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https://www.readbyqxmd.com/read/29053634/petroleum-hydrocarbon-profiles-of-water-and-sediment-of-algoa-bay-eastern-cape-south-africa
#1
Abiodun O Adeniji, Omobola O Okoh, Anthony I Okoh
Petroleum hydrocarbon profiles of water and sediment samples of Algoa Bay in the Eastern Cape Province of South Africa were assessed using standard analytical procedures. Water (from surface and bottom levels) and sediment samples were collected from five locations in the bay from February to June 2016. Extraction of the petroleum hydrocarbons from the water and sediment samples collected was achieved using liquid-liquid and Soxhlet extraction techniques, respectively, followed by column clean up. Target compounds were analytically determined with gas chromatography-flame ionization detector (GC-FID) and quantified by integrating the areas of both the resolved and unresolved components...
October 20, 2017: International Journal of Environmental Research and Public Health
https://www.readbyqxmd.com/read/29051543/cryoem-structure-of-saccharomyces-cerevisiae-u1-snrnp-offers-insight-into-alternative-splicing
#2
Xueni Li, Shiheng Liu, Jiansen Jiang, Lingdi Zhang, Sara Espinosa, Ryan C Hill, Kirk C Hansen, Z Hong Zhou, Rui Zhao
U1 snRNP plays a critical role in 5'-splice site recognition and is a frequent target of alternative splicing factors. These factors transiently associate with human U1 snRNP and are not amenable for structural studies, while their Saccharomyces cerevisiae (yeast) homologs are stable components of U1 snRNP. Here, we report the cryoEM structure of yeast U1 snRNP at 3.6 Å resolution with atomic models for ten core proteins, nearly all essential domains of its RNA, and five stably associated auxiliary proteins...
October 19, 2017: Nature Communications
https://www.readbyqxmd.com/read/29050128/-lung-transplantation-for-connective-tissue-disease-associated-interstitial-lung-disease-recipient
#3
J Zhang, B Wu, M Zhou, D Liu, L Fan, D Wei, H Yang, J Y Chen
Objective: To investigate the timing and complications of lung transplantation for the treatment of connective tissue disease-associated interstitial lung disease (CTD-ILD). Method: The clinical data of connective tissue-associated disease lung transplantation recipients from September, 2015 to February, 2017 were collected. Results: 11 patients with CTD-ILD were evaluated by lung transplantation and were treated with lung transplantation. Including 2 cases dermatomyositis/polymyositis and interstitial lung disease (PM/DM-ILD), 4 cases rheumatoid arthritis and interstitial lung disease (RA-ILD), 4 cases of primary Sjgren's syndrome and interstitial lung disease (pSS-ILD), 1 case of systemic sclerosis and interstitial lung disease (SSc-ILD)...
October 12, 2017: Chinese Journal of Tuberculosis and Respiratory Diseases
https://www.readbyqxmd.com/read/29043394/in-silico-analyses-reveal-the-relationship-between-six1-eya1-mutations-and-conotruncal-heart-defects
#4
Bojian Li, Lijuan Xu, Nanchao Hong, Sun Chen, Rang Xu
Conotruncal heart defects (CTDs) represent a group of severe and complicated congenital cardiovascular malformations and require opportune clinical interventions once diagnosed. Occurrence of CTD is related to the functional abnormality of the second heart field (SHF), and variants of genes which regulate the development of the second heart field have been recognized as the main genetic factors leading to CTDs. Previous studies indicated that transcriptional complex SIX1/EYA1 may contribute to SHF development, and SIX1/EYA1 knockout mice exhibited a series of conotruncal malformations...
October 17, 2017: Pediatric Cardiology
https://www.readbyqxmd.com/read/29037867/costunolide-specifically-binds-and-inhibits-thioredoxin-reductase-1-to-induce-apoptosis-in-colon-cancer
#5
Weishan Zhuge, Ruijie Chen, Katanaev Vladimir, Xidan Dong, Khan Zia, Xiangwei Sun, Xuanxuan Dai, Miao Bao, Xian Shen, Guang Liang
Colon cancer is one of the leading causes of cancer-related deaths. A natural sesquiterpene lactone, costunolide (CTD), showed inhibition of cancer development. However, the underlying mechanisms are not known. Here, we have examined the therapeutic activity and novel mechanisms of the anti-cancer activities of CTD in colon cancer cells. Using SPR analysis and enzyme activity assay on recombinant TrxR1 protein, our results show that CTD directly binds and inhibits the activity of TrxR1, which caused enhanced generation of ROS and led to ROS-dependent endoplasmic reticulum stress and cell apoptosis in colon cancer cells...
