Analysis of Rumen Microbial Protein Abundance of Gayals based on Metaproteomics

2021 ◽  
Author(s):  
Yu Ye ◽  
Zi Yujie ◽  
Gao Huan ◽  
Fu Binlong ◽  
Leng Jing
Keyword(s):  
Mass Spectrometry ◽  
Bos Taurus ◽  
Effective Means ◽  
Enrichment Analysis ◽  
Protein Abundance ◽  
Rumen Microorganisms ◽  
Yellow Cattle ◽  
Microbial Resources ◽  
Rumen Fungus ◽  
The Difference

Background: Presently, our understanding of the rumen of Gayals is still very shallow, which is recognized as the most effective and developed fiber degradation system in nature, with abundant microorganisms. Molecular biology technology is an effective means to study the microbial resources in the rumen. Methods: Rumen contents of 3 Gayals (Gayals, Bos frontalis; G) and 3 Yellow Cattle (Yunnan Yellow Cattle, Bos taurus; Y) were collected in this study. Rumen microbial proteins were extracted by liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS), then to analyze the bioinformatics of protein abundance was performed through the bovine rumen transcriptome database (gene.uniGeneset.fasta). Result: The results were as follows: the differences in protein abundance of Gayals rumen bacteria in Firmicutes, Actinobacteria, Ruminococcus and Olsenella were significantly higher than Yellow cattle (P less than 0.05) and the difference in protein abundance of Chytridiomycota and Batrachochytrium in rumen fungus of Gayals was significantly less than that of Yellow cattle. Enrichment analysis by KEGG metabolism pathway of differentially expressed proteins in rumen microorganisms was performed, Gayals have higher abundance of β-glucosidase and 6-phosphate-β-glucosidase than Yellow Cattle.

scholarly journals Decoding the molecular mechanism of parthenocarpy in Musa spp. through protein–protein interaction network

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Suthanthiram Backiyarani ◽  
Rajendran Sasikala ◽  
Simeon Sharmiladevi ◽  
Subbaraya Uma
Keyword(s):  
Candidate Genes ◽  
Protein Interaction ◽  
Target Genes ◽  
Interaction Network ◽  
Enrichment Analysis ◽  
Auxin Signaling ◽  
Pathway Enrichment Analysis ◽  
Ppi Network ◽  
Protein Protein Interaction ◽  
The Difference

AbstractBanana, one of the most important staple fruit among global consumers is highly sterile owing to natural parthenocarpy. Identification of genetic factors responsible for parthenocarpy would facilitate the conventional breeders to improve the seeded accessions. We have constructed Protein–protein interaction (PPI) network through mining differentially expressed genes and the genes used for transgenic studies with respect to parthenocarpy. Based on the topological and pathway enrichment analysis of proteins in PPI network, 12 candidate genes were shortlisted. By further validating these candidate genes in seeded and seedless accession of Musa spp. we put forward MaAGL8, MaMADS16, MaGH3.8, MaMADS29, MaRGA1, MaEXPA1, MaGID1C, MaHK2 and MaBAM1 as possible target genes in the study of natural parthenocarpy. In contrary, expression profile of MaACLB-2 and MaZEP is anticipated to highlight the difference in artificially induced and natural parthenocarpy. By exploring the PPI of validated genes from the network, we postulated a putative pathway that bring insights into the significance of cytokinin mediated CLAVATA(CLV)–WUSHEL(WUS) signaling pathway in addition to gibberellin mediated auxin signaling in parthenocarpy. Our analysis is the first attempt to identify candidate genes and to hypothesize a putative mechanism that bridges the gaps in understanding natural parthenocarpy through PPI network.

scholarly journals Proteomic analysis of the pulvinus, a heliotropic tissue, in Glycine max

2014 ◽  
Vol 5 (1) ◽  
Author(s):  
Hakme Lee ◽  
Wesley M. Garrett ◽  
Joseph Sullivan ◽  
Irwin Forseth ◽  
Savithiry S. Natarajan
Keyword(s):  
Mass Spectrometry ◽  
Gene Ontology ◽  
Gel Electrophoresis ◽  
Proton Transport ◽  
Enrichment Analysis ◽  
The Sun ◽  
Leaf Movement ◽  
Two Dimensional ◽  
Two Dimensional Gel Electrophoresis ◽  
Leguminous Plants

