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Proteomics

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https://www.readbyqxmd.com/read/28534980/a-proteomic-analysis-identifies-candidate-early-biomarkers-to-predict-ovarian-hyperstimulation-syndrome-in-polycystic-ovarian-syndrome-patients
#1
Lan Wu, Yazhou Sun, Jun Wan, Ting Luan, Qing Cheng, Yong Tan
Ovarian hyperstimulation syndrome (OHSS) is a potentially life‑threatening, iatrogenic complication that occurs during assisted reproduction. Polycystic ovarian syndrome (PCOS) significantly increases the risk of OHSS during controlled ovarian stimulation. Therefore, a more effective early prediction technique is required in PCOS patients. Quantitative proteomic analysis of serum proteins indicates the potential diagnostic value for disease. In the present study, the authors revealed the differentially expressed proteins in OHSS patients with PCOS as new diagnostic biomarkers...
May 18, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/28534953/proteomic-analysis-of-differentially-expressed-proteins-in-kidneys-of-brain-dead-rabbits
#2
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/28534833/coagulating-colubrids-evolutionary-pathophysiological-and-biodiscovery-implications-of-venom-variations-between-boomslang-dispholidus-typus-and-twig-snake-thelotornis-mossambicanus
#3
Jordan Debono, James Dobson, Nicholas R Casewell, Anthony Romilio, Bin Li, Nyoman Kurniawan, Karine Mardon, Vera Weisbecker, Amanda Nouwens, Hang Fai Kwok, Bryan G Fry
Venoms can deleteriously affect any physiological system reachable by the bloodstream, including directly interfering with the coagulation cascade. Such coagulopathic toxins may be anticoagulants or procoagulants. Snake venoms are unique in their use of procoagulant toxins for predatory purposes. The boomslang (Dispholidus typus) and the twig snakes (Thelotornis species) are iconic African snakes belonging to the family Colubridae. Both species produce strikingly similar lethal procoagulant pathologies. Despite these similarities, antivenom is only produced for treating bites by D...
May 19, 2017: Toxins
https://www.readbyqxmd.com/read/28534676/applications-of-raman-spectroscopy-in-biopharmaceutical-manufacturing-a-short-review
#4
Kevin Buckley, Alan G Ryder
The production of active pharmaceutical ingredients (APIs) is currently undergoing its biggest transformation in a century. The changes are based on the rapid and dramatic introduction of protein- and macromolecule-based drugs (collectively known as biopharmaceuticals) and can be traced back to the huge investment in biomedical science (in particular in genomics and proteomics) that has been ongoing since the 1970s. Biopharmaceuticals (or biologics) are manufactured using biological-expression systems (such as mammalian, bacterial, insect cells, etc...
June 2017: Applied Spectroscopy
https://www.readbyqxmd.com/read/28534634/non-coding-after-all-biases-in-proteomics-data-do-not-explain-observed-absence-of-lncrna-translation-products
#5
Kenneth Verheggen, Pieter-Jan Volders, Pieter Mestdagh, Gerben Menschaert, Petra Van Damme, Kris Gevaert, Lennart Martens, Jo Vandesompele
Over the past decade, long non-coding RNAs (lncRNAs) have emerged as novel functional entities of the eukaryotic genome. However, the scientific community remains divided over the amount of true non-coding transcripts among the large number of unannotated transcripts identified by recent large scale and deep RNAsequencing efforts. Here, we systematically exclude possible technical reasons underlying the absence of lncRNA-encoded proteins in mass spectrometry datasets, strongly suggesting that the large majority of lncRNAs is indeed not translated...
May 23, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28534617/comparative-proteomics-reveals-timely-transport-into-cilia-of-regulators-or-effectors-as-a-mechanism-underlying-ciliary-disassembly
#6
Limei Wang, Lixiao Gu, Dan Meng, Qiong Wu, Haiteng Deng, Junmin Pan
Primary cilia are assembled and disassembled during cell cycle progression. During ciliary disassembly, ciliary axonemal microtubules (MTs) are depolymerized accompanied with extensive posttranslational protein modifications of ciliary proteins including protein phosphorylation, methylation and ubiquitination. These events are hypothesized to involve transport of effectors or regulators into cilia at the time of ciliary disassembly from the cell body. To prove this hypothesis and identify new proteins involved in ciliary disassembly, we analyzed disassembling flagella in Chlamydomonas using comparative proteomics with TMT labeling...