October 13, 2017: Cancer Letters
https://www.readbyqxmd.com/read/29030271/noael-dose-of-a-neonicotinoid-pesticide-clothianidin-acutely-induce-anxiety-related-behavior-with-human-audible-vocalizations-in-male-mice-in-a-novel-environment
#6
Tetsushi Hirano, Shogo Yanai, Tadashi Takada, Naoki Yoneda, Takuya Omotehara, Naoto Kubota, Kiichi Minami, Anzu Yamamoto, Youhei Mantani, Toshifumi Yokoyama, Hiroshi Kitagawa, Nobuhiko Hoshi
Neonicotinoids are novel systemic pesticides acting as agonists on the nicotinic acetylcholine receptors (nAChRs) of insects. Experimental studies have revealed that neonicotinoids pose potential risks for the nervous systems of non-target species, but the brain regions responsible for their behavioral effects remain incompletely understood. This study aimed to assess the neurobehavioral effects of clothianidin (CTD), a later neonicotinoid developed in 2001 and widely used worldwide, and to explore the target regions of neonicotinoids in the mammalian brain...
October 10, 2017: Toxicology Letters
https://www.readbyqxmd.com/read/29019670/design-synthesis-and-biological-activities-of-vibsanin-b-derivatives-a-new-class-of-hsp90-c-terminal-inhibitors
#7
Li-Dong Shao, Jia Su, Baixin Ye, Jiang-Xin Liu, Zhili Zuo, Yan Li, Yue-Ying Wang, Chengfeng Xia, Qin-Shi Zhao
Previously, vibsanin B (ViB) was found to preferentially target HSP90β compared to HSP90α. In this study, multiple-experiments, including pull-down assays of biotin-ViB with recombinant HSP90β-NTD, MD, CTD, and full-length HSP90β; molecular docking of ViB and its derivatives to the HSP90 CTD; and a inhibition assay of interaction of the HSP90β CTD with GST-tagged cyclophilin 40 (Cyp40) by ViB derivatives, suggest that ViB can directly bind to the HSP90 C-terminus. Based on the docking predictions and primary structure-activity relationships (SARs), a series of ViB analogues devised with focus on the C18 position, along with compounds derivatized at the C4, C7, and C8 positions, were designed and chemically synthesized...
October 11, 2017: Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/29018978/identification-of-zfpm2-mutations-in-sporadic-conotruncal-heart-defect-patients
#8
Tian Pu, Yang Liu, Rang Xu, Fen Li, Sun Chen, Kun Sun
Conotruncal heart defects (CTDs) are a group of cardiac malformations that involve outflow tract anomalies and the arterial pole of the heart. Recent reports have identified mutations in a number of genes associated with CTDs in human and animal models. ZFPM2 plays a role in cardiac development by acting as a transcriptional cofactor that interacts with GATA4. Because ZFPM2 was found to be important for cardiac development in a knockout mouse model, we screened for ZFPM2 mutations in 528 CTD patients. We identified six rare and nonsynonymous ZFPM2 variants, and this was the first time that five of these variants (R698Q, R736L, E1005K, T32A, and I488V) were reported in East Asians...
October 10, 2017: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/28981718/c-terminal-lysine-repeats-in-streptomyces-topoisomerase-i-stabilize-the-enzyme-dna-complex-and-confer-high-enzyme-processivity
#9
Agnieszka Strzalka, Marcin J Szafran, Terence Strick, Dagmara Jakimowicz
Streptomyces topoisomerase I (TopA) exhibits exceptionally high processivity. The enzyme, as other actinobacterial topoisomerases I, differs from its bacterial homologs in its C-terminal domain (CTD). Here, bioinformatics analyses established that the presence of lysine repeats is a characteristic feature of actinobacterial TopA CTDs. Streptomyces TopA contains the longest stretch of lysine repeats, which terminate with acidic amino acids. DNA-binding studies revealed that the lysine repeats stabilized the TopA-DNA complex, while single-molecule experiments showed that their elimination impaired enzyme processivity...
September 13, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28980143/nmr-assignments-of-the-n-terminal-domain-of-staphylococcus-aureus-hibernation-promoting-factor-sahpf
#10
Konstantin S Usachev, Rustam Kh Ayupov, Shamil Z Validov, Iskander Sh Khusainov, Marat M Yusupov
Staphylococcus aureus: hibernation-promoting factor (SaHPF) is a 22.2 kDa stationary-phase protein that binds to the ribosome and turns it to the inactive form favoring survival under stress. Sequence analysis has shown that this protein is combination of two homolog proteins obtained in Escherichia coli-ribosome hibernation promoting factor (HPF) (11,000 Da) and ribosome modulation factor RMF (6500 Da). Binding site of E. coli HPF on the ribosome have been shown by X-ray study of Thermus thermophilus ribosome complex...
