835 results match your criteria BMC molecular biology[Journal]


PSMD1 and PSMD2 regulate HepG2 cell proliferation and apoptosis via modulating cellular lipid droplet metabolism.

BMC Mol Biol 2019 11 8;20(1):24. Epub 2019 Nov 8.

Key Laboratory of Swine Genetics and Breeding of Ministry of Agriculture & Key Laboratory of Agriculture Animal Genetics, Breeding and Reproduction of Ministry of Education, College of Animal Science, Huazhong Agricultural University, Wuhan, 430070, Hubei, People's Republic of China.

Background: Obesity and nonalcoholic steatohepatitis (NASH) are well-known risk factors of hepatocellular carcinoma (HCC). The lipid-rich environment enhances the proliferation and metastasis abilities of tumor cells. Previous studies showed the effect of the ubiquitin-proteasome system (UPS) on tumor cell proliferation. Read More

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http://dx.doi.org/10.1186/s12867-019-0141-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6842266PMC
November 2019
2.194 Impact Factor

The effect of BACE1-AS on β-amyloid generation by regulating BACE1 mRNA expression.

BMC Mol Biol 2019 10 1;20(1):23. Epub 2019 Oct 1.

Department of Neurology, The Second Hospital of Shandong University, Shandong University, 247 North Park Avenue, Jinan, 250033, China.

Background: The BACE1 antisense transcript (BACE1-AS) is a conserved long noncoding RNA (lncRNA). The level of BACE1-AS is significantly increased and the level of the BACE1 mRNA is slightly increased in subjects with AD. BACE1-AS exerts a significant moderating effect on the expression of the BACE1 mRNA and promotes the formation of Aβ. Read More

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http://dx.doi.org/10.1186/s12867-019-0140-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6771094PMC
October 2019
1 Read

Overlapping transcriptional expression response of wheat zinc-induced facilitator-like transporters emphasize important role during Fe and Zn stress.

BMC Mol Biol 2019 09 23;20(1):22. Epub 2019 Sep 23.

National Agri-Food Biotechnology Institute (Department of Biotechnology), Sector 81, Knowledge City, Mohali, Punjab, 140306, India.

Background: Hexaploid wheat is an important cereal crop that has been targeted to enhance grain micronutrient content including zinc (Zn) and iron (Fe). In this direction, modulating the expression of plant transporters involved in Fe and Zn homeostasis has proven to be one of the promising approaches. The present work was undertaken to identify wheat zinc-induced facilitator-like (ZIFL) family of transporters. Read More

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http://dx.doi.org/10.1186/s12867-019-0139-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6757437PMC
September 2019
2.194 Impact Factor

MiR-32-5p influences high glucose-induced cardiac fibroblast proliferation and phenotypic alteration by inhibiting DUSP1.

BMC Mol Biol 2019 08 22;20(1):21. Epub 2019 Aug 22.

Department of Cardiology, Children's Hospital, Zhejiang University School of Medicine, No. 3333 Binsheng Road, Binjiang District, Hangzhou, 310051, Zhejiang, China.

Background: The current study aimed to investigate the effects of miR-32-5p on cardiac fibroblasts (CFs) that were induced with high levels of glucose; we also aimed to identify the potential mechanisms involved in the regulation of DUSP1 expression.

Methods: Human CFs were transfected with a miR-32-5p inhibitor or mimic and were treated with a normal concentration or a high concentration of glucose. Flow cytometry analysis was performed to identify cardiac fibroblasts by examining vimentin, fibronectin (FN) and α-actin expression in human CFs. Read More

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http://dx.doi.org/10.1186/s12867-019-0135-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6704591PMC
August 2019
1 Read
2.194 Impact Factor

Comparison of miRNA-101a-3p and miRNA-144a-3p regulation with the key genes of alpaca melanocyte pigmentation.

BMC Mol Biol 2019 08 14;20(1):19. Epub 2019 Aug 14.

College of Life Science, Shanxi Agricultural University, Taigu, 030801, China.

Background: Many miRNA functions have been revealed to date. Single miRNAs can participate in life processes by regulating more than one target gene, and more than one miRNA can also simultaneously act on one target mRNA. Thus, a complex regulatory network involved in many processes can be formed. Read More

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http://dx.doi.org/10.1186/s12867-019-0137-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6694524PMC
August 2019
2.194 Impact Factor

Correction to: A protocol for custom CRISPR Cas9 donor vector construction to truncate genes in mammalian cells using pcDNA3 backbone.

BMC Mol Biol 2019 Aug 14;20(1):20. Epub 2019 Aug 14.

Department of Biology, University of Texas-Rio Grande Valley, 1201 W. University Dr., Edinburg, TX, 78539, USA.

The original article [1] contains three erroneous mentions of usage of a restriction enzyme-BstZ17I-in the Methods section as displayed in the following sentences. Read More

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http://dx.doi.org/10.1186/s12867-019-0138-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6694644PMC

Correction to: MicroRNA-325-3p protects the heart after myocardial infarction by inhibiting RIPK3 and programmed necrosis in mice.

