keyword
https://read.qxmd.com/read/38492699/revealing-extracellular-protein-profile-and-excavating-spoilage-related-proteases-of-aeromonas-salmonicida-based-on-multi-omics-investigation
#21
JOURNAL ARTICLE
Liangting Shao, Yang Dong, Shanshan Chen, Junsheng Sheng, Linlin Cai, Xinglian Xu, Huhu Wang
Aeromonas is a ubiquitous aquatic bacteria, and it is a significant factor contributing to meat spoilage during processing and consumption. The abilities of Aeromonas salmonicida 29 and 57, which exhibit spoilage heterogeneity, to secrete protease, lipase, hemolysin, gelatinase, amylase, and lecithinase were confirmed by plate method. A total of 3948 proteins were identified by ITRAQ in extracellular secretions of A. salmonicida, and 16 proteases were found to be potentially related to spoilage ability. The complete genome sequence of A...
March 14, 2024: International Journal of Biological Macromolecules
https://read.qxmd.com/read/38492469/establishment-of-a-non-integrated-ipsc-sdqlchi066-a-line-derived-from-segawa-syndrome-patients-harboring-heterozygous-mutations-in-the-th-gene-p-g247s-and-p-d491h
#22
JOURNAL ARTICLE
Xue Zhang, Zilong Li, Yi Liu, Hongmei Xin, Zhongtao Gai
Segawa syndrome, an autosomal recessive genetic disorder, arises from homozygous or compound heterozygous mutations in the TH gene. We established an induced pluripotent stem cell (iPSC) line from peripheral blood mononuclear cells (PBMCs) of an 4-month-old girl with Segawa syndrome, who carried compound heterozygous mutations of c.739G > A/chr11:2188714 and c.1471G > C/chr11:2185579 in TH. The iPSCs displayed a normal karyotype, expressed pluripotency markers, were devoid of genomically integrated episomal plasmids, and demonstrated trilineage differentiation potential in vitro...
March 14, 2024: Stem Cell Research
https://read.qxmd.com/read/38492327/assessing-the-risk-of-exposure-to-antimicrobial-resistance-at-public-beaches-genome-based-insights-into-the-resistomes-mobilomes-and-virulomes-of-beta-lactams-resistant-enterobacteriaceae-from-recreational-beaches-in-lagos-nigeria
#23
JOURNAL ARTICLE
Abolade A Oyelade, Odion O Ikhimiukor, Blessing I Nwadike, Obasola E Fagade, Olawale O Adelowo
The role of recreational water use in the acquisition and transmission of antimicrobial resistance (AMR) is under-explored in low- and middle-income countries (LMICs). We used whole genome sequence analysis to provide insights into the resistomes, mobilomes and virulomes of 14 beta-lactams resistant Enterobacterales isolated from water and wet-sand at four recreational beaches in Lagos, Nigeria. Carriage of multiple beta-lactamase genes was detected in all isolates except two, including six isolates carrying blaNDM-1 ...
March 15, 2024: International Journal of Hygiene and Environmental Health
https://read.qxmd.com/read/38491992/high-carriage-of-plasmid-mediated-quinolone-resistance-pmqr-genes-by-esbl-producing-and-fluoroquinolone-resistant-escherichia-coli-recovered-from-animal-waste-dumps
#24
JOURNAL ARTICLE
Elizabeth Omokoshi Joel, Olabisi Comfort Akinlabi, Adedolapo Victoria Olaposi, Temitayo Omotunde Olowomofe, Abimbola Olumide Adekanmbi
BACKGROUND: There has been a rise in the consumption of fluoroquinolones in human and veterinary medicine recently. This has contributed to the rising incidence of quinolone resistance in bacteria. This study aimed at the determination of the antibiotic resistance profile of ESBL-producing and fluoroquinolone-resistant E. coli (FQEC) isolated from animal waste obtained from the waste dumps of an agricultural farm and their carriage of genes encoding PMQR. METHODS AND RESULTS: Isolation of ESBL-producing E...
