keyword
MENU ▼
Read by QxMD icon Read
search

Genomic stability

keyword
https://www.readbyqxmd.com/read/29691401/methylated-dnmt1-and-e2f1-are-targeted-for-proteolysis-by-l3mbtl3-and-crl4-dcaf5-ubiquitin-ligase
#1
Feng Leng, Jiekai Yu, Chunxiao Zhang, Salvador Alejo, Nam Hoang, Hong Sun, Fei Lu, Hui Zhang
Many non-histone proteins are lysine methylated and a novel function of this modification is to trigger the proteolysis of methylated proteins. Here, we report that the methylated lysine 142 of DNMT1, a major DNA methyltransferase that preserves epigenetic inheritance of DNA methylation patterns during DNA replication, is demethylated by LSD1. A novel methyl-binding protein, L3MBTL3, binds the K142-methylated DNMT1 and recruits a novel CRL4DCAF5 ubiquitin ligase to degrade DNMT1. Both LSD1 and PHF20L1 act primarily in S phase to prevent DNMT1 degradation by L3MBTL3-CRL4DCAF5 ...
April 24, 2018: Nature Communications
https://www.readbyqxmd.com/read/29691291/rapid-integration-of-multi-copy-transgenes-using-optogenetic-mutagenesis-in-caenorhabditis-elegans
#2
Kentaro Noma, Yishi Jin
Stably transmitted transgenes are indispensable for labeling cellular components and manipulating cellular functions. In Caenorhabditis elegans , transgenes are generally generated as inheritable multi-copy extrachromosomal arrays, which can be stabilized in the genome through a mutagenesis-mediated integration process. Standard methods to integrate extrachromosomal arrays primarily use protocols involving ultraviolet light plus trimethylpsoralen or gamma- or X-ray irradiation, which are laborious and time-consuming...
April 24, 2018: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/29689311/time-and-temperature-dependent-analytical-stability-of-dry-collected-evalyn-hpv-self-sampling-brush-for-cervical-cancer-screening
#3
Ditte Møller Ejegod, Helle Pedersen, Garazi Peña Alzua, Camilla Pedersen, Jesper Bonde
As a new initiative, HPV self-sampling to non-attenders using the dry Evalyn self-sampling brush is offered in the Capital Region of Denmark. The use of a dry brush is largely uncharted territory in terms of analytical stability. In this study we aim to provide evidence on the analytical quality of dry HPV self-sampling brushes as a function of time and temperature. We assessed the analytical stability of dry stored Evalyn brushes at three different temperatures, (4°C, room temperature, 30°C) and five different storage time points; T=0 (baseline), 2, 4, 8, 16, and 32 weeks prior to HPV analysis using the BD Onclarity HPV assay...
April 21, 2018: Papillomavirus Research
https://www.readbyqxmd.com/read/29688842/partial-arm-translocations-in-evolution-of-malaria-mosquitoes-revealed-by-high-coverage-physical-mapping-of-the-anopheles-atroparvus-genome
#4
Gleb N Artemov, Semen M Bondarenko, Anastasia N Naumenko, Vladimir N Stegniy, Maria V Sharakhova, Igor V Sharakhov
BACKGROUND: Malaria mosquitoes have had a remarkable stability in the number of chromosomes in their karyotype (2n = 6) during 100 million years of evolution. Moreover, autosomal arms were assumed to maintain their integrity even if their associations with each other changed via whole-arm translocations. Here we use high-coverage comparative physical genome mapping of three Anopheles species to test the extent of evolutionary conservation of chromosomal arms in malaria mosquitoes...
April 23, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29688794/spindle-assembly-checkpoint-strength-is-linked-to-cell-fate-in-the-c-elegans-embryo
#5
Abigail R Gerhold, Vincent Poupart, Jean-Claude Labbé, Paul S Maddox
The spindle assembly checkpoint (SAC) is a conserved mitotic regulator that preserves genome stability by monitoring kinetochore-microtubule attachments and blocking anaphase onset until chromosome bi-orientation is achieved. Despite its central role in maintaining mitotic fidelity, the ability of the SAC to delay mitotic exit in the presence of kinetochore-microtubule attachment defects (SAC "strength") appears to vary widely. How different cellular aspects drive this variation remains largely unknown...
April 24, 2018: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/29686321/chromatin-conformation-regulates-the-coordination-between-dna-replication-and-transcription
#6
Ricardo Almeida, José Miguel Fernández-Justel, Cristina Santa-María, Jean-Charles Cadoret, Laura Cano-Aroca, Rodrigo Lombraña, Gonzalo Herranz, Alessandra Agresti, María Gómez
Chromatin is the template for the basic processes of replication and transcription, making the maintenance of chromosomal integrity critical for cell viability. To elucidate how dividing cells respond to alterations in chromatin structure, here we analyse the replication programme of primary cells with altered chromatin configuration caused by the genetic ablation of the HMGB1 gene, or three histone H1 genes. We find that loss of chromatin compaction in H1-depleted cells triggers the accumulation of stalled forks and DNA damage as a consequence of transcription-replication conflicts...
