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https://www.readbyqxmd.com/read/28330322/de-novo-transcriptome-sequencing-in-monsonia-burkeana-revealed-putative-genes-for-key-metabolic-pathways-involved-in-tea-quality-and-medicinal-value
#1
Adugna A Woldesemayat, Khayalethu Ntushelo, David M Modise
Monsonia (Monsonia burkeana Planch. ex Harv) is one of the most valuable tea and traditional medicinal plants used in Southern Africa. In spite of this, there is no sequence information regarding this plant in literature. To provide understanding of the naturally occurring tea and drug-specific products and the key pathways for the biosynthesis of these molecules, we sequenced the leaf transcriptome using Illumina MiSeq platform and generated 2,590,652 paired-end reads that were assembled de novo into 45,450 high-quality transcripts...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330315/characterization-and-development-of-est-ssr-markers-in-sweet-potato-ipomoea-batatas-l-lam
#2
Jin-Hee Kim, Jun-Hoi Kim, Won-Sam Jo, Jeong-Gwan Ham, Il Kyung Chung, Kyung-Min Kim
In this study, a cDNA library was constructed from the total RNA of sweet potato leaves. A total of 789 copies of the cDNA were cloned in Escherichia coli by employing the pGEM-T Easy vector. Sequencing was carried out by Solgent Co. (Korea). As many as 579 expressed sequence tag-simple sequence repeat (EST-SSR) markers were designed (73.38%) from the known cDNA nucleotide base sequences. The lengths of the developed EST-SSR markers ranged from 100 to 499 bp (average length 238 bp). Their motif sequence types were varied, with most being dinucleotides and pentanucleotides, and the most commonly found motifs were CAGAAT (29...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330270/expression-and-purification-of-a-gene-encoding-a-9-7%C3%A2-kda-pe-protein-of-mycobacterium-avium-subsp-paratuberculosis
#3
S Chandra Sekar, P P Goswami, R Deb
Mycobacterium avium subsp. paratuberculosis (Map) contains PE family antigens which are Proline and glutamic acid rich and may play important role as T-cell antigens. In the present study, the Map 1507 ORF encoding 9.7 kDa PE protein was amplified by polymerase chain reaction and cloned into E. coli vector pQE30 UA. The recombinant plasmid designated as pQ PE was transformed into E. coli M15 cells and induced with IPTG revealed the high level expression of 11.9 kDa His-fusion protein as estimated by migration in 15 % sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE)...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330165/genetic-characterization-and-population-structure-of-indian-rice-cultivars-and-wild-genotypes-using-core-set-markers
#4
Malathi Surapaneni, Divya Balakrishnan, Sukumar Mesapogu, Addanki Krishnam Raju, Yadavalli Venkateswara Rao, Sarla Neelamraju
Genetic diversity among 23 rice genotypes including wild species and cultivars of indica, japonica, aus and aromatic type was investigated using 165 genomewide core set microsatellite (SSR) markers. This genotypic characterization was undertaken to know the genetic similarity among the parental lines to be used in developing a set of chromosome segment substitution lines. In all, 253 alleles were identified using 77 polymorphic SSRs, and polymorphism information content ranged from 0.31 to 0.97 with a mean of 0...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330146/mapping-of-stripe-rust-resistance-qtl-in-cappelle-desprez%C3%A2-%C3%A3-%C3%A2-pbw343-ril-population-effective-in-northern-wheat-belt-of-india
#5
Sushma Kumari Pawar, Davinder Sharma, Joginder Singh Duhan, Mahender Singh Saharan, Ratan Tiwari, Indu Sharma
Stripe rust caused by Puccinia striiformis f. sp. tritici is most important and devastating disease of wheat worldwide, which affects the grain yields, quality and nutrition. To elucidate, the genetic basis of resistance, a mapping population of recombinant inbred lines was developed from a cross between resistant Cappelle-Desprez and susceptible cultivar PBW343 using single-seed descent. Variety PBW343 had been one of the most popular cultivars of North Western Plains Zone, for more than a decade, before succumbing to the stripe rust...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330138/vdap-gui-a-user-friendly-pipeline-for-variant-discovery-and-annotation-of-raw-next-generation-sequencing-data
