journal
MENU ▼
Read by QxMD icon Read
search

Genes

journal
https://www.readbyqxmd.com/read/28937658/extracellular-vesicle-associated-rna-as-a-carrier-of-epigenetic-information
#1
REVIEW
Carlo Maria Di Liegro, Gabriella Schiera, Italia Di Liegro
Post-transcriptional regulation of messenger RNA (mRNA) metabolism and subcellular localization is of the utmost importance both during development and in cell differentiation. Besides carrying genetic information, mRNAs contain cis-acting signals (zip codes), usually present in their 5'- and 3'-untranslated regions (UTRs). By binding to these signals, trans-acting factors, such as RNA-binding proteins (RBPs), and/or non-coding RNAs (ncRNAs), control mRNA localization, translation and stability. RBPs can also form complexes with non-coding RNAs of different sizes...
September 22, 2017: Genes
https://www.readbyqxmd.com/read/28937612/houttuynia-cordata-facilitates-metformin-on-ameliorating-insulin-resistance-associated-with-gut-microbiota-alteration-in-oletf-rats
#2
Jing-Hua Wang, Shambhunath Bose, Soo-Kyoung Lim, AbuZar Ansari, Young-Won Chin, Han Seok Choi, Hojun Kim
Metformin and Houttuynia cordata are representative anti-diabetic therapeutics in western and oriental medicine, respectively. The current study examined the synergistic anti-diabetic effect of Houttuynia cordata extraction (HCE) and metformin combination in Otsuka Long-Evans Tokushima Fatty (OLETF) rats. Fecal microbiota were analyzed by denaturing gradient gel electrophoresis (DGGE) and real-time PCR. Combining HCE + metformin resulted in significantly ameliorated glucose tolerance (oral glucose tolerance test (OGTT))-the same as metformin alone...
September 22, 2017: Genes
https://www.readbyqxmd.com/read/28934125/optimized-mtdna-control-region-primer-extension-capture-analysis-for-forensically-relevant-samples-and-highly-compromised-mtdna-of-different-age-and-origin
#3
Mayra Eduardoff, Catarina Xavier, Christina Strobl, Andrea Casas-Vargas, Walther Parson
The analysis of mitochondrial DNA (mtDNA) has proven useful in forensic genetics and ancient DNA (aDNA) studies, where specimens are often highly compromised and DNA quality and quantity are low. In forensic genetics, the mtDNA control region (CR) is commonly sequenced using established Sanger-type Sequencing (STS) protocols involving fragment sizes down to approximately 150 base pairs (bp). Recent developments include Massively Parallel Sequencing (MPS) of (multiplex) PCR-generated libraries using the same amplicon sizes...
September 21, 2017: Genes
https://www.readbyqxmd.com/read/28934115/development-of-genome-wide-ssr-markers-from-angelica-gigas-nakai-using-next-generation-sequencing
#4
Jinsu Gil, Yurry Um, Serim Kim, Ok Tae Kim, Sung Cheol Koo, Chinreddy Subramanyam Reddy, Seong-Cheol Kim, Chang Pyo Hong, Sin-Gi Park, Ho Bang Kim, Dong Hoon Lee, Byung-Hoon Jeong, Jong-Wook Chung, Yi Lee
Angelica gigas Nakai is an important medicinal herb, widely utilized in Asian countries especially in Korea, Japan, and China. Although it is a vital medicinal herb, the lack of sequencing data and efficient molecular markers has limited the application of a genetic approach for horticultural improvements. Simple sequence repeats (SSRs) are universally accepted molecular markers for population structure study. In this study, we found over 130,000 SSRs, ranging from di- to deca-nucleotide motifs, using the genome sequence of Manchu variety (MV) of A...
September 21, 2017: Genes
https://www.readbyqxmd.com/read/28930163/zebrafish-in-translational-cancer-research-insight-into-leukemia-melanoma-glioma-and-endocrine-tumor-biology
#5
REVIEW
Aurora Irene Idilli, Francesca Precazzini, Maria Caterina Mione, Viviana Anelli
Over the past 15 years, zebrafish have emerged as a powerful tool for studying human cancers. Transgenic techniques have been employed to model different types of tumors, including leukemia, melanoma, glioblastoma and endocrine tumors. These models present histopathological and molecular conservation with their human cancer counterparts and have been fundamental for understanding mechanisms of tumor initiation and progression. Moreover, xenotransplantation of human cancer cells in embryos or adult zebrafish offers the advantage of studying the behavior of human cancer cells in a live organism...