October 4, 2017: Biomolecular NMR Assignments
https://www.readbyqxmd.com/read/28975961/outcomes-rates-and-predictors-of-transition-of-isolated-raynaud-s-phenomenon-a-systematic-review-and-meta-analysis
#11
Francesca Ingegnoli, Nicola Ughi, Chiara Crotti, Marta Mosca, Chiara Tani
QUESTIONS: Published studies lack clear indicators of risk and predictors of transition from Raynaud's phenomenon (Rp) to connective tissue diseases (CTDs). Therefore, we aimed to study the outcomes, rates and predictors of transition to CTDs in patients with Rp. METHODS: A sensitive search was developed in Medline and Embase. Observational studies reporting incidence and risk factors of transition from Rp to a CTD were analysed by two independent reviewers. The main outcome was the rate of transition to a CTD; the secondary outcome was the evaluation of predictors...
October 4, 2017: Swiss Medical Weekly
https://www.readbyqxmd.com/read/28953901/allosteric-activation-mechanism-of-bk-channel-gating-ring-triggered-by-calcium-ions
#12
Ronghua Guan, Hui Zhou, Junwei Li, Shaoying Xiao, Chunli Pang, Yafei Chen, Xiangrong Du, Shaoxi Ke, Qiongyao Tang, Jiguo Su, Yong Zhan, Hailong An
Calcium ions bind at the gating ring which triggers the gating of BK channels. However, the allosteric mechanism by which Ca2+ regulates the gating of BK channels remains obscure. Here, we applied Molecular Dynamics (MD) and Targeted MD to the integrated gating ring of BK channels, and achieved the transition from the closed state to a half-open state. Our date show that the distances of the diagonal subunits increase from 41.0 Å at closed state to 45.7Å or 46.4 Å at a half-open state. It is the rotatory motion and flower-opening like motion of the gating rings which are thought to pull the bundle crossing gate to open ultimately...
2017: PloS One
https://www.readbyqxmd.com/read/28952713/observation-by-real-time-nmr-and-interpretation-of-length-and-location-dependent-deamination-activity-of-apobec3b
#13
Li Wan, Takashi Nagata, Ryo Morishita, Akifumi Takaori-Kondo, Masato Katahira
Human APOBEC3B (A3B) deaminates a cytosine into a uracil in single-stranded (ss) DNA, resulting in human cancers. A3B's deamination activity is conferred by its C-terminal domain (CTD). However, little is known about the mechanism by which target sequences are searched and deaminated. Here, we applied the real-time NMR method to elucidate the deamination properties. We found that A3B CTD shows higher activity toward its target sequence in short ssDNA and efficiently deaminates a target sequence located near the center of ssDNA...
September 27, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28949900/is-it-important-to-disclose-how-treatments-are-selected-in-clinical-research-and-clinical-care
#14
Rahul K Nayak, David Wendler
BACKGROUND: Current practice and policies maintain that it is very important to disclose to potential research subjects that their treatment will be selected by randomization. In contrast, it typically is not considered important to disclose to patients how doctors select their treatment. Unfortunately, when the available treatment options are similar to one another, this approach has the potential to inadvertently undermine both clinical research and clinical care. Hence, it is important to assess whether, in the context of similar treatment options, individuals support current practice of using very different disclosure practices in research and care...
July 2017: AJOB Empirical Bioethics
https://www.readbyqxmd.com/read/28949136/iterative-molecular-dynamics-rosetta-membrane-protein-structure-refinement-guided-by-cryo-em-densities
#15
Sumudu P Leelananda, Steffen Lindert
Knowing atomistic details of proteins is essential not only for the understanding of protein function but also for the development of drugs. Experimental methods such as X-ray crystallography, NMR, and cryo-electron microscopy (cryo-EM) are the preferred forms of protein structure determination and have achieved great success over the most recent decades. Computational methods may be an alternative when experimental techniques fail. However, computational methods are severely limited when it comes to predicting larger macromolecule structures with little sequence similarity to known structures...