BMC Mol Biol 2019 Aug 6;20(1):18. Epub 2019 Aug 6.

Department of Cardiology, The Affiliated Huaian No.1 People's Hospital of Nanjing Medical University, No.1 West Huanghe Road, Huaiyin District, Huaian, 223300, Jiangsu, China.

The original article [1] contains an error whereby Fig. 7 displays incorrect results; the correct version of Fig. 7 can be viewed ahead in this Correction article and should be considered in place of the original article's version of Fig. Read More

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http://dx.doi.org/10.1186/s12867-019-0136-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6685267PMC

MicroRNA-325-3p protects the heart after myocardial infarction by inhibiting RIPK3 and programmed necrosis in mice.

BMC Mol Biol 2019 06 27;20(1):17. Epub 2019 Jun 27.

Department of Cardiology, The Affiliated Huaian No.1 People's Hospital of Nanjing Medical University, No.1 West Huanghe Road, Huaiyin District, Huaian, 223300, Jiangsu, China.

Background: Receptor-interacting serine-threonine kinase 3 (RIPK3)-mediated necroptosis has been implicated in the progression of myocardial infarction (MI), but the underlying mechanisms, particularly whether microRNAs (miRNAs) are involved, remain largely unknown.

Results: A microarray analysis was used to screen for miR-325-3p expression in myocardial tissues from MI mice, and the expression was confirmed with qRT-PCR. The levels of myocardial enzymes were measured using commercial kits, and an echocardiography system was utilized for the detection of cardiac function parameters. Read More

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http://dx.doi.org/10.1186/s12867-019-0133-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6598367PMC
June 2019
7 Reads

Giant group I intron in a mitochondrial genome is removed by RNA back-splicing.

BMC Mol Biol 2019 06 1;20(1):16. Epub 2019 Jun 1.

Department of Medical Biology, Faculty of Health Sciences, UiT-The Arctic University of Norway, Tromsø, Norway.

Background: The mitochondrial genomes of mushroom corals (Corallimorpharia) are remarkable for harboring two complex group I introns; ND5-717 and COI-884. How these autocatalytic RNA elements interfere with mitochondrial RNA processing is currently not known. Here, we report experimental support for unconventional processing events of ND5-717 containing RNA. Read More

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http://dx.doi.org/10.1186/s12867-019-0134-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6545197PMC
June 2019
2.194 Impact Factor

Exploration of carbohydrate binding behavior and anti-proliferative activities of Arisaema tortuosum lectin.

BMC Mol Biol 2019 05 7;20(1):15. Epub 2019 May 7.

Department of Molecular Biology & Biochemistry, Guru Nanak Dev University, Amritsar, Punjab, 143005, India.

Background: Lectins have come a long way from being identified as proteins that agglutinate cells to promising therapeutic agents in modern medicine. Through their specific binding property, they have proven to be anti-cancer, anti-insect, anti-viral agents without affecting the non-target cells. The Arisaema tortuosum lectin (ATL) is a known anti-insect and anti-cancer candidate, also has interesting physical properties. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-019-0132-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6505227PMC
May 2019
4 Reads

Characterization of cadmium-responsive MicroRNAs and their target genes in maize (Zea mays) roots.

BMC Mol Biol 2019 05 2;20(1):14. Epub 2019 May 2.

Centre for Green Development and Collaborative Innovation in Wuling Mountain Region, Yangtze Normal University, Fuling, Chongqing, 408100, China.

Background: Current research has shown that microRNAs (miRNAs) play vital roles in plant response to stress caused by heavy metals such as aluminum, arsenic, cadmium (Cd), and mercury. Cd has become one of the most hazardous pollutants in the environment. Maize can be a potential model to study phytoremediation of Cd-contaminated soil owing to its large biomass production. Read More

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http://dx.doi.org/10.1186/s12867-019-0131-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6498490PMC
May 2019
5 Reads

Identification and validation of reference genes for real-time quantitative RT-PCR analysis in jute.

BMC Mol Biol 2019 04 29;20(1):13. Epub 2019 Apr 29.

Basic and Applied Research on Jute Project, Bangladesh Jute Research Institute, Dhaka, Bangladesh.

Background: With the availability of genome sequences, gene expression analysis of jute has drawn considerable attention for understanding the regulatory mechanisms of fiber development and improving fiber quality. Gene expression profiles of a target gene can provide valuable clues towards the understanding of its biological function. Reverse transcription quantitative real-time PCR (qRT-PCR) is the best method for targeted gene expression analysis due to its sensitivity and reproducibility. Read More

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http://dx.doi.org/10.1186/s12867-019-0130-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6489354PMC
April 2019
1 Read

Small nucleolar RNA Sf-15 regulates proliferation and apoptosis of Spodoptera frugiperda Sf9 cells.

BMC Mol Biol 2019 04 11;20(1):12. Epub 2019 Apr 11.

China-UK-NYNU-RRes Joint Laboratory of Insect Biology, Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, 1638 Wolong Road, Nanyang, 473061, Henan, China.