March 16, 2024: Molecular Biology Reports
https://read.qxmd.com/read/38491220/comparative-genomics-of-an-extensively-drug-resistant-strain-klebsiella-pneumoniae-iitr008-with-international-high-risk-clonal-lineage-st147-isolated-from-river-water
#25
JOURNAL ARTICLE
Deeksha Singh, Shilpee Pal, Srikrishna Subramanian, Natesan Manickam
Carbapenem resistant Klebsiella pneumoniae causing severe infection resulting in morbidity and mortality have become a global health concern. K. pneumoniae with sequence type ST147 is an international high-risk clonal lineage, genomic studies have been done on K. pneumoniae ST147 isolated from clinical origin but genomic data for environmental K. pneumoniae ST147 is very scarce. Herein, K. pneumoniae IITR008, an extensively drug resistant and potentially hypervirulent bacterium, was isolated from Triveni Sangam, the confluence of three rivers where religious congregations are organized...
March 15, 2024: Antonie Van Leeuwenhoek
https://read.qxmd.com/read/38490574/establishment-and-application-of-recombinase-polymerase-amplification-combined-with-lateral-flow-dipstick-for-detection-of-mcr-1-in-unculture-clinical-samples
#26
JOURNAL ARTICLE
Jun Feng, Zhen Xu, Yuan Zhuang, Jiayuan Luo, Yong Chen, Yitong Wu, Jiayi Fei, Mingxiang Liu, Jiahui Xia, Jing Zhang, Meihua Liu, Xiaohong Xie, Zhengan Yuan, Min Chen
OBJECTIVES: The rapid dissemination of the mcr-1 gene via plasmid-mediated transfer has raised concerns regarding the efficacy of colistin as a last-resort treatment for multidrug-resistant Gram-negative bacterial infections. Current mcr-1 gene detection methods mainly focus on cultured bacterial which suffer from complexity, time-consuming process, and skilled personnel requirements, making them unsuitable for field analysis. METHODS: A rapid detection technique combining recombinase polymerase amplification (RPA) with lateral flow dipstick (LFD) targeting on uncultured clinical samples was developed...
March 13, 2024: International Journal of Antimicrobial Agents
https://read.qxmd.com/read/38489400/thiosulfinate-tolerance-gene-clusters-are-common-features-of-burkholderia-onion-pathogens
#27
JOURNAL ARTICLE
Sujan Paudel, Mei Zhao, Shaun P Stice, Bhabesh Dutta, Brian H Kvitko
Burkholderia gladioli pv. alliicola, B.cepacia, and B. orbicola are common bacterial pathogens of onion. Onions produce organosulfur thiosulfinate defensive compounds after cellular decompartmentalization. Using whole genome sequencing and in silico analysis, we identified putative thiosulfinate tolerance gene (TTG) clusters in multiple onion-associated Burkholderia species similar to those characterized in other Allium-associated bacterial endophytes and pathogens. Sequence analysis revealed the presence of three Burkholderia TTG cluster types with both Type A and Type B being broadly distributed in B...
March 15, 2024: Molecular Plant-microbe Interactions: MPMI
https://read.qxmd.com/read/38489292/the-n-linked-glycosylation-modifications-in-the-hepatitis-b-surface-protein-impact-cellular-autophagy-hbv-replication-and-hbv-secretion
#28
JOURNAL ARTICLE
Patcharin Tepjanta, Kazuhito Fujiyama, Ryo Misaki, Ingorn Kimkong
N-linked glycosylation is a pivotal post-translational modification that significantly influences various aspects of protein biology. Autophagy, a critical cellular process, is instrumental in cell survival and maintenance. The hepatitis B virus (HBV) has evolved mechanisms to manipulate this process to ensure its survival within host cells. Significantly, post-translational N-linked glycosylation in the large surface protein of HBV (LHBs) influences virion assembly, infectivity, and immune evasion. This study investigated the role of N-linked glycosylation of LHBs in autophagy, and its subsequent effects on HBV replication and secretion...
