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Reference gene

Molly D Gleeson, Bret A Moore, Sydney G Edwards, Sarah Stevens, April L Childress, James F X Wellehan, Jessica Robertson, Christopher J Murphy, Michelle G Hawkins, Joanne Paul-Murphy
An adult great-horned owl (Bubo virginianus; GHOW) presented with a history of recurrent corneal ulceration of the right eye (OD). Findings included ulcerative superficial keratitis, proliferative conjunctivitis, and iris pigmentary changes. The ulcer was initially nonresponsive to medical therapy, but showed rapid and appropriate healing following diamond burr debridement. Proliferative conjunctivitis markedly improved following topical antiviral therapy with cidofovir 1%, interferon alpha 2B ophthalmic solutions, and oral l-lysine...
April 14, 2018: Veterinary Ophthalmology
Eun Jung Oh, Ho Won Lee, Senthilkumar Kalimuthu, Tae Jung Kim, Hyun Mi Kim, Se Hwan Baek, Liya Zhu, Ji Min Oh, Seung Hyun Son, Ho Yun Chung, Byeong-Cheol Ahn
Mesenchymal stem cell (MSC)-based therapy has emerged as a promising therapeutic strategy for tissue regeneration and repair. In this study, we non-invasively monitored the tracking of MSCs toward burn injury sites using MSCs expressing firefly luciferase (Fluc) gene in living mice, and evaluated the effects of the MSCs at the injury site. Murine MSCs co-expressing Fluc and green fluorescent protein (GFP) were established using a retroviral system (referred to as MSC/Fluc). To evaluate the ability of MSC migration toward burn injury sites, cutaneous burn injury was induced in the dorsal skin of mice...
April 12, 2018: Journal of Controlled Release: Official Journal of the Controlled Release Society
Dinum Perera, Zenaida V Magbanua, Supaphan Thummasuwan, Dipaloke Mukherjee, Mark Arick, Philippe Chouvarine, Campbell J Nairn, Jeremy Schmutz, Jane Grimwood, Jeffrey F D Dean, Daniel G Peterson
Loblolly pine (LP; Pinus taeda L.) is an economically and ecologically important tree in the southeastern U.S. To advance understanding of the loblolly pine (LP; Pinus taeda L.) genome, we sequenced and analyzed 100 BAC clones and performed a Cot analysis. The Cot analysis indicates that the genome is composed of 57, 24, and 10% highly-repetitive, moderately-repetitive, and single/low-copy sequences, respectively (the remaining 9% of the genome is a combination of foldback and damaged DNA). Although single/low-copy DNA only accounts for 10% of the LP genome, the amount of single/low-copy DNA in LP is still 14 times the size of the Arabidopsis genome...
April 12, 2018: Gene
Gavin D Bascom, Tamar Schlick
In eukaryotic chromatin, islands of histone tail acetylation are found near transcription start sites and enhancers, whereas linker histones (LHs) are localized in intergenic regions with wild-type (WT) histone tails. However, the structural mechanisms by which acetylation, in combination with LH binding, modulates chromatin compaction and hence transcription regulation are unknown. To explore the folding propensity by which these features may govern gene expression, we analyze 20 kb fibers that contain regularly spaced acetylation islands of two sizes (2 or 5 kb) with various LH levels by mesoscale modeling...
April 11, 2018: Biophysical Journal
Jie-Xia Liu, Kai Feng, Guang-Long Wang, Zhi-Sheng Xu, Feng Wang, Ai-Sheng Xiong
Carbon dioxide (CO2 ) is an important regulator of plant growth and development, and its proportion in the atmosphere continues to rise now. Lignin is one of the major secondary products in plants with vital biological functions. However, the relationship between CO2 level and xylogenesis in celery is still unknown. In order to investigate the effects of increasing CO2 concentration on lignin accumulation in celery, 'Jinnanshiqin' were exposed to two CO2 applications, 400 (e0 ) and 1000 μmol mol-1 (e1 ), respectively...
April 4, 2018: Plant Physiology and Biochemistry: PPB
Yongguo Cao, Xufeng Xie, Wenlong Zhang, Dianjun Wu, Changchun Tu
Currently, accumulating evidence is challenging subtherapeutic therapy. Low-dose Norfloxacin (Nor) has been reported to suppress the immune response and worsen leptospirosis. In this study, we investigated the influence of low-dose Nor (0.03 μg/ml, 0.06 μg/ml, 0.125 μg/ml) on leptospiral gene expression and analyzed the immunomodulatory effects of low-dose Nor-treated leptospires in J774A.1 cells. To study the expression profiles of low-dose Nor-treated leptospires, we chose LipL71/LipL21 as reference genes determined by the geNorm applet in this experiment...
