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https://www.readbyqxmd.com/read/27906133/the-plastid-genome-of-some-eustigmatophyte-algae-harbours-a-bacteria-derived-six-gene-cluster-for-biosynthesis-of-a-novel-secondary-metabolite
#1
Tatiana Yurchenko, Tereza Ševčíková, Hynek Strnad, Anzhelika Butenko, Marek Eliáš
Acquisition of genes by plastid genomes (plastomes) via horizontal gene transfer (HGT) seems to be a rare phenomenon. Here, we report an interesting case of HGT revealed by sequencing the plastomes of the eustigmatophyte algae Monodopsis sp. MarTras21 and Vischeria sp. CAUP Q 202. These plastomes proved to harbour a unique cluster of six genes, most probably acquired from a bacterium of the phylum Bacteroidetes, with homologues in various bacteria, typically organized in a conserved uncharacterized putative operon...
November 2016: Open Biology
https://www.readbyqxmd.com/read/27905863/associations-between-omega-3-fatty-acids-selenium-content-and-mercury-levels-in-wild-harvested-fish-from-the-dehcho-region-northwest-territories-canada
#2
Ellen S Reyes, Juan J Aristizabal Henao, Katherine M Kornobis, Rhona M Hanning, Shannon E Majowicz, Karsten Liber, Ken D Stark, George Low, Heidi K Swanson, Brian D Laird
To better understand the risks and benefits of eating wild-harvested fish from the Northwest Territories, Canada, levels of total mercury (HgT) and selenium (Se) and composition of omega-3 fatty acid (n-3 FA) were measured in muscle tissue of fish harvested from lakes in the Dehcho Region, Northwest Territories, Canada. Average HgT levels ranged from 0.057 mg/kg (cisco) to 0.551 mg/kg (northern pike), while average n-3 FA concentrations ranged from 101 mg/100 g (burbot) to 1,689 mg/100 g (lake trout). In contrast to HgT and n-3 FA, mean Se concentrations were relatively similar among species...
December 1, 2016: Journal of Toxicology and Environmental Health. Part A
https://www.readbyqxmd.com/read/27905116/unparalleled-replacement-of-native-mitochondrial-genes-by-foreign-homologs-in-a-holoparasitic-plant
#3
M Virginia Sanchez-Puerta, Laura E García, Josefina Wohlfeiler, Luis F Ceriotti
Horizontal gene transfer (HGT) among flowering plant mitochondria occurs frequently and, in most cases, leads to nonfunctional transgenes in the recipient genome. Parasitic plants are particularly prone to this phenomenon, but their mitochondrial genomes (mtDNA) have been largely unexplored. We undertook a large-scale mitochondrial genomic study of the holoparasitic plant Lophophytum mirabile (Balanophoraceae). Comprehensive phylogenetic analyses were performed to address the frequency, origin, and impact of HGT...
November 30, 2016: New Phytologist
https://www.readbyqxmd.com/read/27902194/flavobacterium-orientale-sp-nov-isolated-from-lake-water
#4
Ai-Hua Li, Hong-Can Liu, Yu-Guang Zhou
Two Gram-stain-negative, obligately aerobic, non-motile, rod-shaped bacterial strains, designated SP3T and SP38, were isolated from a cold-water lake, in the west of China. Polyphasic taxonomy was performed for the strains. Alignment of 16S rRNA gene sequences indicated that strains SP3T and SP38 were associated with the genus Flavobacterium and were most closely related to Flavobacterium lacus NP180T (96.4 % sequence similarity), Flavobacterium ponti GSW-R14T (95.6 %) and Flavobacterium yanchengense hgT (95...
October 17, 2016: International Journal of Systematic and Evolutionary Microbiology
https://www.readbyqxmd.com/read/27896274/halo-gravity-traction-is-associated-with-reduced-bone-mineral-density-of-patients-with-severe-kyphoscoliosis
#5
Xiao Han, Weixiang Sun, Yong Qiu, Leilei Xu, Shifu Sha, Benlong Shi, Huang Yan, Zhen Liu, Zezhang Zhu
Background. Halo gravity traction (HGT) is one of the most commonly used perioperative techniques for the treatment of severe kyphoscoliosis. This study was to explore the influence of HGT on the BMD of these patients. Methods. Patients with severe kyphoscoliosis treated by preoperative HGT for at least 2 months were included. Patients' BMD were assessed by dual-energy X-ray absorptiometry at lumbar spine (LS, L2-L4) and femur neck (FN) of the nondominant side. The weight and duration of traction, as well as baseline characteristics, were recorded...
