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https://www.readbyqxmd.com/read/28434026/erratum-to-transposon-insertion-resulted-in-the-silencing-of-wx-b1n-in-chinese-wheat-landraces
#1
Ling-Ling Zhang, Hu Chen, Mi Luo, Xiao-Wei Zhang, Mei Deng, Jian Ma, Peng-Fei Qi, Ji-Rui Wang, Guo-Yue Chen, Ya-Xi Liu, Zhi-En Pu, Wei Li, Xiu-Jin Lan, Yu-Ming Wei, You-Liang Zheng, Qian-Tao Jiang
No abstract text is available yet for this article.
April 22, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28433742/transposon-mediated-nlr-exile-to-the-pollen-allows-rice-blast-resistance-without-yield-penalty
#2
Stella Cesari, Thomas Kroj
No abstract text is available yet for this article.
April 19, 2017: Molecular Plant
https://www.readbyqxmd.com/read/28433722/high-precision-genome-sequencing-of-engineered-g-oxydans-621h-by-combining-long-nanopore-and-short-accurate-illumina-reads
#3
Angela Kranz, Alexander Vogel, Ursula Degner, Ines Kiefler, Michael Bott, Björn Usadel, Tino Polen
State of the art and novel high-throughput DNA sequencing technologies enable fascinating opportunities and applications in the life sciences including microbial genomics. Short high-quality read data already enable not only microbial genome sequencing, yet can be inadequately to solve problems in genome assemblies and for the analysis of structural variants, especially in engineered microbial cell factories. Single-molecule real-time sequencing technologies generating long reads promise to solve such assembly problems...
April 19, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28432092/a-genome-wide-investigation-on-biofilm-formation-in-bacillus-cereus
#4
Fang Yan, Yiyang Yu, Kevin Gozzi, Yun Chen, Jian-Hua Guo, Yunrong Chai
Bacillus cereus is a soil-dwelling Gram-positive bacterium capable of forming structured multicellular communities, or biofilms. However, the regulatory pathways controlling biofilm formation are less well understood in B. cereus In this work, we developed a method to study B. cereus biofilms formed at the air-liquid interface. We applied two genome-wide approaches, random transposon insertion mutagenesis to identify genes that are potentially important for biofilm formation, and transcriptome analyses by RNA-seq to characterize genes that are differentially expressed in B...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28431016/somatic-transposition-and-meiotically-driven-elimination-of-an-active-helitron-family-in-pleurotus-ostreatus
#5
Alessandra Borgognone, Raúl Castanera, Elaia Muguerza, Antonio G Pisabarro, Lucía Ramírez
Helitrons constitute a superfamily of DNA transposons that were discovered in silico and are widespread in most eukaryotic genomes. They are postulated to mobilize through a "rolling-circle" mechanism, but the experimental evidence of their transposition has been described only recently. Here, we present the inheritance patterns of HELPO1 and HELPO2 helitron families in meiotically derived progeny of the basidiomycete Pleurotus ostreatus. We found distorted segregation patterns of HELPO2 helitrons that led to a strong under-representation of these elements in the progeny...
April 1, 2017: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes
https://www.readbyqxmd.com/read/28428837/large-is-required-for-normal-astrocyte-migration-and-retinal-vasculature-development
#6
Min Zhou, Herui Wang, Hui Ren, Rui Jiang, Chi Zhang, Xiaohui Wu, Gezhi Xu
BACKGROUND: Persistent fetal vasculature (PFV) is a congenital developmental anomaly of the eye that accounts for about 5% of childhood blindness. The molecular mechanism of PFV remains unclear. As a glycosyltransferase of α-dystroglycan, LARGE mutations have been found in congenital muscular dystrophy patients with brain abnormalities. Spontaneous Large mutant mice displayed similar symptoms of human muscle-eye-brain disorders. However, the detailed roles of Large in ocular vasculature development still need to be uncovered...
2017: Cell & Bioscience
https://www.readbyqxmd.com/read/28428309/draft-genome-sequences-of-two-highly-erythromycin-resistant-streptococcus-gallolyticus-subsp-gallolyticus-isolates-containing-a-novel-tn916-like-element-tn6331
#7
Stanimir Kambarev, Frédéric Pecorari, Stéphane Corvec
Recently, we reported the draft genome sequence of Streptococcus gallolyticus NTS31106099. It was found to contain a previously unknown putative Tn916-like conjugative transposon, Tn6263 Here, we report the draft genome sequences of two other clinical isolates, NTS31301958 and NTS31307655. Both of them contain another novel element, Tn6331, which is highly similar to Tn6263.
April 20, 2017: Genome Announcements
https://www.readbyqxmd.com/read/28426280/alternative-plant-host-defense-against-transposon-activities-occurs-at-the-post-translational-stage
#8
Hua Zhou, Yuji Kishima
The Antirrhinum DNA transposon Tam3 uniquely demonstrates low temperature-dependent transposition (LTDT), so transposition does not occur at high temperatures. We previously showed that the detainment of Tam3 transposase (TPase) at the plasma membrane occurs when transposition is inactive, and that TPase is released at the permissive state of Tam3 transposition. LTDT of Tam3 is attributed to interactions between Tam3 and its host. In this addendum, we propose a model to explain the LTDT of Tam3, which is regarded as an equilibrium state reached between the host and parasite to maximize the fitness of both...