April 23, 2018: Nature Communications
https://www.readbyqxmd.com/read/29686138/ddri-a-crp-family-member-acts-as-a-major-regulator-for-adaptation-of-deinococcus-radiodurans-to-various-stresses
#7
Laura Meyer, Geneviève Coste, Suzanne Sommer, Jacques Oberto, Fabrice Confalonieri, Pascale Servant, Cécile Pasternak
The <u>D</u>NA <u>d</u>amage <u>r</u>esponse gene ddrI encodes a transcription regulator belonging to the CRP (cAMP Receptor Protein) family. Cells devoid of the DdrI protein exhibit a pleiotropic phenotype, including growth defects, sensitivity to DNA damaging agents and to oxidative stress. Here, we show that the absence of DdrI protein also confers sensitivity to heat shock treatment and several genes involved in heat shock response were shown to be up-regulated in a DdrI dependent manner...
April 23, 2018: Journal of Bacteriology
https://www.readbyqxmd.com/read/29685154/a-recet-assisted-crispr-cas9-genome-editing-in-corynebacterium-glutamicum
#8
Bo Wang, Qitiao Hu, Yu Zhang, Ruilin Shi, Xin Chai, Zhe Liu, Xiuling Shang, Yun Zhang, Tingyi Wen
BACKGROUND: Extensive modification of genome is an efficient manner to regulate the metabolic network for producing target metabolites or non-native products using Corynebacterium glutamicum as a cell factory. Genome editing approaches by means of homologous recombination and counter-selection markers are laborious and time consuming due to multiple round manipulations and low editing efficiencies. The current two-plasmid-based CRISPR-Cas9 editing methods generate false positives due to the potential instability of Cas9 on the plasmid, and require a high transformation efficiency for co-occurrence of two plasmids transformation...
April 23, 2018: Microbial Cell Factories
https://www.readbyqxmd.com/read/29683471/comprehensive-high-resolution-genomic-profiling-and-cytogenetics-of-human-chondrocyte-cultures-by-gtg-banding-locus-specific-fish-sky-and-snp-array
#9
M Wallenborn, O Petters, D Rudolf, H Hantmann, M Richter, P Ahnert, L Rohani, J J Smink, G C Bulwin, W Krupp, R M Schulz, H Holland
In the development of cell-based medicinal products, it is crucial to guarantee that the application of such an advanced therapy medicinal product (ATMP) is safe for the patients. The consensus of the European regulatory authorities is: "In conclusion, on the basis of the state of art, conventional karyotyping can be considered a valuable and useful technique to analyse chromosomal stability during preclinical studies". 408 chondrocyte samples (84 monolayers and 324 spheroids) from six patients were analysed using trypsin-Giemsa staining, spectral karyotyping and fluorescence in situ hybridisation, to evaluate the genetic stability of an ATMP named Spherox®...
April 23, 2018: European Cells & Materials
https://www.readbyqxmd.com/read/29683355/a-novel-pcr-based-technology-for-rapid-and-non-sequencing-authentication-of-bombyx-batryticatus-using-species-specific-primers
#10
Huan Yang, Ying Zhou, Pingtian Yu, Yaya Yang, Zhaoqun Jiao, James P Tam, Yuping Shen, Xiaobin Jia
A novel PCR technology was developed to detect short DNA fragments using species-specific primers for rapid and non-sequencing authentication of Bombyx batryticatus based on differences in the mitochondrial genome. Three specifically designed primer reactions were established to target species for the reliable identification of their commercial products. They were confirmed to have a high inter-species specificity and intra-species stability. The limit of detection was estimated as 1 ng of genomes for Beauveria bassiana and 100 pg for Bombyx mori and Metarhizium anisopliae...
April 23, 2018: Natural Product Research
https://www.readbyqxmd.com/read/29683333/stability-of-global-methylation-profiles-of-whole-blood-and-extracted-dna-under-different-storage-durations-and-conditions
#11
Yingchuan Li, Xiaoqing Pan, Michelle L Roberts, Pengyuan Liu, Theodore A Kotchen, Allen W Cowley, David L Mattson, Yong Liu, Mingyu Liang, Srividya Kidambi
AIM: To test whether DNA samples stored for a prolonged period (20 years) under various storage conditions could be used for comparative methylation studies using reduced representation bisulfite sequencing. PATIENTS & METHODS: Five groups of human blood DNA samples (n = 5-6/group) were compared. The groupings were based on the anticoagulant used and storage temperature and duration. RESULTS: Methylation profiles of defined genomic regions in the DNA or blood samples archived for 20 years were similar across all storage temperatures, including 4°C...
