journal
MENU ▼
Read by QxMD icon Read
search

BMC Molecular Biology

journal
https://www.readbyqxmd.com/read/27814680/ataxia-telangiectasia-mutated-atm-interacts-with-p400-atpase-for-an-efficient-dna-damage-response
#1
Rebecca J Smith, Matthew S Savoian, Lauren E Weber, Jeong Hyeon Park
BACKGROUND: Ataxia telangiectasia mutated (ATM) and TRRAP proteins belong to the phosphatidylinositol 3-kinase-related kinase family and are involved in DNA damage repair and chromatin remodeling. ATM is a checkpoint kinase that is recruited to sites of DNA double-strand breaks where it phosphorylates a diverse range of proteins that are part of the chromatin and DNA repair machinery. As an integral subunit of the TRRAP-TIP60 complexes, p400 ATPase is a chromatin remodeler that is also targeted to DNA double-strand break sites...
November 4, 2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27090781/mice-lacking-micrornas-in-pax8-expressing-cells-develop-hypothyroidism-and-end-stage-renal-failure
#2
Malte P Bartram, Elena Amendola, Thomas Benzing, Bernhard Schermer, Gabriella de Vita, Roman-Ulrich Müller
BACKGROUND: Non-coding RNAs have gained increasing attention during the last decade. The first large group of non-coding RNAs to be characterized systematically starting at the beginning of the 21st century were small oligonucleotides--the so-called microRNAs (miRNAs). By now we have learnt that microRNAs are indispensable for most biological processes including organogenesis and maintenance of organ structure and function. The role of microRNAs has been studied extensively in the development of a number of organs, so far most studies focussed on e...
April 18, 2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26860190/what-is-normal-next-generation-sequencing-driven-analysis-of-the-human-circulating-mirnaome
#3
D P Tonge, T W Gant
BACKGROUND: MicroRNAs (miRNAs) are short non-protein-coding RNA species that have a regulatory function in modulating protein translation and degradation of specific mRNAs. MicroRNAs are estimated to target approximately 60% of all human mRNAs and are associated with the regulation of all physiological processes. Similar to many messenger RNAs (mRNA), miRNAs exhibit marked tissue specificity, and appear to be dysregulated in response to specific pathological conditions. Perhaps, one of the most significant findings is that miRNAs are detectable in various biological fluids and are stable during routine clinical processing, paving the way for their use as novel biomarkers...
February 9, 2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26733090/structural-and-functional-analysis-of-four-non-coding-y-rnas-from-chinese-hamster-cells-identification-molecular-dynamics-simulations-and-dna-replication-initiation-assays
#4
Quirino Alves de Lima Neto, Francisco Ferreira Duarte Junior, Paulo Sérgio Alves Bueno, Flavio Augusto Vicente Seixas, Madzia Pauline Kowalski, Eyemen Kheir, Torsten Krude, Maria Aparecida Fernandez
BACKGROUND: The genes coding for Y RNAs are evolutionarily conserved in vertebrates. These non-coding RNAs are essential for the initiation of chromosomal DNA replication in vertebrate cells. However thus far, no information is available about Y RNAs in Chinese hamster cells, which have already been used to detect replication origins and alternative DNA structures around these sites. Here, we report the gene sequences and predicted structural characteristics of the Chinese hamster Y RNAs, and analyze their ability to support the initiation of chromosomal DNA replication in vitro...