2024: PloS One
https://read.qxmd.com/read/38489271/protocol-to-visualize-and-quantify-the-copii-concentration-and-anterograde-transport-of-nascent-g-protein-coupled-receptors
#29
JOURNAL ARTICLE
Xin Xu, Guangyu Wu
Here, we present a protocol for visualization and quantification of the recruitment of newly synthesized G protein-coupled receptors (GPCRs) to coat protein complex II vesicles and GPCR transport from the endoplasmic reticulum through the Golgi to the cell surface in the retention using the selective hooks assay. We describe steps for plasmid construction, cell transfection, transport synchronization, confocal microscope imaging, and quantification. This protocol is also applicable for studying the transport of non-GPCR cargoes...
March 13, 2024: STAR protocols
https://read.qxmd.com/read/38488372/complete-genome-sequence-of-paraburkholderia-sp-strain-22b1p-capable-of-utilizing-3-chlorobenzoate-as-a-carbon-source
#30
JOURNAL ARTICLE
Ryota Moriuchi, Rion Sano, Shuma Fujii, Yuito Suzuki, Miyune Makita, Yo Kawashima, Takumi Shirakawa, Renki Shindo, Tatsumi Shinkai, Kaede Miura, Moka Hirose, Momiji Nakajima, Asahi Kurokawa, Rituparna Chetia, Chiharu Hirokawa, Tomoko Suzuki, Yukiko Ito, Hiroki Murano, Hideo Dohra, Naoto Ogawa, Yu Kanesaki
Paraburkholderia sp. strain 22B1P utilizes 3-chlorobenzoate as a carbon source. Complete genome sequencing of strain 22B1P revealed two chromosomes and two plasmids. The genes involved in the conversion of 3-chlorobenzoate to 3-chlorocatechol and those involved in the conversion of 3-chlorocatechol to 3-oxoadipate were located on chromosomes 2 and 1, respectively.
March 15, 2024: Microbiology Resource Announcements
https://read.qxmd.com/read/38488359/comparison-of-metagenomic-and-traditional-methods-for-diagnosis-of-e-coli-enteric-infections
#31
JOURNAL ARTICLE
C Royer, N V Patin, K J Jesser, A Peña-Gonzalez, J K Hatt, G Trueba, K Levy, K T Konstantinidis
UNLABELLED: Diarrheagenic Escherichia coli , collectively known as DEC, is a leading cause of diarrhea, particularly in children in low- and middle-income countries. Diagnosing infections caused by different DEC pathotypes traditionally relies on the cultivation and identification of virulence genes, a resource-intensive and error-prone process. Here, we compared culture-based DEC identification with shotgun metagenomic sequencing of whole stool using 35 randomly drawn samples from a cohort of diarrhea-afflicted patients...
March 15, 2024: MBio
https://read.qxmd.com/read/38488012/disassembly-of-the-trim56-atr-complex-promotes-cytodna-cgas-sting-axis-dependent-intervertebral-disc-inflammatory-degeneration
#32
JOURNAL ARTICLE
Weifeng Zhang, Gaocai Li, Xingyu Zhou, Huaizhen Liang, Bide Tong, Di Wu, Kevin Yang, Yu Song, Bingjin Wang, Zhiwei Liao, Liang Ma, Wencan Ke, Xiaoguang Zhang, Jie Lei, Chunchi Lei, Xiaobo Feng, Kun Wang, Kangcheng Zhao, Cao Yang
As the leading cause of disability worldwide, low back pain (LBP) is recognized as a pivotal socioeconomic challenge to the aging population and is largely attributed to intervertebral disc degeneration (IVDD). Elastic nucleus pulposus (NP) tissue is essential for the maintenance of IVD structural and functional integrity. The accumulation of senescent NP cells with an inflammatory hypersecretory phenotype due to aging and other damaging factors is a distinctive hallmark of IVDD initiation and progression. In this study, we reveal a mechanism of IVDD progression in which aberrant genomic DNA damage promoted NP cell inflammatory senescence via activation of the cyclic GMP-AMP synthase/stimulator of IFN genes (cGAS/STING) axis but not of absent in melanoma 2 (AIM2) inflammasome assembly...
