109,521 results match your criteria Genes chromosomes & cancer[Journal]


Gene dunce Localization in the Polytene Chromosome of Drosophila melanogaster Long Span Batch of Adjacent Chromosomal Structures.

Dokl Biochem Biophys 2019 May 22;484(1):55-58. Epub 2019 Apr 22.

Institute of Molecular and Cellular Biology, Siberian Branch, Russian Academy of Sciences, 630090, Novosibirsk, Russia.

The molecular and chromosomal localization of the dunce gene was studied. This gene (167.3 kb) consists almost entirely of introns, in which a cluster of seven short tissue-specific genes is located. Read More

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http://dx.doi.org/10.1134/S1607672919010137DOI Listing

Long-range interactions between topologically associating domains shape the four-dimensional genome during differentiation.

Nat Genet 2019 Apr 22. Epub 2019 Apr 22.

Department of Molecular Medicine, Institute of Basic Medical Sciences, Faculty of Medicine, University of Oslo, Oslo, Norway.

Genomic information is selectively used to direct spatial and temporal gene expression during differentiation. Interactions between topologically associating domains (TADs) and between chromatin and the nuclear lamina organize and position chromosomes in the nucleus. However, how these genomic organizers together shape genome architecture is unclear. Read More

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http://dx.doi.org/10.1038/s41588-019-0392-0DOI Listing

Effects of quantitative trait loci determining testicular weight in DDD/Sgn inbred mice are strongly influenced by circulating testosterone levels.

Asian-Australas J Anim Sci 2019 Mar 7. Epub 2019 Mar 7.

Institute of Livestock and Grassland Science, National Agriculture and Food Research Organization (NARO), Tsukuba, Ibaraki 305-0901, Japan.

Objective: Testicular growth and development are strongly influenced by androgen. Although both testis weight and plasma testosterone level are inherited traits, the interrelationship between them is not fully established. Males of DDD/Sgn (DDD) mice are known to have extremely heavy testes and very high plasma testosterone level among inbred mouse strains. Read More

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http://dx.doi.org/10.5713/ajas.18.0783DOI Listing

Destabilization of chromosome structure by histone H3 lysine 27 methylation.

PLoS Genet 2019 Apr 22;15(4):e1008093. Epub 2019 Apr 22.

Environmental Genomics, Christian-Albrechts University, Kiel, Germany.

Chromosome and genome stability are important for normal cell function as instability often correlates with disease and dysfunction of DNA repair mechanisms. Many organisms maintain supernumerary or accessory chromosomes that deviate from standard chromosomes. The pathogenic fungus Zymoseptoria tritici has as many as eight accessory chromosomes, which are highly unstable during meiosis and mitosis, transcriptionally repressed, show enrichment of repetitive elements, and enrichment with heterochromatic histone methylation marks, e. Read More

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http://dx.plos.org/10.1371/journal.pgen.1008093
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http://dx.doi.org/10.1371/journal.pgen.1008093DOI Listing
April 2019
1 Read

PRRX-NCOA1/2 Rearrangement Characterizes A Distinctive Fibroblastic Neoplasm.

Genes Chromosomes Cancer 2019 Apr 22. Epub 2019 Apr 22.

Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.

Fibroblastic/myofibroblastic neoplasms represent a broad, and occasionally diagnostically challenging, category of soft tissue neoplasms. A subset of tumors defy conventional classification. However, with the advent of next-generation sequencing, the identification of disease-defining molecular alterations is gradually improving their sub-classification. Read More

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http://dx.doi.org/10.1002/gcc.22762DOI Listing

CRISPR-interference-based modulation of mobile genetic elements in bacteria.

Synth Biol (Oxf) 2019 15;4(1):ysz008. Epub 2019 Mar 15.

Synthetic and Systems Biology Unit, Institute of Biochemistry, Biological Research Centre of the Hungarian Academy of Sciences, Szeged, Hungary.

Spontaneous mutagenesis of synthetic genetic constructs by mobile genetic elements frequently results in the rapid loss of engineered functions. Previous efforts to minimize such mutations required the exceedingly time-consuming manipulation of bacterial chromosomes and the complete removal of insertional sequences (ISes). To this aim, we developed a single plasmid-based system (pCRIS) that applies CRISPR-interference to inhibit the transposition of bacterial ISes. Read More

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https://academic.oup.com/synbio/article/doi/10.1093/synbio/y
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http://dx.doi.org/10.1093/synbio/ysz008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6462304PMC
March 2019
1 Read

Perturbation of mRNP biogenesis reveals a dynamic landscape of the Rrp6-dependent surveillance machinery trafficking along the yeast genome.

RNA Biol 2019 Apr 21:1-11. Epub 2019 Apr 21.

a Centre de Biophysique Moléculaire , UPR 4301 du CNRS, Orléans , France.

