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Noelle K Lebow, Lisa D DesRocher, Frank L Younce, Mei-Jun Zhu, Carolyn F Ross, Denise M Smith
Cold-smoked salmon (CSS) production lacks a validated kill step for Listeria monocytogenes. Although Listeria spp. are reduced by nisin or high-pressure processing (HPP), CSS muscle discoloration is often observed after HPP. Effects of nisin and low-temperature HPP on L. innocua survival (nonpathogenic surrogate for L. monocytogenes), spoilage organism growth, color, and sensory preference and peelability of CSS were studied. Cold-smoked sockeye salmon (Oncorhynchus nerka) fillets ± nisin (10 μg/g) were inoculated with a 3-strain L...
October 30, 2017: Journal of Food Science
Kambiz Gilany, Arash Minai-Tehrani, Mehdi Amini, Niloofar Agharezaee, Babak Arjmand
Currently, there are 20,197 human protein-coding genes in the most expertly curated database (UniProtKB/Swiss-Pro). Big efforts have been made by the international consortium, the Chromosome-Centric Human Proteome Project (C-HPP) and independent researchers, to map human proteome. In brief, anno 2017 the human proteome was outlined. The male factor contributes to 50% of infertility in couples. However, there are limited human spermatozoa proteomic studies. Firstly, the development of the mapping of the human spermatozoa was analyzed...
July 2017: Journal of Reproduction & Infertility
Zhichao Yan, Huanquan Liao, Hongrui Chen, Shuifeng Deng, Yu Jia, Caibin Deng, Jianxian Lin, Jian Ge, Yehong Zhuo
Purpose: Recent evidence has suggested a potential association between Alzheimer's disease (AD) and glaucoma and found significant deposition of amyloid-β (Aβ) and Tau protein in the retinas of glaucoma patients. However, no coherent finding has emerged regarding the AD-like changes in the central visual system (CVS). Studies confirming the presence of Aβ and Tau neuropathology are warranted to identify the underlying mechanism that contributes to the visual impairment observed in glaucoma...
October 1, 2017: Investigative Ophthalmology & Visual Science
Shuangyan Luo, Hanying Duan, Yuchen Zou, Chao Wang
The aim of this work was to study the effect of high pressure processing (HPP) and post-HPP cold storage on the distribution of polyglutamyl and monoglutamyl folate and the absolute concentration of total folate in green beans, yardlong beans and winged beans using a validated ultra-high performance liquid chromatography-tandem mass spectrometry method. The results showed that HPP led to the deglutamylation of polyglutamyl folate to monoglutamyl folate in all of the investigated beans. The degree of deglutamylation was increased with enhancing processing pressure and extending holding time...
October 2017: Journal of Food Science and Technology
S A Bowden, B H Adler
We describe the clinical outcome of asfotase alfa therapy in a 16-year-old boy with severe childhood hypophosphatasia (HPP), who began therapy at age 15 years. The patient was diagnosed with HPP at age 2 years when he presented with genu varum and premature loss of primary teeth. He had a history of multiple fractures requiring 16 orthopedic surgeries with rod and pin placement in his lower extremities. He had chronic skeletal pain and used cane to ambulate with great difficulty. His height Z score at age 15 years was - 5...
October 18, 2017: Osteoporosis International
Young-Ki Paik, Gilbert S Omenn, Lydie Lane, Christopher M Overall
The mission of the Chromosome-Centric Human Proteome Project (C-HPP), is to map and annotate the entire predicted human protein set (~20,000 proteins) encoded by each chromosome. The initial steps of the project are focused on "missing proteins (MPs)", which lacked documented evidence for existence at protein level. In addition to remaining 2,579 MPs, we also target those annotated proteins having unknown functions, uPE1 proteins, alternative splice isoforms and post-translational modifications. We also consider how to investigate various protein functions involved in cis-regulatory phenomena, amplicons lncRNAs and smORFs...
October 17, 2017: Expert Review of Proteomics
Per Magnusson
Age- and gender-specific reference intervals are pivotal to ensure appropriate interpretation of plasma alkaline phosphatase activities in the lower range Hypophosphatasia (HPP) is an inborn error of metabolism caused by loss-of-function mutations of the ALPL gene that mainly express alkaline phosphatase (ALP) in bone and liver. The clinical expression of HPP is highly variable and is classified into six different forms mainly affecting bone and tooth mineralization. The prognosis for each of these HPP forms depends upon the severity of the skeletal disease which reflects the age at presentation...