January 23, 2024: Journal of Clinical Investigation
https://read.qxmd.com/read/38487887/regional-dissemination-of-ndm-1-producing-enterobacter-hormaechei-st1740-with-a-subset-of-strains-co-producing-vim-4-or-imp-13-france-2019-to-2022
#33
JOURNAL ARTICLE
Inès Rezzoug, Cécile Emeraud, Christophe Rodriguez, Jean-Michel Pawlotsky, Rémy A Bonnin, Laurent Dortet
BackgroundFrom 2019 to 2022, the French National Reference Centre for Antibiotic Resistance (NRC) received a total of 25 isolates of Enterobacter hormaechei subsp. hoffmannii sequence type (ST)1740. All produced metallo-β-lactamase(s) and were from the Lyon area.AimTo understand these strains' spread and evolution, more extended microbiological and molecular analyses were conducted.MethodsPatients' demographics and specimen type related to isolates were retrieved. All strains underwent short-read whole genome sequencing, and for 15, long-read sequencing to understand carbapenemase-gene acquisition...
March 2024: Euro Surveillance
https://read.qxmd.com/read/38487846/metaprobiotics-a-tool-for-mining-probiotic-from-metagenomic-binning-data-based-on-a-language-model
#34
JOURNAL ARTICLE
Shufang Wu, Tao Feng, Waijiao Tang, Cancan Qi, Jie Gao, Xiaolong He, Jiaxuan Wang, Hongwei Zhou, Zhencheng Fang
Beneficial bacteria remain largely unexplored. Lacking systematic methods, understanding probiotic community traits becomes challenging, leading to various conclusions about their probiotic effects among different publications. We developed language model-based metaProbiotics to rapidly detect probiotic bins from metagenomes, demonstrating superior performance in simulated benchmark datasets. Testing on gut metagenomes from probiotic-treated individuals, it revealed the probioticity of intervention strains-derived bins and other probiotic-associated bins beyond the training data, such as a plasmid-like bin...
January 22, 2024: Briefings in Bioinformatics
https://read.qxmd.com/read/38487527/approaches-of-dengue-control-vaccine-strategies-and-future-aspects
#35
REVIEW
Runa Akter, Faria Tasneem, Shuvo Das, Mahfuza Afroz Soma, Ilias Georgakopoulos-Soares, Rifat Tasnim Juthi, Saiful Arefeen Sazed
Dengue, caused by the dengue virus (DENV), affects millions of people worldwide every year. This virus has two distinct life cycles, one in the human and another in the mosquito, and both cycles are crucial to be controlled. To control the vector of DENV, the mosquito Aedes aegypti , scientists employed many techniques, which were later proved ineffective and harmful in many ways. Consequently, the attention shifted to the development of a vaccine; researchers have targeted the E protein, a surface protein of the virus and the NS1 protein, an extracellular protein...
2024: Frontiers in Immunology
https://read.qxmd.com/read/38486874/development-of-a-highly-sensitive-taqman-method-based-on-multi-probe-strategy-its-application-in-asfv-detection
#36
JOURNAL ARTICLE
Shuxiang Ding, Tianren Shen, Zixuan Feng, Sujing Diao, Yan Yan, Zhenkun Du, Yulan Jin, Jinyan Gu, Jiyong Zhou, Min Liao, Weiren Dong
The establishment of high sensitive detection method for various pathogenic microorganisms remains constantly concerned. In the present study, multi-probe strategy was first systematically investigated followed by establishing a highly sensitive TaqMan real-time fluorescent quantitative PCR (qPCR) method for detecting African swine fever virus (ASFV). Briefly, four probes based on the B646L gene of ASFV were designed and the effects of different combinations of the probes in a single TaqMan qPCR assay on the detection sensitivity were investigated...