April 20, 2017: Plant Signaling & Behavior
https://www.readbyqxmd.com/read/28424761/sequencing-of-blaimp-carrying-incn2-plasmids-and-comparative-genomics-of-incn2-plasmids-harboring-class-1-integrons
#9
Xiaoyuan Jiang, Zhe Yin, Xiuyun Yin, Haihong Fang, Qiang Sun, Yigang Tong, Yuanhong Xu, Defu Zhang, Jiao Feng, Weijun Chen, Yajun Song, Jinglin Wang, Shuiping Chen, Dongsheng Zhou
This work presents the complete nucleotide sequences of p0801-IMP from Klebsiella pneumoniae, p7121-IMP from K. oxytoca, and p17285-IMP from Citrobacter freundii, which are recovered from three different cases of nosocomial infection. These three plasmids represent the first fully sequenced blaIMP-carrying IncN2 plasmids. Further comparative genomics analysis of all the five integron-carrying IncN2 plasmids p0801-IMP, p7121-IMP, p17285-IMP, pJIE137, and p34983-59.134kb indicates that they possess conserved IncN2 backbones with limited genetic variations with respect to gene content and organization...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28420675/integrative-analysis-unveils-new-functions-for-the-drosophila-cutoff-protein-in-non-coding-rna-biogenesis-and-gene-regulation
#10
Yuri Pritykin, Tarcisio Brito, Trudi Schupbach, Mona Singh, Attilio Pane
Piwi-Interacting RNAs (piRNAs) are central components of the piRNA pathway, which directs transposon silencing and guarantees genome integrity in the germ cells of several metazoans. In Drosophila, piRNAs are produced from discrete regions of the genome termed piRNA clusters, whose expression relies on the RDC complex comprised of the core proteins Rhino, Deadlock and Cutoff. To date, the RDC complex has been exclusively implicated in the regulation of the piRNA loci. Here we further elucidate the function of Cutoff and the RDC complex by performing genome-wide ChIP-seq and RNA-seq assays in the Drosophila germline and analyzing these data together with other publicly available data sets...
April 18, 2017: RNA
https://www.readbyqxmd.com/read/28419231/antibiotic-resistance-in-staphylococcus-aureus-current-status-and-future-prospects
#11
Timothy J Foster
The major targets for antibiotics in staphylococci are (i) the cell envelope, (ii) the ribosome and (iii) nucleic acids. Several novel targets emerged from recent targeted drug discovery programmes including the ClpP protease and FtsZ from the cell division machinery. Resistance can either develop by horizontal transfer of resistance determinants encoded by mobile genetic elements viz plasmids, transposons and the staphylococcal cassette chromosome or by mutations in chromosomal genes. Horizontally acquired resistance can occur by one of the following mechanisms: (i) enzymatic drug modification and inactivation, (ii) enzymatic modification of the drug binding site, (iii) drug efflux, (iv) bypass mechanisms involving acquisition of a novel drug-resistant target, (v) displacement of the drug to protect the target...
April 13, 2017: FEMS Microbiology Reviews
https://www.readbyqxmd.com/read/28418644/emma-an-extensible-mammalian-modular-assembly-toolkit-for-the-rapid-design-and-production-of-diverse-expression-vectors
#12
Andrea Martella, Mantas Matjusaitis, Jamie Auxillos, Steven M Pollard, Yizhi Cai
Mammalian plasmid expression vectors are critical reagents underpinning many facets of research across biology, biomedical research, and the biotechnology industry. Traditional cloning methods often require laborious manual design and assembly of plasmids using tailored sequential cloning steps. This process can be protracted, complicated, expensive, and error-prone. New tools and strategies that facilitate the efficient design and production of bespoke vectors would help relieve a current bottleneck for researchers...
April 24, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28416702/massive-horizontal-transfer-of-transposable-elements-in-insects
#13
Jean Peccoud, Vincent Loiseau, Richard Cordaux, Clément Gilbert
Horizontal transfer (HT) of genetic material is central to the architecture and evolution of prokaryote genomes. Within eukaryotes, the majority of HTs reported so far are transfers of transposable elements (TEs). These reports essentially come from studies focusing on specific lineages or types of TEs. Because of the lack of large-scale survey, the amount and impact of HT of TEs (HTT) in eukaryote evolution, as well as the trends and factors shaping these transfers, are poorly known. Here, we report a comprehensive analysis of HTT in 195 insect genomes, representing 123 genera and 13 of the 28 insect orders...
