keyword
MENU ▼
Read by QxMD icon Read
search

Bacteria AND essential genes

keyword
https://www.readbyqxmd.com/read/28335718/rnav-2-0-a-visualization-tool-for-bacterial-srna-mediated-regulatory-networks-mining
#1
Romain Bourqui, Isabelle Dutour, Jonathan Dubois, William Benchimol, Patricia Thébault
BACKGROUND: Bacterial sRNA-mediated regulatory networks has been introduced as a powerful way to analyze the fast rewiring capabilities of a bacteria in response to changing environmental conditions. The identification of mRNA targets of bacterial sRNAs is essential to investigate their functional activities. However, this step remains challenging with the lack of knowledge of the topological and biological constraints behind the formation of sRNA-mRNA duplexes. Even with the most sophisticated bioinformatics target prediction tools, the large proportion of false predictions may be prohibitive for further analyses...
March 23, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28334774/high-tolerance-to-self-targeting-of-the-genome-by-the-endogenous-crispr-cas-system-in-an-archaeon
#2
Aris-Edda Stachler, Israela Turgeman-Grott, Ella Shtifman-Segal, Thorsten Allers, Anita Marchfelder, Uri Gophna
CRISPR-Cas systems allow bacteria and archaea to acquire sequence-specific immunity against selfish genetic elements such as viruses and plasmids, by specific degradation of invader DNA or RNA. However, this involves the risk of autoimmunity if immune memory against host DNA is mistakenly acquired. Such autoimmunity has been shown to be highly toxic in several bacteria and is believed to be one of the major costs of maintaining these defense systems. Here we generated an experimental system in which a non-essential gene, required for pigment production and the reddish colony color, is targeted by the CRISPR-Cas I-B system of the halophilic archaeon Haloferax volcanii...
March 2, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28330283/multiplex-pcr-for-simultaneous-identification-of-e-coli-o157-h7-salmonella-spp-and-l-monocytogenes-in-food
#3
Thuy Trang Nguyen, Vo Van Giau, Tuong Kha Vo
The rapid detection of pathogens in food is becoming increasingly critical for ensuring the safety of consumers, since the majority of food-borne illnesses and deaths are caused by pathogenic bacteria. Hence, rapid, sensitive, inexpensive and convenient approaches to detect food-borne pathogenic bacteria is essential in controlling food safety. In this study, a multiplex PCR assay for the rapid and simultaneous detection of Escherichia coli O157:H7, Salmonella spp. and Listeria monocytogenes was established...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28326078/inside-out-archaeal-ectosymbionts-suggest-a-second-model-of-reduced-genome-evolution
#4
REVIEW
Trevor Nicks, Lilah Rahn-Lee
Reduced-genome symbionts and their organelle counterparts, which have even smaller genomes, are essential to the lives of many organisms. But how and why have these genomes become so small? Endosymbiotic genome reduction is a product of isolation within the host, followed by massive pseudogenization and gene loss often including DNA repair mechanisms. This phenomenon can be observed in insect endosymbionts such as the bacteria Carsonella ruddii and Buchnera aphidicola. Yet endosymbionts are not the only organisms with reduced genomes...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28320885/identification-of-the-lyso-form-n-acyl-intramolecular-transferase-in-low-gc-firmicutes
#5
Krista M Armbruster, Timothy C Meredith
Bacterial lipoproteins are embedded in the cell membrane of both Gram-positive and Gram-negative bacteria where they serve numerous functions central to cell envelope physiology. Lipoproteins are tethered to the membrane by an N-acyl-S-(mono/di)-acyl-glyceryl-cysteine anchor that is variably acylated depending on genera. In several low-GC Gram-positive Firmicutes, a monoacyl-glyceryl-cysteine with an N-terminal fatty acid (known as the lyso form) has been reported, though how it is formed is unknown. Here, through an intergenic complementation rescue assay in Escherichia coli, we report the identification of a common orthologous transmembrane protein in both Enterococcus faecalis and Bacillus cereus capable of forming lyso-form lipoproteins...