May 23, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28534505/proteomic-identification-of-erp29-as-a-key-chemoresistant-factor-activated-by-the-aggregating-p53-mutant-arg282trp
#7
Y Zhang, Y Hu, J-L Wang, H Yao, H Wang, L Liang, C Li, H Shi, Y Chen, J-Y Fang, J Xu
Mutation of the TP53 gene represents a prevalent genetic alteration in human cancers, and a subset of p53 mutants may form amyloid-like aggregates that contribute to the gain of oncogenic functions (GOFs) and chemoresistance. Here we identify the pathways that may mediate the aggregation-associated GOF by using combined proteomic analysis and genome-wide recruitment profiling. Mass spectrometry revealed activation of unfolded protein response (UPR) pathway and upregulation of endoplasmic reticulum protein 29 (ERp29) in (R282W)TP53-expressing cells that were exposed to cisplatin stress...
May 22, 2017: Oncogene
https://www.readbyqxmd.com/read/28533793/exogenous-supplementation-of-silicon-improved-the-recovery-of-hyperhydric-shoots-in-dianthus-caryophyllus-l-by-stabilizing-the-physiology-and-protein-expression
#8
Prabhakaran Soundararajan, Abinaya Manivannan, Yoon S Cho, Byoung R Jeong
Hyperhydricity is one of the major problems hindering in vitro propagation of Dianthus caryophyllus L. Silicon (Si) is a well-known beneficial element renowned for its stress amelioration properties in plants. This study has demonstrated the physiological and molecular mechanism behind the Si-mediated recovery from hyperhydricity in D. caryophyllus L. 'Green Beauty'. Four weeks old hyperhydric shoots obtained from temporary immersion system were cultured on the Murashige and Skoog medium supplemented with 0 (control), 1...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28533755/proteomic-analysis-of-chicken-skeletal-muscle-during-embryonic-development
#9
Hongjia Ouyang, Zhijun Wang, Xiaolan Chen, Jiao Yu, Zhenhui Li, Qinghua Nie
Embryonic growth and development of skeletal muscle is a major determinant of muscle mass, and has a significant effect on meat production in chicken. To assess the protein expression profiles during embryonic skeletal muscle development, we performed a proteomics analysis using isobaric tags for relative and absolute quantification (iTRAQ) in leg muscle tissues of female Xinghua chicken at embryonic age (E) 11, E16, and 1-day post hatch (D1). We identified 3,240 proteins in chicken embryonic muscle and 491 of them were differentially expressed (fold change ≥ 1...
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28533538/proteomic-analysis-of-jak2v617f-induced-changes-identifies-potential-new-combinatorial-therapeutic-approaches
#10
S Pearson, A J K Williamson, R Blance, T C P Somervaille, S Taylor, N Azadbakht, A D Whetton, A Pierce
In excess of 90% of patients with polycythemia vera express a mutated form of JAK2, JAK2V617F. Such aberrant proteins offer great potential for the treatment of these diseases however inhibitors to JAK2 have had limited success in the clinic in terms of curing the disease. To understand the effects of this oncogene in hematopoietic cells with the aim of improving treatment strategies we undertook a systematic evaluation of the effects of JAK2V617F expression using proteomics. The effects of JAK2V617F on over 5000 proteins and 2000 nuclear phosphopeptides sites were relatively quantified using either SILAC or eight channel iTRAQ mass spectrometry...
