keyword
https://read.qxmd.com/read/38533084/forward-genetic-screen-using-a-gene-breaking-trap-approach-identifies-a-novel-role-of-grin2bb-associated-rna-transcript-grin2bbart-in-zebrafish-heart-function
#1
JOURNAL ARTICLE
Ramcharan Singh Angom, Adita Joshi, Ashok Patowary, Ambily Sivadas, Soundhar Ramasamy, Shamsudheen K V, Kriti Kaushik, Ankit Sabharwal, Mukesh Kumar Lalwani, Subburaj K, Naresh Singh, Vinod Scaria, Sridhar Sivasubbu
LncRNA-based control affects cardiac pathophysiologies like myocardial infarction, coronary artery disease, hypertrophy, and myotonic muscular dystrophy. This study used a gene-break transposon (GBT) to screen zebrafish ( Danio rerio ) for insertional mutagenesis. We identified three insertional mutants where the GBT captured a cardiac gene. One of the adult viable GBT mutants had bradycardia (heart arrhythmia) and enlarged cardiac chambers or hypertrophy; we named it "bigheart." Bigheart mutant insertion maps to grin2bb or N-methyl D-aspartate receptor (NMDAR2B) gene intron 2 in reverse orientation...
2024: Frontiers in Cell and Developmental Biology
https://read.qxmd.com/read/38521283/mobile-genetic-element-based-gene-editing-and-genome-engineering-recent-advances-and-applications
#2
REVIEW
Jaeseong Hwang, Dae-Yeol Ye, Gyoo Yeol Jung, Sungho Jang
Genome engineering has revolutionized several scientific fields, ranging from biochemistry and fundamental research to therapeutic uses and crop development. Diverse engineering toolkits have been developed and used to effectively modify the genome sequences of organisms. However, there is a lack of extensive reviews on genome engineering technologies based on mobile genetic elements (MGEs), which induce genetic diversity within host cells by changing their locations in the genome. This review provides a comprehensive update on the versatility of MGEs as powerful genome engineering tools that offers efficient solutions to challenges associated with genome engineering...
March 21, 2024: Biotechnology Advances
https://read.qxmd.com/read/38517165/mutagenesis-and-functional-analysis-of-the-varicella-zoster-virus-portal-protein
#3
JOURNAL ARTICLE
Melissa A Visalli, Dakota J Nale Lovett, Ellyn M Kornfeind, Haley Herrington, Yi Tian Xiao, Daniel Lee, Patience Plair, S Garrett Wilder, Bret K Garza, Ashton Young, Robert J Visalli
Herpesviruses replicate by cleaving concatemeric dsDNA into single genomic units that are packaged through an oligomeric portal present in preformed procapsids. In contrast to what is known about phage portal proteins, details concerning herpesvirus portal structure and function are not as well understood. A panel of 65 Varicella-Zoster virus (VZV) recombinant portal proteins with five amino acid in-frame insertions were generated by random transposon mutagenesis of the VZV portal gene, ORF54. Subsequently, 65 VZVLUC recombinant viruses (TNs) were generated via recombineering...
March 22, 2024: Journal of Virology
https://read.qxmd.com/read/38507111/identification-and-characterization-of-acinetobacter-nosocomialis-bfmrs-two-component-regulatory-system-essential-for-biofilm-development
#4
JOURNAL ARTICLE
Chul Hee Choi, Seyoung Mun, Man Hwan Oh
BACKGROUND: Biofilm development by bacteria is considered to be an essential stage in the bacterial infection. Acinetobacter nosocomialis is an important nosocomial pathogen causing a variety of human infections. However, characteristics and specific determinants of biofilm development have been poorly characterized in A. nosocomialis. OBJECTIVE: The aim of this study was to investigate the factors involved in the biofilm development by A. nosocomialis. METHODS: Library of random transposon mutants was constructed using the Tn5 mutagenesis...
March 20, 2024: Genes & Genomics
https://read.qxmd.com/read/38501654/cell-envelope-structural-and-functional-contributions-to-antibiotic-resistance-in-burkholderia-cenocepacia
#5
JOURNAL ARTICLE
Andrew M Hogan, Anna Motnenko, A S M Zisanur Rahman, Silvia T Cardona
Antibiotic activity is limited by the physical construction of the Gram-negative cell envelope. Species of the Burkholderia cepacia complex (Bcc) are known as intrinsically multidrug-resistant opportunistic pathogens with low permeability cell envelopes. Here, we re-examined a previously performed chemical-genetic screen of barcoded transposon mutants in B. cenocepacia K56-2, focusing on cell envelope structural and functional processes. We identified structures mechanistically important for resistance to singular and multiple antibiotic classes...