#6
Ramesh Menon, Namrata V Patel, Amitbikram Mohapatra, Chaitanya G Joshi
Even though next-generation sequencing (NGS) has become an invaluable tool in molecular biology, several laboratories with NGS facilities lack trained Bioinformaticians for data analysis. Here, focusing on the variant detection application of NGS analysis, we have developed a fully automated pipeline, namely Variant Discovery and Annotation Tool-Graphical User Interface (VDAP-GUI), which detects and annotates single nucleotide polymorphisms and insertions/deletions from raw sequence reads. VDAP-GUI consolidates several proven methods in each step such as quality control, trimming, mapping, variant detection and annotation...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330019/facial-nerve-tractography-a-new-tool-to-detect-perineural-invasion-in-parotid-cancers
#7
René-Charles Rouchy, Arnaud Attyé, Irène Troprès, Maud Medici, Adrian Kastler, Christian Righini, Alexandre Krainik
PURPOSE: To determine whether magnetic resonance (MR) tractography of facial nerve (VIIn) is useful to detect perineural invasion in case of parotid cancers. MATERIALS AND METHODS: Thirty patients, aged 18 or over, were enrolled in this prospective study between December 2013 and March 2016 (IRB 5891), with a diagnosis of parotid tumors (15 malignant, 15 benign). They have undergone preoperative MR scans (3.0-T) before surgical management. The parameters of the diffusion-weighted (DW) sequence were b-value of 1000s/mm(2); 32 directions; voxel size: 2mm isotropic; scan time: 9' The post-processing generates whole-neck constrained spherical deconvolution (CSD)-based tractography data and super-resolution track-weighted imaging (TWI) technique...
March 2017: Journal of Neuroradiology. Journal de Neuroradiologie
https://www.readbyqxmd.com/read/28329856/adult-day-center-programs-and-their-associated-outcomes-on-clients-caregivers-and-the-health-system-a-scoping-review
#8
Moriah E Ellen, Peter Demaio, Ariella Lange, Michael G Wilson
Purpose of the Study: Adult day centers (ADCs) offer a heterogeneous group of services that provide for the daily living, care, nutritional, and social needs of older adults. We sought to conceptually map and identify key gaps and findings from literature focused on ADCs, including the types of programs that exist and their associated outcomes on improving health and strengthening health systems. Design and Methods: We conducted a scoping review by searching 5 databases for studies evaluating the outcomes of ADCs specifically for community-dwelling older adults...
March 17, 2017: Gerontologist
https://www.readbyqxmd.com/read/28329837/associations-across-caregiver-and-care-recipient-symptoms-self-organizing-map-and-meta-analysis
#9
Ari Voutilainen, Nora Ruokostenpohja, Tarja Välimäki
Purpose of the Study: The main objective of this study was to reveal generalizable associations across caregiver burden (CGB), caregiver depression (CGD), care recipient cognitive ability (CRCA), and care recipient behavioral and psychological symptoms of dementia (BPSD). Design and Methods: Studies published between 2004 and 2014 and reporting CGB and/or CGD together with CRCA and/or BPSD were included. Only 95 out of 1,955 studies provided enough data for data clustering with the Self-Organizing Map (SOM) and 27 of them for meta-analyses based on correlation coefficients...
March 10, 2017: Gerontologist
https://www.readbyqxmd.com/read/28329836/convoys-of-social-relations-in-cross-national-context
#10
Kristine J Ajrouch, Heather R Fuller, Hiroko Akiyama, Toni C Antonucci
Purpose of the Study: This study examines national variations in social networks among older adults across 4 countries in diverse regions of the world: Japan, Lebanon, Mexico, and the United States. The aim is to provide insights into universal as well as unique attributes of social networks in later life. Design and Methods: The analyses examine convoy characteristics among adults aged 50+ in metropolitan areas of Japan (N = 557), Lebanon (N = 284), Mexico (N = 556), and the United States (N = 583)...