Eukaryotic cells have evolved a nuclear quality control (QC) system to monitor the co-transcriptional mRNA processing and packaging reactions that lead to the formation of export-competent ribonucleoprotein particles (mRNPs). Aberrant mRNPs that fail to pass the QC steps are retained in the nucleus and eliminated by the exonuclease activity of Rrp6. It is still unclear how the surveillance system is precisely coordinated both physically and functionally with the transcription machinery to detect the faulty events that may arise at each step of transcript elongation and mRNP formation. Read More

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http://dx.doi.org/10.1080/15476286.2019.1593745DOI Listing

Lysosomal pH Is Regulated in a Sex Dependent Manner in Immune Cells Expressing .

Front Immunol 2019 2;10:578. Epub 2019 Apr 2.

Arthritis and Clinical Immunology Program, Oklahoma Medical Research Foundation, Oklahoma City, OK, United States.

and both contain risk alleles for systemic lupus erythematosus (SLE) and Sjögren's syndrome (pSS). The former escapes X inactivation. Our group predicts specific endolysosomal-dependent immune responses are driven by the protein products of these genes, which form a complex at the endolysosomal surface. Read More

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https://www.frontiersin.org/article/10.3389/fimmu.2019.00578
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http://dx.doi.org/10.3389/fimmu.2019.00578DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454867PMC
April 2019
1 Read

Rethinking sex determination of non-gonadal tissues.

Authors:
Arthur P Arnold

Curr Top Dev Biol 2019 12;134:289-315. Epub 2019 Feb 12.

Department of Integrative Biology & Physiology, Laboratory of Neuroendocrinology of the Brain Research Institute, University of California, Los Angeles, CA, United States. Electronic address:

Evolution of genetic mechanisms of sex determination led to two processes causing sex differences in somatic phenotypes: gonadal differentiation and sex chromosome dosage inequality. In species with heteromorphic sex chromosomes, the sex of the individual is established at the time of formation of the zygote, leading to inherent sex differences in expression of sex chromosome genes beginning as soon as the embryonic transcriptome is activated. The inequality of sex chromosome gene expression causes sexual differentiation of the gonads and of non-gonadal tissues. Read More

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http://dx.doi.org/10.1016/bs.ctdb.2019.01.003DOI Listing
February 2019

Evolution and meiotic organization of heteromorphic sex chromosomes.

Curr Top Dev Biol 2019 20;134:1-48. Epub 2019 Feb 20.

Comparative Genome Biology Laboratory, Department of Molecular and Biomedical Science, School of Biological Sciences, The University of Adelaide, Adelaide, SA, Australia. Electronic address:

The evolution of heteromorphic sex chromosomes has occurred independently many times in different lineages. The differentiation of sex chromosomes leads to dramatic changes in sequence composition and function and guides the evolutionary trajectory and utilization of genes in pivotal sex determination and reproduction roles. In addition, meiotic recombination and pairing mechanisms are key in orchestrating the resultant impact, retention and maintenance of heteromorphic sex chromosomes, as the resulting exposure of unpaired DNA at meiosis triggers ancient repair and checkpoint pathways. Read More

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https://linkinghub.elsevier.com/retrieve/pii/S00702153193000
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http://dx.doi.org/10.1016/bs.ctdb.2019.01.009DOI Listing
February 2019
1 Read

HumCFS: a database of fragile sites in human chromosomes.

BMC Genomics 2019 Apr 18;19(Suppl 9):985. Epub 2019 Apr 18.

Center for Computational Biology, Indraprastha Institute of Information Technology, New Delhi, 110020, India.

Background: Fragile sites are the chromosomal regions that are susceptible to breakage, and their frequency varies among the human population. Based on the frequency of fragile site induction, they are categorized as common and rare fragile sites. Common fragile sites are sensitive to replication stress and often rearranged in cancer. Read More

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-018-5330-5DOI Listing
April 2019
1 Read

Genetic analyses of aplastic anemia and idiopathic pulmonary fibrosis patients with short telomeres, possible implication of DNA-repair genes.

Orphanet J Rare Dis 2019 Apr 17;14(1):82. Epub 2019 Apr 17.

Instituto de Investigaciones Biomedicas CSIC/UAM, IDIPaz, Arturo Duperier, 4, 28029, Madrid, Spain.

Background: Telomeres are nucleoprotein structures present at the terminal region of the chromosomes. Mutations in genes coding for proteins involved in telomere maintenance are causative of a number of disorders known as telomeropathies. The genetic origin of these diseases is heterogeneous and has not been determined for a significant proportion of patients. Read More

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https://ojrd.biomedcentral.com/articles/10.1186/s13023-019-1
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http://dx.doi.org/10.1186/s13023-019-1046-0DOI Listing
April 2019
4 Reads

Myeloid malignancies with isolated 7q deletion can be further characterized by their accompanying molecular mutations.