Background: Small nucleolar RNAs (snoRNAs) function in guiding 2'-O-methylation and pseudouridylation of ribosomal RNAs (rRNAs) and small nuclear RNAs (snRNAs). In recent years, more and more snoRNAs have been found to play novel roles in mRNA regulation, such as pre-mRNA splicing or RNA editing. In our previous study, we found a silkworm C/D box snoRNA Bm-15 can interact with Notch receptor gene in vitro. Read More

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http://dx.doi.org/10.1186/s12867-019-0128-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6458620PMC
April 2019
8 Reads
2.194 Impact Factor

Key genes differential expressions and pathway involved in salt and water-deprivation stresses for renal cortex in camel.

BMC Mol Biol 2019 04 8;20(1):11. Epub 2019 Apr 8.

College of Life Sciences, Inner Mongolia Agricultural University, No. 306 Zhaowuda Road, Hohhot, 010018, China.

Background: Camels possess the characteristics of salt- and drought-resistances, due to the long-time adaption to the living environment in desert. The camel resistance research on transcriptome is rare and deficient, especially reabsorption in renal cortex. Non-coding RNAs are normally considered as the RNA molecules that are not translated into proteins, their current roles remain mostly in regulation of information flux from DNA to protein, further on normal life activities and diseases. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-019-0129-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6454748PMC
April 2019
20 Reads

Development of a novel selection/counter-selection system for chromosomal gene integrations and deletions in lactic acid bacteria.

BMC Mol Biol 2019 03 29;20(1):10. Epub 2019 Mar 29.

Department of Microbiology, Stellenbosch University, Stellenbosch, 7600, South Africa.

Background: The underlying mechanisms by which probiotic lactic acid bacteria (LAB) enhance the health of the consumer have not been fully elucidated. Verification of probiotic modes of action can be achieved by using single- or multiple-gene knockout analyses of bacterial mutants in in vitro or in vivo models. We developed a novel system based on an inducible toxin counter-selection system, allowing for rapid and efficient isolation of LAB integration or deletion mutants. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-019-0127-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6440147PMC
March 2019
13 Reads

Selection of reference genes for the quantitative real-time PCR normalization of gene expression in Isatis indigotica fortune.

BMC Mol Biol 2019 03 25;20(1). Epub 2019 Mar 25.

Institute of Food Crops, Jiangsu Academy Agriculture Sciences, Nanjing, 210014, China.

Background: Isatis indigotica, a traditional Chinese medicine, produces a variety of active ingredients. However, little is known about the key genes and corresponding expression profiling involved in the biosynthesis pathways of these ingredients. Quantitative real-time polymerase chain reaction (qRT-PCR) is a powerful, commonly-used method for gene expression analysis, but the accuracy of the quantitative data produced depends on the appropriate selection of reference genes. Read More

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http://dx.doi.org/10.1186/s12867-019-0126-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6434783PMC

MEF2A alters the proliferation, inflammation-related gene expression profiles and its silencing induces cellular senescence in human coronary endothelial cells.

BMC Mol Biol 2019 03 18;20(1). Epub 2019 Mar 18.

Guangzhou Institute of Cardiovascular Disease, Guangdong Key Laboratory of Vascular Diseases, State Key Laboratory of Respiratory Disease, The Second Affiliated Hospital, Guangzhou Medical University, No. 250 Changgang Dong Road, Guangzhou, 510260, Guangdong, People's Republic of China.

Background: Myocyte enhancer factor 2A (MEF2A) plays an important role in cell proliferation, differentiation and survival. Functional deletion or mutation in MEF2A predisposes individuals to cardiovascular disease mainly caused by vascular endothelial dysfunction. However, the effect of the inhibition of MEF2A expression on human coronary artery endothelial cells (HCAECs) is unclear. Read More

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http://dx.doi.org/10.1186/s12867-019-0125-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6423757PMC
March 2019
2 Reads

Transcriptomic responses to grazing reveal the metabolic pathway leading to the biosynthesis of domoic acid and highlight different defense strategies in diatoms.

BMC Mol Biol 2019 02 26;20(1). Epub 2019 Feb 26.

Natural History Museum of Denmark, University of Copenhagen, Øster Farimagsgade 5, 1353, Copenhagen K, Denmark.

Background: A major cause of phytoplankton mortality is predation by zooplankton. Strategies to avoid grazers have probably played a major role in the evolution of phytoplankton and impacted bloom dynamics and trophic energy transport. Certain species of the genus Pseudo-nitzschia produce the neurotoxin, domoic acid (DA), as a response to the presence of copepod grazers, suggesting that DA is a defense compound. Read More

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http://dx.doi.org/10.1186/s12867-019-0124-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6390554PMC
February 2019
1 Read

RNA sequencing, selection of reference genes and demonstration of feeding RNAi in Thrips tabaci (Lind.) (Thysanoptera: Thripidae).

BMC Mol Biol 2019 02 18;20(1). Epub 2019 Feb 18.

Department of Entomology, University of Kentucky, Lexington, KY, USA.

