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https://www.readbyqxmd.com/read/28549769/variations-in-the-cerebrospinal-fluid-proteome-following-traumatic-brain-injury-and-subarachnoid-hemorrhage
#1
David E Connor, Ganta V Chaitanya, Prashant Chittiboina, Paul McCarthy, L Keith Scott, Lisa Schrott, Alireza Minagar, Anil Nanda, J Steven Alexander
BACKGROUND: Proteomic analysis of cerebrospinal fluid (CSF) has shown great promise in identifying potential markers of injury in neurodegenerative diseases [1-13]. Here we compared CSF proteomes in healthy individuals, with patients diagnosed with traumatic brain injury (TBI) and subarachnoid hemorrhage (SAH) in order to characterize molecular biomarkers which might identify these different clinical states and describe different molecular mechanisms active in each disease state. METHODS: Patients presenting to the Neurosurgery service at the Louisiana State University Hospital-Shreveport with an admitting diagnosis of TBI or SAH were prospectively enrolled...
May 13, 2017: Pathophysiology: the Official Journal of the International Society for Pathophysiology
https://www.readbyqxmd.com/read/28547376/nonribosomal-peptides-and-polyketides-of-burkholderia-new-compounds-potentially-implicated-in-biocontrol-and-pharmaceuticals
#2
Qassim Esmaeel, Maude Pupin, Philippe Jacques, Valérie Leclère
Bacteria belonging to the genus Burkholderia live in various ecological niches and present a significant role in the environments through the excretion of a wide variety of secondary metabolites including modular nonribosomal peptides (NRPs) and polyketides (PKs). These metabolites represent a widely distributed biomedically and biocontrol important class of natural products including antibiotics, siderophores, and anticancers as well as biopesticides that are considered as a novel source that can be used to defend ecological niche from competitors and to promote plant growth...
May 25, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28546675/anatomical-correlation-of-core-muscle-activation-in-different-yogic-postures
#3
REVIEW
Mrithunjay Rathore, Soumitra Trivedi, Jessy Abraham, Manisha B Sinha
Faulty postures due to sedentary lifestyle cause weakening of core muscles which contributes to increased incidence of musculoskeletal disorders (MSDs). Although a few research studies have quantified the core muscle activity in various yogic exercises used in rehabilitation programs, evidence correlating it to functional anatomy is scarce. Such information is important for exercise prescription when formulating treatment plans for MSDs. Therefore, the objective of this review article is to examine the literature and analyze the muscle activity produced across various yoga postures to determine which type of yoga posture elicits the highest activation for the core muscle in individuals...
May 2017: International Journal of Yoga
https://www.readbyqxmd.com/read/28542275/combination-of-the-immunization-with-the-sequence-close-to-the-consensus-sequence-and-two-dna-prime-plus-one-vlp-boost-generate-h5-hemagglutinin-specific-broad-neutralizing-antibodies
#4
Guiqin Wang, Renfu Yin, Paul Zhou, Zhuang Ding
Hemagglutinin (HA) head has long been considered to be able to elicit only a narrow, strain-specific antibody response as it undergoes rapid antigenic drift. However, we previously showed that a heterologous prime-boost strategy, in which mice were primed twice with DNA encoding HA and boosted once with virus-like particles (VLP) from an H5N1 strain A/Thailand/1(KAN)-1/2004 (noted as TH DDV), induced anti-head broad cross-H5 neutralizing antibody response. To explain why TH DDV immunization could generate such breadth, we systemically compared the neutralization breadth and potency between TH DDV sera and immune sera elicited by TH DDD (three times of DNA immunizations), TH VVV (three times of VLP immunizations), TH DV (one DNA prime plus one VLP boost) and TK DDV (plasmid DNA and VLP derived from another H5N1 strain, A/Turkey/65596/2006)...
2017: PloS One
https://www.readbyqxmd.com/read/28541756/genetic-diversity-of-mtdna-d-loop-sequences-in-four-native-chinese-chicken-breeds
#5
H W Guo, C Li, X N Wang, Z J Li, G R Sun, G X Li, X J Liu, X T Kang, R L Han
1. To explore the genetic diversity of Chinese indigenous chicken breeds, a 585 bp fragment of the mitochondrial DNA (mtDNA) region was sequenced in 102 birds from the Xichuan Black-bone chicken, Yunyang Black-bone chicken and Lushi chicken. In addition, 30 mtDNA D-loop sequences of Silkie fowls were downloaded from NCBI. The mtDNA D-loop sequence polymorphism and maternal origin of 4 chicken breeds were analysed in this study. 2. The results showed that a total of 33 mutation sites and 28 haplotypes were detected in the 4 chicken breeds...
