Editorial: A Genomic and Epigenomic Approach for Studying Neuropsychiatric Disorders Associated to Early-life Stress: Part I.
Authors: Pappalardo XG, Cavallaro S PMID: 30386169 [PubMed] (Source: Current Genomics)
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Preterm Birth and the Risk of Neurodevelopmental Disorders - Is There a Role for Epigenetic Dysregulation?
Authors: Fitzgerald E, Boardman JP, Drake AJ Abstract Preterm Birth (PTB) accounts for approximately 11% of all births worldwide each year and is a profound physiological stressor in early life. The burden of neuropsychiatric and developmental impairment is high, with severity and prevalence correlated with gestational age at delivery. PTB is a major risk factor for the development of cerebral palsy, lower educational attainment and deficits in cognitive functioning, and individuals born preterm have higher rates of schizophrenia, autistic spectrum disorder and attention deficit/hyperactivity disorder. Factors such...
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Early Life Stress and Epigenetics in Late-onset Alzheimer's Dementia: A Systematic Review.
Authors: Lemche E Abstract Involvement of life stress in Late-Onset Alzheimer's Disease (LOAD) has been evinced in longitudinal cohort epidemiological studies, and endocrinologic evidence suggests involvements of catecholamine and corticosteroid systems in LOAD. Early Life Stress (ELS) rodent models have successfully demonstrated sequelae of maternal separation resulting in LOAD-analogous pathology, thereby supporting a role of insulin receptor signalling pertaining to GSK-3beta facilitated tau hyper-phosphorylation and amyloidogenic processing. Discussed are relevant ELS studies, and findings from three mitogen-ac...
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Parallel Algorithms for Inferring Gene Regulatory Networks: A Review.
Authors: Abbaszadeh O, Khanteymoori AR, Azarpeyvand A Abstract System biology problems such as whole-genome network construction from large-scale gene expression data are sophisticated and time-consuming. Therefore, using sequential algorithms are not feasible to obtain a solution in an acceptable amount of time. Today, by using massively parallel computing, it is possible to infer large-scale gene regulatory networks. Recently, establishing gene regulatory networks from large-scale datasets have drawn the noticeable attention of researchers in the field of parallel computing and system biology. In this paper, we a...
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Interplay Between MicroRNAs and Targeted Genes in Cellular Homeostasis of Adult Zebrafish (Danio rerio).
Conclusion: The result of our analyses revealed new insights into microRNA function in these tissues. PMID: 30386173 [PubMed] (Source: Current Genomics)
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

A Network Biology Approach for Assessing the Role of Pathologic Adipose Tissues in Insulin Resistance Using Meta-analysis of Microarray Datasets.
Conclusion: This study endorses the development of effective bioinformatics workflow and further grants an indication for the acceptance of adiposopathy as the root mechanistic pathology that poses risk for development of type 2 diabetes; concept of adipospathy in place of metabolic syndrome will open the possibility to design drugs, those will ameliorate adipose functions and hence proved to be more effective against Type 2 Diabetes. PMID: 30386174 [PubMed] (Source: Current Genomics)
Source: Current Genomics - November 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Editorial: Copy Number Variants in Neurological Disorder.
Authors: Gentile G, Cavallaro S PMID: 30258272 [PubMed] (Source: Current Genomics)
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

A Review of Copy Number Variants in Inherited Neuropathies.
Authors: Salpietro V, Manole A, Efthymiou S, Houlden H Abstract The rapid development in the last 10-15 years of microarray technologies, such as oligonucleotide array Comparative Genomic Hybridization (CGH) and Single Nucleotide Polymorphisms (SNP) genotyping array, has improved the identification of fine chromosomal structural variants, ranging in length from kilobases (kb) to megabases (Mb), as an important cause of genetic differences among healthy individuals and also as disease-susceptibility and/or disease-causing factors. Structural genomic variations due to unbalanced chromosomal rearrangements are known a...
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Copy Number Variations in Adult-onset Neuropsychiatric Diseases.
Authors: Lew AR, Kellermayer TR, Sule BP, Szigeti K Abstract Adult-onset neuropsychiatric diseases are one of the most challenging areas of medicine. While symptomatic treatments are available, for most of these diseases the exact pathomechanism is not known, thus, disease-modifying therapies are difficult to conceptualize and find. The two most common and best studied neuropsychiatric diseases affecting higher cortical functions in humans are schizophrenia and Alzheimer's disease; both diseases have high heritability, however, the genetic architecture is not fully elucidated. Robust Single Nucleotide Variant (SNV)...
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