Genes Chromosomes Cancer 2019 Apr 17. Epub 2019 Apr 17.

MLL Munich Leukemia Laboratory, Max-Lebsche-Platz 31, 81377 Munich, Germany.

Deletions in the long arm of chromosome 7 (del(7q)) are recurrent cytogenetic aberrations in myeloid neoplasms. They occur either isolated or as part of a complex karyotype and are associated with unfavorable prognosis in certain disease entities. We performed detailed cytogenetic analysis, molecular analysis and array comparative genomic hybridization (aCGH) in a cohort of 81 patients with a variety of myeloid malignancies and del(7q) as sole chromosomal alteration. Read More

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http://dx.doi.org/10.1002/gcc.22761DOI Listing
April 2019
1 Read

Comprehensive analysis of isolated der(1;7)(q10;p10) in a large international homogenous cohort of patients with myelodysplastic syndromes.

Genes Chromosomes Cancer 2019 Apr 17. Epub 2019 Apr 17.

Clinics of Hematology and Medical Oncology, University Medical Center Göttingen, Göttingen, Germany.

The karyotype is a strong independent prognostic factor in myelodysplastic syndromes (MDS). Since the implementation of the new comprehensive cytogenetic scoring system for MDS, chromosome 7 anomalies are no longer generally assigned to poor risk features but are thoroughly separated. However, der(1;7)(q10;p10), hereinafter der(1;7), is merged into the group labelled "any other single" and belongs to the intermediate risk group, just by definition due to lack of adequate clinical data. Read More

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http://dx.doi.org/10.1002/gcc.22760DOI Listing

Complete assembly of the Leishmania donovani (HU3 strain) genome and transcriptome annotation.

Sci Rep 2019 Apr 16;9(1):6127. Epub 2019 Apr 16.

Centro de Biología Molecular "Severo Ochoa" (CSIC/UAM), Campus de Excelencia Internacional (CEI) UAM+CSIC, Universidad Autónoma de Madrid, Madrid, Spain.

Leishmania donovani is a unicellular parasite that causes visceral leishmaniasis, a fatal disease in humans. In this study, a complete assembly of the genome of L. donovani is provided. Read More

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http://dx.doi.org/10.1038/s41598-019-42511-4DOI Listing

Genome-wide association study of resistance to stripe rust (Puccinia striiformis f. sp. tritici) in Sichuan wheat.

BMC Plant Biol 2019 Apr 16;19(1):147. Epub 2019 Apr 16.

Triticeae Research Institute, Sichuan Agricultural University, Wenjiang, Chengdu, Sichuan, 611130, People's Republic of China.

Background: Stripe rust (also called yellow rust) is a common and serious fungal disease of wheat (Triticum aestivum L.) caused by Puccinia striiformis f. sp. Read More

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http://dx.doi.org/10.1186/s12870-019-1764-4DOI Listing
April 2019
1 Read

Deep Transcriptome Analysis Reveals Reactive Oxygen Species (ROS) Network Evolution, Response to Abiotic Stress, and Regulation of Fiber Development in Cotton.

Int J Mol Sci 2019 Apr 15;20(8). Epub 2019 Apr 15.

State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences (ICR, CAAS), Anyang 455000, China.

Reactive oxygen species (ROS) are important molecules in the plant, which are involved in many biological processes, including fiber development and adaptation to abiotic stress in cotton. We carried out transcription analysis to determine the evolution of the ROS genes and analyzed their expression levels in various tissues of cotton plant under abiotic stress conditions. There were 515, 260, and 261 genes of ROS network that were identified in (AD₁ genome), (A genome), and (D genome), respectively. Read More

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http://dx.doi.org/10.3390/ijms20081863DOI Listing
April 2019
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Paracentric Inversions Differentiate the Conservative Karyotypes in Two Centropomus Species (Teleostei: Centropomidae).

Cytogenet Genome Res 2019 Apr 17. Epub 2019 Apr 17.

Centropomus is the sole genus of the Centropomidae family (Teleostei), comprising 12 species widely distributed throughout the Western Atlantic and Eastern Pacific, with 6 of them occurring in the Western Atlantic in extensive sympatry. Their life history and phylogenetic relationships are well characterized; however, aspects of chromosomal evolution are still unknown. Here, cytogenetic analyses of 2 Centropomus species of great economic value (C. Read More

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http://dx.doi.org/10.1159/000499748DOI Listing

Dynamic enhancer partitioning instructs activation of a growth-related gene during exit from naïve pluripotency.

Elife 2019 Apr 16;8. Epub 2019 Apr 16.

Unité de Génétique et Biologie du Développement, Institut Curie, Paris, France.