May 25, 2017: British Poultry Science
https://www.readbyqxmd.com/read/28540358/dataset-of-the-transcribed-45s-ribosomal-rna-sequence-of-the-tree-crop-yerba-mate
#6
Patricia M Aguilera, Humberto J Debat, Mauro Grabiele
This contribution contains data related to the research article entitled "The 18S-25S ribosomal RNA unit of yerba mate (Ilex paraguariensis A. St.-Hil.)" (Aguilera et al., 2016) [1]. Through a bioinformatic approach involving NGS data, we provide information of the transcribed 45S ribosomal RNA (rRNA) sequence of yerba mate, the first reference for the Ilex L. genus. This dataset (Supplementary file 1) comprises information regarding the assembly and annotation of this rRNA unit. The generated data is applicable for comparative analysis and evolutionary studies among Ilex and related taxa...
June 2017: Data in Brief
https://www.readbyqxmd.com/read/28540183/the-draft-genome-of-corchorus-olitorius-cv-jro-524-navin
#7
Debabrata Sarkar, Ajay Kumar Mahato, Pratik Satya, Avijit Kundu, Sangeeta Singh, Pawan Kumar Jayaswal, Akshay Singh, Kaushlendra Bahadur, Sasmita Pattnaik, Nisha Singh, Avrajit Chakraborty, Nur Alam Mandal, Debajeet Das, Tista Basu, Amitha Mithra Sevanthi, Dipnarayan Saha, Subhojit Datta, Chandan Sourav Kar, Jiban Mitra, Karabi Datta, Pran Gobinda Karmakar, Tilak Raj Sharma, Trilochan Mohapatra, Nagendra Kumar Singh
Here, we present the draft genome (377.3 Mbp) of Corchorus olitorious cv. JRO-524 (Navin), which is a leading dark jute variety developed from a cross between African (cv. Sudan Green) and indigenous (cv. JRO-632) types. We predicted from the draft genome a total of 57,087 protein-coding genes with annotated functions. We identified a large number of 1765 disease resistance-like and defense response genes in the jute genome. The annotated genes showed the highest sequence similarities with that of Theobroma cacao followed by Gossypium raimondii...
June 2017: Genomics Data
https://www.readbyqxmd.com/read/28540003/vsx1-and-sod1-mutation-screening-in-patients-with-keratoconus-in-the-south-of-iran
#8
Mahmood Nejabat, Payam Naghash, Hassan Dastsooz, Sanaz Mohammadi, Mohsen Alipour, Majid Fardaei
PURPOSE: To investigate mutations of visual system homeobox 1 (VSX1) and superoxide dismutase 1 (SOD1) in 20 patients with keratoconus in the south of Iran. METHODS: Twenty patients with keratoconus who had a positive familial history were enrolled in this study and gave informed consent for DNA analysis. Genomic DNA was extracted from peripheral blood lymphocytes. Polymerase chain reaction (PCR) was carried out to amplify exon 2 of SOD1 and its exon-intron boundary for the detection of a seven-base deletion in intron 2 of SOD1, and also all five exons of VSX1 and their exon-intron boundaries...
April 2017: Journal of Ophthalmic & Vision Research
https://www.readbyqxmd.com/read/28535554/anesthetic-considerations-and-perioperative-management-of-spinal-cord-stimulators-literature-review-and-initial-recommendations
#9
Michael E Harned, Brandon Gish, Allison Zuelzer, Jay S Grider
BACKGROUND: Patients with implanted spinal cord stimulators (SCS) present to the anesthesia care team for management at many different points along the care continuum. Currently, the literature is sparse on the perioperative management. What is available is confusing; monopolar electrocautery is contraindicated but often used, full body magnetic resonance imaging (MRI) is safe with particular systems but with other manufactures only head and specific extremities exams are safe. Moreover, there are anesthetizing locations outside of the operating room where implanted SCS can interact with surrounding medical equipment and pose significant risk to patient and device...