NeuroArray: A Customized aCGH for the Analysis of Copy Number Variations in Neurological Disorders.
Conclusion: An increasing use of the NeuroArray platform may offer new insights in investigating potential overlapping gene signatures among neurological conditions and defining genotype-phenotype relationships. PMID: 30258275 [PubMed] (Source: Current Genomics)
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Genetic Alterations of Periampullary and Pancreatic Ductal Adenocarcinoma: An Overview.
Authors: Sikdar N, Saha G, Dutta A, Ghosh S, Shrikhande SV, Banerjee S Abstract Pancreatic Ductal AdenoCarcinoma (PDAC) is one of the most lethal malignancies of all solid cancers. Precancerous lesions for PDAC include PanIN, IPMNs and MCNs. PDAC has a poor prognosis with a 5-year survival of approximately 6%. Whereas Periampulary AdenoCarcinoma (PAC) having four anatomic subtypes, pancreatic, Common Bile Duct (CBD), ampullary and duodenum shows relative better prognosis. The highest incidence of PDAC has been reported with black with respect to white population. Similarly, incidence rate of PAC also differs with d...
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Regulation of Age-related Decline by Transcription Factors and Their Crosstalk with the Epigenome.
Authors: Zhou X, Sen I, Lin XX, Riedel CG Abstract Aging is a complex phenomenon, where damage accumulation, increasing deregulation of biological pathways, and loss of cellular homeostasis lead to the decline of organismal functions over time. Interestingly, aging is not entirely a stochastic process and progressing at a constant rate, but it is subject to extensive regulation, in the hands of an elaborate and highly interconnected signaling network. This network can integrate a variety of aging-regulatory stimuli, i.e. fertility, nutrient availability, or diverse stresses, and relay them via signaling cascades in...
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Artificial Neural Network as a Classifier for the Identification of Hepatocellular Carcinoma Through Prognosticgene Signatures.
Conclusion: A successful attempt at developing a method for diagnostic classification of tumors from their gene-expression autographs that efficiently classify tumors and helps in decision making for providing appropriate treatment to the patients suffering from Hepatocellular carcinoma has been carried out. PMID: 30258278 [PubMed] (Source: Current Genomics)
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

An Effective Pipeline Based on Relative Coverage for the Genome Assembly of Phytoplasmas and Other Fastidious Prokaryotes.
Conclusion: For phytoplasma infected samples containing>2-4% of pathogen DNA and an isogenic reference healthy sample, the resulting assemblies can be next to complete. The Phytoassembly source code is available on GitHub at https://github.com/cpolano/phytoassembly. PMID: 30258279 [PubMed] (Source: Current Genomics)
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

NeuroArray, A Custom CGH Microarray to Decipher Copy Number Variants in Alzheimer's Disease.
Conclusion: By identifying with a high sensitivity the chromosomal abnormalities in a large panel of AD-related genes and other neurological diseases, the NeuroArray platform is a valid tool for clinical diagnosis. PMID: 30258280 [PubMed] (Source: Current Genomics)
Source: Current Genomics - September 29, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

X-Linked Sensorineural Hearing Loss: A Literature Review.
Authors: Corvino V, Apisa P, Malesci R, Laria C, Auletta G, Franzé A Abstract Sensorineural hearing loss is a very diffuse pathology (about 1/1000 born) with several types of transmission. X-linked hearing loss accounts for approximately 1% - 2% of cases of non-syndromic forms, as well as for many syndromic forms. To date, six loci (DFNX1-6) and five genes (PRPS1 for DFNX1, POU3F4 for DFNX2, SMPX for DFNX4, AIFM1 for DFNX5 and COL4A6 for DFNX6) have been identified for X-linked non-syndromic hearing loss. For the syndromic forms, at least 15 genes have been identified, some of which are also implicated in no...
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Molecular Factors Involved in Spinal Muscular Atrophy Pathways as Possible Disease-modifying Candidates.
Authors: Maretina MA, Zheleznyakova GY, Lanko KM, Egorova AA, Baranov VS, Kiselev AV Abstract Spinal Muscular Atrophy (SMA) is a neuromuscular disorder caused by mutations in the SMN1 gene. Being a monogenic disease, it is characterized by high clinical heterogeneity. Variations in penetrance and severity of symptoms, as well as clinical discrepancies between affected family members can result from modifier genes influence on disease manifestation. SMN2 gene copy number is known to be the main phenotype modifier and there is growing evidence of additional factors contributing to SMA severity. Potential modifiers of...
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Molecular Insights into Muscle Homeostasis, Atrophy and Wasting.
Authors: Scicchitano BM, Dobrowolny G, Sica G, Musarò A Abstract Muscle homeostasis is guaranteed by a delicate balance between synthesis and degradation of cell proteins and its alteration leads to muscle wasting and diseases. In this review, we describe the major anabolic pathways that are involved in muscle growth and homeostasis and the proteolytic systems that are over-activated in muscle pathologies. Modulation of these pathways comprises an attractive target for drug intervention. PMID: 30065611 [PubMed] (Source: Current Genomics)
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