March 20, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28320884/replication-restart-in-bacteria
#6
Bénédicte Michel, Steven J Sandler
In bacteria replication forks assembled at a replication origin travel to the terminus, often a few megabases away. They may encounter obstacles that trigger replisome disassembly, rendering replication restart from abandoned forks crucial for cell viability. During the past 25 years the genes that encode replication restart proteins have been identified and genetically characterized. In parallel, the enzymes were purified and analyzed in vitro, where they can catalyze replication initiation in a sequence-independent manner from fork-like DNA structures...
March 20, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28318770/expression-of-cathepsin-s-in-bcg-converts-it-into-a-pro-apoptotic-and-highly-immunogenic-strain
#7
Alice Lau, Vijender Singh, Hafid Soualhine, Zakaria Hmama
BACKGROUND: BCG vaccine, introduced almost 100years ago, is the only option to prevent TB disease. It effectively protects newborns from meningeal TB but fails to prevent adult pulmonary TB. TB kills 1.3million people annually in areas where BCG vaccination is widely practiced. Thus, more effective TB vaccines are urgently needed. Others and we have shown that BCG mimics features of virulent M. tuberculosis, in particular attenuation of essential macrophage functions such as phagosome maturation and antigen presentation...
March 16, 2017: Vaccine
https://www.readbyqxmd.com/read/28318383/detection-of-brucellosis-in-sika-deer-cervus-nippon-through-loop-mediated-isothermal-amplification-lamp
#8
Qianhong Liu, Jie Wei, Qingsong Sun, Ben Wang, Yuting Wang, Ying Hu, Wenrong Wu
Brucellosis (Brucella bovis) in sika deer ( Cervus nippon ) can cause enormous losses to stag breeding, especially in areas in which stag breeding has become an important industry. It also poses a threat to humans because it is a zoonotic disease. Use of the loop-mediated isothermal amplification (LAMP) assay has been poorly described in the diagnosis of brucellosis in deer. We developed a LAMP assay targeting the omp25 gene sequence to detect brucellosis (Brucella bovis) in sika deer. The reaction can be completed in 60 min at 63 C and, with a detection limit of 17 pg, it was more sensitive than conventional PCR, with its detection limit of 1...
March 20, 2017: Journal of Wildlife Diseases
https://www.readbyqxmd.com/read/28318006/inhibiting-the-bfrb-bfd-interaction-in-pseudomonas-aeruginosa-causes-irreversible-iron-accumulation-in-bacterioferritin-and-iron-deficiency-in-the-bacterial-cytosol
#9
Kate Eshelman, Huili Yao, Achala N D Punchi Hewage, Jacqueline J Deay, Josephine R Chandler, Mario Rivera
Iron is an essential nutrient for bacteria but the reactivity of Fe(2+) and the insolubility of Fe(3+) present significant challenges to bacterial cells. Iron storage proteins contribute to ameliorating these challenges by oxidizing Fe(2+) using O2 and H2O2 as electron acceptors, and by compartmentalizing Fe(3+). Two types of iron-storage proteins coexist in bacteria, the ferritins (Ftn) and the heme-containing bacterioferritins (Bfr), but the reasons for their coexistence are largely unknown. P. aeruginosa cells harbor two iron storage proteins (FtnA and BfrB), but nothing is known about their relative contributions to iron homeostasis...
March 20, 2017: Metallomics: Integrated Biometal Science
https://www.readbyqxmd.com/read/28315641/development-of-quantitative-real-time-pcr-assays-for-postmortem-detection-of-mycobacterium-spp-common-in-zebrafish-danio-rerio-research-colonies
#10
Danielle M Meritet, Donna M Mulrooney, Michael L Kent, Christiane V Löhr
Mycobacterium spp. infections are common in zebrafish kept in research facilities. These comorbidities can substantially modulate the responses of these fish to external and internal stimuli. Therefore, diagnostic tests to detect Mycobacterium spp. infections in zebrafish colonies prove essential. Here, we outline the development of quantitative simplex real-time PCR assays to detect the 3 Mycobacterium species most commonly identified in laboratory zebrafish. The assays targeted the heatshock protein 65 gene of M...