March 19, 2024: Journal of Bacteriology
https://read.qxmd.com/read/38474041/genetic-loci-of-plant-pathogenic-dickeya-solani-ipo-2222-expressed-in-contact-with-weed-host-bittersweet-nightshade-solanum-dulcamara-l-plants
#6
JOURNAL ARTICLE
Robert Czajkowski, Dorota M Krzyżanowska, Daryna Sokolova, Łukasz Rąbalski, Maciej Kosiński, Sylwia Jafra, Aleksandra Królicka
Dickeya solani , belonging to the Soft Rot Pectobacteriaceae , are aggressive necrotrophs, exhibiting both a wide geographic distribution and a wide host range that includes many angiosperm orders, both dicot and monocot plants, cultivated under all climatic conditions. Little is known about the infection strategies D. solani employs to infect hosts other than potato ( Solanum tuberosum L.). Our earlier study identified D. solani Tn5 mutants induced exclusively by the presence of the weed host S. dulcamara ...
February 28, 2024: International Journal of Molecular Sciences
https://read.qxmd.com/read/38464212/discovering-genetic-modulators-of-the-protein-homeostasis-system-through-multilevel-analysis
#7
Vishal Sarsani, Berent Aldikacti, Tingting Zhao, Shai He, Peter Chien, Patrick Flaherty
UNLABELLED: Every protein progresses through a natural lifecycle from birth to maturation to death; this process is coordinated by the protein homeostasis system. Environmental or physiological conditions trigger pathways that maintain the homeostasis of the proteome. An open question is how these pathways are modulated to respond to the many stresses that an organism encounters during its lifetime. To address this question, we tested how the fitness landscape changes in response to environmental and genetic perturbations using directed and massively parallel transposon mutagenesis in Caulobacter crescentus ...
February 29, 2024: bioRxiv
https://read.qxmd.com/read/38434112/precise-genetic-engineering-with-piggybac-transposon-in-plants
#8
JOURNAL ARTICLE
Ayako Nishizawa-Yokoi, Seiichi Toki
Transposons are mobile genetic elements that can move to a different position within a genome or between genomes. They have long been used as a tool for genetic engineering, including transgenesis, insertional mutagenesis, and marker excision, in a variety of organisms. The piggyBac transposon derived from the cabbage looper moth is one of the most promising transposon tools ever identified because piggyBac has the advantage that it can transpose without leaving a footprint at the excised site. Applying the piggyBac transposon to precise genome editing in plants, we have demonstrated efficient and precise piggyBac transposon excision from a transgene locus integrated into the rice genome...
December 25, 2023: Plant Biotechnology (Tokyo, Japan)
https://read.qxmd.com/read/38415659/extracellular-organic-disulfide-reduction-by-shewanella-oneidensis-mr-1
#9
JOURNAL ARTICLE
Jonathan Phan, Shine Macwan, Jeffrey A Gralnick, Nathan Yee
Microbial reduction of organic disulfides affects the macromolecular structure and chemical reactivity of natural organic matter. Currently, the enzymatic pathways that mediate disulfide bond reduction in soil and sedimentary organic matter are poorly understood. In this study, we examined the extracellular reduction of 5,5'-dithiobis(2-nitrobenzoic acid) (DTNB) by Shewanella oneidensis strain MR-1. A transposon mutagenesis screen performed with S. oneidensis resulted in the isolation of a mutant that lost ~90% of its DTNB reduction activity...
February 28, 2024: Microbiology Spectrum
https://read.qxmd.com/read/38404664/-mesoplasma-florum-a-near-minimal-model-organism-for-systems-and-synthetic-biology
#10
REVIEW
Dominick Matteau, Anthony Duval, Vincent Baby, Sébastien Rodrigue
Mesoplasma florum is an emerging model organism for systems and synthetic biology due to its small genome (∼800 kb) and fast growth rate. While M. florum was isolated and first described almost 40 years ago, many important aspects of its biology have long remained uncharacterized due to technological limitations, the absence of dedicated molecular tools, and since this bacterial species has not been associated with any disease. However, the publication of the first M. florum genome in 2004 paved the way for a new era of research fueled by the rise of systems and synthetic biology...
2024: Frontiers in Genetics
https://read.qxmd.com/read/38378700/genome-wide-identification-of-fitness-genes-in-aminoglycoside-resistant-escherichia-coli-during-antibiotic-stress
#11
JOURNAL ARTICLE
Sandra Marina Wellner, Mosaed Saleh A Alobaidallah, Xiao Fei, Ana Herrero-Fresno, John Elmerdahl Olsen
Resistance against aminoglycosides is widespread in bacteria. This study aimed to identify genes that are important for growth of E. coli during aminoglycoside exposure, since such genes may be targeted to re-sensitize resistant E. coli to treatment. We constructed three transposon mutant libraries each containing > 230.000 mutants in E. coli MG1655 strains harboring streptomycin (aph(3″)-Ib/aph(6)-Id), gentamicin (aac(3)-IV), or neomycin (aph(3″)-Ia) resistance gene(s). Transposon Directed Insertion-site Sequencing (TraDIS), a combination of transposon mutagenesis and high-throughput sequencing, identified 56 genes which were deemed important for growth during streptomycin, 39 during gentamicin and 32 during neomycin exposure...
