keyword
https://read.qxmd.com/read/38547081/a-two-step-bayesian-network-approach-to-identify-key-snps-associated-to-multiple-phenotypic-traits-in-four-purebred-laying-hen-lines
#1
JOURNAL ARTICLE
Ismalia Bouba, Emiliano A Videla Rodriguez, V Anne Smith, Henry van den Brand, T Bas Rodenburg, Bram Visser
When purebred laying hen chicks hatch, they remain at a rearing farm until approximately 17 weeks of age, after which they are transferred to a laying farm. Chicks or pullets are removed from the flocks during these 17 weeks if they display any rearing abnormality. The aim of this study was to investigate associations between single nucleotide polymorphisms (SNPs) and rearing success of 4 purebred White Leghorns layer lines by implementing a Bayesian network approach. Phenotypic traits and SNPs of four purebred genetic White Leghorn layer lines were available for 23,000 rearing batches obtained between 2010 and 2020...
2024: PloS One
https://read.qxmd.com/read/38546761/trends-of-pre-treatment-drug-resistance-in-antiretroviral-na%C3%A3-ve-people-with-hiv-1-in-the-era-of-second-generation-integrase-strand-transfer-inhibitors-in-taiwan
#2
JOURNAL ARTICLE
Guan-Jhou Chen, Chien-Yu Cheng, Chia-Jui Yang, Nan-Yao Lee, Hung-Jen Tang, Sung-Hsi Huang, Miao-Hui Huang, Bo-Huang Liou, Yi-Chieh Lee, Chi-Ying Lin, Tung-Che Hung, Shih-Ping Lin, Hsin-Yun Sun, Sui-Yuan Chang, Chien-Ching Hung
BACKGROUND: Monitoring the trends of pre-treatment drug resistance (PDR) and resistance-associated mutations (RAMs) among antiretroviral-naïve people with HIV (PWH) is important for the implementation of HIV treatment and control programmes. We analysed the trends of HIV-1 PDR after the introduction of second-generation integrase strand-transfer inhibitors (INSTIs) in 2016 in Taiwan, when single-tablet regimens of non-nucleoside reverse-transcriptase inhibitor (NNRTI-) and INSTI-based antiretroviral therapy became the preferred treatments...
March 28, 2024: Journal of Antimicrobial Chemotherapy
https://read.qxmd.com/read/38546735/unveiling-genome-plasticity-and-a-novel-phage-in-mycoplasma-felis-genomic-investigations-of-four-feline-isolates
#3
JOURNAL ARTICLE
Sara M Klose, Alistair R Legione, Rhys N Bushell, Glenn F Browning, Paola K Vaz
Mycoplasma felis has been isolated from diseased cats and horses, but to date only a single fully assembled genome of this species, of an isolate from a horse, has been characterized. This study aimed to characterize and compare the completely assembled genomes of four clinical isolates of M. felis from three domestic cats, assembled with the aid of short- and long-read sequencing methods. The completed genomes encoded a median of 759 ORFs (range 743-777) and had a median average nucleotide identity of 98.2 % with the genome of the available equid origin reference strain...
March 2024: Microbial Genomics
https://read.qxmd.com/read/38546278/mesenchymal-stem-cells-alleviate-mouse-liver-fibrosis-by-inhibiting-pathogenic-function-of-intrahepatic-b-cells
#4
JOURNAL ARTICLE
Xudong Feng, Bing Feng, Jiahang Zhou, Jinfeng Yang, Qiaoling Pan, Jiong Yu, Dandan Shang, Lanjuan Li, Hongcui Cao
BACKGROUND AIMS: The immunomodulatory characteristics of mesenchymal stem cells (MSCs) make them a promising therapeutic approach for liver fibrosis (LF). Here, we postulated that MSCs could potentially suppress the pro-fibrotic activity of intrahepatic B cells, thereby inhibiting LF progression. APPROACH RESULTS: Administration of MSCs significantly ameliorated LF as indicated by reduced myofibroblast activation, collagen deposition, and inflammation. The treatment efficacy of MSCs can be attributed to decreased infiltration, activation, and pro-inflammatory cytokine production of intrahepatic B cells...
