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Resolution of budding yeast chromosomes using pulsed-field gel electrophoresis.

Authors:
Aziz El Hage Jonathan Houseley

Methods Mol Biol 2013 ;1054:195-207

Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, UK.

Pulsed-field gel electrophoresis (PFGE) is a technique that resolves chromosome-sized DNA molecules in an agarose gel. As well as DNA mapping and karyotyping applications, PFGE techniques are well adapted to follow DNA rearrangements over time in a quantitative manner. Because of the very large sizes of the DNA molecules analyzed, DNA preparation, electrophoresis, and Southern blotting processes present unique challenges in PFGE experiments. In this chapter, we describe a robust PFGE protocol covering the preparation of intact Saccharomyces cerevisiae chromosomal DNA, specific running conditions for the resolution of small, medium- and large-sized chromosomes and their by-products, and basic Southern blotting and hybridization instructions for the analysis of these molecules.

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http://dx.doi.org/10.1007/978-1-62703-565-1_13DOI Listing
March 2014

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Rapid Identification of Plasmid Replicon Type and Coexisting Plasmid-Borne Antimicrobial Resistance Genes by S1-Pulsed-Field Gel Electrophoresis-Droplet Digital Polymerase Chain Reaction.

Authors:
Jialiang Xu Ning Zhang Ming Luo Mengyu Wang Ling Wang Jiaqi Li Zhe Li Hongqun Zhao Zhenpeng Li Biao Kan Xin Lu

Foodborne Pathog Dis 2021 Mar 4. Epub 2021 Mar 4.

State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.

Bacterial drug resistance is a significant food safety problem and public health threat. Plasmids carrying drug resistance genes may result in the rapid spread of resistance among different bacteria, hosts, and environments; therefore, antibiotic resistance monitoring and continuing research into the mechanisms of drug resistance are urgently needed. Southern blotting with probes for antibiotic resistance genes and even next-generation sequencing have been used previously to detect plasmid-borne resistance genes, but these approaches are complex and time-consuming. Read More

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March 2021
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MiR-452-5p promotes colorectal cancer progression by regulating an ERK/MAPK positive feedback loop.

Authors:
Xin Lin Lu Han Chuncai Gu Yihong Lai Qiuhua Lai Qingyuan Li Chengcheng He Yan Meng Lei Pan Side Liu Aimin Li

Aging (Albany NY) 2021 Mar 3;13. Epub 2021 Mar 3.

Guangdong Provincial Key Laboratory of Gastroenterology, Department of Gastroenterology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong, People’s Republic of China.

Background: MiR-452-5p plays an essential role in the development of a variety of tumors, but little is known about its biological function and mechanism in colorectal cancer (CRC).

Methods: The expression levels of miR-452-5p in CRC tissues and cells were detected by real-time quantitative PCR (qRT-PCR). Besides, the biological effects of miR-452-5p on CRC were investigated by functional experiments and . Read More

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March 2021
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Inducible expression of human papillomavirus-16 L1 capsomeres in the plastomes of Nicotiana tabacum: Transplastomic plants develop normal flowers and pollen.

Authors:
Sara Latif Johanna Gottschamel Tahira Syed Iqra Younus Kehkshan Gull Muhammad Sameeullah Neelam Batool Andreas Günter Lössl Filipe Mariz Martin Müller Bushra Mirza Mohammad Tahir Waheed

Biotechnol Appl Biochem 2021 Mar 2. Epub 2021 Mar 2.

Department of Biochemistry, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, 45320, Pakistan.

Human papillomavirus type 16 (HPV-16) is the major HPV type involved in causing cervical cancer among women. The disease burden is high in developing and underdeveloped countries. Previously, the constitutive expression of HPV-16 L1 protein led to male sterility in transplastomic tobacco plants. Read More

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March 2021
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Isolation of Chromosomal and Plasmid DNA from Bifidobacteria.

Authors:
Maria Esteban-Torres Lorena Ruiz Rocio Sanchez-Gallardo Douwe van Sinderen

Methods Mol Biol 2021 ;2278:21-29

School of Microbiology and APC Microbiome Ireland, University College Cork, Cork, Ireland.

Rapid and efficient protocols aimed at the isolation and purification of DNA for the purpose of downstream applications, such as cloning, PCR, Southern blotting, or sequencing, are essential for genetic, biochemical, and molecular biological analyses of a given bacterium. The protocols herein presented provide a robust and efficient method for the isolation of chromosomal and plasmid DNA from Bifidobacterium strains by organic extraction. The methods are simple, and the yield, purity, and quality of the DNA are adequate to perform various downstream applications including next-generation sequencing. Read More

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January 2021
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Upregulation of Long Noncoding RNA_GAS5 Suppresses Cell Proliferation and Metastasis in Laryngeal Cancer via Regulating PI3K/AKT/mTOR Signaling Pathway.

Authors:
Wenlin Liu Jiandong Zhan Rong Zhong Rui Li Xiaoli Sheng Mimi Xu Zhongming Lu Siyi Zhang

Technol Cancer Res Treat 2021 Jan-Dec;20:1533033821990074

The Second School of Clinical Medicine, Southern Medical University Guangzhou, Guangdong, Baiyun, China.

Background: Laryngeal cancer is one of the most common malignant tumors among head and neck cancers. Accumulating studies have indicated that long noncoding RNAs (lncRNAs) play an important role in laryngeal cancer occurrence and progression, however, the functional roles and relative regulatory mechanisms of lncRNA growth arrest-specific transcript 5 (GAS5) in laryngeal cancer progression remain unclear.

Methods: The expression of lncRNA GAS5 in both laryngeal cancer tissues and cell lines was evaluated using quantitative reverse transcription-polymerase chain reaction (RT-qPCR) assay. Read More

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March 2021
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