May 2017: Pain Physician
https://www.readbyqxmd.com/read/28535552/stem-cell-therapy-for-chronic-pain-management-review-of-uses-advances-and-adverse-effects
#10
Krishnan Chakravarthy, Yian Chen, Cathy He, Paul J Christo
BACKGROUND: This review article outlines the recent advances, uses, and adverse effects of cell-based therapy for chronic pain management. Cell based therapies are gaining increasing ground as novel treatment modalities for a variety of pain pathologies that include, but are not limited to, neuropathic pain and degenerative disc disease. As these treatment modalities become more common practice, we have focused our review to provide pain practitioners and other practicing physicians an understanding of the technology and to summarize key clinical data and existing clinical trials that are being pursued by clinical investigators worldwide...
May 2017: Pain Physician
https://www.readbyqxmd.com/read/28535296/metasra-normalized-human-sample-specific-metadata-for-the-sequence-read-archive
#11
Matthew N Bernstein, AnHai Doan, Colin N Dewey
Motivation: The NCBI's Sequence Read Archive (SRA) promises great biological insight if one could analyze the data in the aggregate; however, the data remain largely underutilized, in part, due to the poor structure of the metadata associated with each sample. The rules governing submissions to the SRA do not dictate a standardized set of terms that should be used to describe the biological samples from which the sequencing data are derived. As a result, the metadata include many synonyms, spelling variants, and references to outside sources of information...
May 23, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28534953/proteomic-analysis-of-differentially-expressed-proteins-in-kidneys-of-brain-dead-rabbits
#12
Ling Li, Ning Li, Chongxiang He, Wei Huang, Xiaoli Fan, Zibiao Zhong, Yanfeng Wang, Qifa Ye
A large number of previous clinical studies have reported a delayed graft function for brain dead donors, when compared with living relatives or cadaveric organ transplantations. However, there is no accurate method for the quality evaluation of kidneys from brain‑dead donors. In the present study, two‑dimensional gel electrophoresis and MALDI‑TOF MS‑based comparative proteomic analysis were conducted to profile the differentially‑expressed proteins between brain death and the control group renal tissues...
May 19, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28534195/identification-of-a-small-molecule-that-facilitates-the-differentiation-of-human-ipscs-escs-and-mouse-embryonic-pancreatic-explants-into-pancreatic-endocrine-cells
#13
Yasushi Kondo, Taro Toyoda, Ryo Ito, Michinori Funato, Yoshiya Hosokawa, Satoshi Matsui, Tomomi Sudo, Masahiro Nakamura, Chihiro Okada, Xiaotong Zhuang, Akira Watanabe, Akira Ohta, Nobuya Inagaki, Kenji Osafune
AIMS/HYPOTHESIS: Pancreatic beta-like cells generated from human induced pluripotent stem cells (hiPSCs) or human embryonic stem cells (hESCs) offer an appealing donor tissue source. However, differentiation protocols that mainly use growth factors are costly. Therefore, in this study, we aimed to establish efficient differentiation protocols to change hiPSCs/hESCs to insulin (INS)(+) cells using novel small-molecule inducers. METHODS: We screened small molecules that increased the induction rate of INS(+) cells from hESC-derived pancreatic and duodenal homeobox 1 (PDX1)(+) pancreatic progenitor cells...
May 22, 2017: Diabetologia
https://www.readbyqxmd.com/read/28534166/in-silico-identification-and-validation-of-potential-micrornas-in-kinnow-mandarin-citrus-reticulata-blanco
#14
Prashant Mohanpuria, Naveen Duhan, Navraj Kaur Sarao, Manvir Kaur, Mandip Kaur
MicroRNAs (miRNAs) are a large family of 19-25 nucleotides, regulatory, non-coding RNA molecules that control gene expression by cleaving or inhibiting the translation of target gene transcripts in animals and plants. Despite the important functions of miRNAs related to regulation of plant growth and development processes, metabolism, and abiotic and biotic stresses, little is known about the disease-related miRNA. Here, we present a new pipeline for miRNA analysis using expressed sequence tags (ESTs)-based bioinformatics approach in Kinnow mandarin, a commercially important citrus fruit crop...