January 19, 2017: Gerontologist
https://www.readbyqxmd.com/read/28329756/functional-materials-discovery-using-energy-structure-function-maps
#11
Angeles Pulido, Linjiang Chen, Tomasz Kaczorowski, Daniel Holden, Marc A Little, Samantha Y Chong, Benjamin J Slater, David P McMahon, Baltasar Bonillo, Chloe J Stackhouse, Andrew Stephenson, Christopher M Kane, Rob Clowes, Tom Hasell, Andrew I Cooper, Graeme M Day
Molecular crystals cannot be designed in the same manner as macroscopic objects, because they do not assemble according to simple, intuitive rules. Their structures result from the balance of many weak interactions, rather than from the strong and predictable bonding patterns found in metal-organic frameworks and covalent organic frameworks. Hence, design strategies that assume a topology or other structural blueprint will often fail. Here we combine computational crystal structure prediction and property prediction to build energy-structure-function maps that describe the possible structures and properties that are available to a candidate molecule...
March 22, 2017: Nature
https://www.readbyqxmd.com/read/28329690/tissue-myeloid-progenitors-differentiate-into-pericytes-through-tgf-%C3%AE-signaling-in-developing-skin-vasculature
#12
Tomoko Yamazaki, Ani Nalbandian, Yutaka Uchida, Wenling Li, Thomas D Arnold, Yoshiaki Kubota, Seiji Yamamoto, Masatsugu Ema, Yoh-Suke Mukouyama
Mural cells (pericytes and vascular smooth muscle cells) are essential for the regulation of vascular networks and maintenance of vascular integrity, but their origins are diverse in different tissues and not known in the organs that arise from the ectoderm, such as skin. Here, we show that tissue-localized myeloid progenitors contribute to pericyte development in embryonic skin vasculature. A series of in vivo fate-mapping experiments indicates that tissue myeloid progenitors differentiate into pericytes...
March 21, 2017: Cell Reports
https://www.readbyqxmd.com/read/28329387/map-to-the-future-of-cardiac-magnetic-resonance-in-myocarditis
#13
Philip Haaf, Peter T Buser
No abstract text is available yet for this article.
March 8, 2017: European Heart Journal Cardiovascular Imaging
https://www.readbyqxmd.com/read/28329295/flow-dynamics-assessment-of-mitral-valve-surgery-by-intraoperative-vector-flow-mapping
#14
Koichi Akiyama, Naotoshi Nakamura, Keiichi Itatani, Yoshifumi Naito, Mao Kinoshita, Masaru Shimizu, Saeko Hamaoka, Hideya Kato, Hiroaki Yasumoto, Yasufumi Nakajima, Toshiki Mizobe, Satoshi Numata, Hitoshi Yaku, Teiji Sawa
OBJECTIVES: We assessed vortex patterns and energy loss in left ventricular flow in patients who underwent mitral valve repair or replacement with bioprosthetic valves. METHODS: Vector flow mapping was performed before and after the procedure in 15 and 17 patients who underwent repair and replacement, respectively. The preprocedure mitral-septal angle was measured in all patients. Relationships between vortex patterns or energy loss change (ELC) and annuloplasty ring or bioprosthetic valve sizes or the effect of mitral leaflet resection in the repair group were statistically analysed...
February 22, 2017: Interactive Cardiovascular and Thoracic Surgery
https://www.readbyqxmd.com/read/28329275/tissue-characterization-by-t1-and-t2-mapping-cardiovascular-magnetic-resonance-imaging-to-monitor-myocardial-inflammation-in-healing-myocarditis
#15
S Bohnen, U K Radunski, G K Lund, F Ojeda, Y Looft, M Senel, L Radziwolek, M Avanesov, E Tahir, C Stehning, B Schnackenburg, G Adam, S Blankenberg, K Muellerleile
Aims: Monitoring disease activity in myocarditis is important for tailored therapeutic strategies. This study evaluated the ability of T1 and T2 mapping cardiovascular magnetic resonance (CMR) to monitor the course of myocardial inflammation in healing myocarditis. Methods and results: Forty-eight patients with strictly defined acute myocarditis underwent CMR at 1.5 T in the acute stage, at 3-months (n = 39), and at 12-months follow-up (FU) (n = 21). Normal values were obtained in a control group of 27 healthy subjects...