January 5, 2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27578267/rna-polymerase-ii-depletion-promotes-transcription-of-alternative-mrna-species
#5
Lijian Yu, Mayuri Rege, Craig L Peterson, Michael R Volkert
BACKGROUND: Cells respond to numerous internal and external stresses, such as heat, cold, oxidative stress, DNA damage, and osmotic pressure changes. In most cases, the primary response to stress is transcriptional induction of genes that assist the cells in tolerating the stress and facilitate the repair of the cellular damage. However, when the transcription machinery itself is stressed, responding by such standard mechanisms may not be possible. RESULTS: In this study, we demonstrate that depletion or inactivation of RNA polymerase II (RNAPII) changes the preferred polyadenylation site usage for several transcripts, and leads to increased transcription of a specific subset of genes...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27578149/distinct-recruitment-of-human-eif4e-isoforms-to-processing-bodies-and-stress-granules
#6
Klara Frydryskova, Tomas Masek, Katerina Borcin, Silvia Mrvova, Veronica Venturi, Martin Pospisek
BACKGROUND: Eukaryotic translation initiation factor 4E (eIF4E) plays a pivotal role in the control of cap-dependent translation initiation, modulates the fate of specific mRNAs, occurs in processing bodies (PBs) and is required for formation of stress granules (SGs). In this study, we focused on the subcellular localization of a representative compendium of eIF4E protein isoforms, particularly on the less studied members of the human eIF4E protein family, eIF4E2 and eIF4E3. RESULTS: We showed that unlike eIF4E1, its less studied isoform eIF4E3_A, encoded by human chromosome 3, localized to stress granules but not PBs upon both heat shock and arsenite stress...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27553022/nucleophosmin-from-structure-and-function-to-disease-development
#7
REVIEW
Joseph K Box, Nicolas Paquet, Mark N Adams, Didier Boucher, Emma Bolderson, Kenneth J O'Byrne, Derek J Richard
Nucleophosmin (NPM1) is a critical cellular protein that has been implicated in a number of pathways including mRNA transport, chromatin remodeling, apoptosis and genome stability. NPM1 function is a critical requirement for normal cellular biology as is underlined in cancer where NPM1 is commonly overexpressed, mutated, rearranged and sporadically deleted. Consistent with a multifunctional role within the cell, NPM1 can function not only as a proto-oncogene but also as a tumor suppressor. The aim of this review is to look at the less well-described role of NPM1 in the DNA repair pathways as well as the role of NPM1 in the regulation of apoptosis and its mutation in cancers...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27552991/myelodysplasia-associated-mutations-in-serine-arginine-rich-splicing-factor-srsf2-lead-to-alternative-splicing-of-cdc25c
#8
Lindsey Skrdlant, Jeremy M Stark, Ren-Jang Lin
BACKGROUND: Serine-arginine rich splicing factor 2 (SRSF2) is a protein known for its role in RNA splicing and genome stability. It has been recently discovered that SRSF2, along with other splicing regulators, is frequently mutated in patients with myelodysplastic syndrome (MDS). The most common MDS mutations in SRSF2 occur at proline 95; the mutant proteins are shown to have different RNA binding preferences, which may contribute to splicing changes detected in mutant cells. However, the influence of these SRSF2 MDS-associated mutations on specific splicing events remains poorly understood...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27473591/microrna-433-regulates-nonsense-mediated-mrna-decay-by-targeting-smg5-mrna
#9
Yi Jin, Fang Zhang, Zhenfa Ma, Zhuqing Ren
BACKGROUND: Nonsense-mediated mRNA decay (NMD) is a RNA quality surveillance system for eukaryotes. It prevents cells from generating deleterious truncated proteins by degrading abnormal mRNAs that harbor premature termination codon (PTC). However, little is known about the molecular regulation mechanism underlying the inhibition of NMD by microRNAs. RESULTS: The present study demonstrated that miR-433 was involved in NMD pathway via negatively regulating SMG5. We provided evidence that (1) overexpression of miR-433 significantly suppressed the expression of SMG5 (P < 0...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27439381/stearoyl-coa-desaturase-1-expression-is-downregulated-in-liver-and-udder-during-e-coli-mastitis-through-enhanced-expression-of-repressive-c-ebp-factors-and-reduced-expression-of-the-inducer-srebp1a
