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https://www.readbyqxmd.com/read/29244831/antimicrobial-susceptibility-and-molecular-epidemiology-of-clinical-enterobacter-cloacae-bloodstream-isolates-in-shanghai-china
#1
Su Wang, Shu-Zhen Xiao, Fei-Fei Gu, Jin Tang, Xiao-Kui Guo, Yu-Xing Ni, Jie-Ming Qu, Li-Zhong Han
BACKGROUND: Enterobacter cloacae is a major nosocomial pathogen causing bloodstream infections. We retrospectively conducted a study to assess antimicrobial susceptibility and phylogenetic relationships of E. cloacae bloodstream isolates in two tertiary university-affiliated hospitals in Shanghai, in order to facilitate managements of E. cloacae bloodstream infections and highlight some unknowns for future prevention. METHODS: Fifty-three non-duplicate E. cloacae bloodstream isolates were consecutively collected from 2013 to 2016...
2017: PloS One
https://www.readbyqxmd.com/read/29243212/controlling-centriole-numbers-geminin-family-members-as-master-regulators-of-centriole-amplification-and-multiciliogenesis
#2
REVIEW
Marina Arbi, Dafni-Eleftheria Pefani, Stavros Taraviras, Zoi Lygerou
To ensure that the genetic material is accurately passed down to daughter cells during mitosis, dividing cells must duplicate their chromosomes and centrosomes once and only once per cell cycle. The same key steps-licensing, duplication, and segregation-control both the chromosome and the centrosome cycle, which must occur in concert to safeguard genome integrity. Aberrations in genome content or centrosome numbers lead to genomic instability and are linked to tumorigenesis. Such aberrations, however, can also be part of the normal life cycle of specific cell types...
December 14, 2017: Chromosoma
https://www.readbyqxmd.com/read/29243204/genome-wide-assessment-of-polygalacturonases-like-pgl-genes-of-medicago-truncatula-sorghum-bicolor-vitis-vinifera-and-oryza-sativa-using-comparative-genomics-approach
#3
Gautam Anand, Sangeeta Yadav, Aiman Tanveer, Jeya Nasim, Nitish K Singh, Amit K Dubey, Dinesh Yadav
The polygalacturonases (PG) is one of the important members of pectin-degrading glycoside hydrolases of the family GH28. In plants, PG represents multigene families associated with diverse processes. In the present study, an attempt has been made to investigate the diversity of PG genes among monocots and dicots with respect to phylogeny, gene duplication and subcellular localization to get an insight into the evolutionary and functional attributes. The genome-wide assessment of Medicago truncatula, Vitis vinifera Sorghum bicolor, and Oryza sativa L...
December 14, 2017: Interdisciplinary Sciences, Computational Life Sciences
https://www.readbyqxmd.com/read/29242584/mis-expression-of-grainyhead-like-transcription-factors-in-zebrafish-leads-to-defects-in-enveloping-layer-evl-integrity-cellular-morphogenesis-and-axial-extension
#4
Lee B Miles, Charbel Darido, Jan Kaslin, Joan K Heath, Stephen M Jane, Sebastian Dworkin
The grainyhead-like (grhl) transcription factors play crucial roles in craniofacial development, epithelial morphogenesis, neural tube closure, and dorso-ventral patterning. By utilising the zebrafish to differentially regulate expression of family members grhl2b and grhl3, we show that both genes regulate epithelial migration, particularly convergence-extension (CE) type movements, during embryogenesis. Genetic deletion of grhl3 via CRISPR/Cas9 results in failure to complete epiboly and pre-gastrulation embryonic rupture, whereas morpholino (MO)-mediated knockdown of grhl3 signalling leads to aberrant neural tube morphogenesis at the midbrain-hindbrain boundary (MHB), a phenotype likely due to a compromised overlying enveloping layer (EVL)...