October 16, 2017: Läkartidningen
Siti N M Rozali, Elham A Milani, Rebecca C Deed, Filipa V M Silva
Spores are the most resistant form of microbial cells, thus difficult to inactivate. The pathogenic or food spoilage effects of certain spore-forming microorganisms have been the primary basis of sterilization and pasteurization processes. Thermal sterilization is the most common method to inactivate spores present on medical equipment and foods. High pressure processing (HPP) is an emerging and commercial non-thermal food pasteurization technique. Although previous studies demonstrated the effectiveness of thermal and non-thermal spore inactivation, the in-depth mechanisms of spore inactivation are as yet unclear...
October 4, 2017: International Journal of Food Microbiology
Amr Elguoshy, Yoshitoshi Hirao, Bo Xu, Suguru Saito, Ali F Quadery, Keiko Yamamoto, Toshiaki Mitsui, Tadashi Yamamoto
In an attempt to complete human proteome project (HPP), Chromosome-Centric Human Proteome Project (C-HPP) launched the journey of missing protein (MP) investigation in 2012. However, 2579 and 572 protein entries in the neXtProt (2017-1) are still considered as missing and uncertain proteins, respectively. Thus, in this study, we proposed a pipeline to analyze, identify, and validate human missing and uncertain proteins in open-access transcriptomics and proteomics databases. Analysis of RNA expression pattern for missing proteins in Human protein Atlas showed that 28% of them, such as Olfactory receptor 1I1 ( O60431 ), had no RNA expression, suggesting the necessity to consider uncommon tissues for transcriptomic and proteomic studies...
October 31, 2017: Journal of Proteome Research
T Toro-Ramos, Y Kim, M Wood, J Rajda, K Niejadlik, J Honcz, D Marrero, A Fawer, A Michaelides
This pilot study evaluated the efficacy of a Hypertension Prevention Program (HPP) administered through a mobile application platform with human coaching (app) on reduction in blood pressure and weight in 50 adults with prehypertension or hypertension. Participants were recruited into a 24-week mobile application intervention to administer the HPP between January 2016 and July 2016. Dietary elements of the programme were based on the Dietary Approaches to Stop Hypertension. The programme included in-app human coaching with bi-weekly phone calls, meal logging, blood pressure tracking and educational material...
December 2017: Journal of Human Hypertension
Panpan Zhao, Jiayong Zhong, Wanting Liu, Jing Zhao, Gong Zhang
Multiple search engines based on various models have been developed to search MS/MS spectra against a reference database, providing different results for the same data set. How to integrate these results efficiently with minimal compromise on false discoveries is an open question due to the lack of an independent, reliable, and highly sensitive standard. We took the advantage of the translating mRNA sequencing (RNC-seq) result as a standard to evaluate the integration strategies of the protein identifications from various search engines...
October 11, 2017: Journal of Proteome Research
Keun Na, Heon Shin, Jin-Young Cho, Sang Hee Jung, Jaeseung Lim, Jong-Sun Lim, Eun Ah Kim, Hye Sun Kim, Ah Reum Kang, Ji Hye Kim, Jeong Min Shin, Seul-Ki Jeong, Chae-Yeon Kim, Jun Young Park, Hyung-Min Chung, Gilbert S Omenn, William S Hancock, Young-Ki Paik
One of the major goals of the Chromosome-Centric Human Proteome Project (C-HPP) is to fill the knowledge gaps between human genomic information and the corresponding proteomic information. These gaps are due to "missing" proteins (MPs)-predicted proteins with insufficient evidence from mass spectrometry (MS), biochemical, structural or antibody analyses-that currently account for 2,579 of the 20,159 predicted human proteins (neXtProt, 2017-02). We address some of the lessons learned from the inconsistent annotations of missing proteins in databases (DB) and demonstrate a systematic proteogenomic approach designed to explore a potential new function of a known protein...
September 29, 2017: Journal of Proteome Research
Elizabeth Guruceaga, Alba Garin-Muga, Gorka Prieto, Bartolomé Bejarano, Miguel Marcilla, Consuelo Marín-Vicente, Yasset Perez-Riverol, J Ignacio Casal, Juan Antonio Vizcaíno, Fernando J Corrales, Victor Segura
The Human Proteome Project (HPP) aims deciphering the complete map of the human proteome. In the past few years, significant efforts of the HPP teams have been dedicated to the experimental detection of the missing proteins, which lack reliable mass spectrometry evidence of their existence. In this endeavor, an in depth analysis of shotgun experiments might represent a valuable resource to select a biological matrix in design validation experiments. In this work, we used all the proteomic experiments from the NCI60 cell lines and applied an integrative approach based on the results obtained from Comet, Mascot, OMSSA, and X!Tandem...