Background: Thrips tabaci is a severe pest of onion and cotton. Due to lack of information on its genome or transcriptome, not much is known about this insect at the molecular level. To initiate molecular studies in this insect, RNA was sequenced; de novo transcriptome assembly and analysis were performed. Read More

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http://dx.doi.org/10.1186/s12867-019-0123-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6380046PMC
February 2019
1 Read

A fragment activity assay reveals the key residues of TBC1D15 GTPase-activating protein (GAP) in Chiloscyllium plagiosum.

BMC Mol Biol 2019 02 12;20(1). Epub 2019 Feb 12.

Zhejiang Provincial Key Laboratory of Silkworm Bioreactor and Biomedicine, College of Life Sciences, Zhejiang Sci-Tech University, Hangzhou, 310018, China.

Background: GTPase-activating proteins (GAPs) with a TBC (Tre-2/Bub2/Cdc16) domain architecture serve as negative regulators of Rab GTPases. The related crystal structure has been studied and reported by other members of our research group in 2017 (Chen et al. in Protein Sci 26(4):834-846, 2017). Read More

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http://dx.doi.org/10.1186/s12867-019-0122-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6373008PMC
February 2019
2 Reads

HexA is required for growth, aflatoxin biosynthesis and virulence in Aspergillus flavus.

BMC Mol Biol 2019 02 11;20(1). Epub 2019 Feb 11.

Key Laboratory of Pathogenic Fungi and Mycotoxins of Fujian Province, Key Laboratory of Biopesticide and Chemical Biology of Education Ministry, and School of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.

Background: Woronin bodies are fungal-specific organelles whose formation is derived from peroxisomes. The former are believed to be involved in the regulation of mycotoxins biosynthesis, but not in their damage repair function. The hexagonal peroxisome protein (HexA or Hex1) encoded by hexA gene in Aspergillus is the main and the essential component of the Woronin body. Read More

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http://dx.doi.org/10.1186/s12867-019-0121-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6371581PMC
February 2019
3 Reads

Genome-wide identification of brain miRNAs in response to high-intensity intermittent swimming training in Rattus norvegicus by deep sequencing.

BMC Mol Biol 2019 01 15;20(1). Epub 2019 Jan 15.

College of Sports, Yantai University, Yantai, China.

Background: Physical exercise can improve brain function by altering brain gene expression. The expression mechanisms underlying the brain's response to exercise still remain unknown. miRNAs as vital regulators of gene expression may be involved in regulation of brain genes in response to exercise. Read More

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http://dx.doi.org/10.1186/s12867-019-0120-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6334412PMC
January 2019
5 Reads

MiRNAs differentially expressed in skeletal muscle of animals with divergent estimated breeding values for beef tenderness.

BMC Mol Biol 2019 01 3;20(1). Epub 2019 Jan 3.

Department of Animal Science, "Luiz de Queiroz" College of Agriculture, University of São Paulo, Piracicaba, SP, 13418-900, Brazil.

Background: MicroRNAs (miRNAs) are small noncoding RNAs of approximately 22 nucleotides, highly conserved among species, which modulate gene expression by cleaving messenger RNA target or inhibiting translation. MiRNAs are involved in the regulation of many processes including cell proliferation, differentiation, neurogenesis, angiogenesis, and apoptosis. Beef tenderness is an organoleptic characteristic of great influence in the acceptance of meat by consumers. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-018-0118-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6317189PMC
January 2019
6 Reads

Graphene oxide down-regulates genes of the oxidative phosphorylation complexes in a glioblastoma.

BMC Mol Biol 2019 01 3;20(1). Epub 2019 Jan 3.

Department of Animal Nutrition and Biotechnology, Warsaw University of Life Sciences, 02-787, Warsaw, Poland.

Background: Recently different forms of nanographene were proposed as the material with high anticancer potential. However, the mechanism of the suppressive activity of the graphene on cancer development remains unclear. We examined the effect of oxygenated, reduced and pristine graphene on the gene expression in glioblastoma U87 cell line. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-018-0119-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6317254PMC
January 2019
32 Reads

The Dictyostelium discoideum homologue of Twinkle, Twm1, is a mitochondrial DNA helicase, an active primase and promotes mitochondrial DNA replication.

BMC Mol Biol 2018 12 19;19(1):12. Epub 2018 Dec 19.

Department of Physiology, Anatomy and Microbiology, La Trobe University, Melbourne, VIC, Australia.

Background: DNA replication requires contributions from various proteins, such as DNA helicases; in mitochondria Twinkle is important for maintaining and replicating mitochondrial DNA. Twinkle helicases are predicted to also possess primase activity, as has been shown in plants; however this activity appears to have been lost in metazoans. Given this, the study of Twinkle in other organisms is required to better understand the evolution of this family and the roles it performs within mitochondria. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-018-0114-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6299598PMC
December 2018
5 Reads

Matrix association region/scaffold attachment region (MAR/SAR) sequence: its vital role in mediating chromosome breakages in nasopharyngeal epithelial cells via oxidative stress-induced apoptosis.

BMC Mol Biol 2018 12 4;19(1):15. Epub 2018 Dec 4.

Molecular Pathology Unit, Cancer Research Centre, Institute for Medical Research, Kuala Lumpur, Malaysia.