An OTOF Frameshift Variant Associated with Auditory Neuropathy Spectrum Disorder.
Conclusion: Our study suggested that the c.1236delC alteration in the otoferlin gene may be the disease-causing variant in this family, and also shed new light on genetic counseling to this ANSD family. PMID: 30065612 [PubMed] (Source: Current Genomics)
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Functional Polymorphism in the MSI1 Gene Promoter Confers a Decreased Risk of Lung Cancer in Chinese by Reducing MSI1 Expression.
Conclusion: Our findings suggested that the rs7959801T>C polymorphism in the MSI1 promoter conferred a decreased risk to lung cancer by reducing the expression of MSI1 and it may be a promising indicator for lung cancer predisposition. PMID: 30065613 [PubMed] (Source: Current Genomics)
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

An Ultrahigh-Dimensional Mapping Model of High-order Epistatic Networks for Complex Traits.
Conclusion: The model provides a tool to precisely construct genotype-phenotype maps for quantitative traits by identifying any possible high-order epistasis which is often ignored in the current genetic literature. PMID: 30065614 [PubMed] (Source: Current Genomics)
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Impact of p53 arg72pro SNP on Breast Cancer Risk in North Indian Population.
Conclusion: The findings of our case-control study and meta-analysis suggest a significant association between p53 Arg72Pro polymorphism and an increased risk of breast cancer in Indian population. PMID: 30065615 [PubMed] (Source: Current Genomics)
Source: Current Genomics - August 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Roles of Perilipins in Diseases and Cancers.
Authors: Zhang P, Meng L, Song L, Du J, Du S, Cui W, Liu C, Li F Abstract Perilipins, an ancient family of lipid droplet-associated proteins, are embedded in a phospho-lipid monolayer of intracellular lipid droplets. The core of lipid droplets is composed of neutral fat, which mainly includes triglyceride and cholesterol ester. Perilipins are closely related to the function of lipid droplets, and they mediate lipid metabolism and storage. Therefore, perilipins play an important role in the development of obesity, diabetes, cancer, hepatic diseases, atherosclerosis, and carcinoma, which are caused by abnormal lipid ...
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Decoding the Emerging Patterns Exhibited in Non-coding RNAs Characteristic of Lung Cancer with Regard to their Clinical Significance.
Authors: Sonea L, Buse M, Gulei D, Onaciu A, Simon I, Braicu C, Berindan-Neagoe I Abstract Lung cancer continues to be the leading topic concerning global mortality rate caused by can-cer; it needs to be further investigated to reduce these dramatic unfavorable statistic data. Non-coding RNAs (ncRNAs) have been shown to be important cellular regulatory factors and the alteration of their expression levels has become correlated to extensive number of pathologies. Specifically, their expres-sion profiles are correlated with development and progression of lung cancer, generating great interest for further investigatio...
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Retromer Dysfunction and Neurodegenerative Disease.
Authors: Reitz C Abstract In recent years, genomic, animal and cell biology studies have implicated deficiencies in retromer-mediated trafficking of proteins in an increasing number of neurodegenerative diseases including Alzheimer's Disease (AD), Parkinson's Disease (PD) and Frontotemporal Lobar Degener-ation (FTLD). The retromer complex, which is highly conserved across all eukaryotes, regulates the sorting of transmembrane proteins out of endo-somes to the cell surface or to the trans-Golgi network. Within retromer, cargo selection and binding are performed by a trimer of the Vps26, Vps29 and Vps35 proteins, nam...
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Transcription Factor Co-expression Networks of Adipose RNA-Seq Data Reveal Regulatory Mechanisms of Obesity.
Authors: Skinkyte-Juskiene R, Kogelman LJA, Kadarmideen HN Abstract Background: Transcription Factors (TFs) control actuation of genes in the genome and are key mediators of complex processes such as obesity. Master Regulators (MRs) are the genes at the top of a regulation hierarchy which regulate other genes. Objective: To elucidate clusters of highly co-expressed TFs (modules), involved pathways, highly inter-connected TFs (hub-TFs) and MRs leading to obesity and leanness, using porcine model for human obesity. Methods: We identified 817 expressed TFs in RNA-Sequencing dataset representing extreme degrees...
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Decoding Common Features of Neurodegenerative Disorders: From Differentially Expressed Genes to Pathways.
Conclusion: The complex molecular underpinnings of these disorders are currently elusive. Despite heterogeneous clinical and pathological expressions, common features have been recognized in many NDs which provide evidence of their convergence. PMID: 29755292 [PubMed] (Source: Current Genomics)
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Role of Sequence Variations in AhR Gene Towards Modulating Smoking Induced Lung Cancer Susceptibility in North Indian Population: A Multiple Interaction Analysis.
Conclusion: AhR polymorphic variations can significantly contribute towards lung cancer predisposi-tion. PMID: 29755293 [PubMed] (Source: Current Genomics)
Source: Current Genomics - May 16, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Editorial: Molecular Cyto(post)genomics.
Authors: Yurov YB, Iourov IY PMID: 29606901 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Behavioral Variability and Somatic Mosaicism: A Cytogenomic Hypothesis.
Authors: Vorsanova SG, Zelenova MA, Yurov YB, Iourov IY Abstract Behavioral sciences are inseparably related to genetics. A variety of neurobehavioral phenotypes are suggested to result from genomic variations. However, the contribution of genetic factors to common behavioral disorders (i.e. autism, schizophrenia, intellectual disability) remains to be understood when an attempt to link behavioral variability to a specific genomic change is made. Probably, the least appreciated genetic mechanism of debilitating neurobehavioral disorders is somatic mosaicism or the occurrence of genetically diverse (neuronal) cells ...
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Mosaic Brain Aneuploidy in Mental Illnesses: An Association of Low-level Post-zygotic Aneuploidy with Schizophrenia and Comorbid Psychiatric Disorders.
Conclusion: Reviewing these data and literature supports the hypothesis suggesting that an association of low-level mosaic aneuploidy with common and, probably, overlapping psychiatric disorders does exist. Accordingly, we propose a pathway for common neuropsychiatric disorders involving increased burden of rare de novo somatic chromosomal mutations manifesting as low-level mosaic aneuploidy mediating local and general brain dysfunction. PMID: 29606903 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