October 11, 2017: Journal of Proteome Research
Siqi Li, Yanbin He, Zhilong Lin, Shaohang Xu, Ruo Zhou, Feng Liang, Jian Wang, Huanming Yang, Siqi Liu, Yan Ren
Human Proteome Project (HPP) aims at mapping entire human proteins with a systematic effort upon all the emerging techniques, which would enhance understanding of human biology and lay a foundation for development of medical applications. Until now, 2563 missing proteins (MPs, PE2-4) are still undetected even using the most sensitive approach of protein detection. Herein, we propose that enrichment of low-abundance proteins benefits MPs finding. ProteoMiner is an equalizing technique by reducing high-abundance proteins and enriching low-abundance proteins in biological liquids...
October 26, 2017: Journal of Proteome Research
Yihao Wang, Yang Chen, Yao Zhang, Wei Wei, Yanchang Li, Tao Zhang, Fuchu He, Yue Gao, Ping Xu
Although 5 years of the missing proteins (MPs) study have been completed, searching for MPs remains one of the core missions of the Chromosome-Centric Human Proteome Project (C-HPP). Following the next-50-MPs challenge of the C-HPP, we have focused on the testis-enriched MPs by various strategies since 2015. On the basis of the theoretical analysis of MPs (2017-01, neXtProt) using multiprotease digestion, we found that nonconventional proteases (e.g. LysargiNase, GluC) could improve the peptide diversity and sequence coverage compared with Trypsin...
October 13, 2017: Journal of Proteome Research
Erika Velásquez, Fabio C S Nogueira, Ingrid Velásquez, Andrea Schmitt, Peter Falkai, Gilberto B Domont, Daniel Martins-de-Souza
Schizophrenia is a chronic and incurable neuropsychiatric disorder that affects about one percent of the world population. The proteomic characterization of the synaptosome fraction of the orbitofrontal cortex is useful for providing valuable information about the molecular mechanisms of synaptic functions in these patients. Quantitative analyses of synaptic proteins were made with eight paranoid schizophrenia patients and a pool of eight healthy controls free of mental diseases. Label-free and iTRAQ labeling identified a total of 2018 protein groups...
October 13, 2017: Journal of Proteome Research
María Isabel Mora, Manuela Molina, Leticia Odriozola, Félix Elortza, José María Mato, Barbara Sitek, Pumin Zhang, Fuchu He, María Uxue Latasa, Matías Antonio Ávila, Fernando José Corrales
Primary liver cancer (HCC) is recognized as the fifth most common neoplasm and the second leading cause of cancer death worldwide. Most risk factors are known, and the molecular pathogenesis has been widely studied in the past decade; however, the underlying molecular mechanisms remain to be unveiled, as they will facilitate the definition of novel biomarkers and clinical targets for more effective patient management. We utilize the B/D-HPP popular protein strategy. We report a list of popular proteins that have been highly cocited with the expression "liver cancer"...
October 2, 2017: Journal of Proteome Research
Etienne Mornet
We review here clinical, pathophysiological, diagnostic, genetic and molecular aspects of Hypophosphatasia (HPP), a rare inherited metabolic disorder. The clinical presentation is a continuum ranging from a prenatal lethal form with no skeletal mineralization to a mild form with late adult onset presenting with nonpathognomonic symptoms. The prevalence of severe forms is low, whereas less severe forms are more frequently observed. The disease is caused by loss-of-function mutations in the ALPL gene encoding the Tissue Nonspecific Alkaline Phosphatase (TNSALP), a central regulator of mineralization...
September 20, 2017: Metabolism: Clinical and Experimental
Andreas Tholey, Nicolas L Taylor, Joshua L Heazlewood, Emøke Bendixen
The Human Proteome is nearly fully mapped and will provide a knowledge base to accelerate our understanding of how proteins and protein networks can affect human health and disease. However, providing solutions to human health challenges will likely fail if insights are exclusively based on studies of human samples and human proteomes. In recent years, it has become evident that human health depends on an integrated understanding of the many species that make human life possible. These include the commensal microorganisms which are essential to human life, pathogens and food species as well as the classic model organisms that enable studies of biological mechanisms...
September 21, 2017: Journal of Proteome Research
Anna Westphal, Kenneth M Riedl, Jessica L Cooperstone, Shreya Kamat, V M Balasubramaniam, Steven J Schwartz, Volker Böhm
Effects of high-pressure processing (HPP, 100-600 MPa for 3 min at 30 °C) on the glucosinolate content, conversion to isothiocyanates, and color changes during storage in fresh broccoli sprouts were investigated. A mild heat treatment (60 °C) and boiling (100 °C) were used as positive and negative controls, respectively. Glucosinolates were quantified using liquid chromatography-mass spectrometry, and isothiocyanates were quantified using high-performance liquid chromatography-photodiode array detection...
September 20, 2017: Journal of Agricultural and Food Chemistry
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