May 22, 2017: Interdisciplinary Sciences, Computational Life Sciences
https://www.readbyqxmd.com/read/28533788/grapevine-subtilase-family-update-on-new-sequences-and-nomenclature-proposal
#15
Joana Figueiredo, Marisa Maia, Marta Sousa Silva, Andreia Figueiredo
In grapevine, serine peptidases from the subtilase family were recently associated to Plasmopara viticola resistance. This family in grapevine, first characterized in 2014, was re-analyzed last year and 82 subtilase genes were identified. However, in November of 2016, the National Center for Biotechnology Information database (NCBI) made a new public release of the grapevine genome annotation based on new sequencing data and better prediction algorithms. As a consequence, some gene annotations and lengths changed...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28531235/rna-seq-analysis-of-gene-expression-for-floral-development-in-crested-wheatgrass-agropyron-cristatum-l
#16
Fangqin Zeng, Bill Biligetu, Bruce Coulman, Michael P Schellenberg, Yong-Bi Fu
Crested wheatgrass [Agropyron cristatum L. (Gaertn.)] is widely used for early spring grazing in western Canada and the development of late maturing cultivars which maintain forage quality for a longer period is desired. However, it is difficult to manipulate the timing of floral transition, as little is known about molecular mechanism of plant maturity in this species. In this study, RNA-Seq and differential gene expression analysis were performed to investigate gene expression for floral initiation and development in crested wheatgrass...
2017: PloS One
https://www.readbyqxmd.com/read/28529702/assessing-the-species-composition-of-tropical-eels-anguillidae-in-aceh-waters-indonesia-with-dna-barcoding-gene-cox1
#17
Zainal A Muchlisin, Agung Setia Batubara, Nur Fadli, Abdullah A Muhammadar, Afrita Ida Utami, Nurul Farhana, Mohd Nor Siti-Azizah
The objective of the present study was to evaluate the species diversity of eels native to Aceh waters based on genetic data. Sampling was conducted in western coast waters of Aceh Province, Indonesia, from July to August 2016. Genomic DNA was extracted from the samples, a genomic region from the 5' region of the cox1 gene was amplified and sequenced, and this was then used to analyse genetic variation. The genetic sequences were blasted into the NCBI database. Based on this analysis there were three valid species of eels that occurred in Aceh waters, namely Anguilla marmorata, A...
2017: F1000Research
https://www.readbyqxmd.com/read/28529692/abnormal-expression-of-atp1a1-and-atp1a2-in-breast-cancer
#18
Alexey Bogdanov, Fedor Moiseenko, Michael Dubina
Breast cancer is the first in incidence and the second in death among all solid tumors occurring in women. The identification of molecular genetic abnormalities in breast cancer is important to improve the results of treatment. In the present study, we analyzed microarray data of breast cancer expression profiling (NCBI GEO database, accession GSE65194), focusing on Na (+)/K (+)-ATPase coding genes. We found overexpression of the ATP1A1 and down-regulation of the ATP1A2. We expect that our research could help to improve the understanding of predictive and prognostic features of breast cancer...
2017: F1000Research
https://www.readbyqxmd.com/read/28529509/a-novel-esat-6-secretion-system-secreted-protein-esxx-of-community-associated-staphylococcus-aureus-lineage-st398-contributes-to-immune-evasion-and-virulence
#19
Yingxin Dai, Yanan Wang, Qian Liu, Qianqian Gao, Huiying Lu, Hongwei Meng, Juanxiu Qin, Mo Hu, Min Li
The ESAT-6 secretion system (ESS) has been reported to contribute to the virulence and pathogenicity of several Staphylococcus aureus strains such as USA300 and Newman. However, the role of the ESS in community-associated S. aureus (CA-SA) lineage ST398 in China is not well understood. By comparing the ess locus of ST398 with the published S. aureus sequence in the NCBI database, we found one gene in the ess locus encoding a novel WXG superfamily protein that is highly conserved only in ST398. LC-MS/MS and Western blot analysis revealed that this protein is a novel secreted protein controlled by the ST398 ESS, and we named the protein EsxX...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28516137/a-curated-dataset-of-complete-enterobacteriaceae-plasmids-compiled-from-the-ncbi-nucleotide-database
#20
Alex Orlek, Hang Phan, Anna E Sheppard, Michel Doumith, Matthew Ellington, Tim Peto, Derrick Crook, A Sarah Walker, Neil Woodford, Muna F Anjum, Nicole Stoesser
Thousands of plasmid sequences are now publicly available in the NCBI nucleotide database, but they are not reliably annotated to distinguish complete plasmids from plasmid fragments, such as gene or contig sequences; therefore, retrieving complete plasmids for downstream analyses is challenging. Here we present a curated dataset of complete bacterial plasmids from the clinically relevant Enterobacteriaceae family. The dataset was compiled from the NCBI nucleotide database using curation steps designed to exclude incomplete plasmid sequences, and chromosomal sequences misannotated as plasmids...
June 2017: Data in Brief
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