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Omics: a Journal of Integrative Biology

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https://www.readbyqxmd.com/read/28708456/mosquito-borne-diseases-and-omics-tissue-restricted-expression-and-alternative-splicing-revealed-by-transcriptome-profiling-of-anopheles-stephensi
#1
Sreelakshmi K Sreenivasamurthy, Anil K Madugundu, Arun H Patil, Gourav Dey, Ajeet Kumar Mohanty, Manish Kumar, Krishna Patel, Charles Wang, Ashwani Kumar, Akhilesh Pandey, Thottethodi Subrahmanya Keshava Prasad
Malaria is one of the most debilitating mosquito-borne diseases with high global health burdens. While much of the research on malaria and mosquito-borne diseases is focused on Africa, Southeast Asia accounts for a sizable portion of the global burden of malaria. Moreover, about 50% of the Asian malaria incidence and deaths have been from India. A promising development in this context is that the completion of genome sequence of Anopheles stephensi, a major malaria vector in Asia, offers new opportunities for global health innovation, including the progress in deciphering the vectorial ability of this mosquito species at a molecular level...
July 14, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28650741/microbial-culturomics-application-for-global-health-noncontiguous-finished-genome-sequence-and-description-of-pseudomonas-massiliensis-strain-cb-1-t-sp-nov-in-brazil
#2
Lucie Bardet, Teresa Cimmino, Clémence Buffet, Caroline Michelle, Jaishriram Rathored, Fatalmoudou Tandina, Jean-Christophe Lagier, Saber Khelaifia, Jônatas Abrahão, Didier Raoult, Jean-Marc Rolain
Culturomics is a new postgenomics field that explores the microbial diversity of the human gut coupled with taxono-genomic strategy. Culturomics, and the microbiome science more generally, are anticipated to transform global health diagnostics and inform the ways in which gut microbial diversity contributes to human health and disease, and by extension, to personalized medicine. Using culturomics, we report in this study the description of strain CB1(T) ( = CSUR P1334 = DSM 29075), a new species isolated from a stool specimen from a 37-year-old Brazilian woman...
June 26, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28618237/effect-of-sweetened-dried-cranberry-consumption-on-urinary-proteome-and-fecal-microbiome-in-healthy-human-subjects
#3
Nell Bekiares, Christian G Krueger, Jennifer J Meudt, Dhanansayan Shanmuganayagam, Jess D Reed
The relationship among diet, human health, and disease is an area of growing interest in biomarker research. Previous studies suggest that the consumption of cranberries (Vaccinium macrocarpon) could beneficially influence urinary and digestive health. The present study sought to determine if daily consumption of sweetened dried cranberries (SDC) changes the urinary proteome and fecal microbiome, as determined in a prospective sample of 10 healthy individuals. Baseline urine and fecal samples were collected from the subjects in the fasted (8-12 h) state...
June 15, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28692419/long-term-cigarette-smoke-exposure-and-changes-in-mirna-expression-and-proteome-in-non-small-cell-lung-cancer
#4
Jayshree Advani, Yashwanth Subbannayya, Krishna Patel, Aafaque Ahmad Khan, Arun H Patil, Ankit P Jain, Hitendra S Solanki, Aneesha Radhakrishnan, Sneha M Pinto, Nandini A Sahasrabuddhe, Joji K Thomas, Premendu P Mathur, Bipin G Nair, Xiaofei Chang, T S Keshava Prasad, David Sidransky, Harsha Gowda, Aditi Chatterjee
Chronic exposure to cigarette smoke markedly increases the risk for lung cancer. Regulation of gene expression at the post-transcriptional level by miRNAs influences a variety of cancer-related interactomes. Yet, relatively little is known on the effects of long-term cigarette smoke exposure on miRNA expression and gene regulation. NCI-H292 (H292) is a cell line sensitive to cigarette smoke with mucoepidermoid characteristics in culture. We report, in this study, original observations on long-term (12 months) cigarette smoke effects in the H292 cell line, using microarray-based miRNA expression profiling, and stable isotopic labeling with amino acids in cell culture-based quantitative proteomic analysis...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28692418/contribution-of-genetic-polymorphisms-and-haplotypes-in-drd2-bdnf-and-opioid-receptors-to-heroin-dependence-and-endophenotypes-among-the-han-chinese
#5
Xuan Gao, Youxin Wang, Minglin Lang, Li Yuan, Albert Stuart Reece, Wei Wang
Heroin and drug dependence are major contributors to global health burden worldwide, but their underlying mechanisms remain elusive and may vary from population to population. Reward- and memory-related candidate genes dopamine D2 receptor (DRD2) and brain-derived neurotrophic factor (BDNF), as well as the opioid receptor genes (OPRM1, OPRD1, and OPRK1), have been implicated in drug dependence, but relatively little is known on their contributions to heroin dependence in populations worldwide. Hence, we evaluated the contributions of the above five candidate genes in heroin dependence and several important related endophenotypes (the onset age of heroin use and subjective response to first heroin use), at single single-nucleotide polymorphism as well as haplotype levels, in a Han Chinese population sample...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28692417/hypothesis-are-there-molecular-signatures-of-yoga-practice-in-peripheral-blood-mononuclear-cells
#6
Dilara Ayyildiz, Kazim Yalcin Arga
No abstract text is available yet for this article.