#10
Tianle Xu, Xiangzhen Shen, Hans-Martin Seyfert
BACKGROUND: Stearoyl-CoA desaturase 1 (SCD1) desaturates long chain fatty acids and is therefore a key enzyme in fat catabolism. Its synthesis is downregulated in liver during illnesses caused by high levels of circulating lipopolysaccharide (LPS). SCD1 expression is known to be stimulated under adipogenic conditions through a variety of transcription factors, notably SREBP1 and C/EBPα and -β. However, mechanisms downregulating SCD1 expression during illness related reprograming of the metabolism were unknown...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27301377/confirmation-of-translatability-and-functionality-certifies-the-dual-endothelin1-vegfsp-receptor-despr-protein
#11
Victoria L M Herrera, Martin Steffen, Ann Marie Moran, Glaiza A Tan, Khristine A Pasion, Keith Rivera, Darryl J Pappin, Nelson Ruiz-Opazo
BACKGROUND: In contrast to rat and mouse databases, the NCBI gene database lists the human dual-endothelin1/VEGFsp receptor (DEspR, formerly Dear) as a unitary transcribed pseudogene due to a stop [TGA]-codon at codon#14 in automated DNA and RNA sequences. However, re-analysis is needed given prior single gene studies detected a tryptophan [TGG]-codon#14 by manual Sanger sequencing, demonstrated DEspR translatability and functionality, and since the demonstration of actual non-translatability through expression studies, the standard-of-excellence for pseudogene designation, has not been performed...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27277344/strong-preference-of-brca1-protein-to-topologically-constrained-non-b-dna-structures
#12
Václav Brázda, Lucia Hároníková, Jack C C Liao, Helena Fridrichová, Eva B Jagelská
BACKGROUND: The breast and ovarian cancer susceptibility gene BRCA1 encodes a multifunctional tumor suppressor protein BRCA1, which is involved in regulating cellular processes such as cell cycle, transcription, DNA repair, DNA damage response and chromatin remodeling. BRCA1 protein, located primarily in cell nuclei, interacts with multiple proteins and various DNA targets. It has been demonstrated that BRCA1 protein binds to damaged DNA and plays a role in the transcriptional regulation of downstream target genes...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27220910/erratum-to-gene-expression-profiling-of-the-venom-gland-from-the-venezuelan-mapanare-bothrops-colombiensis-using-expressed-sequence-tags-ests
#13
Montamas Suntravat, Néstor L Uzcategui, Chairat Atphaisit, Thomas J Helmke, Sara E Lucena, Elda E Sánchez, Alexis Rodríguez-Acosta
No abstract text is available yet for this article.
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27159997/a-potential-role-for-protein-palmitoylation-and-zdhhc16-in-dna-damage-response
#14
Na Cao, Jia-Kai Li, Yu-Qing Rao, Huijuan Liu, Ji Wu, Baojie Li, Peiquan Zhao, Li Zeng, Jing Li
BACKGROUND: Cells respond to DNA damage by activating the phosphatidylinositol-3 kinase-related kinases, p53 and other pathways to promote cell cycle arrest, apoptosis, and/or DNA repair. Here we report that protein palmitoylation, a modification carried out by protein acyltransferases with zinc-finger and Asp-His-His-Cys domains (zDHHC), is required for proper DNA damage responses. RESULTS: Inhibition of protein palmitoylation compromised DNA damage-induced activation of Atm, induction and activation of p53, cell cycle arrest at G2/M phase, and DNA damage foci assembly/disassembly in primary mouse embryonic fibroblasts...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27074708/signal-transducer-and-activator-of-transcription-stat5-is-recruited-to-c-myc-super-enhancer
#15
Sophia Pinz, Samy Unser, Anne Rascle