April 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28416607/human-milk-oligosaccharides-inhibit-growth-of-group-b-streptococcus
#14
Ann E Lin, Chloe A Autran, Alexandra Szyszka, Tamara Escajadillo, Mia Huang, Kamil Godula, Anthony R Prudden, Geert-Jan Boons, Amanda L Lewis, Kelly S Doran, Victor Nizet, Lars Bode
Streptococcus agalactiae (group B Streptococcus; GBS) is a leading cause of invasive bacterial infections in newborns, typically acquired vertically during childbirth secondary to maternal vaginal colonization. Human milk oligosaccharides (HMOs) have important nutritional and biological activities that guide development of the infant's immune system and shape the composition of normal gut microbiota. In this manner, HMOs help protect against pathogen colonization and reduce risk of infection. In the course of our studies of HMO-microbial interactions, we unexpectedly uncovered a novel HMO property to directly inhibit the growth of GBS, independent of host immunity...
April 17, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28416554/in-vitro-study-of-isapl1-mediated-mobilization-of-the-colistin-resistance-gene-mcr-1
#15
Laurent Poirel, Nicolas Kieffer, Patrice Nordmann
The plasmid-mediated mcr-1 gene encodes a phosphoethanolamine transferase conferring resistance to polymyxins. The mcr-1 gene is associated with insertion sequence ISApl1 (IS30 family). In-vitro mobilization assays demonstrated the functionality of the composite transposon structure ISApl1-mcr-1-ISApl1 Transposition generated a 2-bp duplication and occurred in AT-rich DNA regions. This is the first report demonstrating the mobility of the mcr-1 gene by transposition.
April 17, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28414952/class-1-integrons-as-invasive-species
#16
REVIEW
Michael R Gillings
Clinical class 1 integrons are a major contributor to the evolution and dissemination of antibiotic resistance. The conserved motifs of these integrons suggest that a single, recent ancestor gave rise to all current variants. They have had a spectacular increase in distribution and abundance over the last 100 years, exhibiting many similarities to invasive species that prosper under human impacts. They have spread into over 70 bacterial species of medical importance, are commonly resident in the gut of humans and domesticated animals, and have invaded every continent, including Antarctica...
April 14, 2017: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/28412934/karyotype-diversity-and-chromosomal-organization-of-repetitive-dna-in-tityus-obscurus-scorpiones-buthidae
#17
Bruno Rafael Ribeiro de Almeida, Susana Suely Rodrigues Milhomem-Paixão, Renata Coelho Rodrigues Noronha, Cleusa Yoshiko Nagamachi, Marlyson Jeremias Rodrigues da Costa, Pedro Pereira de Oliveira Pardal, Johne Souza Coelho, Julio Cesar Pieczarka
BACKGROUND: Holocentric chromosomes occur in approximately 750 species of eukaryotes. Among them, the genus Tityus (Scorpiones, Buthidae) has a labile karyotype that shows complex multivalent associations during male meiosis. Thus, taking advantage of the excellent model provided by the Buthidae scorpions, here we analyzed the chromosomal distribution of several repetitive DNA classes on the holocentric chromosomes of different populations of the species Tityus obscurus Gervais, 1843, highlighting their involvement in the karyotypic differences found among them...
April 17, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28408603/single-cell-whole-genome-analyses-by-linear-amplification-via-transposon-insertion-lianti
#18
Chongyi Chen, Dong Xing, Longzhi Tan, Heng Li, Guangyu Zhou, Lei Huang, X Sunney Xie
Single-cell genomics is important for biology and medicine. However, current whole-genome amplification (WGA) methods are limited by low accuracy of copy-number variation (CNV) detection and low amplification fidelity. Here we report an improved single-cell WGA method, Linear Amplification via Transposon Insertion (LIANTI), which outperforms existing methods, enabling micro-CNV detection with kilobase resolution. This allowed direct observation of stochastic firing of DNA replication origins, which differs from cell to cell...
April 14, 2017: Science
https://www.readbyqxmd.com/read/28406751/repetitive-dna-loci-and-their-modulation-by-the-non-canonical-nucleic-acid-structures-r-loops-and-g-quadruplexes
#19
Amanda C Hall, Lauren A Ostrowski, Violena Pietrobon, Karim Mekhail
Cells have evolved intricate mechanisms to maintain genome stability despite allowing mutational changes to drive evolutionary adaptation. Repetitive DNA sequences, which represent the bulk of most genomes, are a major threat to genome stability often driving chromosome rearrangements and disease. The major source of repetitive DNA sequences and thus the most vulnerable constituents of the genome are the rDNA (rDNA) repeats, telomeres, and transposable elements. Maintaining the stability of these loci is critical to overall cellular fitness and lifespan...
March 4, 2017: Nucleus
https://www.readbyqxmd.com/read/28406439/protein-coding-genes-retrocopies-and-their-functions
#20
REVIEW
Magdalena Regina Kubiak, Izabela Makałowska
Transposable elements, often considered to be not important for survival, significantly contribute to the evolution of transcriptomes, promoters, and proteomes. Reverse transcriptase, encoded by some transposable elements, can be used in trans to produce a DNA copy of any RNA molecule in the cell. The retrotransposition of protein-coding genes requires the presence of reverse transcriptase, which could be delivered by either non-long terminal repeat (non-LTR) or LTR transposons. The majority of these copies are in a state of "relaxed" selection and remain "dormant" because they are lacking regulatory regions; however, many become functional...
April 13, 2017: Viruses
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