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28692416/immunoglobulin-g-n-glycans-as-potential-postgenomic-biomarkers-for-hypertension-in-the-kazakh-population
#7
Qing Gao, Mamatyusupu Dolikun, Jerko Štambuk, Hao Wang, Feifei Zhao, Nizam Yiliham, Youxin Wang, Irena Trbojević-Akmačić, Jie Zhang, Honghong Fang, Yang Sun, Hongli Peng, Zhongyao Zhao, Di Liu, Jiaonan Liu, Qihuan Li, Qi Sun, Lijuan Wu, Gordan Lauc, Wei Wang, Manshu Song
Next-generation (postgenomic) biomarkers from the nascent field of glycomics now offer fresh vistas for innovation in chronic disease biomarkers and system diagnostics in clinical medicine. Our previous work has shown an association between hypertension and immunoglobulin G (IgG) glycome composition, suggesting that individual variation in N-glycosylation of IgG might contribute to hypertension pathogenesis. The present study examined, for the first time to the best of our knowledge, the IgG N-glycans as potential biomarkers for hypertension in the Kazakh population...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28692415/whole-genome-sequencing-of-mycobacterium-tuberculosis-isolates-from-extrapulmonary-sites
#8
Kusum Sharma, Renu Verma, Jayshree Advani, Oishi Chatterjee, Hitendra S Solanki, Aman Sharma, Subhash Varma, Manish Modi, Pallab Ray, Kanchan K Mukherjee, Megha Sharma, Mandeed Singh Dhillion, Mrutyunjay Suar, Aditi Chatterjee, Akhilesh Pandey, Thottethodi Subrahmanya Keshava Prasad, Harsha Gowda
Tuberculosis (TB) remains one of the leading causes of morbidity and mortality worldwide. Extrapulmonary tuberculosis (EPTB) constitutes around 15-20% of TB cases in immunocompetent individuals. Extrapulmonary sites that are affected by TB include bones, lymph nodes, meningitis, pleura, and genitourinary tract. Whole genome sequencing has emerged as a powerful tool to map genetic diversity among Mycobacterium tuberculosis (MTB) isolates and identify the genomic signatures associated with drug resistance, pathogenesis, and disease transmission...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28622116/a-general-theory-for-post-systems-biology-iatromics-and-the-environtome
#9
Nezih Hekim, Vural Özdemir
No abstract text is available yet for this article.