During early mammalian development, the chromatin landscape undergoes profound transitions. The gene-involved in growth control-provides a valuable model to study this window: upon exit from naïve pluripotency and prior to tissue differentiation, it undergoes a switch from a distal to a proximal promoter usage, accompanied by a switch from polycomb to DNA methylation occupancy. Using an embryonic stem cell (ESC) system to mimic this period, we show here that four enhancers contribute to the promoter switch, concomitantly with dynamic changes in chromatin architecture. Read More

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http://dx.doi.org/10.7554/eLife.44057DOI Listing

Linear Mitochondrial Genome in Anthozoa (Cnidaria): A Case Study in Ceriantharia.

Sci Rep 2019 Apr 15;9(1):6094. Epub 2019 Apr 15.

Department of Evolution, Ecology, and Organismal Biology, The Ohio State University, Columbus, OH, USA.

Sequences and structural attributes of mitochondrial genomes have played a critical role in the clarification of relationships among Cnidaria, a key phylum of early-diverging animals. Among the major lineages of Cnidaria, Ceriantharia ("tube anemones") remains one of the most enigmatic in terms of its phylogenetic position. We sequenced the mitochondrial genomes of two ceriantharians to see whether the complete organellar genome would provide more support for the phylogenetic placement of Ceriantharia. Read More

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http://dx.doi.org/10.1038/s41598-019-42621-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6465557PMC

Development of PCR markers specific to Dasypyrum villosum genome based on transcriptome data and their application in breeding Triticum aestivum-D. villosum#4 alien chromosome lines.

BMC Genomics 2019 Apr 15;20(1):289. Epub 2019 Apr 15.

Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.

Background: Dasypyrum villosum is an important wild species of wheat (Triticum aestivum L.) and harbors many desirable genes that can be used to improve various traits of wheat. Compared with other D. Read More

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http://dx.doi.org/10.1186/s12864-019-5630-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6466811PMC
April 2019
1 Read

MYB-CC transcription factor, TaMYBsm3, cloned from wheat is involved in drought tolerance.

BMC Plant Biol 2019 Apr 15;19(1):143. Epub 2019 Apr 15.

Shijiazhuang Academy of Agriculture and Forestry Sciences, No.479 Shengli North Street, Chang'an district, Shijiazhuang, 050041, Hebei Province, China.

Background: MYB-CC transcription factors (TFs) genes have been demonstrated to be involved in the response to inorganic phosphate (Pi) starvation and regulate some Pi-starvation-inducible genes. However, their role in drought stress has not been investigated in bread wheat. In this study, the TaMYBsm3 genes, including TaMYBsm3-A, TaMYBsm3-B, and TaMYBsm3-D, encoding MYB-CC TF proteins in bread wheat, were isolated to investigate the possible molecular mechanisms related to drought-tolerance in plants. Read More

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https://bmcplantbiol.biomedcentral.com/articles/10.1186/s128
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http://dx.doi.org/10.1186/s12870-019-1751-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6466810PMC
April 2019
1 Read

Genome-Wide Analysis of Glycoside Hydrolase Family 1 β-glucosidase Genes in and Their Potential Role in Pollen Development.

Int J Mol Sci 2019 Apr 3;20(7). Epub 2019 Apr 3.

Department of Biological Sciences, Chungnam National University, Daejeon 34141, Korea.

Glycoside hydrolase family 1 (GH1) β-glucosidases (BGLUs) are encoded by a large number of genes, and are involved in many developmental processes and stress responses in plants. Due to their importance in plant growth and development, genome-wide analyses have been conducted in model plants ( and rice) and maize, but not in species, which are important vegetable crops. In this study, we systematically analyzed s (s), and demonstrated the involvement of several genes in pollen development. Read More

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http://dx.doi.org/10.3390/ijms20071663DOI Listing

Genome analyses of the new model protist Euplotes vannus focusing on genome rearrangement and resistance to environmental stressors.

Mol Ecol Resour 2019 Apr 15. Epub 2019 Apr 15.

Institute of Evolution, & Marine Biodiversity, Ocean University of China, Qingdao, 266003, China.

As a model organism for studies of cell and environmental biology, the free-living and cosmopolitan ciliate Euplotes vannus shows intriguing features like dual genome architecture (i.e. separate germline and somatic nuclei in each cell/organism), "gene-sized" chromosomes, stop codon reassignment, programmed ribosomal frameshifting (PRF) and strong resistance to environmental stressors. Read More

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https://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.13
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http://dx.doi.org/10.1111/1755-0998.13023DOI Listing
April 2019
5 Reads

Quantitative Trait Loci for Freezing Tolerance in a Lowland x Upland Switchgrass Population.

Front Plant Sci 2019 29;10:372. Epub 2019 Mar 29.

U.S. Dairy Forage Research Center, United States Department of Agriculture-Agricultural Research Service, Madison, WI, United States.