May 23, 2017: Leukemia: Official Journal of the Leukemia Society of America, Leukemia Research Fund, U.K
https://www.readbyqxmd.com/read/28533358/role-of-type-2-nad-p-h-dehydrogenase-ndbc-in-regulation-of-carbon-allocation-in-synechocystis-6803
#11
Tuomas Huokko, Dorota Muth-Pawlak, Natalia Battchikova, Yagut Allahverdiyeva, Eva-Mari Aro
NAD(P)H dehydrogenases comprise type 1 (NDH-1) and type 2 (NDH-2s) enzymes. Even though the NDH-1 complex is a well characterized protein complex in the thylakoid membrane of Synechocystis sp. PCC 6803 (hereafter Synechocystis) the exact roles of different NDH2s remain poorly understood. To elucidate this question we studied the function of NdbC, one of the three NDH-2s in Synechocystis, by constructing a deletion mutant (ΔndbC) for corresponding protein and submitting the mutant to physiological and biochemical characterisation as well as to comprehensive proteomics analysis...
May 22, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28533219/obesity-linked-phosphorylation-of-sirt1-by-ck2-inhibits-its-nuclear-localization-and-promotes-fatty-liver
#12
Sung E Choi, Sanghoon Kwon, Sunmi Seok, Zhen Xiao, Kwan-Woo Lee, Yup Kang, Xiaoling Li, Kosaku Shinoda, Shingo Kajimura, Byron Kemper, Jongsook Kim Kemper
Sirtuin1 (SIRT1) deacetylase delays and improves many obesity-related diseases, including non-alcoholic fatty liver disease (NAFLD) and diabetes, and has received great attention as a drug target. SIRT1 function is aberrantly low in obesity, so understanding the underlying mechanisms is important for drug development. Here, we show that obesity-linked phosphorylation of SIRT1 inhibits its function and promotes pathological symptoms of NAFLD. In proteomic analysis, Ser-164 was identified as a major serine phosphorylation site in SIRT1 in obese, but not lean, mice, and this phosphorylation was catalyzed by casein kinase-2 (CK2), the levels of which were dramatically elevated in obesity...
May 22, 2017: Molecular and Cellular Biology
https://www.readbyqxmd.com/read/28533178/mucin-and-carbohydrate-stimulated-adhesion-and-subproteome-changes-of-the-probiotic-bacterium-lactobacillus-acidophilus-ncfm
#13
Hasan Ufuk Celebioglu, Sita Vaag Olesen, Kennie Prehn, Sampo J Lahtinen, Susanne Brix, Maher Abou Hachem, Birte Svensson
Adhesion to intestinal mucosa is a crucial property for probiotic bacteria. Adhesion is thought to increase host-bacterial interactions, thus potentially enabling health benefits to the host. Molecular events connected with adhesion and surface proteome changes were investigated for the probiotic Lactobacillus acidophilus NCFM cultured with established or emerging prebiotic carbohydrates as carbon source and in the presence of mucin, the glycoprotein of the epithelial mucus layer. Variation in adhesion to HT29-cells and mucin was associated with carbon source and mucin-induced subproteome abundancy differences...
May 19, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28533065/co-overexpression-of-response-regulator-genes-slr1037-and-sll0039-improves-tolerance-of-synechocystis-sp-pcc-6803-to-1-butanol
#14
Xinyan Gao, Tao Sun, Lina Wu, Lei Chen, Weiwen Zhang
In this study, two response regulator (RR) encoding genes slr1037 as well as sll0039 were co-overexpressed in Synechocystis sp. PCC 6803 by metabolic engineering and the 1-butanol tolerance was successfully improved by 133%. Aiming to explore the possible mechanisms for the enhancing 1-butanol tolerance, a quantitative iTRAQ-LC-MS/MS proteomics approach was then employed, identifying 216 up-regulated and 99 down-regulated proteins compared to wild type after 1-butanol treatment. This study mapped the potential target genes regulated by Slr1037 and Sll0039 and demonstrated the feasibility of engineering response regulators for modifying the biofuel tolerance in cyanobacteria...
May 4, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28532602/inactivation-of-west-nile-virus-in-serum-with-heat-ionic-detergent-and-reducing-agent-for-proteomic-applications
#15
Louis A Altamura, Lisa H Cazares, Susan R Coyne, James G Jaissle, Alyssa M Jespersen, Sundus Ahmed, Leonard P Wasieloski, Jeff Garrison, David A Kulesh, Ernst E Brueggemann, Tara Kenny, Michael D Ward, David E Harbourt, Timothy D Minogue
Research involving biosafety level 3 pathogens such as West Nile virus (WNV) is often limited by the limited space and technical constraints of these environments. To conduct complex analytical studies outside of high containment, robust and reliable inactivation methods are needed that maintain compatibility with downstream assays. Here we report the inactivation of WNV in spiked serum samples using a commercially available SDS-PAGE sample buffer for proteomic studies. Using this method, we demonstrate its utility by identification proteins differentially expressed in the serum of mice experimentally infected with WNV...