April 23, 2018: Epigenomics
https://www.readbyqxmd.com/read/29681895/metabolic-and-evolutionary-insights-in-the-transformation-of-diphenylamine-by-a-pseudomonas-putida-strain-unravelled-by-genomic-proteomic-and-transcription-analysis
#12
Evangelia S Papadopoulou, Chiara Perruchon, Sotirios Vasileiadis, Constantina Rousidou, Georgia Tanou, Martina Samiotaki, Athanassios Molassiotis, Dimitrios G Karpouzas
Diphenylamine (DPA) is a common soil and water contaminant. A Pseudomonas putida strain, recently isolated from a wastewater disposal site, was efficient in degrading DPA. Thorough knowledge of the metabolic capacity, genetic stability and physiology of bacteria during biodegradation of pollutants is essential for their future industrial exploitation. We employed genomic, proteomic, transcription analyses and plasmid curing to (i) identify the genetic network of P. putida driving the microbial transformation of DPA and explore its evolution and origin and (ii) investigate the physiological response of bacterial cells during degradation of DPA...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29680649/an-initiator-codon-mutation-in-sde2-causes-recessive-embryonic-lethality-in-holstein-cattle
#13
Sébastien Fritz, Chris Hoze, Emmanuelle Rebours, Anne Barbat, Méline Bizard, Amanda Chamberlain, Clémentine Escouflaire, Christy Vander Jagt, Mekki Boussaha, Cécile Grohs, Aurélie Allais-Bonnet, Maëlle Philippe, Amélie Vallée, Yves Amigues, Benjamin J Hayes, Didier Boichard, Aurélien Capitan
Researching depletions in homozygous genotypes for specific haplotypes among the large cohorts of animals genotyped for genomic selection is a very efficient strategy to map recessive lethal mutations. In this study, by analyzing real or imputed Illumina BovineSNP50 (Illumina Inc., San Diego, CA) genotypes from more than 250,000 Holstein animals, we identified a new locus called HH6 showing significant negative effects on conception rate and nonreturn rate at 56 d in at-risk versus control mating. We fine-mapped this locus in a 1...
April 18, 2018: Journal of Dairy Science
https://www.readbyqxmd.com/read/29679119/the-role-of-iron-competition-in-the-antagonistic-action-of-the-rice-endophyte-streptomyces-sporocinereus-osish-2-against-the-pathogen-magnaporthe-oryzae
#14
Jiarui Zeng, Ting Xu, Lidan Cao, Chunyi Tong, Xuan Zhang, Dingyi Luo, Shuping Han, Pei Pang, Weibin Fu, Jindong Yan, Xuanming Liu, Yonghua Zhu
Rice blast caused by Magnaporthe oryzae severely impacts global rice yield stability. The rice endophyte Streptomyces sporocinereus OsiSh-2, with strong antagonistic activity towards M. oryzae, has been reported in our previous study. To decipher the model of the antagonistic action of OsiSh-2 towards M. oryzae, we compared the iron-capturing abilities of these two strains. The cultivation of OsiSh-2 and a M. oryzae strain under iron-rich and iron-starved conditions showed that M. oryzae depended more on iron supplementation for growth and development than did OsiSh-2...
April 20, 2018: Microbial Ecology
https://www.readbyqxmd.com/read/29675140/the-genome-structure-of-arachis-hypogaea-linnaeus-1753-and-an-induced-arachis-allotetraploid-revealed-by-molecular-cytogenetics
#15
Eliza F de M B do Nascimento, Bruna V Dos Santos, Lara O C Marques, Patricia M Guimarães, Ana C M Brasileiro, Soraya C M Leal-Bertioli, David J Bertioli, Ana C G Araujo
Peanut, Arachis hypogaea (Linnaeus, 1753) is an allotetraploid cultivated plant with two subgenomes derived from the hybridization between two diploid wild species, A. duranensis (Krapovickas & W. C. Gregory, 1994) and A. ipaensis (Krapovickas & W. C. Gregory, 1994), followed by spontaneous chromosomal duplication. To understand genome changes following polyploidy, the chromosomes of A. hypogaea , IpaDur1, an induced allotetraploid ( A. ipaensis × A. duranensis )4x and the diploid progenitor species were cytogenetically compared...