September 20, 2017: Genes
https://www.readbyqxmd.com/read/28925957/genome-wide-analysis-of-the-biosynthesis-and-deactivation-of-gibberellin-dioxygenases-gene-family-in-camellia-sinensis-l-o-kuntze
#6
Cheng Pan, Kunhong Tian, Qiuyan Ban, Leigang Wang, Qilu Sun, Yan He, Yuanfei Yang, Yuting Pan, Yeyun Li, Jiayue Jiang, Changjun Jiang
Gibberellins (GAs), a class of diterpenoid phytohormones, play a key role in regulating diverse processes throughout the life cycle of plants. Bioactive GA levels are rapidly regulated by Gibberellin-dioxygenases (GAox), which are involved in the biosynthesis and deactivation of gibberellin. In this manuscript, a comprehensive genome-wide analysis was carried out to find all GAox in Camellia sinensis. For the first time in a tea plant, 14 CsGAox genes, containing two domains, DIOX_N (PF14226) and 2OG-FeII_Oxy, were identified (PF03171)...
September 19, 2017: Genes
https://www.readbyqxmd.com/read/28925938/circulating-micrornas-and-bioinformatics-tools-to-discover-novel-diagnostic-biomarkers-of-pediatric-diseases
#7
REVIEW
Antonella Baldassarre, Cristina Felli, Giorgio Prantera, Andrea Masotti
MicroRNAs (miRNAs) are small noncoding RNAs that regulate gene expression at the post-transcriptional level. Current studies have shown that miRNAs are also present in extracellular spaces, packaged into various membrane-bound vesicles, or associated with RNA-binding proteins. Circulating miRNAs are highly stable and can act as intercellular messengers to affect many physiological processes. MicroRNAs circulating in body fluids have generated strong interest in their potential use as clinical biomarkers. In fact, their remarkable stability and the relative ease of detection make circulating miRNAs ideal tools for rapid and non-invasive diagnosis...
September 19, 2017: Genes
https://www.readbyqxmd.com/read/28925932/chloroplast-genome-sequence-of-clusterbean-cyamopsis-tetragonoloba-l-genome-structure-and-comparative-analysis
#8
Tanvi Kaila, Pavan K Chaduvla, Hukam C Rawal, Swati Saxena, Anshika Tyagi, S V Amitha Mithra, Amolkumar U Solanke, Pritam Kalia, T R Sharma, N K Singh, Kishor Gaikwad
Clusterbean (Cyamopsis tetragonoloba L.), also known as guar, belongs to the family Leguminosae, and is an annual herbaceous legume. Guar is the main source of galactomannan for gas mining industries. In the present study, the draft chloroplast genome of clusterbean was generated and compared to some of the previously reported legume chloroplast genomes. The chloroplast genome of clusterbean is 152,530 bp in length, with a quadripartite structure consisting of large single copy (LSC) and small single copy (SSC) of 83,025 bp and 17,879 bp in size, respectively, and a pair of inverted repeats (IRs) of 25,790 bp in size...
September 19, 2017: Genes
https://www.readbyqxmd.com/read/28927022/salt-stress-response-mechanisms-using-de-novo-transcriptome-sequencing-of-salt-tolerant-and-sensitive-corchorus-spp-genotypes
#9
Zemao Yang, Ruike Lu, Zhigang Dai, An Yan, Qing Tang, Chaohua Cheng, Ying Xu, Wenting Yang, Jianguang Su
High salinity is a major environmental stressor for crops. To understand the regulatory mechanisms underlying salt tolerance, we conducted a comparative transcriptome analysis between salt-tolerant and salt-sensitive jute (Corchorus spp.) genotypes in leaf and root tissues under salt stress and control conditions. In total, 68,961 unigenes were identified. Additionally, 11,100 unigenes (including 385 transcription factors (TFs)) exhibited significant differential expression in salt-tolerant or salt-sensitive genotypes...
September 18, 2017: Genes
https://www.readbyqxmd.com/read/28927013/transcription-factors-responding-to-pb-stress-in-maize
#10
Yanling Zhang, Fei Ge, Fengxia Hou, Wenting Sun, Qi Zheng, Xiaoxiang Zhang, Langlang Ma, Jun Fu, Xiujing He, Huanwei Peng, Guangtang Pan, Yaou Shen
Pb can damage the physiological function of human organs by entering the human body via food-chain enrichment. Revealing the mechanisms of maize tolerance to Pb is critical for preventing this. In this study, a Pb-tolerant maize inbred line, 178, was used to analyse transcription factors (TFs) expressed under Pb stress based on RNA sequencing data. A total of 464 genes expressed in control check (CK) or Pb treatment samples were annotated as TFs. Among them, 262 differentially expressed transcription factors (DETs) were identified that responded to Pb treatment...