Certain plant species respond to light, dark, and other environmental factors by leaf movement. Leguminous plants both track and avoid the sun through turgor changes of the pulvinus tissue at the base of leaves. Mechanisms leading to pulvinar turgor flux, particularly knowledge of the proteins involved, are not well-known. In this study we used two-dimensional gel electrophoresis and liquid chromatography-tandom mass spectrometry to separate and identify the proteins located in the soybean pulvinus. A total of 183 spots were separated and 195 proteins from 165 spots were identified and functionally analyzed using single enrichment analysis for gene ontology terms. The most significant terms were related to proton transport. Comparison with guard cell proteomes revealed similar significant processes but a greater number of pulvinus proteins are required for comparable analysis. To our knowledge, this is a novel report on the analysis of proteins found in soybean pulvinus. These findings provide a better understanding of the proteins required for turgor change in the pulvinus.

scholarly journals Proteomic Analysis of Capacitated and Non-Capacitated Spermatozoa of Yanbian Yellow Cattle

2020 ◽  
Author(s):  
Xuan Chen ◽  
Zuochen Li ◽  
Yanqiu Lv ◽  
Yichao Xu ◽  
Mimi Cheng ◽  
...  
Keyword(s):  
Protein Transport ◽  
Expression Level ◽  
Molecular Processes ◽  
Proteomics Data ◽  
Pathway Enrichment ◽  
Protein Protein Interaction ◽  
Go Enrichment ◽  
Yellow Cattle ◽  
Specific Proteins ◽  
The Difference

Abstract Background: Sperm capacitation is a process which occurs prior to fertilization, and is essential for producing high-quality living embryos. The main purpose of this study was to explore the difference of proteomics between capacitated and non-capacitated sperm of Yanbian yellow cattle. Bioinformatic analyses of LC-MS/MS data included GO enrichment, KEGG pathway enrichment, and protein-protein interaction (PPI) analysis. Results: The results revealed 23 specific proteins in the capacitated group and 345 in the non-capacitated group. Compared with non-capacitated sperm, capacitated sperm exhibited 89 upregulated proteins and 509 downregulated proteins. Western blotting was used to confirm our proteomics data. The expression level of PSMD1 in the capacitated sperm group was significantly lower than that in the non-capacitated sperm group, and the expression level of HSPA5 was significantly higher than in the non-capacitated sperm group. Conclusions: Our results revealed that many proteins were differentially expressed between capacitated and non-capacitated sperm, particularly those involved in the proteasome signaling and protein transport signaling pathways. This work enhances our understanding of molecular processes involved in sperm viability in Yanbian yellow cattle, and provides a framework for future studies.

scholarly journals Identification of Potential Therapeutic Targets and Molecular Regulatory Mechanisms for Osteoporosis by Bioinformatics Methods

2021 ◽  
Vol 2021 ◽  
pp. 1-10
Author(s):  
Li Zhang ◽  
Yunlong Yang ◽  
Dechun Geng ◽  
Yonghua Wu
Keyword(s):  
Immune Cell ◽  
Therapeutic Targets ◽  
Enrichment Analysis ◽  
Differentially Expressed ◽  
Cell Infiltration ◽  
Immune Cell Infiltration ◽  
Differential Analysis ◽  
Ppi Network ◽  
The Difference ◽  
And Control

Background. Osteoporosis is characterized by low bone mass, deterioration of bone tissue structure, and susceptibility to fracture. New and more suitable therapeutic targets need to be discovered. Methods. We collected osteoporosis-related datasets (GSE56815, GSE99624, and GSE63446). The methylation markers were obtained by differential analysis. Degree, DMNC, MCC, and MNC plug-ins were used to screen the important methylation markers in PPI network, then enrichment analysis was performed. ROC curve was used to evaluate the diagnostic effect of osteoporosis. In addition, we evaluated the difference in immune cell infiltration between osteoporotic patients and control by ssGSEA. Finally, differential miRNAs in osteoporosis were used to predict the regulators of key methylation markers. Results. A total of 2351 differentially expressed genes and 5246 differentially methylated positions were obtained between osteoporotic patients and controls. We identified 19 methylation markers by PPI network. They were mainly involved in biological functions and signaling pathways such as apoptosis and immune inflammation. HIST1H3G, MAP3K5, NOP2, OXA1L, and ZFPM2 with higher AUC values were considered key methylation markers. There were significant differences in immune cell infiltration between osteoporotic patients and controls, especially dendritic cells and natural killer cells. The correlation between MAP3K5 and immune cells was high, and its differential expression was also validated by other two datasets. In addition, NOP2 was predicted to be regulated by differentially expressed hsa-miR-3130-5p. Conclusion. Our efforts aim to provide new methylation markers as therapeutic targets for osteoporosis to better treat osteoporosis in the future.