December 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29242289/mild-telomere-dysfunction-as-a-force-for-altering-the-adaptive-potential-of-subtelomeric-genes
#5
Jennifer M O Mason, Michael J McEachern
Subtelomeric regions have several unusual characteristics including complex repetitive structures, increased rates of evolution, and enrichment for genes involved in niche adaptation. The adaptive telomere failure hypothesis suggests that certain environmental stresses can induce a low level of telomere failure, potentially leading to elevated subtelomeric recombination that could result in adaptive mutational changes within subtelomeric genes. Here, we tested a key prediction of the adaptive telomere failure hypothesis; that telomere dysfunction mild enough to have little or no overall effect on cell fitness could still lead to substantial increases in the mutation rates of subtelomeric genes...
December 14, 2017: Genetics
https://www.readbyqxmd.com/read/29238345/f-type-lectins-a-highly-diversified-family-of-fucose-binding-proteins-with-a-unique-sequence-motif-and-structural-fold-involved-in-self-non-self-recognition
#6
REVIEW
Gerardo R Vasta, L Mario Amzel, Mario A Bianchet, Matteo Cammarata, Chiguang Feng, Keiko Saito
The F-type lectin (FTL) family is one of the most recent to be identified and structurally characterized. Members of the FTL family are characterized by a fucose recognition domain [F-type lectin domain (FTLD)] that displays a novel jellyroll fold ("F-type" fold) and unique carbohydrate- and calcium-binding sequence motifs. This novel lectin family comprises widely distributed proteins exhibiting single, double, or greater multiples of the FTLD, either tandemly arrayed or combined with other structurally and functionally distinct domains, yielding lectin subunits of pleiotropic properties even within a single species...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/29238294/unique-temporal-expression-of-triplicated-long-wavelength-opsins-in-developing-butterfly-eyes
#7
Kentaro Arikawa, Tomoyuki Iwanaga, Motohiro Wakakuwa, Michiyo Kinoshita
Following gene duplication events, the expression patterns of the resulting gene copies can often diverge both spatially and temporally. Here we report on gene duplicates that are expressed in distinct but overlapping patterns, and which exhibit temporally divergent expression. Butterflies have sophisticated color vision and spectrally complex eyes, typically with three types of heterogeneous ommatidia. The eyes of the butterfly Papilio xuthus express two green- and one red-absorbing visual pigment, which came about via gene duplication events, in addition to one ultraviolet (UV)- and one blue-absorbing visual pigment...
2017: Frontiers in Neural Circuits
https://www.readbyqxmd.com/read/29237241/the-p-patens-chromosome-scale-assembly-reveals-moss-genome-structure-and-evolution
#8
Daniel Lang, Kristian K Ullrich, Florent Murat, Jörg Fuchs, Jerry Jenkins, Fabian B Haas, Mathieu Piednoel, Heidrun Gundlach, Michiel Van Bel, Rabea Meyberg, Cristina Vives, Jordi Morata, Aikaterini Symeonidi, Manuel Hiss, Wellington Muchero, Yasuko Kamisugi, Omar Saleh, Guillaume Blanc, Eva L Decker, Nico van Gessel, Jane Grimwood, Richard D Hayes, Sean W Graham, Lee E Gunter, Stuart McDaniel, Sebastian N W Hoernstein, Anders Larsson, Fay-Wei Li, Pierre-Francois Perroud, Jeremy Phillips, Priya Ranjan, Daniel S Rokshar, Carl J Rothfels, Lucas Schneider, Shengqiang Shu, Dennis W Stevenson, Fritz Thümmler, Michael Tillich, Juan Carlos Villarreal A, Thomas Widiez, Gane Ka-Shu Wong, Ann Wymore, Yong Zhang, Andreas D Zimmer, Ralph S Quatrano, Klaus F X Mayer, David Goodstein, Josep M Casacuberta, Klaas Vandepoele, Ralf Reski, Andrew C Cuming, Jerry Tuskan, Florian Maumus, Jérome Salse, Jeremy Schmutz, Stefan A Rensing
The draft genome of the moss model, Physcomitrella patens, comprised approximately 2,000 unordered scaffolds. In order to enable analyses of genome structure and evolution we generated a chromosome-scale genome assembly using genetic linkage as well as (end) sequencing of long DNA fragments. We find that 57% of the genome comprises transposable elements (TEs), some of which may be actively transposing during the life cycle. Unlike in flowering plant genomes, gene- and TE-rich regions show an overall even distribution along the chromosomes...