April 10, 2018: Microbial Pathogenesis
Liang Yang, Juanni Chen, Ying Liu, Shuting Zhang, Shili Li, Wei Ding
Quantitative real-time reverse transcriptase PCR (qRT-PCR) has become the method choice for quantification of gene expression changes, however, the accuracy of the method depends on the stability of reference genes. Ralstonia pseudosolanacearum (R. pseudosolanacearum) is an important plant pathogen, infecting >450 plant species and causing bacterial wilt. In order to identify stable reference genes in R. pseudosolanacearum CQPS-1 under different environment stresses. We used five tools (△Ct method, GeNorm, NormFinder, BestKeeper, and RefFinder) to evaluate the stability of seven candidate reference genes including phosphoglycerate kinase (PGK), glyceraldehyde-3-phosphate dehydrogenase (GAPDH), 16S ribosomal RNA (16S), cell division protein ftsZ (ftsZ), DNA gyrase subunit A (gyrA), Ribosomal protein L13 (rplM), and phosphoserine aminotransferase (serC) under biotic (growth phases) and abiotic stress (temperature, hydroxycoumarins, nutrition)...
April 10, 2018: Journal of Microbiological Methods
Zijun Zhao, Mingzhang Rao, Ming Liao, Weisheng Cao
In recent years, cases of avian leukosis virus (ALV) infection have become more frequent in China. We isolated 6 ALV strains from yellow feather broiler breeders in south China from 2014 to 2016. Their full genomes were sequenced, compared, and analyzed with other reference strains of ALV. The complete genomic nucleotide sequences of GD150509, GD160403, GD160607, GDFX0601, and GDFX0602 were 7482 bp in length, whereas GDFX0603 was 7480 bp. They shared 99.7% to 99.8% identity with each other. Homology analysis showed that the gag , pol , long terminal repeats (LTRs), and the transmembrane region (gp37) of the env genes of the 6 viruses were well conserved to endogenous counterpart sequences (>97...
April 13, 2018: Viruses
Qian Yang, Jinyao Li, Jing Shen, Yufang Xu, Hongjie Liu, Wei Deng, Xuefeng Li, Mingqi Zheng
D. sophia is one of the most notorious broadleaf weed in China, and has evolved extremely high resistance to ALS-inhibiting herbicide tribenuron-methyl. The target-site resistance due to ALS gene mutations was known well, while the non-target-site resistance is not yet well-characterized. Metabolic resistance, which is conferred by enhanced rates of herbicide metabolism, is the most important NTSR. To explore the mechanism of metabolic resistance underlying resistant (R) D. sophia plants, tribenuron-methyl uptake and metabolism levels, qPCR reference gene stability, and candidate P450 genes expression patterns were investigated...
April 13, 2018: Journal of Agricultural and Food Chemistry
Chenqi Niu, Yuancong Xu, Chao Zhang, Pengyu Zhu, Kunlun Huang, Yunbo Luo, Wentao Xu
As genetically modified (GM) technology develops and genetically modified organisms (GMOs) become more available, GMOs face increasing regulations and pressure to adhere to strict labeling guidelines. A singleplex detection method cannot perform the high-throughput analysis necessary for optimal GMO detection. Combining the advantages of multiplex detection and droplet digital polymerase chain reaction (ddPCR), a single universal primer-multiplex-ddPCR (SUP-M-ddPCR) strategy was proposed for accurate broad-spectrum screening and quantification...
April 13, 2018: Analytical Chemistry
Lihua Zhang, Yonglong Yang, Lin Cheng, Yu Cheng, Hong-Hao Zhou, Zhi-Rong Tan
Colorectal cancer is a malignant tumor which harmed human beings' health. The aim of this study was to explore common biomarkers associated with colorectal carcinogenesis in paired cancer and noncancer samples. At first, fifty-nine pairs of colorectal cancer and noncancer samples from three gene expression datasets were collected and analyzed. Then, 181 upregulation and 282 downregulation common differential expression genes (DEGs) were found. Next, functional annotation was performed in the DAVID database with the DEGs...
2018: Disease Markers
Hajar Eftekhari, Maryam Pilehchian Langroudi, Ali Banihashemi, Mandana Azizi, Reza Youssefi Kamangar, Haleh Akhavan-Niaki
α-Thalassemia (α-thal) is considered as the most common inherited hemoglobin disorder worldwide. The present study describes the first observation of a combination of rare α-chain variants, and β-globin gene cluster deletion. A 21-year-old woman with thalassemia trait, marked microcytosis, mild anemia, and normal range of Hb F was referred to Amirkola genetic center in the North of Iran for routine molecular test of thalassemia in the context of carrier detection and prevention of thalassemia major birth...
April 2018: Indian Journal of Clinical Biochemistry: IJCB
Bin Shi, Long Ma, Xiaoyan He, Peipei Wu, Peng Wang, Xiaomei Wang, Rui Ma, Xinsheng Yao
The diversity of the T cell receptor (TCR) complementarity determining region 3 (CDR3) repertoire is the result of random combinations, insertions and deletions during recombination of the germline V, D and J gene fragments. During evolution, some human TCR beta chain variable (TRBV) pseudogenes have been retained. Many previous studies have focused on functional TRBV genes, while little attention has been given to TRBV pseudogenes. To describe the compositional characteristics of TRBV pseudogene rearrangements, we compared and analysed TRBV pseudogenes, TRBV open reading frames (ORFs) and functional TRBV genes via high-throughput sequencing of DNA obtained from the peripheral blood of 4 healthy volunteers and 4 patients...