4q21.2q21.3 Duplication: Molecular and Neuropsychological Aspects.
Authors: Iourov IY, Zelenova MA, Vorsanova SG, Voinova VV, Yurov YB Abstract During the last decades, a large amount of newly described microduplications and microdeletions associated with intellectual disability (ID) and related neuropsychiatric diseases have been discovered. However, due to natural limitations, a significant part of them has not been the focus of multidisciplinary approaches. Here, we address previously undescribed chromosome 4q21.2q21.3 microduplication for gene prioritization, evaluation of cognitive abilities and estimation of genomic mechanisms for brain dysfunction by molecular cytogenetic (...
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Polytene Chromosomes - A Portrait of Functional Organization of the Drosophila Genome.
Authors: Zykova TY, Levitsky VG, Belyaeva ES, Zhimulev IF Abstract This mini-review is devoted to the problem genetic meaning of main polytene chromosome structures - bands and interbands. Generally, densely packed chromatin forms black bands, moderately condensed regions form grey loose bands, whereas decondensed regions of the genome appear as interbands. Recent progress in the annotation of the Drosophila genome and epigenome has made it possible to compare the banding pattern and the structural organization of genes, as well as their activity. This was greatly aided by our ability to establish the borders of ba...
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Small Supernumerary Marker Chromosome May Provide Information on Dosage-insensitive Pericentric Regions in Human.
Conclusion: Most of the involved sSMC breakpoints could be characterized as a higher resolution than before. An unexpected result was that in 5/15 cases cryptic mosaicism was characterized. The latter is also to be considered to have potentially an influence on the clinical outcome in these so-called discontinuous sSMCs. Overall, the suitability of PeCR-FISH to characterize sSMCs was proven; the potential of this probe set to further delineate sizes of dosage insensitive pericentric regions is obvious but dependent on suited cases. Furthermore, discontinuous sSMCs can be identified by this approach and this new subtype of ...
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Detecting Chromosome Condensation Defects in Gulf War Illness Patients.
Conclusion: Various types of condensation defects have been observed in GWI patients. It is rather surprising that some GWI patients exhibited a high level of chromosomal condensation defects. Previously, the elevated frequency of DMFs was only observed in cancer patients. Since chromosome condensation can be linked to other types of chromosome aberrations, as well as cellular stress conditions, the detailed mechanism and clinical impact should be further studied, especially with increased sample size. PMID: 29606907 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Molecular Cytogenetic Analysis of One African and Five Asian Macaque Species Reveals Identical Karyotypes as in Mandrill.
Conclusion: Karyotypes of all seven studied species could be characterized in detail. Surprisingly, no evolutionary conserved differences were found among macaques, including mandrill. Between the seven here studied and phenotypically so different species we expected several via FISH detectable karyoypic and submicroscopic changes and were surprised to find none of them on a molecular cytogenetic level. Spatial separation, may explain the speciation and different evolution for some of them, like African M. sylvanus, Mandrillus sphinx and the South Asian macaques. However, for the partially or completely overlapping habitat...
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Early Stages of XY Sex Chromosomes Differentiation in the Fish Hoplias malabaricus (Characiformes, Erythrinidae) Revealed by DNA Repeats Accumulation.
Conclusion: The Y chromosome was clearly identified by an interstitial heterochromatic block on the short arms, primarily composed of microsatellite motifs and retrotransposons. Additionally, CGH also identified a male specific chromosome region in the same chromosomal location, implying that the accumulation of these repeats may have initiated the Y chromosome differentiation, as well as played a critical role towards the evolution and differentiation of sex chromosomes in various karyomorphs of this species. PMID: 29606909 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

