scholarly journals Global transcriptome changes of elongating internode of sugarcane in response to mepiquat chloride

2020 ◽  
Author(s):  
Rongfa Chen ◽  
Yegeng Fan ◽  
Huiwen Zhou ◽  
Shanping Mo ◽  
Zhongfeng Zhou ◽  
...  
Keyword(s):  
Transcriptome Profiling ◽  
Gibberellin Biosynthesis ◽  
Rna Seq ◽  
Control Groups ◽  
Illumina Hiseq ◽  
Mepiquat Chloride ◽  
System A ◽  
Internode Growth ◽  
And Control

Abstract Background: Mepiquat chloride (DPC) is an extensively used chemical to control internode growth and compact canopies in cultured plants. Previous studies suggested that DPC could inhibit gibberellin biosynthesis in sugarcane. Unfortunately, the molecular mechanism underlying the suppressive effects of DPC on plant growth is still largely unknown. Results: In the present study, we first obtained the high-quality long transcripts from internode of sugarcane by PacBio Sequel System. A total of 72,671 isoforms with N50 as 3,073 were generated. These long isoforms were used for the following RNA-seq as reference. Subsequently, short reads generated from Illumina Hiseq 4000 platform were used for comparing the differentially expressed genes in DPC and control groups. The transcriptome profiling showed the 6 days post DPC treatment had the most significant changed genes. These genes were related to plant hormone signal transduction and biosynthesis of several metabolites, indicating DPC affected multiple pathways beside depressed gibberellin biosynthesis. The network of DPC on the key stage was illustrated by weighted gene co-expression network analysis (WGCNA). Among the constructed 36 modules, the top positive correlated module with stage of 6 day post spraying DPC was sienna3. Stf0 sulphotransferase, cyclin-like F-box and HOX12 were the hub genes in sienna3 that had high correlation with other genes in this module. The qPCR demonstrated the high accuracy of RNA-seq result. Conclusion: Taken together, we demonstrated the key role of these genes in DPC-induced growth inhibition in sugarcane.

scholarly journals Global Transcriptome Changes of Elongating Internode of Sugarcane in Response to Mepiquat Chloride

2020 ◽  
Author(s):  
Rongfa Chen ◽  
Yegeng Fan ◽  
Huiwen Zhou ◽  
Shanping Mo ◽  
Zhongfeng Zhou ◽  
...  
Keyword(s):  
Transcriptome Profiling ◽  
Gibberellin Biosynthesis ◽  
Rna Seq ◽  
Control Groups ◽  
Illumina Hiseq ◽  
Mepiquat Chloride ◽  
System A ◽  
Internode Growth ◽  
And Control

Abstract Background: Mepiquat chloride (DPC) is an extensively used chemical to control internode growth and compact canopies in cultured plants. Previous studies suggested that DPC could inhibit gibberellin biosynthesis in sugarcane. Unfortunately, the molecular mechanism underlying the suppressive effects of DPC on plant growth is still largely unknown. Results: In the present study, we first obtained the high-quality long transcripts from internode of sugarcane by PacBio Sequel System. A total of 72,671 isoforms with N50 as 3,073 were generated. These long isoforms were used for the following RNA-seq as reference. Subsequently, short reads generated from Illumina Hiseq 4000 platform were used for comparing the differentially expressed genes in DPC and control groups. The transcriptome profiling showed the 6 days post DPC treatment had the most significant changed genes. These genes were related to plant hormone signal transduction and biosynthesis of several metabolites, indicating DPC affected multiple pathways beside depressed gibberellin biosynthesis. The network of DPC on the key stage was illustrated by weighted gene co-expression network analysis (WGCNA). Among the constructed 36 modules, the top positive correlated module with stage of 6 day post spraying DPC was sienna3. Stf0 sulphotransferase, cyclin-like F-box and HOX12 were the hub genes in sienna3 that had high correlation with other genes in this module. The qPCR demonstrated the high accuracy of RNA-seq result. Conclusion: Taken together, we demonstrated the key role of these genes in DPC-induced growth inhibition in sugarcane.