2016: BioMed Research International
https://www.readbyqxmd.com/read/27895636/genomic-and-transcriptomic-evidence-for-carbohydrate-consumption-among-microorganisms-in-a-cold-seep-brine-pool
#6
Weipeng Zhang, Wei Ding, Bo Yang, Renmao Tian, Shuo Gu, Haiwei Luo, Pei-Yuan Qian
The detailed lifestyle of microorganisms in deep-sea brine environments remains largely unexplored. Using a carefully calibrated genome binning approach, we reconstructed partial to nearly-complete genomes of 51 microorganisms in biofilms from the Thuwal cold seep brine pool of the Red Sea. The recovered metagenome-assembled genomes (MAGs) belong to six different phyla: Actinobacteria, Proteobacteria, Candidatus Cloacimonetes, Candidatus Marinimicrobia, Bathyarchaeota, and Thaumarchaeota. By comparison with close relatives of these microorganisms, we identified a number of unique genes associated with organic carbon metabolism and energy generation...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27894995/short-branches-lead-to-systematic-artifacts-when-blast-searches-are-used-as-surrogate-for-phylogenetic-reconstruction
#7
Amanda A Dick, Tim J Harlow, J Peter Gogarten
Long Branch Attraction (LBA) is a well-known artifact in phylogenetic reconstruction when dealing with branch length heterogeneity. Here we show another phenomenon, Short Branch Attraction (SBA), which occurs when BLAST searches, a phenetic analysis, are used as a surrogate method for phylogenetic analysis. This error also results from branch length heterogeneity, but this time it is the short branches that are attracting. The SBA artifact is reciprocal and can be returned 100% of the time when multiple branches differ in length by a factor of more than two...
November 25, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/27885411/scopolamine-disrupts-place-navigation-in-rats-and-humans-a-translational-validation-of-the-hidden-goal-task-in-the-morris-water-maze-and-a-real-maze-for-humans
#8
Jan Laczó, Hana Markova, Veronika Lobellova, Ivana Gazova, Martina Parizkova, Jiri Cerman, Tereza Nekovarova, Karel Vales, Sylva Klovrzova, John Harrison, Manfred Windisch, Kamil Vlcek, Jan Svoboda, Jakub Hort, Ales Stuchlik
RATIONALE: Development of new drugs for treatment of Alzheimer's disease (AD) requires valid paradigms for testing their efficacy and sensitive tests validated in translational research. OBJECTIVES: We present validation of a place-navigation task, a Hidden Goal Task (HGT) based on the Morris water maze (MWM), in comparable animal and human protocols. METHODS: We used scopolamine to model cognitive dysfunction similar to that seen in AD and donepezil, a symptomatic medication for AD, to assess its potential reversible effect on this scopolamine-induced cognitive dysfunction...
November 24, 2016: Psychopharmacology
https://www.readbyqxmd.com/read/27881071/genome-wide-analyses-of-chitin-synthases-identify-horizontal-gene-transfers-towards-bacteria-and-allow-a-robust-and-unifying-classification-into-fungi
#9
Isabelle R Gonçalves, Sophie Brouillet, Marie-Christine Soulié, Simonetta Gribaldo, Catherine Sirven, Noémie Charron, Martine Boccara, Mathias Choquer
BACKGROUND: Chitin, the second most abundant biopolymer on earth after cellulose, is found in probably all fungi, many animals (mainly invertebrates), several protists and a few algae, playing an essential role in the development of many of them. This polysaccharide is produced by type 2 glycosyltransferases, called chitin synthases (CHS). There are several contradictory classifications of CHS isoenzymes and, as regards their evolutionary history, their origin and diversity is still a matter of debate...
November 24, 2016: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/27875306/family-wide-structural-characterization-and-genomic-comparisons-decode-diversity-oriented-biosynthesis-of-thalassospiramides-by-marine-proteobacteria
#10
Weipeng Zhang, Liang Lu, Qiliang Lai, Beika Zhu, Zhongrui Li, Ying Xu, Zongze Shao, Karl Herrup, Bradley S Moore, Avena C Ross, Pei-Yuan Qian
The thalassospiramide lipopeptides have great potential for therapeutic applications, however, their structural and functional diversity, and biosynthesis are poorly understood. Here, by cultivating 130 Rhodospirillaceae strains sampled from oceans worldwide, we discovered 21 new thalassospiramide analogues and demonstrated their neuroprotective effects. To investigate the diversity of biosynthetic gene cluster (BGC) architectures, we sequenced the genomes of 28 Rhodospirillaceae strains. Our family-wide genomic analysis revealed three types of dysfunctional BGCs, and four functional BGCs whose architectures correspond to four production patterns...