October 10, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28945358/lysines-in-the-rna-polymerase-ii-c-terminal-domain-contribute-to-taf15-fibril-recruitment
#16
Abigail M Janke, Da Hee Seo, Vahid Rahmanian, Alexander E Conicella, Kaylee L Mathews, Kathleen A Burke, Jeetain Mittal, Nicolas L Fawzi
Many cancer-causing chromosomal translocations result in transactivating protein products encoding FET family (FUS, EWSR1, TAF15) low-complexity (LC) domains fused to a DNA binding domain from one of several transcription factors. Recent work demonstrates that higher-order assemblies of FET LC domains bind the carboxy-terminal domain of the large subunit of RNA polymerase II (RNA pol II CTD), suggesting FET oncoproteins may mediate aberrant transcriptional activation by recruiting RNA polymerase II to promoters of target genes...
October 11, 2017: Biochemistry
https://www.readbyqxmd.com/read/28944137/pulmonary-hypertension-associated-with-antiphospholipid-antibody-call-for-a-screening-tool
#17
REVIEW
Rukma Parthvi, Rutuja R Sikachi, Abhinav Agrawal, Ajay Adial, Abhinav Vulisha, Sameer Khanijo, Arunabh Talwar
Antiphospholipid (aPL) antibodies are antibodies specific for anionic phospholipids. They are immunoglobulins that attack phospholipids, phospholipid-binding proteins, or phospholipid-protein complexes and are detected in anticardiolipin and lupus anticoagulant assays. aPL antibodies are often associated with antiphospholipid syndrome (APS) which can be idiopathic or from secondary causes such as systemic lupus erythematosus (SLE), infection or drugs. They have also been shown to be associated with Pulmonary Hypertension...
August 2017: Intractable & Rare Diseases Research
https://www.readbyqxmd.com/read/28938651/positive-transcription-elongation-factor-b-p-tefb-is-a-therapeutic-target-in-human-multiple-myeloma
#18
Yu Zhang, Liang Zhou, Yun Leng, Yun Dai, Robert Z Orlowski, Steven Grant
The role of the positive RNA Pol II regulator, P-TEFb (positive transcription elongation factor b), in maintenance of the anti-apoptotic protein Mcl-1 and bortezomib (btz) resistance was investigated in human multiple myeloma (MM) cells. Mcl-1 was up-regulated in all MM lines tested, including bortezomib-resistant lines, human MM xenograft mouse models, and primary CD138(+) MM cells. Mcl-1 over-expression significantly reduced bortezomib lethality, indicating a functional role for Mcl-1 in bortezomib resistance...
August 29, 2017: Oncotarget
https://www.readbyqxmd.com/read/28935842/the-paralogs-to-the-c-terminal-domain-of-the-cyanobacterial-ocp-are-carotenoid-donors-to-hcps
#19
Fernando Muzzopappa, Adjélé Wilson, Vinosa Yogarajah, Sandrine Cot, François Perreau, Cédric Montigny, Céline Bourcier de Carbon, Diana Kirilovsky
The photoactive Orange Carotenoid Protein photoprotects cyanobacteria cells by quenching singlet oxygen and excess excitation energy. Its N-terminal domain (NTD) is the active part of the protein and the C-terminal domain (CTD) regulates the activity. Recently, the characteristics of a family of soluble carotenoid-binding proteins (Helical Carotenoid Proteins or HCPs), paralogs of NTD-OCP, were described. Bioinformatics studies also revealed the existence of genes coding for homologs of CTD. Here, we show that the latter genes encode carotenoid proteins (CTDHs)...
September 21, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28934550/structural-and-mechanical-roles-for-the-c-terminal-non-repetitive-domain-become-apparent-in-recombinant-spider-aciniform-silk
#20
Lingling Xu, Thierry Lefèvre, Kathleen E Orrell, Qing Meng, Michèle Auger, Xiang-Qin Liu, Jan K Rainey
Spider aciniform (or wrapping) silk is the toughest of the seven types of spider silks/glue due to a combination of high elasticity and strength. Like most spider silk proteins (spidroins), aciniform spidroin (AcSp1) has a large core repetitive domain flanked by relatively short N- and C-terminal non-repetitive domains (the NTD and CTD, respectively). The major ampullate silk protein (MaSp) CTD has been shown to control protein solubility and fiber formation, but the aciniform CTD function remains unknown. Here, we compare fiber mechanical properties, solution-state structuring, and fibrous state secondary structural composition and orientation relative to native aciniform silk for two AcSp1 repeat units with or without fused AcSp1- and MaSp-derived CTDs alongside three AcSp1 repeat units without a CTD...
September 21, 2017: Biomacromolecules
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