February 20, 2024: Scientific Reports
https://read.qxmd.com/read/38346457/comparative-genomics-analysis-and-transposon-mutagenesis-provides-new-insights-into-high-menaquinone-7-biosynthetic-potential-of-bacillus-subtilis-natto
#12
JOURNAL ARTICLE
Chunxu Jiang, Genhai Zhao, Han Wang, Wenqian Zheng, Rui Zhang, Li Wang, Zhiming Zheng
This research combined Whole-Genome sequencing, intraspecific comparative genomics and transposon mutagenesis to investigate the menaquinone-7 (MK-7) synthesis potential in Bacillus subtilis natto. First, Whole-Genome sequencing showed that Bacillus subtilis natto BN-P15-11-1 contains one single circular chromosome in size of 3,982,436 bp with a GC content of 43.85 %, harboring 4,053 predicted coding genes. Next, the comparative genomics analysis among strain BN-P15-11-1 with model Bacillus subtilis 168 and four typical Bacillus subtilis natto strains proves that the closer evolutionary relationship Bacillus subtilis natto BN-P15-11-1 and Bacillus subtilis 168 both exhibit strong biosynthetic potential...
February 10, 2024: Gene
https://read.qxmd.com/read/38341646/mbarq-a-versatile-and-user-friendly-framework-for-the-analysis-of-dna-barcodes-from-transposon-insertion-libraries-knockout-mutants-and-isogenic-strain-populations
#13
JOURNAL ARTICLE
Anna Sintsova, Hans-Joachim Ruscheweyh, Christopher M Field, Lilith Feer, Bidong D Nguyen, Benjamin Daniel, Wolf-Dietrich Hardt, Julia A Vorholt, Shinichi Sunagawa
MOTIVATION: DNA barcoding has become a powerful tool for assessing the fitness of strains in a variety of studies, including random transposon mutagenesis screens, attenuation of site-directed mutants, and population dynamics of isogenic strain pools. However, the statistical analysis, visualization and contextualization of the data resulting from such experiments can be complex and require bioinformatic skills. RESULTS: Here, we developed mBARq, a user-friendly tool designed to simplify these steps for diverse experimental setups...
February 10, 2024: Bioinformatics
https://read.qxmd.com/read/38305226/transposon-library-screening-to-identify-genes-with-a-potential-role-in-streptococcus-suis-biofilm-formation
#14
JOURNAL ARTICLE
Haikun Wang, Qingying Fan, Shuji Gao, Li Yi, Yuxin Wang, Yang Wang
Background: Biofilm formation is considered to be one of reasons for difficulty in the prevention and control of Streptococcus suis . Aims: To explore the potential genes involved in the biofilm formation of S. suis . Methods: Transposon mutagenesis technology was used to screen biofilm-defective strains of S. suis , and the potential genes related to biofilm were identified. Results: A total of 19 genes were identified that were involved in bacterial metabolism, peptidoglycan-binding protein, cell wall synthesis, ABC transporters, and so on...
February 2, 2024: Future Microbiology
https://read.qxmd.com/read/38300794/mage-transposon-a-novel-gene-delivery-system-for-mammalian-cells
#15
JOURNAL ARTICLE
Jinghan Tian, Doudou Tong, Zhendong Li, Erqiang Wang, Yifei Yu, Hangya Lv, Zhendan Hu, Fang Sun, Guoping Wang, Min He, Tian Xia
Transposons, as non-viral integration vectors, provide a secure and efficient method for stable gene delivery. In this study, we have discovered Mage (MG), a novel member of the piggyBac(PB) family, which exhibits strong transposability in a variety of mammalian cells and primary T cells. The wild-type MG showed a weaker insertion preference for near genes, transcription start sites (TSS), CpG islands, and DNaseI hypersensitive sites in comparison to PB, approaching the random insertion pattern. Utilizing in silico virtual screening and feasible combinatorial mutagenesis in vitro, we effectively produced the hyperactive MG transposase (hyMagease)...