BACKGROUND: c-Myc has been proposed as a putative target gene of signal transducer and activator of transcription 5 (STAT5). No functional STAT5 binding site has been identified so far within the c-Myc gene locus, therefore a direct transcriptional regulation by STAT5 remains uncertain. c-Myc super-enhancer, located 1.7 Mb downstream of the c-Myc gene locus, was recently reported as essential for the regulation of c-Myc gene expression by hematopoietic transcription factors and bromodomain and extra-terminal (BET) proteins and for leukemia maintenance...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/27038923/immunoblot-screening-of-crispr-cas9-mediated-gene-knockouts-without-selection
#16
Jason A Estep, Erin L Sternburg, Gissell A Sanchez, Fedor V Karginov
BACKGROUND: Targeted genomic editing using the CRISPR/Cas9 methodology has opened exciting new avenues in probing gene function in virtually any model system, including cultured mammalian cells. Depending on the desired mutation, several experimental options exist in the isolation of clonal lines, such as selection with introduced markers, or screening by PCR amplification of genomic DNA. However, streamlined approaches to establishing deletion and tagging mutants with minimal genomic perturbation are of interest in applying this methodology...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26979160/a-reliable-method-for-quantification-of-splice-variants-using-rt-qpcr
#17
Julia Camacho Londoño, Stephan E Philipp
BACKGROUND: The majority of protein isoforms arise from alternative splicing of the encoding primary RNA transcripts. To understand the significance of single splicing events, reliable techniques are needed to determine their incidence. However, existing methods are labour-intensive, error-prone or of limited use. RESULTS: Here, we present an improved method to determine the relative incidence of transcripts that arise from alternative splicing at a single site...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26944950/gene-expression-profiling-of-the-venom-gland-from-the-venezuelan-mapanare-bothrops-colombiensis-using-expressed-sequence-tags-ests
#18
Montamas Suntravat, Néstor L Uzcategui, Chairat Atphaisit, Thomas J Helmke, Sara E Lucena, Elda E Sánchez, Alexis Rodríguez Acosta
BACKGROUND: Bothrops colombiensis is a highly dangerous pit viper and responsible for over 70% of snakebites in Venezuela. Although the composition in B. colombiensis venom has been identified using a proteome analysis, the venom gland transcriptome is currently lacking. RESULTS: We constructed a cDNA library from the venom gland of B. colombiensis, and a set of 729 high quality expressed sequence tags (ESTs) was identified. A total number of 344 ESTs (47.2% of total ESTs) was related to toxins...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26935744/knockdown-of-sall4-inhibits-the-proliferation-and-reverses-the-resistance-of-mcf-7-adr-cells-to-doxorubicin-hydrochloride
#19
Yuan-Yuan Chen, Zhi-Zhen Li, Yuan-Yuan Ye, Feng Xu, Rui-Jie Niu, Hong-Chen Zhang, Yi-Jian Zhang, Ying-Bin Liu, Bao-San Han
BACKGROUND: Breast cancer is the most frequent malignancy in women and drug resistance is the major obstacle for its successful chemotherapy. In the present study, we analyzed the involvement of an oncofetal gene, sal-like 4 (SALL4), in the tumor proliferation and drug resistance of human breast cancer. RESULTS: Our study showed that SALL4 was up-regulated in the drug resistant breast cancer cell line, MCF-7/ADR, compared to the other five cell lines. We established the lentiviral system expressing short hairpin RNA to knockdown SALL4 in MCF-7/ADR cells...
2016: BMC Molecular Biology
https://www.readbyqxmd.com/read/26860083/tlk1b-mediated-phosphorylation-of-rad9-regulates-its-nuclear-cytoplasmic-localization-and-cell-cycle-checkpoint
#20
Sanket Awate, Arrigo De Benedetti
BACKGROUND: The Tousled like kinase 1B (TLK1B) is critical for DNA repair and survival of cells. Upon DNA damage, Chk1 phosphorylates TLK1B at S457 leading to its transient inhibition. Once TLK1B regains its kinase activity it phosphorylates Rad9 at S328. In this work we investigated the significance of this mechanism by overexpressing mutant TLK1B in which the inhibitory phosphorylation site was eliminated. RESULTS AND DISCUSSION: These cells expressing TLK1B resistant to DNA damage showed constitutive phosphorylation of Rad9 S328 that occurred even in the presence of hydroxyurea (HU), and this resulted in a delayed checkpoint recovery...
2016: BMC Molecular Biology
journal
journal
35559
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"