December 13, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/29234336/evolution-and-expansion-of-the-prokaryote-like-lipoxygenase-family-in-the-brown-alga-saccharina-japonica
#9
Linhong Teng, Wentao Han, Xiao Fan, Dong Xu, Xiaowen Zhang, Simon M Dittami, Naihao Ye
Lipoxygenase (LOX) plays important roles in fatty acid oxidation and lipid mediator biosynthesis. In this study, we give first insights into brown algal LOX evolution. Whole genome searches revealed four, three, and eleven LOXs in Ectocarpus siliculosus, Cladosiphon okamuranus, and Saccharina japonica, respectively. In phylogenetic analyses, LOXs from brown algae form a robust clade with those from prokaryotes, suggesting an ancestral origin and slow evolution. Brown algal LOXs were divided into two clades, C1 and C2 in a phylogenetic tree...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29231869/functional-characterization-of-the-versatile-myb-gene-family-uncovered-their-important-roles-in-plant-development-and-responses-to-drought-and-waterlogging-in-sesame
#10
Marie Ali Mmadi, Komivi Dossa, Linhai Wang, Rong Zhou, Yanyan Wang, Ndiaga Cisse, Mame Oureye Sy, Xiurong Zhang
The MYB gene family constitutes one of the largest transcription factors (TFs) modulating various biological processes in plants. Although genome-wide analysis of this gene family has been carried out in some species, only three MYB members have been functionally characterized heretofore in sesame (Sesamum indicum L.). Here, we identified a relatively high number (287) of sesame MYB genes (SIMYBs) with an uncommon overrepresentation of the 1R-subfamily. A total of 95% of SIMYBs was mapped unevenly onto the 16 linkage groups of the sesame genome with 55 SIMYBs tandemly duplicated...
December 12, 2017: Genes
https://www.readbyqxmd.com/read/29231436/-protective-effect-of-acupuncture-preconditioning-on-oxidative-stress-injury-induced-by-myocardial-ischemia-reperfusion-injury-in-rats
#11
Minglu Shao, Yang Li, Huafeng Cui, Man Jiang, Qiwen Tan
OBJECTIVE: To observe the protective effect of acupuncture preconditioning at "Jiaji" (EX-B 2) on acute myocardial ischemia-reperfusion injury (MIRI) in the rats and explore the mechanism. METHODS: Fifty Wistar rats were randomly divided into a control group, a model group, a Jiaji group, a Neiguan group and a Quchi group, 10 rats in each one. In the Jiaji group, the Neiguan group and the Quchi group, electroacupuncture was given for preconditioning at "Jiaji" T4~T5 (EX-B 2), "Neiguan" (PC 6) and "Quchi" (LI 11) for 7 days before modeling...
March 12, 2017: Zhongguo Zhen Jiu, Chinese Acupuncture & Moxibustion
https://www.readbyqxmd.com/read/29230902/the-evolutionary-fate-of-heterogeneous-gene-duplications-a-precarious-overdominant-equilibrium-between-environment-sublethality-and-complementation
#12
Pascal Milesi, Benoît S Assogba, Célestine M Atyame, Nicolas Pocquet, Arnaud Berthomieu, Sandra Unal, Patrick Makoundou, Mylène Weill, Pierrick Labbé
Gene duplications occur at a high rate. Although most appear detrimental, some homogeneous duplications (identical gene copies) can be selected for beneficial increase in produced proteins. Heterogeneous duplications, which combine divergent alleles of a single locus, are seldom studied due to the paucity of empirical data. We investigated their role in an ongoing adaptive process at the ace-1 locus in Culex pipiens mosquitoes. We assessed the worldwide diversity of the ace-1 alleles (single-copy, susceptible S and insecticide-resistant R, and duplicated D that pair one S and one R copy), analyzed their phylogeography, and measured their fitness to understand their early dynamics using population genetics models...