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28618245/multi-omics-integrative-investigation-of-fatty-acid-metabolism-in-obese-and-lean-subcutaneous-tissue
#10
Flavia Badoud, Dyanne Brewer, Armen Charchoglyan, Daniel J Cuthbertson, David M Mutch
White adipose tissue (WAT) plays a central role in whole-body energy homeostasis through storage and release of fatty acids. A deeper understanding of the complex and highly integrated pathways regulating WAT fatty acid metabolism, and how they are altered with obesity, is necessary for diagnostic and therapeutic innovations in nutritional disorders. In this multi-omics study, we investigated the influence of obesity on fatty acid metabolism in human subcutaneous adipose tissue (SAT) using an approach that integrated transcriptomic, peptidomic, and fatty acid analyses...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28618240/omics-for-precious-rare-biosamples-characterization-of-ancient-human-hair-by-a-proteomic-approach
#11
Margaux Fresnais, Pascale Richardin, Marcela Sepúlveda, Emmanuelle Leize-Wagner, Armelle Charrié-Duhaut
Omics technologies have far-reaching applications beyond clinical medicine. A case in point is the analysis of ancient hair samples. Indeed, hair is an important biological indicator that has become a material of choice in archeometry to study the ancient civilizations and their environment. Current characterization of ancient hair is based on elemental and structural analyses, but only few studies have focused on the molecular aspects of ancient hair proteins-keratins-and their conservation state. In such cases, applied extraction protocols require large amounts of raw hair, from 30 to 100 mg...
July 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28617663/an-updated-systematic-review-and-meta-analysis-of-association-between-adiponectin-gene-polymorphisms-and-coronary-artery-disease
#12
Haifeng Hou, Siqi Ge, Linlin Zhao, Chenglin Wang, Wei Wang, Xuezhen Zhao, Zheng Sun
Coronary artery disease (CAD) is a significant contributor to global health burden. Adiponectin gene single nucleotide polymorphisms (SNPs) have been associated with CAD susceptibility, but with inconsistent results across the studies. We present, in this study, an updated meta-analysis to discern the genetic susceptibility of adiponectin SNPs in relation to CAD. PubMed and EMBASE databases were used to identify the relevant published articles using the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines...
June 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28617662/telomere-length-and-accelerated-biological-aging-in-the-china-suboptimal-health-cohort-a-case-control-study
#13
Mohamed Ali Alzain, Collins Otieno Asweto, Jie Zhang, Honghong Fang, Zhongyao Zhao, Xiuhua Guo, Manshu Song, Yong Zhou, Naibai Chang, Youxin Wang, Wei Wang
Suboptimal health status (SHS) has been linked to cardiovascular risk factors, psychosocial stress, and unhealthy lifestyle. These factors also contribute to the shortening of telomere length (TL). A case-control study was conducted to examine the association between subjective health measures of SHS from the behavior perspective and also objective measures of TL at molecular level. SHS (cases = 294) was matched by age, sex, and body mass index with ideal health (controls = 294) using a propensity score matching method...
June 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28557556/regulating-the-regulators-in-attention-deficit-hyperactivity-disorder-a-genetic-association-study-of-microrna-biogenesis-pathways
#14
Umit Karakas, Ozlem Izci Ay, Mustafa Ertan Ay, Wei Wang, Mehmet Ali Sungur, Kenan Çevik, Gurbet Dogru, Mehmet Emin Erdal
Attention-deficit/hyperactivity disorder (ADHD) is one of the most prevalent complex psychiatric disorders in children as well as adults. ADHD impacts not only the affected individuals but also their families and social and professional networks. The clinical and diagnostic criteria for ADHD remain imprecise, in part, due to lack of robust biomarkers. ADHD comprises multiple subsets of diseases that present a shared set of downstream clinical findings, while displaying extensive molecular heterogeneity. This calls for innovation in diagnostic strategies that can help establish an ADHD diagnosis unequivocally as well as guiding precision medicine in this common mental health disorder...
June 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28486096/key-pharmacogenomic-considerations-for-sickle-cell-disease-patients
#15
Alexandra Kolliopoulou, Apostolos Stratopoulos, Stavroula Siamoglou, Argyro Sgourou, Bassam R Ali, Adamantia Papachatzopoulou, Theodora Katsila, George P Patrinos
Sickle cell disease (SCD), although a monogenic disease, exhibits a complex clinical phenotype that hampers optimum patient stratification and disease management, especially on hydroxyurea treatment. Moreover, theranostics, the combination of diagnostics to individualize and optimize therapeutic interventions, has not been firmly on the forefront of SCD research and clinical management to date. We suggest that if tailor-made theranostics in SCD is envisaged, pharmacogenomics is anticipated to be the way forward...