Low-temperature related abiotic stress is an important factor affecting winter survival in lowland switchgrass when grown in northern latitudes in the United States. A better understanding of the genetic architecture of freezing tolerance in switchgrass will aid the development of lowland switchgrass cultivars with improved winter survival. The objectives of this study were to conduct a freezing tolerance assessment, generate a genetic map using single nucleotide polymorphism (SNP) markers, and identify QTL (quantitative trait loci) associated with freezing tolerance in a lowland × upland switchgrass population. Read More

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http://dx.doi.org/10.3389/fpls.2019.00372DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6450214PMC

Adaptive Modules in Permafrost Strains of and Their Distribution and Abundance Among Present Day Strains.

Front Microbiol 2019 29;10:632. Epub 2019 Mar 29.

Laboratory of Molecular Genetics of Microorganisms, Institute of Molecular Genetics, Russian Academy of Sciences, Moscow, Russia.

The /Xer system of site-specific recombination allows resolution of chromosomal dimers during bacterial DNA replication. Recently, it was also shown to be involved in horizontal transfer of a few known Xer-dependent mobile elements. Here, we show that plasmids of various species, including clinically important strains, often contain multiple p sites that are mainly located within their accessory regions. Read More

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http://dx.doi.org/10.3389/fmicb.2019.00632DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6449649PMC

Dynamic repression by BCL6 controls the genome-wide liver response to fasting and steatosis.

Elife 2019 Apr 15;8. Epub 2019 Apr 15.

Division of Endocrinology, Metabolism, and Molecular Medicine, Department of Medicine, Feinberg School of Medicine, Northwestern University, Chicago, United States.

Transcription is tightly regulated to maintain energy homeostasis during periods of feeding or fasting, but the molecular factors that control these alternating gene programs are incompletely understood. Here, we find that the B cell lymphoma 6 (BCL6) repressor is enriched in the fed state and converges genome-wide with PPARα to potently suppress the induction of fasting transcription. Deletion of hepatocyte enhances lipid catabolism and ameliorates high-fat-diet-induced steatosis. Read More

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https://elifesciences.org/articles/43922
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http://dx.doi.org/10.7554/eLife.43922DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6464608PMC
April 2019
2 Reads

Analysis of the recombination landscape of hexaploid bread wheat reveals genes controlling recombination and gene conversion frequency.

Genome Biol 2019 Apr 15;20(1):69. Epub 2019 Apr 15.

Earlham Institute, Norwich, NR4 7UZ, UK.

Background: Sequence exchange between homologous chromosomes through crossing over and gene conversion is highly conserved among eukaryotes, contributing to genome stability and genetic diversity. A lack of recombination limits breeding efforts in crops; therefore, increasing recombination rates can reduce linkage drag and generate new genetic combinations.

Results: We use computational analysis of 13 recombinant inbred mapping populations to assess crossover and gene conversion frequency in the hexaploid genome of wheat (Triticum aestivum). Read More

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http://dx.doi.org/10.1186/s13059-019-1675-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6463664PMC

QTL analysis of nodule traits and the identification of loci interacting with the type III secretion system in soybean.

Mol Genet Genomics 2019 Apr 13. Epub 2019 Apr 13.

Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang, People's Republic of China.

Symbiotic nitrogen fixation is the main source of nitrogen for soybean growth. Since the genotypes of rhizobia and soybean germplasms vary, the nitrogen-fixing ability of soybean after inoculation also varies. A few studies have reported that quantitative trait loci (QTLs) control biological nitrogen fixation traits, even soybean which is an important crop. Read More

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http://dx.doi.org/10.1007/s00438-019-01553-zDOI Listing
April 2019
1 Read

A novel mitochondrial genome fragmentation pattern in Liposcelis brunnea, the type species of the genus Liposcelis (Psocodea: Liposcelididae).

Int J Biol Macromol 2019 Apr 11;132:1296-1303. Epub 2019 Apr 11.

Key Laboratory of Ministry of Agriculture for Monitoring and Green Management of Crop Pests, Department of Entomology, College of Plant Protection, China Agricultural University, Beijing 100193, China. Electronic address:

Booklice in the genus Liposcelis (Psocodea: Liposcelididae) are essential storage pests worldwide. Fragmented mt genomes have been identified in the Liposcelis species together with the typical mitochondrial (mt) genome, which is a single circular chromosome with 37 genes. Gene rearrangement, pseudogenes, and repeat regions (RRs) are very common among fragmented mt genomes. Read More

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http://dx.doi.org/10.1016/j.ijbiomac.2019.04.034DOI Listing

The chromosome-level genome assembly of Triplophysa tibetana, a fish adapted to the harsh high-altitude environment of the Tibetan plateau.

Mol Ecol Resour 2019 Apr 12. Epub 2019 Apr 12.