March 8, 2017: European Heart Journal Cardiovascular Imaging
https://www.readbyqxmd.com/read/28328993/agreement-between-functional-connectivity-and-cortical-thickness-driven-correlation-maps-of-the-medial-frontal-cortex
#16
Hyunjin Park, Yeong-Hun Park, Jungho Cha, Sang Won Seo, Duk L Na, Jong-Min Lee
Parcellation of the human cortex has important implications in neuroscience. Parcellation is often a crucial requirement before meaningful regional analysis can occur. The human cortex can be parcellated into distinct regions based on structural features, such as gyri and sulci. Brain network patterns in a given region with respect to its neighbors, known as connectional fingerprints, can be used to parcellate the cortex. Distinct imaging modalities might provide complementary information for brain parcellation...
2017: PloS One
https://www.readbyqxmd.com/read/28328985/construction-and-evaluation-of-a-high-density-snp-array-for-the-pacific-oyster-crassostrea-gigas
#17
Haigang Qi, Kai Song, Chunyan Li, Wei Wang, Busu Li, Li Li, Guofan Zhang
Single nucleotide polymorphisms (SNPs) are widely used in genetics and genomics research. The Pacific oyster (Crassostrea gigas) is an economically and ecologically important marine bivalve, and it possesses one of the highest levels of genomic DNA variation among animal species. Pacific oyster SNPs have been extensively investigated; however, the mechanisms by which these SNPs may be used in a high-throughput, transferable, and economical manner remain to be elucidated. Here, we constructed an oyster 190K SNP array using Affymetrix Axiom genotyping technology...
2017: PloS One
https://www.readbyqxmd.com/read/28328983/novel-keyword-co-occurrence-network-based-methods-to-foster-systematic-reviews-of-scientific-literature
#18
Srinivasan Radhakrishnan, Serkan Erbis, Jacqueline A Isaacs, Sagar Kamarthi
Systematic reviews of scientific literature are important for mapping the existing state of research and highlighting further growth channels in a field of study, but systematic reviews are inherently tedious, time consuming, and manual in nature. In recent years, keyword co-occurrence networks (KCNs) are exploited for knowledge mapping. In a KCN, each keyword is represented as a node and each co-occurrence of a pair of words is represented as a link. The number of times that a pair of words co-occurs in multiple articles constitutes the weight of the link connecting the pair...
2017: PloS One
https://www.readbyqxmd.com/read/28328971/mapping-the-n-linked-glycosites-of-rice-oryza-sativa-l-germinating-embryos
#19
Jiezheng Ying, Juan Zhao, Yuxuan Hou, Yifeng Wang, Jiehua Qiu, Zhiyong Li, Xiaohong Tong, Zhaomei Shi, Jun Zhu, Jian Zhang
Germination is a key event in the angiosperm life cycle. N-glycosylation of proteins is one of the most common post-translational modifications, and has been recognized to be an important regulator of the proteome of the germinating embryo. Here, we report the first N-linked glycosites mapping of rice embryos during germination by using a hydrophilic interaction chromatography (HILIC) glycopeptides enrichment strategy associated with high accuracy mass spectrometry identification. A total of 242 glycosites from 191 unique proteins was discovered...
2017: PloS One
https://www.readbyqxmd.com/read/28328962/the-blood-dna-virome-in-8-000-humans
#20
Ahmed Moustafa, Chao Xie, Ewen Kirkness, William Biggs, Emily Wong, Yaron Turpaz, Kenneth Bloom, Eric Delwart, Karen E Nelson, J Craig Venter, Amalio Telenti
The characterization of the blood virome is important for the safety of blood-derived transfusion products, and for the identification of emerging pathogens. We explored non-human sequence data from whole-genome sequencing of blood from 8,240 individuals, none of whom were ascertained for any infectious disease. Viral sequences were extracted from the pool of sequence reads that did not map to the human reference genome. Analyses sifted through close to 1 Petabyte of sequence data and performed 0.5 trillion similarity searches...
March 22, 2017: PLoS Pathogens
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