scholarly journals Global transcriptome changes of elongating internode of sugarcane in response to mepiquat chloride

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Rongfa Chen ◽  
Yegeng Fan ◽  
Huiwen Zhou ◽  
Shanping Mo ◽  
Zhongfeng Zhou ◽  
...  
Keyword(s):  
Transcriptome Profiling ◽  
Gibberellin Biosynthesis ◽  
Rna Seq ◽  
Control Groups ◽  
Illumina Hiseq ◽  
Mepiquat Chloride ◽  
System A ◽  
Significant Gene ◽  
Internode Growth

Abstract Background Mepiquat chloride (DPC) is a chemical that is extensively used to control internode growth and create compact canopies in cultured plants. Previous studies have suggested that DPC could also inhibit gibberellin biosynthesis in sugarcane. Unfortunately, the molecular mechanism underlying the suppressive effects of DPC on plant growth is still largely unknown. Results In the present study, we first obtained high-quality long transcripts from the internodes of sugarcane using the PacBio Sequel System. A total of 72,671 isoforms, with N50 at 3073, were generated. These long isoforms were used as a reference for the subsequent RNA-seq. Afterwards, short reads generated from the Illumina HiSeq 4000 platform were used to compare the differentially expressed genes in both the DPC and the control groups. Transcriptome profiling showed that most significant gene changes occurred after six days post DPC treatment. These genes were related to plant hormone signal transduction and biosynthesis of several metabolites, indicating that DPC affected multiple pathways, in addition to suppressing gibberellin biosynthesis. The network of DPC on the key stage was illustrated by weighted gene co-expression network analysis (WGCNA). Among the 36 constructed modules, the top positive correlated module, at the stage of six days post spraying DPC, was sienna3. Notably, Stf0 sulfotransferase, cyclin-like F-box, and HOX12 were the hub genes in sienna3 that had high correlation with other genes in this module. Furthermore, the qPCR validated the high accuracy of the RNA-seq results. Conclusion Taken together, we have demonstrated the key role of these genes in DPC-induced growth inhibition in sugarcane.

scholarly journals DIAPH2, PTPRD and HIC1 Gene Polymorphisms and Laryngeal Cancer Risk

2021 ◽  
Vol 18 (14) ◽  
pp. 7486
Author(s):  
Mirosław Śnit ◽  
Maciej Misiołek ◽  
Wojciech Ścierski ◽  
Anna Koniewska ◽  
Grażyna Stryjewska-Makuch ◽  
...  
Keyword(s):  
Cancer Risk ◽  
Laryngeal Cancer ◽  
Basic Research ◽  
Control Groups ◽  
Allele Distribution ◽  
Study Results ◽  
Risk Patients ◽  
And Control ◽  
The Relationship

AIM, DIAPH2, PTPRD and HIC1 are the cell glycoprotein, which play an important role in the occurrence and development of tumors. This study was designed to assess the association between DIAPH2, PTPRD and HIC1 SNPs and laryngeal cancer risk. PATIENTS AND METHODS: This study including 267 patients with histologically confirmed laryngeal cancer and 157 controls. The relationship between genetic variations DIAPH2 (rs6620138), PTPRD (rs3765142) and HIC1 (rs9901806) and the onset of laryngeal cancer were investigated. Statistical analysis to calculate the relationship between DIAPH2, PTPRD and HIC1 genes polymorphism and pathogenesis of laryngeal cancer. RESULTS: The results showed that rs6620138 DIAPH2 polymorphism could increase the onset risk of laryngeal cancer. Statistically significant differences in allele distribution of rs6620138 DIAPH2 and rs9901806 HIC1 in the case and control groups subgroups. CONCLUSIONS: This study results suggested that genetic variation of rs6620138 DIAPH2 polymorphism is related to the susceptibility to laryngeal cancer. Our results provide a basis to begin basic research on the role of DIAPH2 gene in the pathogenesis of laryngeal cancer.

scholarly journals Dual Role of Integrin Alpha-6 in Glioblastoma: Supporting Stemness in Proneural Stem-Like Cells While Inducing Radioresistance in Mesenchymal Stem-Like Cells