December 12, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/29230900/expression-of-a-carotenoid-modifying-gene-and-evolution-of-red-colouration-in-weaverbirds-ploceidae
#13
Hanlu Twyman, Maria Prager, Nicholas I Mundy, Staffan Andersson
Red carotenoid colours in birds are widely assumed to be sexually selected quality indicators, but this rests on a very incomplete understanding of genetic mechanisms and honesty-mediating costs. Recent progress was made by the implication of the gene CYP2J19 as an avian carotenoid ketolase, catalysing the synthesis of red C4-ketocarotenoids from yellow dietary precursors, and potentially a major mechanism behind red coloration in birds. Here we investigate the role of CYP2J19 in the spectacular colour diversification of African weaverbirds (Ploceidae), represented by five genera and 16 species; eight red, seven yellow, and one without carotenoid coloration...
December 12, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/29230594/molecular-evolution-of-myoglobin-in-the-tibetan-plateau-endemic-schizothoracine-fish-cyprinidae-teleostei-and-tissue-specific-expression-changes-under-hypoxia
#14
Delin Qi, Yan Chao, Yongli Zhao, Mingzhe Xia, Rongrong Wu
Myoglobin (Mb) is an oxygen-binding hemoprotein that was once thought to be exclusively expressed in oxidative myocytes of skeletal and cardiac muscle where it serves in oxygen storage and facilitates intracellular oxygen diffusion. In this study, we cloned the coding sequence of the Mb gene from four species, representing three groups, of the schizothoracine fish endemic to the Qinghai-Tibetan Plateau (QTP), then conducted molecular evolution analyses. We also investigated tissue expression patterns of Mb and the expression response to moderate and severe hypoxia at the mRNA and protein levels in a representative of the highly specialized schizothoracine fish species, Schizopygopsis pylzovi...
December 11, 2017: Fish Physiology and Biochemistry
https://www.readbyqxmd.com/read/29230363/genome-wide-identification-of-aba-receptor-pyl-family-and-expression-analysis-of-pyls-in-response-to-aba-and-osmotic-stress-in-gossypium
#15
Gaofeng Zhang, Tingting Lu, Wenwen Miao, Lirong Sun, Mi Tian, Ji Wang, Fushun Hao
Abscisic acid (ABA) receptor pyrabactin resistance1/PYR1-like/regulatory components of ABA receptor (PYR1/PYL/RCAR) (named PYLs for simplicity) are core regulators of ABA signaling, and have been well studied in Arabidopsis and rice. However, knowledge is limited about the PYL family regarding genome organization, gene structure, phylogenesis, gene expression and protein interaction with downstream targets in Gossypium. A comprehensive analysis of the Gossypium PYL family was carried out, and 21, 20, 40 and 39 PYL genes were identified in the genomes from the diploid progenitor G...
2017: PeerJ
https://www.readbyqxmd.com/read/29229760/functional-characterization-of-the-ca2-atpase-sma1-from-schistosoma-mansoni
#16
Xavier Maréchal, Ricardo De Mendonça, Roger Miras, Jean Revilloud, Patrice Catty
Schistosoma mansoni is a parasite that causes bilharzia, a neglected tropical disease affecting hundreds of millions of people each year worldwide. In 2012, S. mansoni had been identified as the only invertebrate possessing two SERCA-type Ca2+-ATPases, SMA1 and SMA2. However, our analysis of recent genomic data shows that the presence of two SERCA pumps is rather frequent in parasitic flatworms. To understand the reasons of this redundancy in S. mansoni , we compared SMA1 and SMA2 at different levels. In terms of sequence and organization, the genes SMA1 and SMA2 are similar, suggesting that they might be the result of a duplication event...
