Principles and medical applications of gene editing by CRISPR / Cas by Rolando Sánchez Artigas, María Teresa Díaz Armas, Raisa Rodríguez Duque, Pedro Enrique Miguel Soca

“…In order to describe the principles and medical application of this technology, a bibliographic review was carried out in Pubmed, SciELO, academic Google and the Cochrane Library, with the descriptors “gene editing”, “genome editing”, “CRISPR-Cas systems”, and “CRISPR-associated protein 9”. …”
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EVALUATION OF ASSISTANCE TOOLS FOR DIAGNOSIS OF DISEASES BY APPROACHING TO PERSONALIZED MEDICINE ON METAGENOMIC DATA by Phan Tấn Tài, Tạ Đặng Vĩnh Phúc, Phan Nguyễn Minh Thảo, Nguyễn Thị Ngọc Chăm, Đào Công Tính, Phạm Huỳnh Ngọc, Nguyễn Thanh Hải

“…In recent years, Metagenomic data, or “multi-genome” data, has been increasingly used for research in “personalized medicine” approaches with the purpose of improving and enhancing effectiveness in human health care. …”
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HighDimMixedModels.jl: Robust high-dimensional mixed-effects models across omics data. by Evan Gorstein, Rosa Aghdam, Claudia Solís-Lemus

“…Here, we empirically study the behavior of this algorithm on simulated and real examples of three types of data that are common in modern biology: transcriptome, genome-wide association, and microbiome data. Our simulations provide new insights into the algorithm's behavior in these settings, and, comparing the performance of two popular penalties, we demonstrate that the smoothly clipped absolute deviation (SCAD) penalty consistently outperforms the least absolute shrinkage and selection operator (LASSO) penalty in terms of both variable selection and estimation accuracy across omics data. …”
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A Protein with Unknown Function, Ps495620, Is Critical for the Sporulation and Oospore Production of <i>Phytophthora sojae</i> by Xiaoran Du, Yan Zeng, Yiying Li, Qin Peng, Jianqiang Miao, Xili Liu

“…An analysis of the <i>Phytophthora sojae</i> genome database identified the protein Ps495620, which has no domain annotations and functional predictions in <i>Phytophthora</i>. …”
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INTESTINAL MICROBIOME - A LEADING FACTOR IN HUMAN HEALTH AND DISEASES by E. Blum Hubert

“…Based on modern molecular, genetic, epigenetic microbiologic and biochemical studies it is, on the one hand, possible to identify disease-related point mutations and single nucleotide polymorphisms within genome-wide association analyses (GWAS). On the other hand, high throughput array and other technologies made it possible to simultaneously analyze thousands of genes (DNA) or gene products (RNA and proteins), resulting in an individual gene or gene expression profile (‘signature’) or to characterize the individual microbiome and its pathogenetic potential. …”
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Relationship between Periodontitis and Glaucoma: A Cross-Sectional Study by Soo Hwan Byun, Dae Myoung Yoo, Minwook Chang, Hyo Geun Choi, Seok Jin Hong

“…This prospective cohort study used epidemiological data from the Korean Genome and Epidemiology Study performed between 2004 and 2016. …”
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How the Knowledge of Interactions between Meningococcus and the Human Immune System Has Been Used to Prepare Effective Neisseria meningitidis Vaccines by R. Gasparini, D. Panatto, N. L. Bragazzi, P. L. Lai, A. Bechini, M. Levi, P. Durando, D. Amicizia

“…In the last decades, tremendous advancement in dissecting the mechanisms of pathogenicity of Neisseria meningitidis at a molecular level has been achieved, exploiting converging approaches of different disciplines, ranging from pathology to microbiology, immunology, and omics sciences (such as genomics and proteomics). Here, we review the molecular biology of the infectious agent and, in particular, its interactions with the immune system, focusing on both the innate and the adaptive responses. …”
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Psychrophilic Enzymes: From Folding to Function and Biotechnology by Georges Feller

“…Psychrophiles thriving permanently at near-zero temperatures synthesize cold-active enzymes to sustain their cell cycle. Genome sequences, proteomic, and transcriptomic studies suggest various adaptive features to maintain adequate translation and proper protein folding under cold conditions. …”
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Dynamic changes of peptidome and release of polysaccharide in sea cucumber (Apostichopus japonicus) hydrolysates depending on enzymatic hydrolysis approaches by Yanchao Wang, Yan Song, Yaoguang Chang, Yanyan Liu, Guangning Chen, Changhu Xue