Background: Oxidative stress is known to be involved in most of the aetiological factors of nasopharyngeal carcinoma (NPC). Cells that are under oxidative stress may undergo apoptosis. We have previously demonstrated that oxidative stress-induced apoptosis could be a potential mechanism mediating chromosome breakages in nasopharyngeal epithelial cells. Read More

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http://dx.doi.org/10.1186/s12867-018-0116-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6278157PMC
December 2018
4 Reads

Molecular analysis of NPAS3 functional domains and variants.

BMC Mol Biol 2018 12 3;19(1):14. Epub 2018 Dec 3.

Department of Medical Genetics, University of Alberta, Edmonton, AB, Canada.

Background: NPAS3 encodes a transcription factor which has been associated with multiple human psychiatric and neurodevelopmental disorders. In mice, deletion of Npas3 was found to cause alterations in neurodevelopment, as well as a marked reduction in neurogenesis in the adult mouse hippocampus. This neurogenic deficit, alongside the reduction in cortical interneuron number, likely contributes to the behavioral and cognitive alterations observed in Npas3 knockout mice. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-018-0117-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6276216PMC
December 2018
20 Reads

Integration of transcriptome and proteome profiles in glioblastoma: looking for the missing link.

BMC Mol Biol 2018 11 21;19(1):13. Epub 2018 Nov 21.

Department of Neurosurgery, CHU Angers, University Hospital of Angers, 4, Rue Larrey, 49933, Angers Cedex 09, France.

Background: Glioblastoma (GB) is the most common and aggressive tumor of the brain. Genotype-based approaches and independent analyses of the transcriptome or the proteome have led to progress in understanding the underlying biology of GB. Joint transcriptome and proteome profiling may reveal new biological insights, and identify pathogenic mechanisms or therapeutic targets for GB therapy. Read More

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http://dx.doi.org/10.1186/s12867-018-0115-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6249855PMC
November 2018
26 Reads

Analyses of changes in myocardial long non-coding RNA and mRNA profiles after severe hemorrhagic shock and resuscitation via RNA sequencing in a rat model.

BMC Mol Biol 2018 11 1;19(1):11. Epub 2018 Nov 1.

Sun Yat-sen Memorial Hospital, Sun Yat-sen University, 107 Yan Jiang Xi Road, Guangzhou, 510120, China.

Background: Ischemia-reperfusion injury has been proven to induce organ dysfunction and death, although the mechanism is not fully understood. Long non-coding RNAs (lncRNAs) have drawn wide attention with their important roles in the gene expression of some biological processes and diseases, including myocardial ischemia-reperfusion (I/R) injury. In this paper, a total of 26 Sprague-Dawley (SD) rats were randomized into two groups: sham and ischemia-reperfusion (I/R) injury. Read More

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https://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867
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http://dx.doi.org/10.1186/s12867-018-0113-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6211518PMC
November 2018
38 Reads

Coincidence cloning recovery of Brucella melitensis RNA from goat tissues: advancing the in vivo analysis of pathogen gene expression in brucellosis.

BMC Mol Biol 2018 08 1;19(1):10. Epub 2018 Aug 1.

Infectious Bacterial Diseases Research Unit, National Animal Disease Center, Agricultural Research Service, U.S. Department of Agriculture, Ames, IA, 50010, USA.

Background: Brucella melitensis bacteria cause persistent, intracellular infections in small ruminants as well as in humans, leading to significant morbidity and economic loss worldwide. The majority of experiments on the transcriptional responses of Brucella to conditions inside the host have been performed following invasion of cultured mammalian cells, and do not address gene expression patterns during long-term infection.

Results: Here, we examine the application of the previously developed coincidence cloning methodology to recover and characterize B. Read More

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http://dx.doi.org/10.1186/s12867-018-0111-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6071331PMC
August 2018
11 Reads
2.194 Impact Factor

Positive cofactor 4 (PC4) contributes to the regulation of replication-dependent canonical histone gene expression.

BMC Mol Biol 2018 07 27;19(1). Epub 2018 Jul 27.

Department of Gene Expression, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University in Poznan, Wieniawskiego 1, 61-712, Poznan, Poland.

Background: Core canonical histones are required in the S phase of the cell cycle to pack newly synthetized DNA, therefore the expression of their genes is highly activated during DNA replication. In mammalian cells, this increment is achieved by both enhanced transcription and 3' end processing. In this paper, we described positive cofactor 4 (PC4) as a protein that contributes to the regulation of replication-dependent histone gene expression. Read More

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http://dx.doi.org/10.1186/s12867-018-0110-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6062981PMC
July 2018
6 Reads

Evaluation of suitable reference genes for qRT-PCR normalization in strawberry (Fragaria × ananassa) under different experimental conditions.

BMC Mol Biol 2018 06 22;19(1). Epub 2018 Jun 22.

College of Horticulture, Sichuan Agricultural University, Chengdu, 611130, China.