September 18, 2017: Genes
https://www.readbyqxmd.com/read/28927002/predicting-variation-of-dna-shape-preferences-in-protein-dna-interaction-in-cancer-cells-with-a-new-biophysical-model
#11
Kirill Batmanov, Junbai Wang
DNA shape readout is an important mechanism of transcription factor target site recognition, in addition to the sequence readout. Several machine learning-based models of transcription factor-DNA interactions, considering DNA shape features, have been developed in recent years. Here, we present a new biophysical model of protein-DNA interactions by integrating the DNA shape properties. It is based on the neighbor dinucleotide dependency model BayesPI2, where new parameters are restricted to a subspace spanned by the dinucleotide form of DNA shape features...
September 18, 2017: Genes
https://www.readbyqxmd.com/read/28926997/effects-of-cellular-methylation-on-transgene-expression-and-site-specific-integration-of-adeno-associated-virus
#12
Diptiman Chanda, Jonathan A Hensel, Jerome T Higgs, Rajat Grover, Niroop Kaza, Selvarangan Ponnazhagan
DNA methylation is a major epigenetic event that affects not only cellular gene expression but that also has the potential to influence bacterial and viral DNA in their host-dependent functions. Adeno-associated virus (AAV) genome contains a high degree of CpG sequences capable of methylation in its terminal repeat sequences, which are the sole elements retained in AAV-based vectors used in gene therapy. The present study determined the influence of methylation status of the host cell on wild type (wt) AAV integration and recombinant (r) AAV transgene expression in HeLa cells...
September 18, 2017: Genes
https://www.readbyqxmd.com/read/28926993/satellite-dna-an-evolving-topic
#13
REVIEW
Manuel A Garrido-Ramos
Satellite DNA represents one of the most fascinating parts of the repetitive fraction of the eukaryotic genome. Since the discovery of highly repetitive tandem DNA in the 1960s, a lot of literature has extensively covered various topics related to the structure, organization, function, and evolution of such sequences. Today, with the advent of genomic tools, the study of satellite DNA has regained a great interest. Thus, Next-Generation Sequencing (NGS), together with high-throughput in silico analysis of the information contained in NGS reads, has revolutionized the analysis of the repetitive fraction of the eukaryotic genomes...
September 18, 2017: Genes
https://www.readbyqxmd.com/read/28914763/emerging-estrogenic-pollutants-in-the-aquatic-environment-and-breast-cancer
#14
REVIEW
Sylvain Lecomte, Denis Habauzit, Thierry D Charlier, Farzad Pakdel
The number and amount of man-made chemicals present in the aquatic environment has increased considerably over the past 50 years. Among these contaminants, endocrine-disrupting chemicals (EDCs) represent a significant proportion. This family of compounds interferes with normal hormonal processes through multiple molecular pathways. They represent a potential risk for human and wildlife as they are suspected to be involved in the development of diseases including, but not limited to, reprotoxicity, metabolic disorders, and cancers...
September 15, 2017: Genes
https://www.readbyqxmd.com/read/28914759/isoform-sequencing-provides-a-more-comprehensive-view-of-the-panax-ginseng-transcriptome
#15
Ick-Hyun Jo, Jinsu Lee, Chi Eun Hong, Dong Jin Lee, Wonsil Bae, Sin-Gi Park, Yong Ju Ahn, Young Chang Kim, Jang Uk Kim, Jung Woo Lee, Dong Yun Hyun, Sung-Keun Rhee, Chang Pyo Hong, Kyong Hwan Bang, Hojin Ryu
Korean ginseng (Panax ginseng C.A. Meyer) has been widely used for medicinal purposes and contains potent plant secondary metabolites, including ginsenosides. To obtain transcriptomic data that offers a more comprehensive view of functional genomics in P. ginseng, we generated genome-wide transcriptome data from four different P. ginseng tissues using PacBio isoform sequencing (Iso-Seq) technology. A total of 135,317 assembled transcripts were generated with an average length of 3.2 kb and high assembly completeness...