May 19, 2017: Journal of Virological Methods
https://www.readbyqxmd.com/read/28532454/proteomic-profiling-of-peripheral-blood-neutrophils-identifies-two-inflammatory-phenotypes-in-stable-copd-patients
#16
Adèle Lo Tam Loi, Susan Hoonhorst, Corneli van Aalst, Jeroen Langereis, Vera Kamp, Simone Sluis-Eising, Nick Ten Hacken, Jan-Willem Lammers, Leo Koenderman
BACKGROUND: COPD is a heterogeneous chronic inflammatory disease of the airways and it is well accepted that the GOLD classification does not fully represent the complex clinical manifestations of COPD and this classification therefore is not well suited for phenotyping of individual patients with COPD. Besides the chronic inflammation in the lung compartment, there is also a systemic inflammation present in COPD patients. This systemic inflammation is associated with elevated levels of cytokines in the peripheral blood, but the precise composition is unknown...
May 22, 2017: Respiratory Research
https://www.readbyqxmd.com/read/28532420/going-beyond-genetics-to-discover-cancer-targets
#17
Gabriel J Sandoval, William C Hahn
Two recent studies demonstrate the power of integrating tumor genotype information with epigenetic and proteomic studies to discover potential therapeutic targets in breast cancer.
May 22, 2017: Genome Biology
https://www.readbyqxmd.com/read/28532233/updates-on-sj%C3%A3-gren-s-syndrome-from-proteomics-to-protein-biomarkers
#18
Chiara Baldini, Antonella Cecchettini, Alessia Gallo, Stefano Bombardieri
Primary Sjögren's syndrome (pSS) is a complex heterogeneous autoimmune disorder, typically affecting exocrine glands. Recently, a great interest has arisen in searching for novel biomarkers able to improve the diagnostic work-up of the disease as well as the general assessment and the prognostic stratification of pSS patients. From this perspective, salivary proteomics has appeared as a promising tool considering that salivary proteins may closely reflect the underlying disease processes in the salivary glands...
May 23, 2017: Expert Review of Proteomics
https://www.readbyqxmd.com/read/28532181/exploring-ribosome-composition-and-newly-synthesized-proteins-through-proteomics-and-potential-biomedical-applications
#19
Miroslava Stastna, Roberta A Gottlieb, Jennifer E Van Eyk
Protein synthesis is the outcome of tightly regulated gene expression which is responsive to a variety of conditions. Efforts are ongoing to monitor individual stages of protein synthesis to ensure maximum efficiency and accuracy. Due to post-transcriptional regulation mechanisms, the correlation between translatome and proteome is higher than between transcriptome and proteome. However, the most accurate approach to assess the key modulators and final protein expression is directly by using proteomics. Areas covered: This review covers various proteomic strategies that were used to better understand post-transcriptional regulation, specifically during and early after translation...
May 22, 2017: Expert Review of Proteomics
https://www.readbyqxmd.com/read/28532149/proteomic-analysis-of-pigeonpea-cajanus-cajan-seeds-reveals-the-accumulation-of-numerous-stress-related-proteins
#20
Hari B Krishnan, Savithry S Natarajan, Nathan W Oehrle, Wesley M Garrett, Omar Darwish
Pigeonpea is one of the major sources of dietary protein for more than a billion people living in South Asia. This hardy legume is often grown in low-input and risk-prone marginal environments. Considerable research effort has been devoted by a global research consortium to develop genomic resources for the improvement of this legume crop. These efforts have resulted in the elucidation of the complete genome sequence of pigeonpea. Despite these developments, little is known about seed proteome of this important crop...
May 22, 2017: Journal of Agricultural and Food Chemistry
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