Background: Strawberry has received much attention due to its nutritional value, unique flavor, and attractive appearance. The availability of the whole genome sequence and multiple transcriptome databases allows the great possibility to explore gene functions, comprehensively. Gene expression profiles of a target gene can provide clues towards the understanding of its biological function. Read More

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http://dx.doi.org/10.1186/s12867-018-0109-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6013875PMC
June 2018
13 Reads

Laser capture microdissection for transcriptomic profiles in human skin biopsies.

BMC Mol Biol 2018 06 19;19(1). Epub 2018 Jun 19.

Laboratory of Genetics of Complex Disorders and Department of Neurology, IRCCS Policlinico San Donato, Milan, Italy.

Background: The acquisition of reliable tissue-specific RNA sequencing data from human skin biopsy represents a major advance in research. However, the complexity of the process of isolation of specific layers from fresh-frozen human specimen by laser capture microdissection, the abundant presence of skin nucleases and RNA instability remain relevant methodological challenges. We developed and optimized a protocol to extract RNA from layers of human skin biopsies and to provide satisfactory quality and amount of mRNA sequencing data. Read More

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http://dx.doi.org/10.1186/s12867-018-0108-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6009967PMC
June 2018
17 Reads

Targeting miR-9 in gastric cancer cells using locked nucleic acid oligonucleotides.

BMC Mol Biol 2018 06 7;19(1). Epub 2018 Jun 7.

Department of Chemical Engineering, LEPABE - Laboratory for Process Engineering, Environment, Biotechnology and Energy, Faculty of Engineering of the University of Porto, Rua Dr. Roberto Frias, 4200-465, Porto, Portugal.

Background: Gastric cancer is the third leading cause of cancer-related mortality worldwide. Recently, it has been demonstrated that gastric cancer cells display a specific miRNA expression profile, with increasing evidence of the role of miRNA-9 in this disease. miRNA-9 upregulation has been shown to influence the expression of E-cadherin-encoding gene, triggering cell motility and invasiveness. Read More

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http://dx.doi.org/10.1186/s12867-018-0107-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5992815PMC
June 2018
7 Reads

Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq.

BMC Mol Biol 2018 03 27;19(1). Epub 2018 Mar 27.

Department of Genetics and Center for Genome Sciences and Systems Biology, Washington University School of Medicine, St. Louis, MO, USA.

Background: BATF family transcription factors (BATF, BATF2 and BATF3) form hetero-trimers with JUNB and either IRF4 or IRF8 to regulate cell fate in T cells and dendritic cells in vivo. While each combination of the hetero-trimer has a distinct role, some degree of cross-compensation was observed. The basis for the differential actions of IRF4 and IRF8 with BATF factors and JUNB is still unknown. Read More

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http://dx.doi.org/10.1186/s12867-018-0106-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5869772PMC
March 2018
6 Reads

pH-mediated upregulation of AQP1 gene expression through the Spi-B transcription factor.

BMC Mol Biol 2018 03 20;19(1). Epub 2018 Mar 20.

Department of Nephrology and Rheumatology, Children's Hospital of Fudan University, No. 399 Wanyuan Road, Shanghai, 201102, China.

Background: Bicarbonate-based peritoneal dialysis (PD) fluids enhance the migratory capacity and damage-repair ability of human peritoneal mesothelial cells by upregulating AQP1. However, little is known about the underlying molecular mechanisms.

Results: Here we used HEK-293T cells to investigate the effect of pH on AQP1 gene transcription levels. Read More

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http://dx.doi.org/10.1186/s12867-018-0104-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5859780PMC
March 2018
11 Reads
2.190 Impact Factor

A protocol for custom CRISPR Cas9 donor vector construction to truncate genes in mammalian cells using pcDNA3 backbone.

BMC Mol Biol 2018 03 14;19(1). Epub 2018 Mar 14.

Department of Biology, University of Texas-Rio Grande Valley, 1201 W. University Dr., Edinburg, TX, 78539, USA.

Background: Clustered regularly interspaced short palindromic repeat (CRISPR) RNA-guided adaptive immune systems are found in prokaryotes to defend cells from foreign DNA. CRISPR Cas9 systems have been modified and employed as genome editing tools in wide ranging organisms. Here, we provide a detailed protocol to truncate genes in mammalian cells using CRISPR Cas9 editing. Read More

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http://dx.doi.org/10.1186/s12867-018-0105-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5853148PMC
March 2018
48 Reads

Recommendations for mRNA analysis of micro-dissected glomerular tufts from paraffin-embedded human kidney biopsy samples.

BMC Mol Biol 2018 03 13;19(1). Epub 2018 Mar 13.

Department of Nephropathology, Institute of Pathology, Friedrich-Alexander University Erlangen-Nuremberg, Krankenhausstraße 8-10, 91054, Erlangen, Germany.

Background: Glomeruli are excellent pre-determined natural structures for laser micro-dissection. Compartment-specific glomerular gene expression analysis of formalin-fixed paraffin-embedded renal biopsies could improve research applications. The major challenge for such studies is to obtain good-quality RNA from small amounts of starting material, as applicable for the analysis of glomerular compartments. Read More

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http://dx.doi.org/10.1186/s12867-018-0103-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5850911PMC
March 2018
34 Reads

Nutrient depletion and TOR inhibition induce 18S and 25S ribosomal RNAs resistant to a 5'-phosphate-dependent exonuclease in Candida albicans and other yeasts.