June 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28486083/progress-in-mass-spectrometry-based-proteomics-in-hypoxia-related-diseases-and-high-altitude-medicine
#16
Zhiqi Gao, Gang Luo, Bing Ni
Human migration, influenced by social conflict and natural disasters as well as global climate change, has become recognized as a major "planetary force." It has also brought to the forefront, new specialties of integrative biology-such as high-altitude medicine-and the impact of hitherto understudied environmental factors on human pathophysiology in these new geographical settings. For people migrating to or living in high-altitude regions, environmental hypoxia is a primary challenge. Decreased partial pressure of oxygen in environmental air, caused by lower barometric pressure, puts living organisms in a hypoxic state...
June 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28481734/hlj1-dnajb4-gene-is-a-novel-biomarker-candidate-in-breast-cancer
#17
Tolga Acun, Natalie Doberstein, Jens K Habermann, Timo Gemoll, Christoph Thorns, Emin Oztas, Thomas Ried
Breast cancer is the most common cancer type and cause of cancer-related mortality among women worldwide. New biomarker discovery is crucial for diagnostic innovation and personalized medicine in breast cancer. Heat shock proteins (HSPs) have been increasingly reported as biomarkers and potential drug targets for cancers. HLJ1 (DNAJB4) belongs to the DNAJ (HSP40) family of HSPs and is regarded as a tumor suppressor gene in lung, colon, and gastric cancers. However, the role of the HLJ1 gene in breast cancer is currently unknown...
May 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28481733/tissue-proteome-analysis-of-different-grades-of-human-gliomas-provides-major-cues-for-glioma-pathogenesis
#18
Kishore Gollapalli, Saicharan Ghantasala, Apurva Atak, Srikanth Rapole, Aliasgar Moiyadi, Sridhar Epari, Sanjeeva Srivastava
Gliomas are heterogeneous and most commonly occurring brain tumors. Blood-brain barrier restricts the entry of brain tumor proteins into blood stream thus limiting the usage of serum or plasma for proteomic analysis. Our study aimed at understanding the molecular basis of aggressiveness of various grades of brain tumors using isobaric tagging for relative and absolute quantification (iTRAQ) based mass spectrometry. Tissue proteomic analysis of various grades of gliomas was performed using four-plex iTRAQ. We labeled five sets (each set consists of control, grade-II, III, and IV tumor samples) of individual glioma patients using iTRAQ reagents...
May 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28481732/human-cap10-like-protein-46%C3%A2-kda-gene-promotes-malignancy-in-colorectal-cancer
#19
Honghong Fang, Qiaoyun Chu, Jie Zhang, Hao Wang, Xinwei Yu, Siqi Ge, Manshu Song, Lijuan Wu, Minglin Lang, Naibai Chang, Youxin Wang, Wei Wang
Colon cancer patients have major unmet needs in terms of robust diagnostics and molecular biomarkers for personalized therapeutics. We have previously reported that human CAP10-like protein 46 kDa (hCLP46) is overexpressed in human acute myelogenous leukemia, T acute lymphoblastic leukemia, and leukemia cell lines. We extend this line of biomarker and diagnostic discovery research by investigating hCLP46 expression in colorectal cancer (CRC) tissues and examine the possibility of hCLP46 as a candidate biomarker for diagnosis and prognosis of CRC...
May 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28481731/posttranslational-modifications-in-spermatozoa-and-effects-on-male-fertility-and-sperm-viability
#20
Rahim Dad Brohi, Li-Jun Huo
Spermatogenesis is a complex and highly regulated process. The ability of spermatozoa to perform its function depends on multiple physiological and genetic factors that are not fully understood. Notably, due to lack of transcriptional and translational activity in spermatozoa, posttranslational modifications (PTMs) play key roles in determining their viability. PTMs not only confer structural changes in the proteome of the spermatozoa cells, but also increase the diversity of the proteome and introduce specific modifications that could be translated into functional changes in the affected spermatozoa...
May 2017: Omics: a Journal of Integrative Biology
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