scholarly journals Validation of Urinary Charged Metabolite Profiles in Colorectal Cancer Using Capillary Electrophoresis-Mass Spectrometry

Metabolites ◽  
2022 ◽  
Vol 12 (1) ◽  
pp. 59
Author(s):  
Toru Sakurai ◽  
Kenji Katsumata ◽  
Ryutaro Udo ◽  
Tomoya Tago ◽  
Kenta Kasahara ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Capillary Electrophoresis ◽  
Healthy Controls ◽  
Discrimination Ability ◽  
Significant Difference ◽  
Metabolite Profiles ◽  
The Difference ◽  
Pathway Analyses ◽  
Higher Sensitivity ◽  
Capillary Electrophoresis Mass Spectrometry

This study aimed to validate and reanalyze urinary biomarkers for detecting colorectal cancers (CRCs). We previously conducted urinary metabolomic analyses using capillary electrophoresis-mass spectrometry and found a significant difference in various metabolites, especially polyamines, between patients with CRC and healthy controls (HC). We analyzed additional samples and confirmed consistency between the newly and previously analyzed data. In total, we included 36 HC, 34 adenoma (AD), and 214 CRC samples, which were used for subsequent analyses. Among the 132 quantified metabolites, 16 exhibited consistent differences in both datasets, which included polyamines, etc. Pathway analyses of the integrated data revealed significant differences in many metabolites, such as glutamine, and metabolites of the TCA and urea cycles. The discrimination ability of the combination of multiple metabolites among the three groups was evaluated, which yielded higher sensitivity than tumor markers. The Mann–Whitney test was employed to evaluate the prognosis predictivity of the assessed metabolites and the difference between the patients with or without recurrence, which yielded 16 significantly different metabolites. Among these 16 metabolites, 11 presented significant prognosis predictivity. These data indicated the potential of metabolite-based discrimination of patients with CRC and AD from HC and prognosis predictivity of the monitored metabolites.

scholarly journals IPO Underpricing After the 2008 Financial Crisis: A Study of the Chinese Stock Markets

2018 ◽  
Vol 10 (8) ◽  
pp. 2844 ◽  
Author(s):  
Rui Li ◽  
Wei Liu ◽  
Yong Liu ◽  
Sang-Bing Tsai
Keyword(s):  
Financial Crisis ◽  
Initial Public Offering ◽  
Small Firms ◽  
Effective Means ◽  
Ipo Underpricing ◽  
2008 Financial Crisis ◽  
Before And After ◽  
The Difference ◽  
The 2008 Financial Crisis ◽  
Public Offering

A firm’s capability of raising funding is closely related to its sustainable development. With a more efficient allocation of funding among the whole society, social resources will be better utilized. Initial Public Offering (IPO) can indeed be an effective means of raising capital for corporate ventures. Using 1069 firms which completed IPOs on Chinese stock exchanges between 1st January 2004 and 1st January 2013, we investigate the difference in IPO underpricing before and after the 2008 financial crisis. Based on OLS regression models, we find that the IPOs are less underpriced in the post-crisis period. We examine the moderating effects of firm size on the difference in IPO underpricing between pre- and post-crisis periods, finding that small firms experienced less IPO underpricing than large firms after the financial crisis. After applying different model specifications such as Robust and OProbit regressions, the results remain consistent. Our study contributes to understanding the dynamics and influences of the financial crisis on firms’ IPO cost from the perspective of information asymmetry.