College of Fisheries, Huazhong Agricultural University, Wuhan, 430070, China.

Triplophysa is one genus among the endemic fishes of the Tibetan Plateau in China. Triplophysa tibetana, which lives at a recorded altitude of ~4000 m and plays an important role in the highland aquatic ecosystem, serves as an excellent model for investigating high-altitude environmental adaptation. However, evolutionary and conservation studies of Triplophysa tibetana to date have been limited by scarce genomic resources for the Triplophysa genus. Read More

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http://dx.doi.org/10.1111/1755-0998.13021DOI Listing
April 2019
2 Reads

Integration of whole-genome sequencing and functional screening identifies a prognostic signature for lung metastasis in triple-negative breast cancer.

Int J Cancer 2019 Apr 11. Epub 2019 Apr 11.

Department of Breast Surgery, Fudan University Shanghai Cancer Center; Department of Oncology, Shanghai Medical College, Fudan University.

Lung metastasis is one of the leading causes of death for triple-negative breast cancer (TNBC). We sought to characterize the genetic alterations underlying TNBC lung metastases by integrating whole-genome sequencing and functional screening. Further, we aimed to develop a metastasis-related gene signature for TNBC patients to improve risk stratification. Read More

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http://dx.doi.org/10.1002/ijc.32329DOI Listing
April 2019
1 Read

Genome-wide association study and candidate gene analysis of alkalinity tolerance in japonica rice germplasm at the seedling stage.

Rice (N Y) 2019 Apr 11;12(1):24. Epub 2019 Apr 11.

Key Laboratory of Germplasm Enhancement, Physiology and Ecology of Food Crops in Cold Region, Ministry of Education, Northeast Agricultural University, Harbin, 150030, China.

Background: Salinity-alkalinity stress is one of the major factors limiting rice production. The damage caused by alkaline salt stress to rice growth is more severe than that caused by neutral salt stress. At present, the genetic resources (quantitative trait loci (QTLs) and genes) that can be used by rice breeders to improve alkalinity tolerance are limited. Read More

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http://dx.doi.org/10.1186/s12284-019-0285-yDOI Listing
April 2019
1 Read

A genome-wide analysis in consanguineous families reveals new chromosomal loci in specific language impairment (SLI).

Eur J Hum Genet 2019 Apr 11. Epub 2019 Apr 11.

Child Language Doctoral Program (CLDP), University of Kansas, Lawrence, KS, USA.

Language is a uniquely human ability, and failure to attain this ability can have a life-long impact on the affected individuals. This is particularly true for individuals with specific language impairment (SLI), which is defined as an impairment in normal language development in the absence of any other developmental disability. Although SLI displays high heritability, family-based linkage studies have been hampered by an unclear mode of Mendelian segregation, variable disease penetrance, and heterogeneity of diagnostic criteria. Read More

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http://www.nature.com/articles/s41431-019-0398-1
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http://dx.doi.org/10.1038/s41431-019-0398-1DOI Listing
April 2019
2 Reads

A New Complex Karyotype Involving a KMT2A-r Variant Three-Way Translocation in a Rare Clinical Presentation of a Pediatric Patient with Acute Myeloid Leukemia.

Cytogenet Genome Res 2019 Apr 12. Epub 2019 Apr 12.

Patients with childhood acute myeloid leukemia (AML) with complex karyotypes (CKs) have a dismal outcome. However, for patients with a KMT2A rearrangement (KMT2A-r), the prognosis appears to depend on the fusion partner gene rather than the karyotype structure. Thus, a precise characterization of KMT2A-r and the fusion partner genes, especially in CKs, is of interest for managing AML. Read More

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https://www.karger.com/Article/FullText/499640
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http://dx.doi.org/10.1159/000499640DOI Listing
April 2019
3 Reads

Genetic characterisation of variants of the virulence plasmid, pSLT, in Salmonella enterica serovar Typhimurium provides evidence of a variety of evolutionary directions consistent with vertical rather than horizontal transmission.

PLoS One 2019 11;14(4):e0215207. Epub 2019 Apr 11.

Public Health Microbiology, Forensic and Scientific Services, Queensland Department of Health, Coopers Plains, Queensland, Australia.

The virulence plasmid pSLT as exemplified by the 94 Kb plasmid in Salmonella Typhimurium strain LT2 is only found in isolates of serovar Typhimurium. While it occurs commonly among such isolates recent genotyping methods have shown that it is mostly confined to certain genotypes. Although pSLT plasmids are capable of self-transmissibility under experimental conditions their confinement to certain host genotypes suggests that in practice they are maintained by vertical rather than by horizontal transmission. Read More

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0215207PLOS

Evolutionary Insights of the ZW Sex Chromosomesin Snakes: A New Chapter Added by the AmazonianPuffing Snakes of the Genus .