November 14, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27867010/quorum-sensing-controls-adaptive-immunity-through-the-regulation-of-multiple-crispr-cas-systems
#11
Adrian G Patterson, Simon A Jackson, Corinda Taylor, Gary B Evans, George P C Salmond, Rita Przybilski, Raymond H J Staals, Peter C Fineran
Bacteria commonly exist in high cell density populations, making them prone to viral predation and horizontal gene transfer (HGT) through transformation and conjugation. To combat these invaders, bacteria possess an arsenal of defenses, such as CRISPR-Cas adaptive immunity. Many bacterial populations coordinate their behavior as cell density increases, using quorum sensing (QS) signaling. In this study, we demonstrate that QS regulation results in increased expression of the type I-E, I-F, and III-A CRISPR-Cas systems in Serratia cells in high-density populations...
November 16, 2016: Molecular Cell
https://www.readbyqxmd.com/read/27864136/the-underlying-mechanisms-of-genetic-innovation-and-speciation-in-the-family-corynebacteriaceae-a-phylogenomics-approach
#12
Xiao-Yang Zhi, Zhao Jiang, Ling-Ling Yang, Ying Huang
The pangenome of a bacterial species population is formed by genetic reduction and genetic expansion over the long course of evolution. Gene loss is a pervasive source of genetic reduction, and (exogenous and endogenous) gene gain is the main driver of genetic expansion. To understand the genetic innovation and speciation of the family Corynebacteriaceae, which cause a wide range of serious infections in humans and animals, we analyzed the pangenome of this family, and reconstructed its phylogeny using a phylogenomics approach...
November 15, 2016: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/27849579/plant-nodulation-inducers-enhance-horizontal-gene-transfer-of-azorhizobium-caulinodans-symbiosis-island
#13
Jun Ling, Hui Wang, Ping Wu, Tao Li, Yu Tang, Nawar Naseer, Huiming Zheng, Catherine Masson-Boivin, Zengtao Zhong, Jun Zhu
Horizontal gene transfer (HGT) of genomic islands is a driving force of bacterial evolution. Many pathogens and symbionts use this mechanism to spread mobile genetic elements that carry genes important for interaction with their eukaryotic hosts. However, the role of the host in this process remains unclear. Here, we show that plant compounds inducing the nodulation process in the rhizobium-legume mutualistic symbiosis also enhance the transfer of symbiosis islands. We demonstrate that the symbiosis island of the Sesbania rostrata symbiont, Azorhizobium caulinodans, is an 87...
November 29, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27825443/natural-competence-for-transformation
#14
Melanie Blokesch
While most molecular biologists are familiar with the artificial transformation of bacteria in the context of laboratory cloning experiments, natural competence for transformation refers to a specific physiological state in which prokaryotes are able to take up genetic material from their surroundings. Occasionally, such absorbed DNA is recombined into the organism's own genome, resulting in natural transformation (Figure 1). As a consequence, natural competence for transformation is considered a primary mode of horizontal gene transfer (HGT) in prokaryotes, together with conjugation (direct cell to cell transfer of DNA via a specialized conjugal pilus) and phage transduction (DNA transfer mediated by viruses)...
November 7, 2016: Current Biology: CB
https://www.readbyqxmd.com/read/27816285/antibiotic-resistance-genes-args-in-duck-and-fish-production-ponds-with-integrated-or-non-integrated-mode
#15
Lu Huang, Yan-Bin Xu, Jia-Xin Xu, Jia-Yin Ling, Jin-Liang Chen, Jia-Le Zhou, Li Zheng, Qing-Ping Du
Antibiotic resistance genes (ARGs) are emerging micropollutants with environmental persistence. Aquaculture environments are considered as potential reservoirs for ARGs pollution and horizontal gene transfer (HGT). This study analyzed water and sediment from eight culture ponds (integrated culture: duck-fish pond; monoculture: duck pond and fish pond) and a control pond (without any aquaculture activity) in Zhongshan, South China. Seventeen types of ARGs were detected in all ponds, which conferring resistance to four classes of antibiotics including tetracycline (tetA, tetB, tetC, tetE, tetG, tetL, tetA-P, tetM, tetO, tetS, tetW and tetX), AmpC beta-lactamase products (EBC and FOX), sulfonamide (sul1 and sul2) and erythromycin (ermA), with class 1 integron (intI1) as motility gene...
November 2, 2016: Chemosphere
https://www.readbyqxmd.com/read/27813519/comparison-of-vision-related-quality-of-life-in-primary-open-angle-glaucoma-and-dry-type-age-related-macular-degeneration
#16
S Karadeniz Ugurlu, A E Kocakaya Altundal, M Altin Ekin
PurposeTo compare quality of life (QoL) in patients with primary open-angle glaucoma (POAG) and dry-type age-related macular degeneration (AMD) with similar best-corrected visual acuity.MethodsAge-, sex-, and visual acuity-matched POAG and dry AMD patients were included in the study. Each patient performed 24-2 and 10-2 SITA standard visual field tests. Contrast sensitivity was evaluated with CSV-1000 HGT instrument. The 25 item National Eye Institute Visual Function Questionnaire (NEI-VFQ-25) was used to analyze QoL...