BMC Mol Biol 2018 01 19;19(1). Epub 2018 Jan 19.

Research Division, Greater Los Angeles VA Healthcare System, Los Angeles, CA, USA.

Background: Messenger RNA (mRNA) represents a small percentage of RNAs in a cell, with ribosomal RNA (rRNA) making up the bulk of it. To isolate mRNA from eukaryotes, typically poly-A selection is carried out. Recently, a 5´-phosphate-dependent, 5´→3´ processive exonuclease called Terminator has become available. Read More

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http://dx.doi.org/10.1186/s12867-018-0102-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5775620PMC
January 2018
8 Reads

An optimized rapid bisulfite conversion method with high recovery of cell-free DNA.

BMC Mol Biol 2017 Dec 19;18(1):24. Epub 2017 Dec 19.

Department of Forensic medicine, Tongji Medical College, Huazhong University of Science and Technology, 13 Hangkong Rd, Wuhan, 430030, China.

Background: Methylation analysis of cell-free DNA is a encouraging tool for tumor diagnosis, monitoring and prognosis. Sensitivity of methylation analysis is a very important matter due to the tiny amounts of cell-free DNA available in plasma. Most current methods of DNA methylation analysis are based on the difference of bisulfite-mediated deamination of cytosine between cytosine and 5-methylcytosine. Read More

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http://dx.doi.org/10.1186/s12867-017-0101-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5735811PMC
December 2017
12 Reads

Sumoylation in p27kip1 via RanBP2 promotes cancer cell growth in cholangiocarcinoma cell line QBC939.

BMC Mol Biol 2017 09 7;18(1):23. Epub 2017 Sep 7.

Department of Geriatrics, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, 1095 Jiefang Avenue, Wuhan, 430030, Hubei, People's Republic of China.

Background: Cholangiocarcinoma is one of the deadly disease with poor 5-year survival and poor response to conventional therapies. Previously, we found that p27kip1 nuclear-cytoplasmic translocation confers proliferation potential to cholangiocarcinoma cell line QBC939 and this process is mediated by crm-1. However, no other post-transcriptional regulation was found in this process including sumoylation in cholangiocarcinoma. Read More

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http://dx.doi.org/10.1186/s12867-017-0100-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5590128PMC
September 2017
70 Reads

An optimised protocol for isolation of RNA from small sections of laser-capture microdissected FFPE tissue amenable for next-generation sequencing.

BMC Mol Biol 2017 08 23;18(1):22. Epub 2017 Aug 23.

Institute of Veterinary Pharmacology and Toxicology, Vetsuisse Faculty, University of Zürich, Winterthurerstr. 260, 8057, Zurich, Switzerland.

Background: Formalin-fixed paraffin embedded (FFPE) tissue constitutes a vast treasury of samples for biomedical research. Thus far however, extraction of RNA from FFPE tissue has proved challenging due to chemical RNA-protein crosslinking and RNA fragmentation, both of which heavily impact on RNA quantity and quality for downstream analysis. With very small sample sizes, e. Read More

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http://dx.doi.org/10.1186/s12867-017-0099-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5569520PMC
August 2017
23 Reads

Physical shearing imparts biological activity to DNA and ability to transmit itself horizontally across species and kingdom boundaries.

BMC Mol Biol 2017 08 9;18(1):21. Epub 2017 Aug 9.

Translational Research Laboratory, Advanced Centre for Treatment, Research and Education in Cancer, Tata Memorial Centre, Navi-Mumbai, 410210, India.

Background: We have recently reported that cell-free DNA (cfDNA) fragments derived from dying cells that circulate in blood are biologically active molecules and can readily enter into healthy cells to activate DNA damage and apoptotic responses in the recipients. However, DNA is not conventionally known to spontaneously enter into cells or to have any intrinsic biological activity. We hypothesized that cellular entry and acquisition of biological properties are functions of the size of DNA. Read More

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http://dx.doi.org/10.1186/s12867-017-0098-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5550992PMC
August 2017
15 Reads
2.194 Impact Factor

Interaction between NFATc2 and the transcription factor Sp1 in pancreatic carcinoma cells PaTu 8988t.

BMC Mol Biol 2017 08 3;18(1):20. Epub 2017 Aug 3.

Department of Obstetrics and Gynecology, University Hospital Mainz, Mainz, Germany.

Background: Nuclear factors of activated T-cells (NFATs) have been mainly characterized in the context of immune response regulation because, as transcription factors, they have the ability to induce gene transcription. NFAT proteins are found in several types of tumors, for instance, pancreatic carcinoma. The role of NFATs in carcinogenesis is regulating central genes in cell differentiation and cell growth. Read More

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http://dx.doi.org/10.1186/s12867-017-0097-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5543739PMC
August 2017
7 Reads

Splicing arrays reveal novel RBM10 targets, including SMN2 pre-mRNA.

BMC Mol Biol 2017 07 20;18(1):19. Epub 2017 Jul 20.