March 28, 2024: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://read.qxmd.com/read/38546184/retraction-5-lipoxygenase-gene-transfer-worsens-memory-amyloid-and-tau-brain-pathologies-in-a-mouse-model-of-alzheimer-disease
#5
(no author information available yet)
Retraction: Jin Chu, Phillip F. Giannopoulos, Carolina Ceballos-Diaz, Todd E. Golde, Domenico Pratico (2012), 5-Lipoxygenase gene transfer worsens memory, amyloid, and tau brain pathologies in a mouse model of alzheimer disease. Ann Neurol., 72: 442-454. https://doi.org/10.1002/ana.23642 The above article, published online on 09 May 2012 in Wiley Online Library (wileyonlinelibrary.com), has been retracted by agreement between the authors, the journal Editor-in-Chief, Kenneth L. Tyler, American Neurological Association and Wiley Periodicals LLC...
March 28, 2024: Annals of Neurology
https://read.qxmd.com/read/38545858/interlaboratory-validation-of-the-toxtracker-assay-an-in-vitro-reporter-assay-for-mechanistic-genotoxicity-assessment
#6
JOURNAL ARTICLE
Giel Hendriks, Els Adriaens, Ashley Allemang, Julie Clements, Gabrielle Cole, Remco Derr, Maria Engel, Annie Hamel, Darren Kidd, Stephanie Kellum, Tomomi Kiyota, Abby Myhre, Valerie Naëssens, Stefan Pfuhler, Marise Roy, Raja Settivari, Maik Schuler, Andreas Zeller, Jan van Benthem, Philippe Vanparys, David Kirkland
ToxTracker is a mammalian cell reporter assay that predicts the genotoxic properties of compounds with high accuracy. By evaluating induction of various reporter genes that play a key role in relevant cellular pathways, it provides insight into chemical mode-of-action (MoA), thereby supporting discrimination of direct-acting genotoxicants and cytotoxic chemicals. A comprehensive interlaboratory validation trial was conducted, in which the principles outlined in OECD Guidance Document 34 were followed, with the primary objectives of establishing transferability and reproducibility of the assay and confirming the ability of ToxTracker to correctly classify genotoxic and non-genotoxic compounds...
March 28, 2024: Environmental and Molecular Mutagenesis
https://read.qxmd.com/read/38545568/the-complete-chloroplast-genome-sequence-of-a-cultivar-of-chrysanthemum-chrysanthemum-%C3%A3-morifolium-hangbaiju-asteraceae
#7
JOURNAL ARTICLE
Zhangliang Yao, Jiashun Miao, Weidong Xu, Qiang Lu
Chrysanthemum × morifolium Ramat 1792 cultivar 'Hangbaiju', also known as 'Hangzhou White Chrysanthemum', originates from Tongxiang City, Zhejiang Province, China. It is celebrated as one of Zhejiang's 'eight flavors'. In this study, we reported the complete chloroplast genome of Chrysanthemum × morifolium cultivar 'Hangbaiju'. The genome has a circular structure of 151,110 bp containing a large single-copy region (LSC) of 82,851 bp, a small copy region (SSC) of 18,351 bp, and two inverted repeats (IR) of 24,936 and 24,972 bp in length...