BIOFEED BACK THERAPY AND CYTOFLAVIN IN THE SYSTEM OF MEDICAL SUPPORT OF THE TRAINING PROCESS OF ELDERLY HOCKEY PLAYERS

2021 ◽  
pp. 306-310
Author(s):  
А. А. Елькин ◽  
Ю. А. Парфенов ◽  
С. А. Парфенов ◽  
К.В. Сапожников ◽  
А. Л. Коваленко ◽  
...  
Keyword(s):  
Functional State ◽  
Effective Means ◽  
Complete Recovery ◽  
The Elderly ◽  
Biofeedback Training ◽  
Medical Support ◽  
Training Process ◽  
Hockey Players ◽  
The Difference ◽  
Methodological Aspects

Одним из направлений улучшения состояния пожилого человека является методика аутотренинга с биологической обратной связью как средство коррекции отклонений функционирования регуляторного аппарата, а также усиление антиоксидантной защиты и элиминация последствий оксидативного стресса при помощи терапии Цитофлавином. Указанные методики представляются простым и эффективным средством коррекции негативных изменений функционального состояния у пожилых хоккеистов после цикла тренировок и обеспечение возможности более полного восстановления их организма. Разность точек приложения позволила объединить приём Цитофлавина и БОС-тренинга в единую комплексную коррекционно-восстановительную методику. Цель исследования - рассмотрение организационно-методических аспектов внедрения комплексной методики коррекции функционального состояния пожилых хоккеистов в систему сопровождения их тренировочного процесса. По результатам проведенного исследования получены убедительные данные о положительном эффекте включения Цитофлавина и БОС-тренинга в систему медицинского сопровождения тренировочного процесса у пожилых хоккеистов. Рассмотренные в настоящей статье организационнометодические аспекты внедрения комплексной методики коррекции функционального состояния пожилых хоккеистов в систему сопровождения их тренировочного процесса позволяют решить ряд задач, стоящих перед медицинскими работниками, касающихся непрерывного мониторинга состояния организма пожилых хоккеистов, упреждающей диагностики его негативных отклонений, а также системы коррекционно-восстановительных мер. One of the ways to improve the condition of the elderly body is the method of auto-training with biofeedback, as a means of correcting deviations in the functioning of the regulatory apparatus, as well as improving antioxidant protection and eliminating the effects of oxidative stress using Cytoflavin therapy. These methods seem to be a simple and effective means of correcting negative changes in the FS of elderly hockey players after a training cycle and ensuring the possibility of a more complete recovery of their body. The difference in the points of application made it possible to combine the intake of Cytoflavin and biofeedback training into a single complex correctional and restorative technique. Purpose of the research: to consider the organizational and methodological aspects of introducing a comprehensive methodology for correcting the functional state of elderly hockey players into the system of support of their training process. Based on the results of the study, we have obtained convincing data on the positive effect of the inclusion of Cytoflavin and biofeedback training in the system of medical support for the training process of elderly hockey players. The organizational and methodological aspects of introducing a comprehensive methodology for correcting the functional state of older hockey players into the system of support for their training process considered in this article make it possible to solve a number of problems facing medical workers regarding continuous monitoring of the functional state of older hockey players, proactive diagnosis of their negative deviations, as well as a system of reabilitation.

High UBE2T mRNA expression and its prognostic significance in Ovarian cancer: a study based on data mining

2020 ◽  
Author(s):  
Fu-Cheng Cai
Keyword(s):  
Ovarian Cancer ◽  
Dendritic Cell ◽  
Prognostic Significance ◽  
Interaction Network ◽  
Enrichment Analysis ◽  
Rna Degradation ◽  
Gene Set Enrichment Analysis ◽  
Pathogenesis Related ◽  
Biologic Effect ◽  
The Difference