A Postgenomic Perspective on Molecular Cytogenetics.
Conclusion: Throughout this synthesis, the genome theory of somatic cell evolution is highlighted in contrast to gene theory, which ignores the karyotype-mediated higher level of genetic information. Since "system inheritance" is defined by the genome context (gene content and genomic topology) while "parts inheritance" is defined by genes/epigenes, molecular cytogenetics and cytogenomics (which directly study genome structure, function, alteration and evolution) will play important roles in this postgenomic era. PMID: 29606910 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

A Girl with 10 Mb Distal Xp Deletion Arising from Maternal Pericentric Inversion: Clinical Data and Molecular Characterization.
Conclusion: This report underlines the usefulness of molecular cytogenetic technics in postnatal diagnosis. PMID: 29606911 [PubMed] (Source: Current Genomics)
Source: Current Genomics - April 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Editorial: Genomics and Functional Genomics of Stress-mediated Signaling in Plants: Volume II.
Authors: Sharma M, Pandey GK PMID: 29491727 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Transcriptome Analysis of ABA/JA-Dual Responsive Genes in Rice Shoot and Root.
Authors: Kim JA, Bhatnagar N, Kwon SJ, Min MK, Moon SJ, Yoon IS, Kwon TR, Kim ST, Kim BG Abstract The phytohormone abscisic acid (ABA) enables plants to adapt to adverse environmental conditions through the modulation of metabolic pathways and of growth and developmental programs. We used comparative microarray analysis to identify genes exhibiting ABA-dependent expression and other hormone-dependent expression among them in Oryza sativa shoot and root. We identified 854 genes as significantly up- or down-regulated in root or shoot under ABA treatment condition. Most of these genes had similar expression profiles i...
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Genome-wide Analysis of Alternative Splicing in An Inbred Cabbage (Brassica oleracea L.) Line 'HO' in Response to Heat Stress.
Conclusion: We identified 1,864 genes, including Heat shock transcription factor (Hsf) and heat shock protein (Hsp) genes, that exhibited>4-fold changes in expression upon exposure to HS. The enriched Gene Ontology (GO) terms of the 1,864 genes included 'response to stress/abiotic stimulus/chemical stimulus', among, which the genes most highly induced by HS encode small Hsps and Hsf proteins. The heat-induced genes also showed an increased number of AS events under HS conditions. In addi-tion, the distribution of AS types was altered under HS conditions, as the level of Intron Retention (IR) decreased, whereas other typ...
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Mapping the microRNA Expression Profiles in Glyoxalase Over-expressing Salinity Tolerant Rice.
In this study, the Next Generation Sequencing (NGS) was employed to profile miRNA expression levels from glyoxalase overexpressing transgenic lines. The associated targets of differentially expressed miRNAs were predicted and their functional annotation was carried out using Gene Ontology (GO) and KEGG Orthology (KO), which showed their involvement in several crucial biological pathways. The analysis of NGS datasets also identified other isoforms or isomiRs of selected miRNAs, which may have an active role in developing tolerance against salt stress. Different aspects of miRNA modifications were also studied in glyoxalase ...
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Impact of Glyphosate on the Rhizosphere Microbial Communities of An EPSPS-Transgenic Soybean Line ZUTS31 by Metagenome Sequencing.
Conclusion: Our present study indicated that the formulation of glyphosate-isopropylamine salt did not significantly affect the alpha and beta diversity of the rhizobacterial community of the soybean line ZUTS31, whereas it significantly influenced some functional genes involved in PGPT in the rhizosphere during the single growth season. PMID: 29491731 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