2024: Mitochondrial DNA. Part B. Resources
https://read.qxmd.com/read/38545461/characterization-of-the-powdery-mildew-resistance-locus-in-wheat-breeding-line-jimai-809-and-its-breeding-application
#8
JOURNAL ARTICLE
Ya Zhao, Guohao Han, Yanmin Qie, Jianmin Song, Yan Zi, Bei Xiao, Jiaojiao Wang, Zejun Qian, Xiaomei Huang, Ruishan Liu, Jiadong Zhang, Lihong Song, Yuli Jin, Pengtao Ma
UNLABELLED: Powdery mildew, caused by Blumeria graminis f. sp. tritici ( Bgt ), is a severe disease that affects the yield and quality of wheat. Popularization of resistant cultivars in production is the preferred strategy to control this disease. In the present study, the Chinese wheat breeding line Jimai 809 showed excellent agronomic performance and high resistance to powdery mildew at the whole growth stage. To dissect the genetic basis for this resistance, Jimai 809 was crossed with the susceptible wheat cultivar Junda 159 to produce segregation populations...
April 2024: Molecular Breeding
https://read.qxmd.com/read/38545443/effective-and-stable-gene-transduction-in-rhesus-macaque-ipscs-capable-of-t-lineage-differentiation-utilizing-the-piggybac-system
#9
JOURNAL ARTICLE
Masahiro Tanaka, Yoshihiro Iwamoto, Bo Wang, Eri Imai, Munehiro Yoshida, Shoichi Iriguchi, Shin Kaneko
INTRODUCTION: Genetically modified human induced pluripotent stem cell (iPSC)-based regenerative medicine has substantial potential in the treatment of refractory human diseases. Thus, preclinical studies on the safety and efficacy of these products are essential. Non-human primate (NHP) models such as the rhesus macaque are highly similar to humans in terms of size, lifespan, and immune system, rendering them superior models. However, effective gene transduction in rhesus macaque iPSCs (Rh-iPSCs) remains challenging...
December 2024: Regenerative Therapy
https://read.qxmd.com/read/38544863/the-alternative-coproporphyrinogen-iii-oxidase-cgon-catalyzes-the-oxygen-independent-conversion-of-coproporphyrinogen-iii-into-coproporphyrin-iii
#10
JOURNAL ARTICLE
Toni Mingers, Stefan Barthels, Violetta Mass, José Manuel Borrero-de Acuña, Rebekka Biedendieck, Ana Cooke, Tamara A Dailey, Svetlana Gerdes, Wulf Blankenfeldt, Harry A Dailey, Martin J Warren, Martina Jahn, Dieter Jahn
Nature utilizes three distinct pathways to synthesize the essential enzyme cofactor heme. The coproporphyrin III-dependent pathway, predominantly present in Bacillaceae , employs an oxygen-dependent coproporphyrinogen III oxidase (CgoX) that converts coproporphyrinogen III into coproporphyrin III. In this study, we report the bioinformatic-based identification of a gene called ytpQ , encoding a putative oxygen-independent counterpart, which we propose to term CgoN, from Priestia ( Bacillus ) megaterium . The recombinantly produced, purified, and monomeric YtpQ (CgoN) protein is shown to catalyze the oxygen-independent conversion of coproporphyrinogen III into coproporphyrin III...
2024: Frontiers in Microbiology
https://read.qxmd.com/read/38544857/mapping-the-trna-modification-landscape-of-bartonella-henselae-houston-i-and-bartonella-quintana-toulouse
#11
JOURNAL ARTICLE
Samia Quaiyum, Jingjing Sun, Virginie Marchand, Guangxin Sun, Colbie J Reed, Yuri Motorin, Peter C Dedon, Michael F Minnick, Valérie de Crécy-Lagard
Transfer RNA (tRNA) modifications play a crucial role in maintaining translational fidelity and efficiency, and they may function as regulatory elements in stress response and virulence. Despite their pivotal roles, a comprehensive mapping of tRNA modifications and their associated synthesis genes is still limited, with a predominant focus on free-living bacteria. In this study, we employed a multidisciplinary approach, incorporating comparative genomics, mass spectrometry, and next-generation sequencing, to predict the set of tRNA modification genes responsible for tRNA maturation in two intracellular pathogens- Bartonella henselae Houston I and Bartonella quintana Toulouse, which are causative agents of cat-scratch disease and trench fever, respectively...