2024: Biology Methods and Protocols
https://read.qxmd.com/read/38486043/enterobacter-asburiae-st229-an-emerging-carbapenemases-producer
#37
JOURNAL ARTICLE
Mattioni Marchetti Vittoria, Kuka Angela, Piazza Aurora, Gaiarsa Stefano, Merla Cristina, Sottasanti Mariangela, Cambieri Patrizia, Migliavacca Roberta, Baldanti Fausto
Enterobacter asburiae, member of the Enterobacter cloacae complex (ECC) group, shows an increasing clinical relevance being responsible for infections like pneumonia, urinary tract infections and septicemia. The aim of the present study was the investigation of the genomic features of two XDR E. asburiae ST229 clinical strains co-carrying blaNDM-1 and blaVIM-1 determinants, collected in October 2021 and in June 2022, respectively. Two E. asburiae strains were collected from rectal swabs of as many patients admitted to the cardiopulmonary intensive care unit of Fondazione I...
March 14, 2024: Scientific Reports
https://read.qxmd.com/read/38485293/complete-genome-sequence-of-the-novel-antarctic-oceanisphaera-sp-it1-181-that-carried-five-plasmids
#38
JOURNAL ARTICLE
Yong-Qiang Hu, Yi-He Zhang, Wei Han, Ting Hu, Yu Du, Yin-Xin Zeng
Bacteria of the genus Oceanisphaera in the class Gammaproteobacteria are widely distributed in marine environments. Oceanisphaera sp. IT1-181 was isolated from intertidal sediment in the coastal region of the Chinese Great Wall Station on the Fildes Peninsula, King George Island, Antarctica. Here, we sequenced the complete genome of strain IT1-181, which contained a single chromosome of 3,572,184 bp (G + C content of 49.89 mol%) with five plasmids. A total of 3229 protein-coding genes, 88 tRNA genes, and 25 rRNA genes were obtained...
April 2024: Marine Genomics
https://read.qxmd.com/read/38485290/complete-genome-sequence-of-psychrobacter-cibarius-aosw16051-a-trimeric-autotransporter-adhesin-synthesizing-bacterium-isolated-from-the-baltic-sea
#39
JOURNAL ARTICLE
Xiao-Yu Wang, Tianyin Miao, Yuyi Wang, Zhangwei Guo, Jin-Long Yang, Xiao Liang
Bacteria of the genus Psychrobacter are widely distributed in the global low-temperature marine environment and have been studied for their effects on the settlement and metamorphosis of marine invertebrates. Psychrobacter cibarius AOSW16051 was isolated from the surface water samples of the Baltic Sea on the edge of the Arctic Ocean. Here, we present the complete genome of strain AOSW16051, which consists of a circular chromosome composed of 3,425,040 nucleotides with 42.98% G + C content and a circular plasmid composed of 5846 nucleotides with 38...
April 2024: Marine Genomics
https://read.qxmd.com/read/38485231/timp1-protects-against-blood-brain-barrier-disruption-after-subarachnoid-haemorrhage-by-inhibiting-ubiquitination-of-astrocytic-%C3%AE-1-integrin
#40
JOURNAL ARTICLE
Tianchi Tang, Huaijun Chen, Libin Hu, Jingya Ye, Chaohui Jing, Chaoran Xu, Xinyan Wu, Yike Chen, Zihang Chen, Hang Zhou, Linfeng Fan, Xiongjie Fu, Cong Qian, Jingsen Chen, Zhongju Tan, Jing Liu, Hanhai Zeng, Gao Chen, Fuyi Liu
BACKGROUND: Astrocytes regulate blood-brain barrier (BBB) integrity, whereas subarachnoid haemorrhage (SAH) results in astrocyte dysregulation and BBB disruption. Here, we explored the involvement of tissue inhibitor of matrix metalloprotease-1 (TIMP1) in astrocyte-mediated BBB protection during SAH, along with its underlying mechanisms. METHODS: C57BL/6J mice were used to establish a model of SAH. The effects of TIMP1 on SAH outcomes were analysed by intraperitoneal injection of recombinant mouse TIMP1 protein (rm-TIMP1; 250 µg/kg)...
March 14, 2024: Stroke and Vascular Neurology
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