March 1, 2017: Journal of the American Association for Laboratory Animal Science: JAALAS
https://www.readbyqxmd.com/read/28292982/antibiotic-capture-by-bacterial-lipocalins-uncovers-an-extracellular-mechanism-of-intrinsic-antibiotic-resistance
#11
Omar M El-Halfawy, Javier Klett, Rebecca J Ingram, Slade A Loutet, Michael E P Murphy, Sonsoles Martín-Santamaría, Miguel A Valvano
The potential for microbes to overcome antibiotics of different classes before they reach bacterial cells is largely unexplored. Here we show that a soluble bacterial lipocalin produced by Burkholderia cenocepacia upon exposure to sublethal antibiotic concentrations increases resistance to diverse antibiotics in vitro and in vivo These phenotypes were recapitulated by heterologous expression in B. cenocepacia of lipocalin genes from Pseudomonas aeruginosa, Mycobacterium tuberculosis, and methicillin-resistant Staphylococcus aureus Purified lipocalin bound different classes of bactericidal antibiotics and contributed to bacterial survival in vivo Experimental and X-ray crystal structure-guided computational studies revealed that lipocalins counteract antibiotic action by capturing antibiotics in the extracellular space...
March 14, 2017: MBio
https://www.readbyqxmd.com/read/28288571/in-vivo-characterization-of-an-hfq-protein-encoded-by-the-bacillus-anthracis-virulence-plasmid-pxo1
#12
Andrea B Keefer, Eugenia K Asare, Andrei P Pomerantsev, Mahtab Moayeri, Craig Martens, Stephen F Porcella, Susan Gottesman, Stephen H Leppla, Catherine E Vrentas
BACKGROUND: Bacterial Hfq proteins post-transcriptionally regulate gene expression, primarily by mediating the interaction between sRNAs (small RNAs) and their target mRNAs. The role of Hfq-based regulation has been well defined in Gram-negative bacteria, but comparatively less is known about the impact of Hfq proteins in Gram-positive species. The Gram-positive pathogen Bacillus anthracis (causative agent of anthrax) is distinct in that it expresses three homologs of Hfq: Hfq1 and Hfq2 from the chromosome, and Hfq3 from the pXO1 virulence plasmid...
March 14, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28284722/cardiolipin-plays-an-essential-role-in-the-formation-of-intracellular-membranes-in-escherichia-coli
#13
Gerardo Carranza, Federica Angius, Oana Ilioaia, Audrey Solgady, Bruno Miroux, Ignacio Arechaga
Mitochondria, chloroplasts and photosynthetic bacteria are characterized by the presence of complex and intricate membrane systems. In contrast, non-photosynthetic bacteria lack membrane structures within their cytoplasm. However, large scale over-production of some membrane proteins, such as the fumarate reductase, the mannitol permease MtlA, the glycerol acyl transferase PlsB, the chemotaxis receptor Tsr or the ATP synthase subunit b, can induce the proliferation of intra cellular membranes (ICMs) in the cytoplasm of Escherichia coli...
March 8, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28284599/the-oral-microbiota-of-domestic-cats-harbors-a-wide-variety-of-staphylococcus-species-with-zoonotic-potential
#14
Ciro César Rossi, Ingrid da Silva Dias, Igor Mansur Muniz, Walter Lilenbaum, Marcia Giambiagi-deMarval
This study aimed to characterize the species, antimicrobial resistance and dispersion of CRISPR systems in staphylococci isolated from the oropharynx of domestic cats in Brazil. Staphylococcus strains (n=75) were identified by MALDI-TOF and sequencing of rpoB and tuf genes. Antimicrobial susceptibility was assessed by disk diffusion method and PCR to investigate the presence of antimicrobial-resistance genes usually present in mobile genetic elements (plasmids), in addition to plasmid extraction. CRISPR - genetic arrangements that give the bacteria the ability to resist the entry of exogenous DNA - were investigated by the presence of the essential protein Cas1 gene...
March 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28272447/eggshell-membrane-powder-ameliorates-intestinal-inflammation-by-facilitating-the-restitution-of-epithelial-injury-and-alleviating-microbial-dysbiosis
#15
Huijuan Jia, Manaka Hanate, Wanping Aw, Hideomi Itoh, Kenji Saito, Shoko Kobayashi, Satoshi Hachimura, Shinji Fukuda, Masaru Tomita, Yukio Hasebe, Hisanori Kato
Gut microbiota is an essential factor in the shaping of intestinal immune system development and driving inflammation in inflammatory bowel disease (IBD). We report the effects and microbe-host interactions underlying an intervention using fine powder of eggshell membrane (ESM) against IBD. ESM attenuated lipopolysaccharide-induced inflammatory cytokine production and promoted the Caco-2 cell proliferation by up-regulating growth factors in vitro. In a murine model of dextran sodium sulphate-induced colitis, ESM significantly suppressed the disease activity index and colon shortening...