2024: Frontiers in Microbiology
https://read.qxmd.com/read/38543771/-xanthomonas-phage-pbr31-classifying-the-unclassifiable
#12
JOURNAL ARTICLE
Rashit I Tarakanov, Peter V Evseev, Ha T N Vo, Konstantin S Troshin, Daria I Gutnik, Aleksandr N Ignatov, Stepan V Toshchakov, Konstantin A Miroshnikov, Ibrahim H Jafarov, Fevzi S-U Dzhalilov
The ability of bacteriophages to destroy bacteria has made them the subject of extensive research. Interest in bacteriophages has recently increased due to the spread of drug-resistant bacteria, although genomic research has not kept pace with the growth of genomic data. Genomic analysis and, especially, the taxonomic description of bacteriophages are often difficult due to the peculiarities of the evolution of bacteriophages, which often includes the horizontal transfer of genes and genomic modules. The latter is particularly pronounced for temperate bacteriophages, which are capable of integration into the bacterial chromosome...
March 6, 2024: Viruses
https://read.qxmd.com/read/38543753/novel-viral-vectors-for-gene-therapy
#13
EDITORIAL
Ottmar Herchenröder, Brigitte M Pützer
Viral vectors are gene transfer tools assembled from the backbones of naturally occurring viruses [...].
March 1, 2024: Viruses
https://read.qxmd.com/read/38543743/advances-of-recombinant-adenoviral-vectors-in-preclinical-and-clinical-applications
#14
REVIEW
Luca Scarsella, Eric Ehrke-Schulz, Michael Paulussen, Serge C Thal, Anja Ehrhardt, Malik Aydin
Adenoviruses (Ad) have the potential to induce severe infections in vulnerable patient groups. Therefore, understanding Ad biology and antiviral processes is important to comprehend the signaling cascades during an infection and to initiate appropriate diagnostic and therapeutic interventions. In addition, Ad vector-based vaccines have revealed significant potential in generating robust immune protection and recombinant Ad vectors facilitate efficient gene transfer to treat genetic diseases and are used as oncolytic viruses to treat cancer...
February 28, 2024: Viruses
https://read.qxmd.com/read/38543683/rare-plasmid-mediated-ampc-beta-lactamase-dha-1-located-on-easy-mobilized-is26-related-genetic-element-detected-in-escherichia-coli-from-livestock-and-food-in-germany
#15
JOURNAL ARTICLE
Chiara Manfreda, Annemarie Kaesbohrer, Silvia Schmoger, Tanja Skladnikiewicz-Ziemer, Mirjam Grobbel, Alexandra Irrgang
AmpC beta-lactamases cause resistance to third-generation cephalosporins, including beta-lactamase inhibitors. In Escherichia coli from the German food production chain, the majority of AmpC beta-lactamase activity can be attributed to plasmid-mediated CMY-2 or overproduction of chromosomal AmpC beta-lactamase, but occasionally other enzymes like DHA-1 are involved. This study investigated the prevalence of the AmpC beta-lactamase DHA-1 in ESBL/AmpC-producing E. coli ( n = 4706) collected between 2016 and 2021 as part of a German antimicrobial resistance monitoring program along the food chain...
March 21, 2024: Microorganisms
https://read.qxmd.com/read/38543641/characterize-the-growth-and-metabolism-of-acidithiobacillus-ferrooxidans-under-electroautotrophic-and-chemoautotrophic-conditions
#16
JOURNAL ARTICLE
Quansheng Wang, Haijun Long, Huiqi Wang, Maggie C Y Lau Vetter
Acidophiles are capable of surviving in extreme environments with low pH. Acidithiobacillus ferrooxidans is a typical acidophilic bacterium that has been extensively studied when grown chemoautotrophically, i.e., when it derives energy from oxidation of Fe2+ or reduced inorganic sulfur compounds (RISCs). Although it is also known to grow with electrons supplied by solid electrodes serving as the sole source of energy, the understanding of its electroautotrophic growth is still limited. This study aimed to compare the growth characteristics of A...