November 4, 2016: Eye
https://www.readbyqxmd.com/read/27811990/mycelia-as-a-focal-point-for-horizontal-gene-transfer-among-soil-bacteria
#17
Tom Berthold, Florian Centler, Thomas Hübschmann, Rita Remer, Martin Thullner, Hauke Harms, Lukas Y Wick
Horizontal gene transfer (HGT) is a main mechanism of bacterial evolution endowing bacteria with new genetic traits. The transfer of mobile genetic elements such as plasmids (conjugation) requires the close proximity of cells. HGT between genetically distinct bacteria largely depends on cell movement in water films, which are typically discontinuous in natural systems like soil. Using laboratory microcosms, a bacterial reporter system and flow cytometry, we here investigated if and to which degree mycelial networks facilitate contact of and HGT between spatially separated bacteria...
November 4, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27811049/phage-mediated-horizontal-gene-transfer-of-both-prophage-and-heterologous-dna-by-%C3%AF-bb-1-a-bacteriophage-of-borrelia-burgdorferi
#18
Christian H Eggers, Carlie M Gray, Alexander M Preisig, Danielle M Glenn, Jessica Pereira, Ryan W Ayers, Mohammad Alshahrani, Christopher Acabbo, Maria R Becker, Kimberly N Bruenn, Timothy Cheung, Taylor M Jendras, Aron B Shepley, John T Moeller
Horizontal gene transfer (HGT) in Borrelia burgdorferi, the Lyme disease agent, is likely mediated by bacteriophage. Studies of the B. burgdorferi phage, ϕBB-1, and its role in HGT have been hindered by the lack of an assay for readily characterizing phage-mediated DNA movement (transduction). Here we describe an in vitro assay in which a clone of B. burgdorferi strain CA-11.2A encoding kanamycin resistance on a ϕBB-1 prophage is co-cultured with different clones encoding gentamicin resistance on a shuttle vector; transduction is monitored by enumerating colonies selected in the presence of both kanamycin and gentamicin...
November 2, 2016: Pathogens and Disease
https://www.readbyqxmd.com/read/27801295/secondary-metabolite-gene-clusters-in-the-entomopathogen-fungus-metarhizium-anisopliae-genome-identification-and-patterns-of-expression-in-a-cuticle-infection-model
#19
Nicolau Sbaraini, Rafael Lucas Muniz Guedes, Fábio Carrer Andreis, Ângela Junges, Guilherme Loss de Morais, Marilene Henning Vainstein, Ana Tereza Ribeiro de Vasconcelos, Augusto Schrank
BACKGROUND: The described species from the Metarhizium genus are cosmopolitan fungi that infect arthropod hosts. Interestingly, while some species infect a wide range of hosts (host-generalists), other species infect only a few arthropods (host-specialists). This singular evolutionary trait permits unique comparisons to determine how pathogens and virulence determinants emerge. Among the several virulence determinants that have been described, secondary metabolites (SMs) are suggested to play essential roles during fungal infection...
October 25, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27791104/horizontal-gene-transfer-is-more-frequent-with-increased-heterotrophy-and-contributes-to-parasite-adaptation
#20
Zhenzhen Yang, Yeting Zhang, Eric K Wafula, Loren A Honaas, Paula E Ralph, Sam Jones, Christopher R Clarke, Siming Liu, Chun Su, Huiting Zhang, Naomi S Altman, Stephan C Schuster, Michael P Timko, John I Yoder, James H Westwood, Claude W dePamphilis
Horizontal gene transfer (HGT) is the transfer of genetic material across species boundaries and has been a driving force in prokaryotic evolution. HGT involving eukaryotes appears to be much less frequent, and the functional implications of HGT in eukaryotes are poorly understood. We test the hypothesis that parasitic plants, because of their intimate feeding contacts with host plant tissues, are especially prone to horizontal gene acquisition. We sought evidence of HGTs in transcriptomes of three parasitic members of Orobanchaceae, a plant family containing species spanning the full spectrum of parasitic capabilities, plus the free-living Lindenbergia Following initial phylogenetic detection and an extensive validation procedure, 52 high-confidence horizontal transfer events were detected, often from lineages of known host plants and with an increasing number of HGT events in species with the greatest parasitic dependence...
October 24, 2016: Proceedings of the National Academy of Sciences of the United States of America
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