March 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28270811/animal-models-of-leptospirosis-of-mice-and-hamsters
#16
REVIEW
Maria Gomes-Solecki, Ignacio Santecchia, Catherine Werts
Pathogenic Leptospira sp. are spirochetal bacteria responsible for leptospirosis, an emerging worldwide zoonosis. These spirochetes are very successful pathogens that infect a wide range of hosts such as fish, reptiles, birds, marsupials, and mammals. Transmission occurs when chronically infected animals excrete live bacteria in their urine, contaminating the environment. Leptospira sp. enter their hosts through damaged skin and mucosa. Chronically infected rats and mice are asymptomatic and are considered as important reservoirs of the disease...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28270265/functional-analysis-of-a-biosynthetic-cluster-essential-for-production-of-4-formylaminooxyvinylglycine-a-germination-arrest-factor-from-pseudomonas-fluorescens-wh6
#17
Rachel A Okrent, Kristin M Trippe, Maciej Maselko, Viola Manning
Rhizosphere-associated Pseudomonas fluorescens WH6 produces the germination-arrest factor 4-formylaminooxyvinylglycine (FVG). FVG has previously been shown to both arrest the germination of weedy grasses and inhibit the growth of the bacterial plant pathogen Erwinia amylovora. Very little is known about the mechanism by which FVG is produced. Although a previous study identified a region of the genome that may be involved in FVG biosynthesis, it has not yet been determined which genes within that region are sufficient and necessary for FVG production...
February 2017: Microbiology
https://www.readbyqxmd.com/read/28266571/seqtu-a-web-server-for-identification-of-bacterial-transcription-units
#18
Xin Chen, Wen-Chi Chou, Qin Ma, Ying Xu
A transcription unit (TU) consists of K ≥ 1consecutive genes on the same strand of a bacterial genome that are transcribed into a single mRNA molecule under certain conditions. Their identification is an essential step in elucidation of transcriptional regulatory networks. We have recently developed a machine-learning method to accurately identify TUs from RNA-seq data, based on two features of the assembled RNA reads: the continuity and stability of RNA-seq coverage across a genomic region. While good performance was achieved by the method on Escherichia coli and Clostridium thermocellum, substantial work is needed to make the program generally applicable to all bacteria, knowing that the program requires organism specific information...
March 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28265068/cas9-mediated-genome-editing-in-the-methanogenic-archaeon-methanosarcina-acetivorans
#19
Dipti D Nayak, William W Metcalf
Although Cas9-mediated genome editing has proven to be a powerful genetic tool in eukaryotes, its application in Bacteria has been limited because of inefficient targeting or repair; and its application to Archaea has yet to be reported. Here we describe the development of a Cas9-mediated genome-editing tool that allows facile genetic manipulation of the slow-growing methanogenic archaeon Methanosarcina acetivorans Introduction of both insertions and deletions by homology-directed repair was remarkably efficient and precise, occurring at a frequency of approximately 20% relative to the transformation efficiency, with the desired mutation being found in essentially all transformants examined...
March 6, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28263753/the-maternal-plasma-proteome-changes-as-a-function-of-gestational-age-in-normal-pregnancy-a-longitudinal-study
#20
Roberto Romero, Offer Erez, Eli Maymon, Piya Chaemsaithong, Zhonghui Xu, Percy Pacora, Tinnakorn Chaiworapongsa, Bogdan Done, Sonia S Hassan, Adi L Tarca
OBJECTIVE: Pregnancy is accompanied by dramatic physiologic changes in maternal plasma proteins. Characterization of the maternal plasma proteome in normal pregnancy is an essential step for understanding changes to predict pregnancy outcome. The objective of this study was to describe maternal plasma proteins that change in abundance with advancing gestational age, and determine biological processes that are perturbed in normal pregnancy. MATERIALS AND METHODS: A longitudinal study included 43 normal pregnancies that had a term delivery of an infant who was appropriate for gestational age (AGA) without maternal or neonatal complications...
March 2, 2017: American Journal of Obstetrics and Gynecology
keyword
keyword
63610
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

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"