September 15, 2017: Genes
https://www.readbyqxmd.com/read/28902131/identification-of-the-ovine-keratin-associated-protein-26-1-gene-and-its-association-with-variation-in-wool-traits
#16
Shaobin Li, Huitong Zhou, Hua Gong, Fangfang Zhao, Jiang Hu, Yuzhu Luo, Jon G H Hickford
Keratin-associated proteins (KAPs) are structural components of wool and hair fibres, and are believed to play a role in defining the physico-mechanical properties of the wool fibre. In this study, the putative ovine homologue of the human KAP26-1 gene (KRTAP26-1) was sequenced and four variants (named A-D) were identified. The sequences shared some identity with each other and with other KRTAPs, but they had the greatest similarity with the human KRTAP26-1 sequence. This suggests they represent different variants of ovine KRTAP26-1...
September 13, 2017: Genes
https://www.readbyqxmd.com/read/28902130/the-chloroplast-genome-sequence-of-scutellaria-baicalensis-provides-insight-into-intraspecific-and-interspecific-chloroplast-genome-diversity-in-scutellaria
#17
Dan Jiang, Zhenyu Zhao, Teng Zhang, Wenhao Zhong, Chunsheng Liu, Qingjun Yuan, Luqi Huang
Scutellaria baicalensis Georgi (Lamiaceae) is the source of the well-known traditional Chinese medicine "HuangQin" (Radix Scutellariae). Natural sources of S. baicalensis are rapidly declining due to high market demand and overexploitation. Moreover, the commercial products of Radix Scutellariae have often been found to contain adulterants in recent years, which may give rise to issues regarding drug efficacy and safety. In this study, we developed valuable chloroplast molecular resources by comparing intraspecific and interspecific chloroplast genome...
September 13, 2017: Genes
https://www.readbyqxmd.com/read/28885603/functional-characterization-of-selected-universal-stress-protein-from-salvia-miltiorrhiza-smusp-in-escherichia-coli
#18
Xiao-Fan Wang, Jiao Su, Na Yang, Hui Zhang, Xiao-Yan Cao, Jie-Fang Kang
The multigene universal stress protein (USP) family is evolutionarily conserved. Members play indispensable roles in plant tolerance to abiotic stresses. Although relatively well-characterized in model plants, such as Arabidopsis thaliana and Oryzasativa, this family has not been investigated in Salvia miltiorrhiza, an important herbal plant for which yields can be limited by various abiotic stresses. Here, we identified 32 USP family members in the S. miltiorrhiza genome, and used phylogenetic analysis to sort these SmUSPs into four groups...
September 8, 2017: Genes
https://www.readbyqxmd.com/read/28885554/advances-in-genomic-profiling-and-analysis-of-3d-chromatin-structure-and-interaction
#19
REVIEW
Binhua Tang, Xiaolong Cheng, Yunlong Xi, Zixin Chen, Yufan Zhou, Victor X Jin
Recent sequence-based profiling technologies such as high-throughput sequencing to detect fragment nucleotide sequence (Hi-C) and chromatin interaction analysis by paired-end tag sequencing (ChIA-PET) have revolutionized the field of three-dimensional (3D) chromatin architecture. It is now recognized that human genome functions as folded 3D chromatin units and looping paradigm is the basic principle of gene regulation. To better interpret the 3D data dramatically accumulating in past five years and to gain deep biological insights, huge efforts have been made in developing novel quantitative analysis methods...
September 8, 2017: Genes
https://www.readbyqxmd.com/read/28878163/recq1-helicase-silencing-decreases-the-tumour-growth-rate-of-u87-glioblastoma-cell-xenografts-in-zebrafish-embryos
#20
Miloš Vittori, Barbara Breznik, Katja Hrovat, Saša Kenig, Tamara T Lah
RECQ1 helicase has multiple roles in DNA replication, including restoration of the replication fork and DNA repair, and plays an important role in tumour progression. Its expression is highly elevated in glioblastoma as compared to healthy brain tissue. We studied the effects of small hairpin RNA (shRNA)-induced silencing of RECQ1 helicase on the increase in cell number and the invasion of U87 glioblastoma cells. RECQ1 silencing reduced the rate of increase in the number of U87 cells by 30%. This corresponded with a 40% reduction of the percentage of cells in the G2 phase of the cell cycle, and an accumulation of cells in the G1 phase...
September 6, 2017: Genes
journal
journal
43397
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"