Genes (Basel) 2019 Apr 9;10(4). Epub 2019 Apr 9.

Instituto Nacional de Pesquisas da Amazônia, Coordenação de Biodiversidade, Laboratory of Animal Genetics, Av. André Araújo 2936, Petrópolis, Manaus CEP: 69067-375, AM, Brazil.

Amazonian puffing snakes ( Colubridae) are snakes widely distributed in the Neotropical region. However, chromosomal data are scarce in this group and, when available, are only limited to karyotype description using conventional staining. In this paper, we focused on the process of karyotype evolution and trends for sex chromosomes in two Amazonian Puffer Snakes ( and ). Read More

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http://dx.doi.org/10.3390/genes10040288DOI Listing

Specificity of expression of TaCKX family genes in developing plants of wheat and their co-operation within and among organs.

PLoS One 2019 10;14(4):e0214239. Epub 2019 Apr 10.

Department of Functional Genomics, Plant Breeding and Acclimatization Institute-National Research Institute, Radzikow, Blonie, Poland.

Multigene families of CKX genes encode cytokinin oxidase/dehydrogenase proteins (CKX), which regulate cytokinin content in organs of developing plants. It has already been documented that some of them play important roles in plant productivity. The presented research is the first step of comprehensive characterization of the bread wheat TaCKX gene family with the goal to select genes determining yield-related traits. Read More

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0214239PLOS

The nonsense mutation MSH2 c.2152C>T shows a founder effect in Portuguese Lynch syndrome families.

Genes Chromosomes Cancer 2019 Apr 9. Epub 2019 Apr 9.

Department of Genetics, Portuguese Oncology Institute of Porto, Rua Dr. António Bernardino Almeida, 4200-072 Porto, Portugal.

The mutational spectrum of the MMR genes is highly heterogeneous, but specific mutations are observed at high frequencies in well-defined populations or ethnic groups, due to founder effects. The MSH2 mutation c.2152C>T, p. Read More

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https://onlinelibrary.wiley.com/doi/abs/10.1002/gcc.22759
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http://dx.doi.org/10.1002/gcc.22759DOI Listing
April 2019
4 Reads
4.041 Impact Factor

Identification and Expression Profiling of the Gene Family in L. under Abiotic Stress and Hormone Treatments.

Int J Mol Sci 2019 Apr 8;20(7). Epub 2019 Apr 8.

The State Key Laboratory of Subtropical Silviculture, College of Forest and Biotechnology, Zhejiang Agricultural and Forestry University, Hangzhou 311300, China.

The regulator of chromosome condensation 1 (RCC1) is the nucleotide exchange factor for a GTPase called the Ras-related nuclear protein, and it is important for nucleo-plasmic transport, mitosis, nuclear membrane assembly, and control of chromatin agglutination during the S phase of mitosis in animals. In plants, RCC1 molecules act mainly as regulating factors for a series of downstream genes during biological processes such as the ultraviolet-B radiation (UV-B) response and cold tolerance. In this study, 56 genes were identified in upland cotton by searching the associated reference genomes. Read More

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http://dx.doi.org/10.3390/ijms20071727DOI Listing

Molecular evidence for recent divergence of X- and Y-linked gene pairs in Spinacia oleracea L.

PLoS One 2019 9;14(4):e0214949. Epub 2019 Apr 9.

The Research Faculty of Agriculture, Hokkaido University, Sapporo, Japan.

Dioecy has evolved recently and independently from cosexual populations in many angiosperm lineages, providing opportunities to understand the evolutionary process underlying this transition. Spinach (Spinacia oleracea) is a dioecious plant with homomorphic sex chromosomes (XY). Although most of the spinach Y chromosome recombines with the X chromosome, a region around the male-determining locus on Y does not recombine with its X counterpart, suggesting that this region might be related to the evolution of dioecy in the species. Read More

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0214949PLOS
April 2019
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Telomerase Variants in Patients with Cirrhosis Awaiting Liver Transplantation.

Hepatology 2019 Feb 14. Epub 2019 Feb 14.

Norris Comprehensive Cancer Center and Hospital, Keck School of Medicine, University of Southern California, Los Angeles, CA.

Telomeres are repetitive DNA sequences that protect the ends of linear chromosomes, and they are maintained by a ribonucleoprotein complex called telomerase. Variants in genes encoding for telomerase components have been associated with a spectrum of disease in the lung, skin, bone marrow, and liver. Mutations in the telomerase reverse transcriptase and telomerase RNA component genes have been observed at a higher prevalence in patients with liver disease compared with the general population; however, the presence of variants in other components of the telomerase complex and their impact on clinical outcomes has not been explored. Read More

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http://dx.doi.org/10.1002/hep.30557DOI Listing
February 2019
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Intergenerational epigenetic inheritance of cancer susceptibility in mammals.