2018: Comparative Cytogenetics
https://www.readbyqxmd.com/read/29673145/brca1-is-upregulated-by-5-aza-cdr-and-promotes-dna-repair-and-cell-survival-and-inhibits-neurite-outgrowth-in-rat-retinal-neurons
#16
Qiyun Wang, Lijun Xu, Pei Chen, Zhuojun Xu, Jin Qiu, Jian Ge, Keming Yu, Jing Zhuang
Previous studies have reported that Brca1 acts as a &ldquo;hinge&rdquo; in the development of the central nervous system (CNS). However, the precise role of Brca1 in rat retinal neurons remains unclear. Here, we found that Brca1 is developmentally downregulated and silenced in adult retina. Brca1 was upregulated in rat primary retinal neurons by 5-Aza-2&prime;-deoxycytidine (5-Aza-CdR) treatment. Moreover, the upregulation of Brca1 by both 5-Aza-CdR and transgenic Brca1 promoted genomic stability and improved cell viability following exposure to ionizing radiation (IR)...
April 17, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29672716/mir-122-does-not-impact-recognition-of-the-hcv-genome-by-innate-sensors-of-rna-but-rather-protects-the-5-end-from-the-cellular-pyrophosphatases-dom3z-and-dusp11
#17
Yalena Amador-Cañizares, Annie Bernier, Joyce A Wilson, Selena M Sagan
Hepatitis C virus (HCV) recruits two molecules of the liver-specific microRNA-122 (miR-122) to the 5' end of its genome. This interaction promotes viral RNA accumulation, but the precise mechanism(s) remain incompletely understood. Previous studies suggest that miR-122 is able to protect the HCV genome from 5' exonucleases (Xrn1/2), but this protection is not sufficient to account for the effect of miR-122 on HCV RNA accumulation. Thus, we investigated whether miR-122 was also able to protect the viral genome from innate sensors of RNA or cellular pyrophosphatases...
April 17, 2018: Nucleic Acids Research
https://www.readbyqxmd.com/read/29671693/a-combination-of-resveratrol-and-3-3-diindolylmethane-a-potent-radioprotector
#18
Dithu Thekkekkara, Duraiswamy B, Sudhir Chandna, M J Nanjan
PURPOSE: Exposure to ionizing radiation causes damage to the genomic integrity and stability of the cell. Though a large number of molecules have been studied for their radioprotective capability, no single agent is available today that meets all the requirements of a good radiprotector. In this study, we have investigated a combination of Resveratrol (RSV) and 3, 3'-Diindolyl methane (DIM) for its efficacy for radioprotection. It is our hypothesis that this combination that possesses less toxicity than synthetic compounds, free radical scavenging potential and the capacity to interfere with the several of the signalling cascades that trigger damage to cell by ionizing radiation, may possess good radioprotective capability...
April 19, 2018: International Journal of Radiation Biology
https://www.readbyqxmd.com/read/29671176/rapid-and-reliable-diagnostic-method-to-detect-zika-virus-by-real-time-fluorescence-reverse-transcription-loop-mediated-isothermal-amplification
#19
Xu-Guang Guo, Yong-Zhuo Zhou, Qin Li, Wei Wang, Jin-Zhou Wen, Lei Zheng, Qian Wang
To detect Zika virus more rapidly and accurately, we developed a novel method that utilized a real-time fluorescence reverse transcription loop-mediated isothermal amplification (LAMP) technique. The NS5 gene was amplified by a set of six specific primers that recognized six distinct sequences. The amplification process, including 60 min of thermostatic reaction with Bst DNA polymerase following real-time fluorescence reverse transcriptase using genomic Zika virus standard strain (MR766), was conducted through fluorescent signaling...
April 18, 2018: AMB Express
https://www.readbyqxmd.com/read/29669917/ribosomal-dna-copy-loss-and-repeat-instability-in-atrx-mutated-cancers
#20
Maheshi Udugama, Elaine Sanij, Hsiao P J Voon, Jinbae Son, Linda Hii, Jeremy D Henson, F Lyn Chan, Fiona T M Chang, Yumei Liu, Richard B Pearson, Paul Kalitsis, Jeffrey R Mann, Philippe Collas, Ross D Hannan, Lee H Wong
ATRX (alpha thalassemia/mental retardation X-linked) complexes with DAXX to deposit histone variant H3.3 into repetitive heterochromatin. Recent genome sequencing studies in cancers have revealed mutations in ATRX and their association with ALT (alternative lengthening of telomeres) activation. Here we report depletion of ATRX in mouse ES cells leads to selective loss in ribosomal RNA gene (rDNA) copy number. Supporting this, ATRX-mutated human ALT-positive tumors also show a substantially lower rDNA copy than ALT-negative tumors...
April 18, 2018: Proceedings of the National Academy of Sciences of the United States of America
keyword
keyword
22938
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"