February 1, 2024: Nucleic Acids Research
https://read.qxmd.com/read/38293239/multiple-pathways-impact-swarming-motility-of-pseudomonas-fluorescens-pf0-1
#16
Alexander B Pastora, Kara M Rzasa, George A O'Toole
UNLABELLED: Swarming motility in pseudomonads typically requires both a functional flagellum and production/secretion of a biosurfactant. Published work has shown that the wild-type Pseudomonas fluorescens Pf0-1 is swarming-deficient due to a point mutation in the gacA gene, which until recently, was thought to inactivate rather than attenuate the Gac/Rsm pathway. As a result, little is known about the underlying mechanisms that regulate swarming motility by P. fluorescens Pf0-1. Here, we demonstrate that a Δ rsmA Δ rsmE Δ rsmI mutant, which phenotypically mimics Gac/Rsm pathway overstimulation, is proficient at swarming motility...
January 18, 2024: bioRxiv
https://read.qxmd.com/read/38270456/temporal-genome-wide-fitness-analysis-of-mycobacterium-marinum-during-infection-reveals-the-genetic-requirement-for-virulence-and-survival-in-amoebae-and-microglial-cells
#17
JOURNAL ARTICLE
Louise H Lefrançois, Jahn Nitschke, Huihai Wu, Gaël Panis, Julien Prados, Rachel E Butler, Tom A Mendum, Nabil Hanna, Graham R Stewart, Thierry Soldati
Tuberculosis remains the most pervasive infectious disease and the recent emergence of drug-resistant strains emphasizes the need for more efficient drug treatments. A key feature of pathogenesis, conserved between the human pathogen Mycobacterium tuberculosis and the model pathogen Mycobacterium marinum, is the metabolic switch to lipid catabolism and altered expression of virulence genes at different stages of infection. This study aims to identify genes involved in sustaining viable intracellular infection...
January 25, 2024: MSystems
https://read.qxmd.com/read/38265722/a-novel-system-to-selective-tagging-of-sinorhizobium-fredii-symbiotic-plasmids
#18
JOURNAL ARTICLE
Ana María Cutiño, María Del Carmen Sánchez-Aguilar, José Enrique Ruiz-Sáinz, María Del Rosario Espuny, Francisco Javier Ollero, Carlos Medina
Conventional systems used to tag and transfer symbiotic plasmids (pSyms) of rhizobial strains are based in mutagenesis with transposons. In those processes, numerous clones must be analyzed to find one of them with the transposon inserted in the pSym. Following this strategy, the insertion might interrupt a gene that can affect the symbiotic phenotype of the bacteria tagged. Here, we have developed a new system based in homologous recombination that generates Sinorhizobium fredii strains with pSyms tagged by the insertion of a suicide vector which harbor a truncated copy of S...
2024: Methods in Molecular Biology
https://read.qxmd.com/read/38242855/genome-wide-profiling-of-piggybac-transposon-insertion-mutants-reveals-loss-of-the-f-1-f-0-atpase-complex-causes-fluconazole-resistance-in-candida-glabrata
#19
JOURNAL ARTICLE
Eve W L Chow, Yabing Song, Haitao Wang, Xiaoli Xu, Jiaxin Gao, Yue Wang
Invasive candidiasis caused by non-albicans species has been on the rise, with Candida glabrata emerging as the second most common etiological agent. Candida glabrata possesses an intrinsically lower susceptibility to azoles and an alarming propensity to rapidly develop high-level azole resistance during treatment. In this study, we have developed an efficient piggyBac (PB) transposon-mediated mutagenesis system in C. glabrata to conduct genome-wide genetic screens and applied it to profile genes that contribute to azole resistance...
January 19, 2024: Molecular Microbiology
https://read.qxmd.com/read/38240953/evolutionary-preservation-of-cpg-dinucleotides-in-rag1-may-elucidate-the-relatively-high-rate-of-methylation-mediated-mutagenesis-of-rag1-transposase
#20
JOURNAL ARTICLE
Mariam M Fawzy, Maiiada H Nazmy, Azza A K El-Sheikh, Moustafa Fathy
Recombination-activating gene 1 (RAG1) is a vital player in V(D)J recombination, a fundamental process in primary B cell and T cell receptor diversification of the adaptive immune system. Current vertebrate RAG evolved from RAG transposon; however, it has been modified to play a crucial role in the adaptive system instead of being irreversibly silenced by CpG methylation. By interrogating a range of publicly available datasets, the current study investigated whether RAG1 has retained a disproportionate level of its original CpG dinucleotides compared to other genes, thereby rendering it more exposed to methylation-mediated mutation...
January 19, 2024: Immunologic Research
keyword
keyword
9262
1
2
Fetch more papers »
Fetching more papers... Fetching...
Remove bar
Read by QxMD icon Read
×

Save your favorite articles in one place with a free QxMD account.

×

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"

We want to hear from doctors like you!

Take a second to answer a survey question.