Elife 2019 Apr 9;8. Epub 2019 Apr 9.

Whitehead Institute, Cambridge, United States.

Susceptibility to cancer is heritable, but much of this heritability remains unexplained. Some 'missing' heritability may be mediated by epigenetic changes in the parental germ line that do not involve transmission of genetic variants from parent to offspring. We report that deletion of the chromatin regulator () in the paternal germ line results in elevated tumor incidence in genetically wild type mice. Read More

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http://dx.doi.org/10.7554/eLife.39380DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6456297PMC

Uneven selection pressure accelerating divergence of and .

Hortic Res 2019 6;6:37. Epub 2019 Apr 6.

The Key Laboratory for Cultivar Innovation and Germplasm Improvement for Salicaceae Species, College of Forestry, Nanjing Forestry University, Nanjing, 210037 China.

(poplars) and (willows) are sister genera in the Salicaceae family that arise from a common tetraploid ancestor. The karyotypes of these two lineages are distinguished by two major interchromosomal and some minor intrachromosomal rearrangements, but which one is evolutionarily more primitive remains debatable. In this study, we compare the selection pressure acting on the paralogous genes resulting from salicoid duplication (PGRS) within and between the genomes of the two lineages. Read More

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http://dx.doi.org/10.1038/s41438-019-0121-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6450953PMC

An age-based, RNA expression paradigm for survival biomarker identification for pediatric neuroblastoma and acute lymphoblastic leukemia.

Cancer Cell Int 2019 27;19:73. Epub 2019 Mar 27.

1Department of Molecular Medicine, Morsani College of Medicine, University of South Florida, 12901 Bruce B. Downs Bd. MDC7, Tampa, USA.

Background: Pediatric cancer survival rates overall have been improving, but neuroblastoma (NBL) and acute lymphoblastic leukemia (ALL), two of the more prevalent pediatric cancers, remain particularly challenging. One issue not yet fully addressed is distinctions attributable to age of diagnosis.

Methods: In this report, we verified a survival difference based on diagnostic age for both pediatric NBL and pediatric ALL datasets, with younger patients surviving longer for both diseases. Read More

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http://dx.doi.org/10.1186/s12935-019-0790-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6438000PMC
March 2019
1 Read

The auxin response factor gene family in allopolyploid Brassica napus.

PLoS One 2019 8;14(4):e0214885. Epub 2019 Apr 8.

College of Agronomy and Biotechnology, Chongqing Engineering Research Center for Rapeseed, Southwest University, Chongqing, China.

Auxin response factor (ARF) is a member of the plant-specific B3 DNA binding superfamily. Here, we report the results of a comprehensive analysis of ARF genes in allotetraploid Brassica napus (2n = 38, AACC). Sixty-seven ARF genes were identified in B. Read More

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0214885PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6453480PMC
April 2019
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EsR240, a non-coding sRNA, is required for the resistance of Edwardsiella tarda to stresses in macrophages and for virulence.

Vet Microbiol 2019 Apr 22;231:254-263. Epub 2019 Mar 22.

Department of Microbiology and Immunology, Agricultural University, College of Veterinary Medicine, Nanjing, China.

Bacterial small non-coding RNAs (sRNAs) are gene expression modulators that respond to environmental changes and pathogenic conditions. In this study, 13 novel sRNAs were identified in the intracellular pathogen, Edwardsiella tarda (E. tarda) ET13 strain, based on RNA sequencing and bioinformatic analyses. Read More

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http://dx.doi.org/10.1016/j.vetmic.2019.03.023DOI Listing
April 2019
1 Read
2.511 Impact Factor

Monoallelic expression in melanoma.

J Transl Med 2019 Apr 5;17(1):112. Epub 2019 Apr 5.

Sidra Medicine, Research Branch, Doha, PO, 26999, Qatar.

Background: Monoallelic expression (MAE) is a frequent genomic phenomenon in normal tissues, however its role in cancer is yet to be fully understood. MAE is defined as the expression of a gene that is restricted to one allele in the presence of a diploid heterozygous genome. Constitutive MAE occurs for imprinted genes, odorant receptors and random X inactivation. Read More

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http://dx.doi.org/10.1186/s12967-019-1863-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6449950PMC

Sequencing-Based Bin Map Construction of a Tomato Mapping Population, Facilitating High-Resolution Quantitative Trait Loci Detection.

Plant Genome 2019 03;12(1)

Genotyping-by-sequencing (GBS) was employed to construct a highly saturated genetic linkage map of a tomato ( L.) recombinant inbred line (RIL) population, derived from a cross between cultivar NC EBR-1 and the wild tomato L. accession LA2093. Read More

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http://dx.doi.org/10.3835/plantgenome2018.02.0010DOI Listing
March 2019
1 Read