“…Here, inspired by the clarification of Apostichopus japonicus genome, we investigated the enzymatic hydrolysis of sea cucumber body wall by using the omics strategy. …”
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Structural insights into HIV-2 CA lattice formation and FG-pocket binding revealed by single-particle cryo-EM by Matthew Cook, Christian Freniere, Chunxiang Wu, Faith Lozano, Yong Xiong

“…Summary: One of the striking features of human immunodeficiency virus (HIV) is the capsid, a fullerene cone comprised of pleomorphic capsid protein (CA) that shields the viral genome and recruits cofactors. Despite significant advances in understanding the mechanisms of HIV-1 CA assembly and host factor interactions, HIV-2 CA assembly remains poorly understood. …”
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Microbial methane production from calcium carbonate at moderately alkaline pH by Nicole A. Fiore, Anthony J. Kohtz, Daniel N. Miller, Sanjay Antony-Babu, Donald Pan, Caitlin Lahey, Xi Huang, Yongfeng Lu, Nicole R. Buan, Karrie A. Weber

“…Cells were observed in association with the carbonate mineral matrix via coherent anti-Stokes Raman scattering and two-photon excitation fluorescence microscopy. Genome-resolved metagenomics of the enrichment community confirmed the presence of a methanogen (Methanobacterium sp.) with the metabolic potential for hydrogenotrophic methanogenesis in addition to five bacterial community members. …”
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Metabonomics Research Progress on Liver Diseases by Mengqian Yu, Ying Zhu, Qingwei Cong, Chunyan Wu

“…Metabolomics as the new omics technique develops after genomics, transcriptomics, and proteomics and has rapid development at present. …”
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Antifungal Resistance and New Strategies to Control Fungal Infections by Patrick Vandeputte, Selene Ferrari, Alix T. Coste

“…Discovery of new putative antifungal targets is performed through genome-wide approaches for a better understanding of the human pathogenic fungi biology.…”
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Hypermutability bypasses genetic constraints in SCV phenotypic switching in Pseudomonas aeruginosa biofilms by Romina A. Tobares, Román A. Martino, Claudia A. Colque, Gaston L. Castillo Moro, Alejandro J. Moyano, Andrea G. Albarracín Orio, Andrea M. Smania

“…Through experimental evolution and whole-genome sequencing, we show that both wild-type and mutator strains undergo parallel evolution by accumulating compensatory mutations in factors regulating intracellular c-di-GMP levels, particularly in the Wsp and Yfi systems. …”
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The difference of oropharyngeal microbiome during acute respiratory viral infections in infants and children by Zeni Wu, Mingyue Jiang, Mengmeng Jia, Jian Sang, Qing Wang, Yunshao Xu, Li Qi, Weizhong Yang, Luzhao Feng

“…This study was conducted to assess the difference of oropharyngeal microbiome during acute respiratory viral infection using whole-genome shotgun metagenomic sequencing. The overall taxonomic alpha diversity did not differ by the types of infected virus. …”
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A study on the codon usage bias of arenavirus common genes by Pablo Daniel Thomas, María Florencia Ferrer, Mauricio J. Lozano, Ricardo Martín Gómez

“…The codon usage bias between the different genera has not yet been studied comparatively.MethodsWe retrieved the arenavirus genome sequences from public databases and used bioinformatics tools to compare the codon usage bias between the different genera for the GPC, NP and L proteins, common to all arenaviruses.Results and discussionHartmaniviruses show a larger codon usage bias, which can be partially explained by mutational bias. …”
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The Role of RaxST, a Prokaryotic Sulfotransferase, and RaxABC, a Putative Type I Secretion System, in Activation of the Rice XA21-Mediated Immune Response by Pamela C. Ronald

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Retrotransposons and the brain: Exploring a complex relationship between mobile elements, stress, and neurological health by Amelia Cuarenta

“…Recently, advances in genomics have contributed to our understanding of mobile elements, including the retrotransposon LINE-1 (L1) and their potential role in mediating environmental experiences. …”
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Squamous Cell Carcinoma of the Lung with Metastasis to the GI Tract Associated with EGFR Exon 19 Deletion by Glen J. Weiss, Agnes K. Liman, Jeffrey Allen, Philip Y. Cheung, Rajesh N. Kukunoor

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Omilayers: a Python package for efficient data management to support multi-omic analysis by Dimitrios Kioroglou

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