OsCBSCBSPB4 is a Two Cystathionine- β-Synthase Domain-containing Protein from Rice that Functions in Abiotic Stress Tolerance.
OsCBSCBSPB4 is a Two Cystathionine-β-Synthase Domain-containing Protein from Rice that Functions in Abiotic Stress Tolerance. Curr Genomics. 2018 Jan;19(1):50-59 Authors: Kumar R, Subba A, Kaur C, Ariyadasa TU, Sharan A, Pareek A, Sopory SK, Singla-Pareek SL Abstract Cystathionine β-synthase (CBS) domains have been identified in a wide range of proteins of unrelated functions such as, metabolic enzymes, kinases and channels, and usually occur as tandem re-peats, often in combination with other domains. In plants, CBS Domain-Containing Proteins (CDCPs) form a multi-gene family and only a few a...
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

A Salt Overly Sensitive Pathway Member from Brassica juncea BjSOS3 Can Functionally Complement ΔAtsos3 in Arabidopsis.
Conclusion: Taken together, these findings demonstrate that the B. juncea SOS3 (BjSOS3) protein is a functional ortholog of its arabidopsis counterpart and thus show a strong functional conservation of SOS pathway responsible for salt stress signalling between arabidopsis and Brassica species. PMID: 29491733 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Identification of a Missense Mutation in the α-galactosidase A Gene in a Chinese Family with Fabry Disease.
Conclusion: The disease severity is similar among male and female patients. Our study extends the genotype-phenotype relationship between mutations in the GLA gene and clinical findings of FD, which may be helpful in the genetic counseling of patients with FD. PMID: 29491734 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Editorial:New Insights into the Genomes of Kinetoplastid Parasites.
Authors: De Pablos LM PMID: 29491735 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

High-throughput Methods for Dissection of Trypanosome Gene Regulatory Networks.
CONCLUSION: This review aims to give the reader an understanding of current trypanosome RNP research, highlighting the progress made using high-throughput approaches. PMID: 29491736 [PubMed] (Source: Current Genomics)
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research

Gene and Chromosomal Copy Number Variations as an Adaptive Mechanism Towards a Parasitic Lifestyle in Trypanosomatids.
Authors: Reis-Cunha JL, Valdivia HO, Bartholomeu DC Abstract Trypanosomatids are a group of kinetoplastid parasites including some of great public health importance, causing debilitating and life-long lasting diseases that affect more than 24 million people worldwide. Among the trypanosomatids, Trypanosoma cruzi, Trypanosoma brucei and species from the Leishmania genus are the most well studied parasites, due to their high prevalence in human infections. These parasites have an extreme genomic and phenotypic variability, with a massive expansion in the copy number of species-specific multigene families enrolled in ...
Source: Current Genomics - March 3, 2018 Category: Genetics & Stem Cells Tags: Curr Genomics Source Type: research