Cancers ◽  
2021 ◽  
Vol 13 (12) ◽  
pp. 3055
Author(s):  
Elisabetta Stanzani ◽  
Leire Pedrosa ◽  
Guillaume Bourmeau ◽  
Oceane Anezo ◽  
Aleix Noguera-Castells ◽  
...  
Keyword(s):  
Cellular Heterogeneity ◽  
In Vitro Assays ◽  
Rna Seq ◽  
Promising Target ◽  
Damage Response ◽  
Integrin Alpha 6 ◽  
And Control ◽  
Improve Patient

Therapeutic resistance after multimodal therapy is the most relevant cause of glioblastoma (GBM) recurrence. Extensive cellular heterogeneity, mainly driven by the presence of GBM stem-like cells (GSCs), strongly correlates with patients’ prognosis and limited response to therapies. Defining the mechanisms that drive stemness and control responsiveness to therapy in a GSC-specific manner is therefore essential. Here we investigated the role of integrin a6 (ITGA6) in controlling stemness and resistance to radiotherapy in proneural and mesenchymal GSCs subtypes. Using cell sorting, gene silencing, RNA-Seq, and in vitro assays, we verified that ITGA6 expression seems crucial for proliferation and stemness of proneural GSCs, while it appears not to be relevant in mesenchymal GSCs under basal conditions. However, when challenged with a fractionated protocol of radiation therapy, comparable to that used in the clinical setting, mesenchymal GSCs were dependent on integrin a6 for survival. Specifically, GSCs with reduced levels of ITGA6 displayed a clear reduction of DNA damage response and perturbation of cell cycle pathways. These data indicate that ITGA6 inhibition is able to overcome the radioresistance of mesenchymal GSCs, while it reduces proliferation and stemness in proneural GSCs. Therefore, integrin a6 controls crucial characteristics across GBM subtypes in GBM heterogeneous biology and thus may represent a promising target to improve patient outcomes.

THE ROLE OF WHATSAPP IN TEACHING VOCABULARY TO THE STAFFS OF UMBUL PONGGOK KLATEN

2021 ◽  
Vol 5 (2) ◽  
pp. 773
Author(s):  
Lia Ardiana Safitri
Keyword(s):  
Experimental Design ◽  
Foreign Language ◽  
Random Sampling ◽  
Sampling Procedure ◽  
Assessment Instrument ◽  
Vocabulary Test ◽  
Control Groups ◽  
Post Test ◽  
And Control

This study was conducted with the aim of knowing the significant role of WhatsApp in teaching vocabulary, especially staff learning achievement which was limited to vocabulary achievement as measured by a vocabulary test at Umbul Ponggok Klaten. Participants in this study amounted to 30 people consisting of 15 men and 15 women. All participants will learn English as a foreign language using WhatsApp to learn new vocabulary items via their mobile, tablet or laptop. Participants' English level will be measured. Random sampling procedure was carried out. To carry out the research, a true experimental design was used. The participants were assigned to two experimental and control groups. The assessment instrument in this study used a pre-test and post-test. The results showed that the use of the WhatsApp application in teaching vocabulary to the Umbul Ponggok Klaten staff was able to improve the achievement of new English vocabulary mastery of the Umbul Ponggok Klaten staff which was getting better.

scholarly journals Clinical Impact of Estradiol/Testosterone Ratio in Patients with Acute Ischemic Stroke

2020 ◽  
Author(s):  
Jung-Won Choi ◽  
In Woo Ryoo ◽  
Jun Yeong Hong ◽  
Kyung-Yul Lee ◽  
Hyo Suk Nam ◽  
...  
Keyword(s):  
Ischemic Stroke ◽  
Acute Ischemic Stroke ◽  
Sex Hormones ◽  
Control Group ◽  
Control Groups ◽  
Sexual Hormones ◽  
Stroke Group ◽  
Male Patients ◽  
And Control