December 11, 2017: Biochemical Journal
https://www.readbyqxmd.com/read/29229672/detecting-differential-copy-number-variation-between-groups-of-samples
#17
Craig B Lowe, Nicelio Sanchez-Luege, Timothy R Howes, Shannon D Brady, Rhea R Richardson, Felicity C Jones, Michael A Bell, David M Kingsley
We present a method to detect copy number variants (CNVs) that are differentially present between two groups of sequenced samples. We use a finite-state transducer where the emitted read depth is conditioned on the mappability and GC-content of all reads that occur at a given base position. In this model, the read depth within a region is a mixture of binomials, which in simulations matches the read depth more closely than the often-used negative binomial distribution. The method analyzes all samples simultaneously, preserving uncertainty as to the breakpoints and magnitude of CNVs present in an individual when it identifies CNVs differentially present between the two groups...
December 11, 2017: Genome Research
https://www.readbyqxmd.com/read/29229569/the-hardy-rubber-tree-genome-provides-insights-into-the-evolution-of-polyisoprene-biosynthesis
#18
Ta-Na Wuyun, Lin Wang, Huimin Liu, Xuewen Wang, Liangsheng Zhang, Jeffrey L Bennetzen, Tiezhu Li, Lirong Yang, Panfeng Liu, Lanying Du, Lu Wang, Mengzhen Huang, Jun Qing, Lili Zhu, Wenquan Bao, Hongguo Li, Qingxin Du, Jingle Zhu, Hong Yang, Shuguang Yang, Hui Liu, Hui Yue, Jiang Hu, Guoliang Yu, Yu Tian, Fan Liang, Jingjing Hu, Depeng Wang, Ruiwen Gao, Dejun Li, Hongyan Du
Eucommia ulmoides is an economically important tree; however, the lack of its genome sequence restricts the theoretical and applied studies. Here we present a high-quality assembly of its ∼1.2 Gb genome (scaffold N50 = 1.88 Mb) with at least 26,723 predicted genes for E. ulmoides, the first sequenced genome of the order Garryales, which we obtained using an integrated strategy combining Illumina sequencing, Pacbio sequencing and Bionano mapping. As a sister taxon to lamiids and campanulids, the E. ulmoides underwent an ancient genome triplication shared by core eudicots but no further whole-genome duplication (WGD) in the last ∼125 million years...
December 8, 2017: Molecular Plant
https://www.readbyqxmd.com/read/29228032/genome-wide-identification-of-wrky-genes-and-their-expression-profiles-under-different-abiotic-stresses-in-elaeis-guineensis
#19
Yong Xiao, Lixia Zhou, Xintao Lei, Hongxing Cao, Yong Wang, Yajing Dou, Wenqi Tang, Wei Xia
African oil palm (Elaeis guineensis) is an important oil crop grown in tropical region and sensitive to low temperature along with high tolerance to salt and drought stresses. Since the WRKY transcription factor family plays central roles in the regulation of plant stress tolerance, 95 genes belonging to the WRKY family were identified and characterized in oil palm genome. Gene structure analysis showed that EgWRKY genes have considerable variation in intron number (0 to 12) and gene length (477bp to 89,167 bp)...
2017: PloS One
https://www.readbyqxmd.com/read/29227625/genetic-reduction-or-negative-modulation-of-mglu7-does-not-impact-anxiety-and-fear-learning-phenotypes-in-a-mouse-model-of-mecp2-duplication-syndrome
#20
Nicole M Fisher, Rocco G Gogliotti, Sheryl Anne D Vermudez, Branden J Stansley, P Jeffrey Conn, Colleen M Niswender
Rett syndrome and MECP2 Duplication syndrome are neurodevelopmental disorders attributed to loss-of-function mutations in, or duplication of, the gene encoding Methyl-CpG-Binding Protein 2 (MeCP2), respectively. We recently reported decreased expression and function of the metabotropic glutamate receptor 7 (mGlu7) in a mouse model of Rett syndrome. Positive allosteric modulation of mGlu7 activity was sufficient to improve several disease phenotypes including cognition. Here, we tested the hypothesis that mGlu7 expression would be reciprocally regulated in a mouse model of MECP2 Duplication syndrome, such that negative modulation of mGlu7 activity would exert therapeutic benefit...
December 11, 2017: ACS Chemical Neuroscience
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