells was 43.7%, 53.6% and 64.2% in WHO grade II, III and IV specimens, respectively. Through univariate and multivariate analyses, we identified ART1 as an independent prognostic factor. We also found that ART1 overexpression in U251 glioblastoma cells could significantly decrease the susceptibility to vincristine, one of tubulin-targeted drugs, which is widely used in clinical treatment for glioma. Taken together, we propose that up-regulation of ART1 expression is associated with the aggressiveness of glioma.
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http://dx.doi.org/10.1620/tjem.239.269DOI Listing
August 2016

The FonSIX6 gene acts as an avirulence effector in the Fusarium oxysporum f. sp. niveum - watermelon pathosystem.

Sci Rep 2016 06 20;6:28146. Epub 2016 Jun 20.

Zhejiang Academy of Agricultural Sciences, Institute of Vegetables, Hangzhou, Zhejiang 310021, China.

When infecting a host plant, the fungus Fusarium oxysporum secretes several effector proteins into the xylem tissue to promote virulence. However, in a host plant with an innate immune system involving analogous resistance proteins, the fungus effector proteins may trigger resistance, rather than promoting virulence. Identity of the effector genes of Fusarium oxysporum f. sp. niveum (Fon) races that affect watermelon (Citrullus lanatus) are currently unknown. In this study, the SIX6 (secreted in xylem protein 6) gene was identified in Fon races 0 and 1 but not in the more virulent Fon race 2. Disrupting the FonSIX6 gene in Fon race 1 did not affect the sporulation or growth rate of the fungus but significantly enhanced Fon virulence in watermelon, suggesting that the mutant ΔFon1SIX6 protein allowed evasion of R protein-mediated host resistance. Complementation of the wild-type race 2 (which lacks FonSIX6) with FonSIX6 reduced its virulence. These results provide evidence supporting the hypothesis that FonSIX6 is an avirulence gene. The identification of FonSix6 as an avirulence factor may be a first step in understanding the mechanisms of Fon virulence and resistance in watermelon and further elucidating the role of Six6 in Fusarium-plant interactions.
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http://dx.doi.org/10.1038/srep28146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4913299PMC
June 2016

Genome-wide identification of microRNAs associated with taproot development in radish (Raphanus sativus L.).

Gene 2015 Sep 23;569(1):118-26. Epub 2015 May 23.

Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China; Beijing Research Station of Vegetable Crop Gene Resource and Germplasm Enhancement, Ministry of Agriculture, Beijing 100081, China. Electronic address:

MicroRNAs (miRNAs) are small, endogenous, non-coding RNAs that play vital regulatory roles in plant growth and development. To identify the miRNAs associated with taproot development at the whole genome level, we sequenced five RNA libraries constructed from radish taproots at different developmental stages and generated a total of 148M clean reads. Using an integrative bioinformatics analysis, 494 known miRNAs belonging to 434 families and 220 putative novel miRNAs were identified. Combining the differential expression analysis and target prediction, we found that 77 miRNAs were potentially associated with taproot development. Target transcripts generated significant GO terms relating to cell proliferation, root development and hormone-mediated signaling. The KEGG analyses revealed that plant hormone signal transduction, zeatin biosynthesis, biosynthesis of secondary metabolites, cell cycle, MAPK signaling and p53 signaling were closely associated with taproot development. These findings will provide valuable information for further functional verification of miRNAs and their targets in radish taproot development.
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http://dx.doi.org/10.1016/j.gene.2015.05.044DOI Listing
September 2015

Fine mapping of the Ph-3 gene conferring resistance to late blight (Phytophthora infestans) in tomato.

Theor Appl Genet 2013 Oct 7;126(10):2643-53. Epub 2013 Aug 7.

The Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Zhongguancunnandajie 12, Beijing, 100081, People's Republic of China.

Late blight, caused by the oomycete pathogen Phytophthora infestans (Mont.) de Bary, is a devastating disease for tomato and potato crops. In the past decades, many late blight resistance (R) genes have been characterized in potato. In contrast, less work has been conducted on tomato. The Ph-3 gene from Solanum pimpinellifolium was introgressed into cultivated tomatoes and conferred broad-spectrum resistance to P. infestans. It was previously assigned to the long arm of chromosome 9. In this study, a high-resolution genetic map covering the Ph-3 locus was constructed using an F2 population of a cross between Solanum lycopersicum CLN2037B (containing Ph-3) and S. lycopersicum LA4084. Ph-3 was mapped in a 0.5 cM interval between two markers, Indel_3 and P55. Eight putative genes were found in the corresponding 74 kb region of the tomato Heinz1706 reference genome. Four of these genes are resistance gene analogs (RGAs) with a typical nucleotide-binding adaptor shared by APAF-1, R proteins, and CED-4 domain. Each RGA showed high homology to the late blight R gene Rpi-vnt1.1 from Solanum venturii. Transient gene silencing indicated that a member of this RGA family is required for Ph-3-mediated resistance to late blight in tomato. Furthermore, this RGA family was also found in the potato genome, but the number of the RGAs was higher than in tomato.
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http://dx.doi.org/10.1007/s00122-013-2162-1DOI Listing
October 2013
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