Abstract Background: Sex hormones may be associated with a higher incidence of ischemic stroke or stroke-related events. In observational studies, lower testosterone concentrations are associated with infirmity, vascular disease, and adverse cardiovascular risk factors. Currently, female sexual hormones are considered neuroprotective agents. The purpose of this study was to assess the role of sex hormones and the ratio of estradiol/testosterone (E/T) in patients with acute ischemic stroke (AIS).Methods: Between January 2011 and December 2016, 146 male patients with AIS and 152 age- and sex-matched control subjects were included in this study. Sex hormones, including estradiol, progesterone, and testosterone, were evaluated in the AIS patient and control groups. We analyzed the clinical and physiological levels of sex hormones and hormone ratios in these patients.Results: The E/T ratio was significantly elevated among patients in the stroke group compared to those in the control group (P = 0.001). Categorization of data into tertiles revealed that patients with the highest E/T ratio were more likely to have AIS [odds ratio (OR) 3.084; 95% Confidence interval (CI): 1.616-5.886; P < 0.001) compared with those in the first tertile. The E/T ratio was also an independent unfavorable outcome predictor with an adjusted OR of 1.167 (95% CI: 1.053-1.294; P = 0.003).Conclusions: These findings support the hypothesis that increased estradiol and reduced testosterone levels are associated with AIS in men.

Investigating ADAMTS7 and ADAMTS12 levels in prediabetic and Type 2 diabetic patients

2021 ◽  
Author(s):  
Mercan Taştemur ◽  
Selvihan Beysel ◽  
Sema Hepşen ◽  
Sanem Öztekin ◽  
Erman Çakal ◽  
...  
Keyword(s):  
Inflammatory Markers ◽  
Diabetic Patients ◽  
Control Groups ◽  
Type 2 Diabetic Patients ◽  
Human Enzyme ◽  
Significant Difference ◽  
And Control ◽  
Type 2 Diabetic

Background: This study aims to investigate the role of ADAMTS7 and ADAMTS12 on atherosclerosis and inflammation in prediabetic and diabetic patients. Patients & methods: Serum ADAMTS7 and ADAMTS12 levels were compared with the atherosclerotic and inflammatory markers in diabetic (n = 65, female 30.9%, mean age = 53 years), prediabetic (n = 55, female 36.6%, mean age = 49 years) and control groups (n = 55, females 32.5%, mean age = 49 years). Serum ADAMTS levels were determined by a human enzyme-liked immunoassay. Results: In terms of ADAMTS7, there was no significant difference between diabetic, prediabetic and control groups (50.93, 44.34, 59.07, respectively; p > 0.05). ADAMTS12 is lower in diabetics (p < 0.05), whereas it is similar in prediabetics and controls (14.53, 20.76, 25.05, respectively; p > 0.05). ADAMTS7 and ADAMTS12 levels did not differ in diabetic nephropathy, retinopathy and neuropathy (p > 0.05). Conclusion: While ADAMTS12 was significantly lower in diabetics and prediabetics, ADAMTS7 and ADAMTS12 were not related to diabetic complications (nephropathy, retinopathy and neuropathy).

Appropriate Control Groups in Feminist Research

1981 ◽  
Vol 5 (4) ◽  
pp. 637-644 ◽  
Author(s):  
Mary Brown Parlee
Keyword(s):  
Causal Relationship ◽  
Methodological Issue ◽  
Psychological Research ◽  
Feminist Research ◽  
Control Groups ◽  
Psychology Of Women ◽  
Theoretical Perspectives ◽  
And Control ◽  
Theoretical Issues

Control groups in psychological research reveal the outlines of the investigator's theoretical framework. They identify variables which are assumed to affect the causal relationship between independent and dependent variable and, by implication, those which are not. This role of control groups is implicitly denied when they are discussed simply as a methodological issue. Feminist psychologists can use the inevitable interpenetration of methodological and theoretical issues to promote new theoretical perspectives under the guise of sounder methodology. One result may be to move the psychology of women outside (beyond-?) a conceptualization of science in which the notions of experimentation and control are central.