April 12, 2018: Scientific Reports
Katsushige Inada, Yasushi Okoshi, Yukiko Cho-Isoda, Shingo Ishiguro, Hisashi Suzuki, Akinori Oki, Yoshio Tamaki, Toru Shimazui, Hitoaki Saito, Mitsuo Hori, Tatsuo Iijima, Hiroshi Kojima
Lymph node metastasis is one of the most important factors for tumor dissemination. Quantifying microRNA (miRNA) expression using real-time PCR in formalin-fixed, paraffin-embedded (FFPE) lymph node can provide valuable information regarding the biological research for cancer metastasis. However, a universal endogenous reference gene has not been identified in FFPE lymph node. This study aimed to identify suitable endogenous reference genes for miRNA expression analysis in FFPE lymph node. FFPE lymph nodes were obtained from 41 metastatic cancer and from 16 non-cancerous tissues...
April 12, 2018: Scientific Reports
Reut Ben-Menachem, Katherine Wang, Orly Marcu, Zhang Yu, Teck Kwang Lim, Qingsong Lin, Ora Schueler-Furman, Ophry Pines
Molecules of single proteins, echoforms, can be distributed between two (or more) subcellular locations, a phenomenon which we refer to as dual targeting or dual localization. The yeast aconitase gene ACO1 (778 amino acids), encodes a single translation product that is nonetheless dual localized to the cytosol and mitochondria by a reverse translocation mechanism. The solved crystal structure of aconitase isolated from porcine heart mitochondria shows that it has four domains. The first three tightly associated N-terminal domains are tethered to the larger C-terminal fourth domain (C-terminal amino acids 517-778)...
April 12, 2018: Scientific Reports
Piotr Rutkowski, Louie Gaston, Aneta Borkowska, Silvia Stacchiotti, Hans Gelderblom, Giacomo Giulio Baldi, Emanuela Palmerini, Paolo Casali, Alessandro Gronchi, Michael Parry, Domenico Andrea Campanacci, Guido Scoccianti, Michal Wagrodzki, Stefano Ferrari, Sander Dijkstra, Andrzej Pieńkowski, Robert Grimer
BACKGROUND: Giant cell tumor of bone (GCTB) is an osteolytic, locally aggressive, rarely metastazing bone tumor. This is a retrospective study evaluating a large series of GCTB patients treated with denosumab in routine practice in 6 European reference centers. METHODS: Patients with locally advanced, unresectable or metastatic GCTB, treated with denosumab outside clinical trials were eligible. Primary end-point was progression-free survival (PFS) for all patients; secondary end-points were: type of surgery, relapse rate and event-free survival for patients after preoperative denosumab + surgery...
March 31, 2018: European Journal of Surgical Oncology
Patrick P Edger, Michael R McKain, Kevin A Bird, Robert VanBuren
Whole genome duplications (WGDs), also known as polyploid events, have played a crucial role in the evolutionary success of angiosperms across recent and ancient timescales. A recurrent observation from the analysis of allopolyploids is that one of the parental subgenomes is generally more dominant, referred to as 'subgenome dominance', based on higher gene content and expression patterns. Subgenome dominance has far reaching implications to research areas ranging from crop improvement efforts to evolutionary and ecological studies...
April 9, 2018: Current Opinion in Plant Biology
Hsin-Ya Lou, Wenting Zhao, Yongpeng Zeng, Bianxiao Cui
Over the past decade, there has been growing interest in developing biosensors and devices with nanoscale and vertical topography. Vertical nanostructures induce spontaneous cell engulfment, which enhances the cell-probe coupling efficiency and the sensitivity of biosensors. Although local membranes in contact with the nanostructures are found to be fully fluidic for lipid and membrane protein diffusions, cells appear to actively sense and respond to the surface topography presented by vertical nanostructures...
April 12, 2018: Accounts of Chemical Research
Tien-Chueh Kuo, Yufeng Jane Tseng
Motivation: Lipids are divided into fatty acyls, glycerolipids, glycerophospholipids, sphingolipids, saccharolipids, sterols, prenol lipids and polyketides. Fatty acyls and glycerolipids are commonly used as energy storage, whereas glycerophospholipids, sphingolipids, sterols and saccharolipids are common used as components of cell membranes. Lipids in fatty acyls, glycerophospholipids, sphingolipids and sterols classes play important roles in signaling. Although more than 36 million lipids can be identified or computationally generated, no single lipid database provides comprehensive information on lipids...
April 10, 2018: Bioinformatics
Anca Elena Sirbu, Laura Buburuzan, Steliana Kevorkian, Sorina Martin, Carmen Barbu, Catalin Copaescu, Bogdan Smeu, Simona Fica
INTRODUCTION: Visceral adiposity is associated with decreased serum adiponectin levels, peripheral resistance to insulin and an increased risk of cardio-metabolic complications. However, the link between adiponectin expression in visceral adipose tissue (VAT), its serum levels and metabolic protection is controversial. The aim of this study was to investigate the relationship between the adiponectin gene expression in VAT and clinical and metabolic parameters in patients with severe obesity...
April 12, 2018: Endokrynologia Polska
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