March 15, 2024: Microorganisms
https://read.qxmd.com/read/38543613/characterization-and-implications-of-incp-2a-plasmid-pmas152-harboring-multidrug-resistance-genes-in-extensively-drug-resistant-pseudomonas-aeruginosa
#17
JOURNAL ARTICLE
Li Mei, Yang Song, Xiao Liu, Kun Li, Xu Guo, Li Liu, Yang Liu, Zisis Kozlakidis, Io Hong Cheong, Duochun Wang, Qiang Wei
Bacterial antimicrobial resistance (AMR) poses a significant global public health challenge. The escalation of AMR is primarily attributed to the horizontal gene transfer (HGT) of antibiotic resistance genes (ARGs), often facilitated by plasmids. This underscores the critical need for a comprehensive understanding of the resistance mechanisms and transmission dynamics of these plasmids. In this study, we utilized in vitro drug sensitivity testing, conjugation transfer assays, and whole-genome sequencing to investigate the resistance mechanism of an extensively drug-resistant (XDR) Pseudomonas aeruginosa clinical isolate, MAS152...
March 12, 2024: Microorganisms
https://read.qxmd.com/read/38543597/exploring-leptospira-interrogans-fdaargos_203-insights-into-amr-and-anti-phage-defense
#18
JOURNAL ARTICLE
Pavlo Petakh, Valentyn Oksenych, Oleksandr Kamyshnyi
Leptospira, which are known to be important disease-causing agents transmitted between animals and humans, result in significant illness and, in some cases, significant death in human populations. This purpose of this study was to examine the genomic structure of Leptospira interrogans serovar Copenhageni strain FDAARGOS_203 to identify the specific genetic factors that contribute to antimicrobial resistance (AMR) and defense against phages. The genome, consisting of two contigs totaling 4,630,574 base pairs, underwent thorough examination for protein-coding sequences, transfer RNA genes, and ribosomal RNA genes...
March 8, 2024: Microorganisms
https://read.qxmd.com/read/38543545/first-report-and-characterization-of-a-plasmid-encoded-bla-sfo-1-in-a-multi-drug-resistant-aeromonas-hydrophila-clinical-isolate
#19
JOURNAL ARTICLE
Troy Skwor, Dan Christopher Jones, Caitlin Cahak, Ryan J Newton
Antibiotic resistance remains one of the most pressing public health issues facing the world today. At the forefront of this battle lies the ever-increasing identification of extended-spectrum beta-lactamases and carbapenemases within human pathogens, conferring resistance towards broad-spectrum and last-resort antimicrobials. This study was prompted due to the identification of a pathogenic Aeromonas hydrophila isolate (strain MAH-4) collected from abdominal fluid, which presented a robust resistance pattern against second-, third-, and fourth-generation cephalosporins, ertapenem, ciprofloxacin, gentamicin, levofloxacin and moxifloxacin, and beta lactam/beta-lactamase inhibitor combinations...
February 29, 2024: Microorganisms
https://read.qxmd.com/read/38543505/effect-of-temperature-on-carbapenemase-encoding-plasmid-transfer-in-klebsiella-pneumoniae
#20
JOURNAL ARTICLE
Ji Woo Yang, Ji-Hyun Nam, Kwang Jun Lee, Jung Sik Yoo
Bacteria causing human infections can develop antibiotic resistance due to various factors. Temperature affects bacterial growth and gene transfer; however, studies exploring the association between the changes in local temperature and antibiotic resistance are limited. Here, we investigated the effects of local temperatures on the distribution of antibiotic resistance and transmission of carbapenemase-producing Enterobacterales using the data on Klebsiella pneumoniae from sentinel hospitals in eight regions included in the Korea Global Antimicrobial Resistance Surveillance System between 2017 and 2021...
February 23, 2024: Microorganisms
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