Département de Microbiologie et d'infectiologie, Faculté de Médecine et des Sciences de la Santé, Université de Sherbrooke, Sherbrooke, QC, Canada.

Background: RBM10 is an RNA binding protein involved in message stabilization and alternative splicing regulation. The objective of the research described herein was to identify novel targets of RBM10-regulated splicing. To accomplish this, we downregulated RBM10 in human cell lines, using small interfering RNAs, then monitored alternative splicing, using a reverse transcription-PCR screening platform. Read More

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http://bmcmolbiol.biomedcentral.com/articles/10.1186/s12867-
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http://dx.doi.org/10.1186/s12867-017-0096-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5520337PMC
July 2017
50 Reads

Growth arrest specific gene 2 in tilapia (Oreochromis niloticus): molecular characterization and functional analysis under low-temperature stress.

BMC Mol Biol 2017 07 17;18(1):18. Epub 2017 Jul 17.

Key Laboratory of Freshwater Biodiversity Conservation and Utilization of Ministry of Agriculture, Yangtze River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Wuhan, 430223, China.

Background: Growth arrest specific 2 (gas2) gene is a component of the microfilament system that plays a major role in the cell cycle, regulation of microfilaments, and cell morphology during apoptotic processes. However, little information is available on fish gas2. In this study, the tilapia (Oreochromis niloticus) gas2 gene was cloned and characterized for the first time. Read More

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http://dx.doi.org/10.1186/s12867-017-0095-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5514492PMC
July 2017
36 Reads

Identification of G-quadruplex structures that possess transcriptional regulating functions in the Dele and Cdc6 CpG islands.

BMC Mol Biol 2017 06 27;18(1):17. Epub 2017 Jun 27.

School of Bioscience and Biotechnology, Tokyo University of Technology, 1404-1 Katakuramachi, Hachioji, Tokyo, 192-0982, Japan.

Background: G-quadruplex is a DNA secondary structure that has been shown to play an important role in biological systems. In a previous study, we identified 1998 G-quadruplex-forming sequences using a mouse CpG islands DNA microarray with a fluorescent-labeled G-quadruplex ligand. Among these putative G-quadruplex-forming sequences, G-quadruplex formation was verified for 10 randomly selected sequences by CD spectroscopy and DMS footprinting analysis. Read More

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http://dx.doi.org/10.1186/s12867-017-0094-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5488298PMC
June 2017
38 Reads

Mitochondrial RNA processing in absence of tRNA punctuations in octocorals.

BMC Mol Biol 2017 06 17;18(1):16. Epub 2017 Jun 17.

Department of Earth and Environmental Sciences, Palaeontology & Geobiology, Ludwig-Maximilians-Universität München, Richard-Wagner Str. 10, 80333, Munich, Germany.

Background: Mitogenome diversity is staggering among early branching animals with respect to size, gene density, content and order, and number of tRNA genes, especially in cnidarians. This last point is of special interest as tRNA cleavage drives the maturation of mitochondrial mRNAs and is a primary mechanism for mt-RNA processing in animals. Mitochondrial RNA processing in non-bilaterian metazoans, some of which possess a single tRNA gene in their mitogenomes, is essentially unstudied despite its importance in understanding the evolution of mitochondrial transcription in animals. Read More

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http://dx.doi.org/10.1186/s12867-017-0093-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5474008PMC
June 2017
11 Reads

Microarray expression profiling in the denervated hippocampus identifies long noncoding RNAs functionally involved in neurogenesis.

BMC Mol Biol 2017 06 6;18(1):15. Epub 2017 Jun 6.

Department of Anatomy and Neurobiology, The Jiangsu Key Laboratory of Neuroregeneration, Co-innovation Center of Neuroregeneration, Nantong University, Nantong, 226001, Jiangsu, People's Republic of China.

Background: The denervated hippocampus provides a proper microenvironment for the survival and neuronal differentiation of neural progenitors. While thousands of lncRNAs were identified, only a few lncRNAs that regulate neurogenesis in the hippocampus are reported. The present study aimed to perform microarray expression profiling to identify long noncoding RNAs (lncRNAs) that might participate in the hippocampal neurogenesis, and investigate the potential roles of identified lncRNAs in the hippocampal neurogenesis. Read More

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http://dx.doi.org/10.1186/s12867-017-0091-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5461768PMC
June 2017
22 Reads

Early growth response protein 1 regulates promoter activity of α-plasma membrane calcium ATPase 2, a major calcium pump in the brain and auditory system.

BMC Mol Biol 2017 05 22;18(1):14. Epub 2017 May 22.

Department of Pharmacology, School of Medicine, University of Washington, Seattle, WA, 98195, USA.

Background: Along with sodium/calcium (Ca) exchangers, plasma membrane Ca ATPases (ATP2Bs) are main regulators of intracellular Ca levels. There are four ATP2B paralogs encoded by four different genes. Atp2b2 encodes the protein pump with the fastest activation, ATP2B2. Read More

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http://dx.doi.org/10.1186/s12867-017-0092-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5441030PMC
May 2017
38 Reads