Abstract Background Ovarian cancer (OC) affects about 22 000 women annually in the US and ranks 5th in cancer deaths, largely due to diagnosed with advanced stage. Epithelial ovarian cancer (EOC) accounts for approximately 90% of all ovarian cancer cases. Our study was to assess the prognostic meaningful of UBE2T expression in OC dependent on data acquired from TCGA and so as to increase further knowledge into the biological pathways involved in OC pathogenesis related to UBE2T. Methods Information on gene expression and comparing clinical data were recognized and downloaded from TCGA. Gene set enrichment analysis (GSEA) created an arranged list of all genes s indicated by their connection with UBE2T expression. Results The scatter plot showed the difference of UBE2T expression between normal and tumor samples ( P <0.01). So as to decide the biological interaction network of UBE2T in OC, we used to tab Network in cBioPortal and the 50 most as often altered neighbor genes of UBE2T were demonstrated utilizing Network and the most frequent alterations were HES1. The GSEA results showed that cell cycle, DNA replication, RNA degradation, some cancers, spliceosome, Huntington’s disease, oxidative phosphorylation are differentially enriched in UBE2T high expression phenotype. Cumulative survive showed that dendritic cell of immune infiltrates statistically significant ( P <0.05) of UBE2T in OC suggesting that dendritic cell significantly affecting the prognosis, it is worth more research and exploration. Conclusion Our study found that the expression of UBE2T was significantly increased in OC patients and associated with several clinical features. UBE2T may be a potentially useful prognostic molecular biomarker of bad survival in OC, while further experimental ought to be performed to demonstrate the biologic effect of UBE2T.

scholarly journals The Theme of Humanitarianism as Portrayed in Langston Hughes’ Poetry

2018 ◽  
Vol 9 (1) ◽  
pp. 22
Author(s):  
Ahmed Adam Abdalla Babiker
Keyword(s):  
Human Rights ◽  
Effective Means ◽  
Langston Hughes ◽  
Comparative Approach ◽  
Human Suffering ◽  
Human Value ◽  
Western Concept ◽  
Protection Of Human Rights ◽  
Important Means ◽  
The Difference

This study focuses on the theme of humanitarianism as portrayed in Hughes’ poetry. One key objective of this study is to find out to what extent Hughes deals with the theme of humanitarianism in his poetry. Also, to shed lights on the theme of humanitarianism as human value and to compare the western concept of humanitarianism with the Islamic one and reach some conclusions. The study follows the descriptive, analytic and comparative approach to discuss and rationally analyze five selected poems of Hughes with special reference to the theme of humanitarianism that is depicted in them. In accordance, a number of findings have been obtained:  many types of humanitarianism such as reducing the human suffering, protection of human rights, including, right of life, security, freedom, equality, justice and peace have been portrayed in Langston Hughes poetry. In addition, values of impartiality and neutrality which represent the central point of humanitarianism are also portrayed. Also, it can be said that conducting comparative studies is one important means for cultural understanding between different peoples, and can be used as an effective means for the exchange of ideas, values, experiences and yet draw the nations closer to each other; hence contributing to the spread of understanding and peace between peoples. Moreover, despite the existence of some differences in some points, specifications and concepts, nonetheless, the theme of humanitarianism is found as a key value in both American and Islamic traditions; although the difference of cultures, including religions. Lastly, it can be said that due to the findings of the study, we could argue that, the humanitarianism cannot be separated from human rights.

scholarly journals 14C Wiggle-Matching of the B-Tm Tephra, Baitoushan Volcano, China/North Korea

Radiocarbon ◽  
2010 ◽  
Vol 52 (3) ◽  
pp. 933-940 ◽  
Author(s):  
Shinya Yatsuzuka ◽  
Mitsuru Okuno ◽  
Toshio Nakamura ◽  
Katsuhiko Kimura ◽  
Yohei Setoma ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Accelerator Mass Spectrometry ◽  
North Korea ◽  
Radiocarbon Dating ◽  
Gas Emission ◽  
Volcanic Gas ◽  
Ams Radiocarbon Dating ◽  
Eruption Age ◽  
The Difference ◽  
Volcanic Gas Emission

We performed accelerator mass spectrometry (AMS) radiocarbon dating and wiggle-matching of 2 wood samples from charred trunks of trees (samples A and B) collected from an ignimbrite deposit on the northeastern slope of the Baitoushan Volcano on the border of China and North Korea. The obtained calendar years for the eruption are cal AD 945–960 for sample A and cal AD 859–884 and cal AD 935–963 for sample B in the 2-σ range. These results are unable to determine the precise eruption age. The reason for the difference in reported ages may be due to volcanic gas emission prior to the huge eruption.

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