Role of Anticipation in Schizophrenia-Related Pursuit Initiation Deficits

2006 ◽  
Vol 95 (2) ◽  
pp. 593-601 ◽  
Author(s):  
Matthew T. Avila ◽  
L. Elliot Hong ◽  
Amanda Moates ◽  
Kathleen A. Turano ◽  
Gunvant K. Thaker
Keyword(s):  
Target Motion ◽  
Motion Information ◽  
Control Groups ◽  
Pursuit Initiation ◽  
Information Studies ◽  
Pursuit System ◽  
Velocity Information ◽  
And Control ◽  
Eye Velocity

Schizophrenia patients exhibit several smooth pursuit abnormalities including poor pursuit initiation. Velocity discrimination is also impaired and is correlated with pursuit initiation performance—suggesting that pursuit deficits are related to impairments in processing velocity information. Studies suggest that pursuit initiation is influenced by prior target motion information and/or expectations and that this is likely caused by expectation-based changes in the perceptual inputs to the pursuit system. We examined whether poor pursuit initiation in schizophrenia results from inaccurate encoding of immediate velocity signals, or whether these deficits reflect a failure to use prior target motion information to “optimize” the response. Twenty-eight patients and 24 controls performed an adapted version of a “remembered pursuit task.” Trials consisted of a series of target motions, the first of which occurred unexpectedly, followed by four to seven identical targets each preceded by an auditory cue and a “catch target” in which a cue was given followed by target extinction. Initiation eye velocity in response to unexpected, first targets was similar in the patient and control groups. In contrast, patients showed lower eye velocity in response to repeated, cued targets compared with controls. Patients also showed reduced eye velocity in response to catch targets. Reduction in pursuit latency across repeated targets was less robust in patients. Results suggest that processing of immediate velocity information is unaffected in schizophrenia and that pursuit initiation deficits reflect an inability to accurately generate, store, and/or access “remembered” velocity signals.

scholarly journals THE ROLE OF ANTIBIOTIC PROPHYLAXIS IN PREVENTION OF INTESTINAL STOMAS CLOSURE

2016 ◽  
pp. 25-31
Author(s):  
Y. A. Shelygin ◽  
S. I. Achkasov ◽  
D. V. Piliev ◽  
O. I. Sushkov
Keyword(s):  
Antibiotic Prophylaxis ◽  
Prophylactic Antibiotics ◽  
Control Group ◽  
Control Groups ◽  
Single Intravenous Injection ◽  
Group I ◽  
Intestinal Stoma ◽  
Operation Results ◽  
And Control

AIM. To evaluate the effectiveness of antibiotic prophylaxis in closure of preventive intestinal stomas. MATERIALS AND METHODS. In a main (I-first) group included 99 patients who did not undergo antibiotic prophylaxis (ABP). In the control (II-second) group were 96 patients who underwent ABP by a single intravenous injection of 1,2 g of amoxycillin / clavulanic acid in 30 minutes before the operation. RESULTS. The overall incidence of complications in the main and control groups was 23 (23,3 %) and 27 (27,9 %), respectively (p=0,53). Among them, the surgical site infection (SSI) was the first place in the frequency of complications: in group I in 12 (12,2 %) in group II in 11 (11,4 %) patients (p=0,35 ). Postoperative diarrhea with frequency of stools 5 or more times per day in second place infrequency, but has evolved into two less in the main than in the control group - in 4 (4,0 %), and 8 (8.3 %) patients, respectively (p=0,212). Febrile fever was detected more frequently in the first group than in the second - 6 (6,1 %) and 1 (1,0 %) cases, respectively (p=0,06). Other complications were the paresis of gastrointestinal tract (p=0,76), bleeding from the formed anastomosis area (p=0,149), pneumothorax (p=0,324), cystitis (p=0,309) and lobar pneumonia (p=0,309). There were no statistically significant complications associated with one of two groups. CONCLUSION. The results of the study not prove the effectiveness of the ABP in patients undergoing closure preventive intestinal stoma. This does not allow us to recommend its routine use. The question of prophylactic antibiotics should be taken individually, considering all the possible risks.

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