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991.
Wayne Reeve Kemanthi Nandasena Ron Yates Ravi Tiwari Graham O’Hara Mohamed Ninawi Olga Chertkov Lynne Goodwin David Bruce Chris Detter Roxanne Tapia Shunseng Han Tanja Woyke Sam Pitluck Matt Nolan Miriam Land Alex Copeland Konstantinos Liolios Amrita Pati Konstantinos Mavromatis Victor Markowitz Nikos Kyrpides Natalia Ivanova Lynne Goodwin Uma Meenakshi John Howieson 《Standards in genomic sciences》2013,9(2):294-303
Mesorhizobium opportunistum strain WSM2075T was isolated in Western Australia in 2000 from root nodules of the pasture legume Biserrula pelecinus that had been inoculated with M. ciceri bv. biserrulae WSM1271. WSM2075T is an aerobic, motile, Gram negative, non-spore-forming rod that has gained the ability to nodulate B. pelecinus but is completely ineffective in N2 fixation with this host. This report reveals that the genome of M. opportunistum strain WSM2075T contains a chromosome of size 6,884,444 bp, encoding 6,685 protein-coding genes and 62 RNA-only encoding genes. The genome contains no plasmids, but does harbor a 455.7 kb genomic island from Mesorhizobium ciceri bv. biserrulae WSM1271 that has been integrated into a phenylalanine-tRNA gene. 相似文献
992.
Thomas Kruse Julien Maillard Lynne Goodwin Tanja Woyke Hazuki Teshima David Bruce Chris Detter Roxanne Tapia Cliff Han Marcel Huntemann Chia-Lin Wei James Han Amy Chen Nikos Kyrpides Ernest Szeto Victor Markowitz Natalia Ivanova Ioanna Pagani Amrita Pati Sam Pitluck Matt Nolan Christof Holliger Hauke Smidt 《Standards in genomic sciences》2013,8(3):375-388
Dehalobacter restrictus strain PER-K23 (DSM 9455) is the type strain of the species Dehalobacter restrictus. D. restrictus strain PER-K23 grows by organohalide respiration, coupling the oxidation of H2 to the reductive dechlorination of tetra- or trichloroethene. Growth has not been observed with any other electron donor or acceptor, nor has fermentative growth been shown. Here we introduce the first full genome of a pure culture within the genus Dehalobacter. The 2,943,336 bp long genome contains 2,826 protein coding and 82 RNA genes, including 5 16S rRNA genes. Interestingly, the genome contains 25 predicted reductive dehalogenase genes, the majority of which appear to be full length. The reductive dehalogenase genes are mainly located in two clusters, suggesting a much larger potential for organohalide respiration than previously anticipated. 相似文献
993.
Renate B. Schnabel Matthias Michal Sandra Wilde J?rg Wiltink Philipp S. Wild Christoph R. Sinning Edith Lubos Francisco M. Ojeda Tanja Zeller Thomas Munzel Stefan Blankenberg Manfred E. Beutel 《PloS one》2013,8(12)
Background
Initial evidence suggests that depressive symptoms are more frequent in patients with atrial fibrillation. Data from the general population are limited.Methods and Results
In 10,000 individuals (mean age 56±11 years, 49.4% women) of the population-based Gutenberg Health Study we assessed depression by the Patient Health Questionnaire (PHQ-9) and a history of depression in relation to manifest atrial fibrillation (n = 309 cases). The median (25th/75th percentile) PHQ-9 score of depressive symptoms was 4 (2/6) in atrial fibrillation individuals versus 3 (2/6) individuals without atrial fibrillation, . Multivariable regression analyses of the severity of depressive symptoms in relation to atrial fibrillation in cardiovascular risk factor adjusted models revealed a relation of PHQ-9 values and atrial fibrillation (odds ratio (OR) 1.04, 95% confidence interval (CI) 1.01–1.08; P = 0.023). The association was stronger for the somatic symptom dimension of depression (OR 1.08, 95% CI 1.02–1.15; P = 0.0085) than for cognitive symptoms (OR 1.05, 95% CI 0.98–1.11; P = 0.15). Results did not change markedly after additional adjustment for heart failure, partnership status or the inflammatory biomarker C-reactive protein. Both, self-reported physical health status, very good/good versus fair/bad, (OR 0.54, 95% CI 0.41–0.70; P<0.001) and mental health status (OR 0.61 (0.46–0.82); P = 0.0012) were associated with atrial fibrillation in multivariable-adjusted models.Conclusions
In a population-based sample we observed a higher burden of depressive symptoms driven by somatic symptom dimensions in individuals with atrial fibrillation. Depression was associated with a worse perception of physical or mental health status. Whether screening and treatment of depressive symptoms modulates disease progression and outcome needs to be shown. 相似文献994.
Michael Weiss Anna I. Kesberg Kurt M. LaButti Sam Pitluck David Bruce Loren Hauser Alex Copeland Tanja Woyke Stephen Lowry Susan Lucas Miriam Land Lynne Goodwin Staffan Kjelleberg Alasdair M. Cook Matthias Buhmann Torsten Thomas David Schleheck 《Standards in genomic sciences》2013,8(2):239-254
Comamonas testosteroni KF-1 is a model organism for the elucidation of the novel biochemical degradation pathways for xenobiotic 4-sulfophenylcarboxylates (SPC) formed during biodegradation of synthetic 4-sulfophenylalkane surfactants (linear alkylbenzenesulfonates, LAS) by bacterial communities. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 6,026,527 bp long chromosome (one sequencing gap) exhibits an average G+C content of 61.79% and is predicted to encode 5,492 protein-coding genes and 114 RNA genes. 相似文献
995.
Marco Dogs Sonja Voget Hazuki Teshima J?rn Petersen Karen Davenport Hajnalka Dalingault Amy Chen Amrita Pati Natalia Ivanova Lynne A. Goodwin Patrick Chain John C. Detter Sonja Standfest Manfred Rohde Sabine Gronow Nikos C. Kyrpides Tanja Woyke Meinhard Simon Hans-Peter Klenk Markus G?ker Thorsten Brinkhoff 《Standards in genomic sciences》2013,9(2):334-350
996.
Bettina Reichenbacher Gary R. Feulner Tanja Schulz‐Mirbach 《Journal of morphology》2009,270(4):469-484
Aphanius Nardo is a large genus of teleost fishes in the Old World, with 19 described species. Several of these species have only recently been recognized and additional species can be expected from isolated populations in remote areas. We show here that otolith morphology and statistical analyses of otolith variables can contribute to the detection of genetic differentiation in Aphanius. We studied samples of eight Aphanius dispar populations from the southeastern part of the Arabian Peninsula. Two populations originate from freshwater habitats far inland and probably have been isolated since the late Holocene some 4,000 years ago, three populations come from freshwater habitats with occasional connections to the sea, one population originates from a coastal site, and two were artificially introduced populations. The coastal population is interpreted as possessing the basic otolith type of A. dispar. The basic otolith type also occurs in fishes from the freshwater habitat which is located closest to the coast. Otoliths from the two other freshwater populations with occasional connections to the coast differ slightly from the basic type. However, the two populations from the long‐term isolated freshwater habitats far inland show distinct morphological changes. Our results are consistent with the hypotheses that i) otolith morphology is primarily genetically determined and is little influenced by physical parameters of the habitat, and ii) isolated A. dispar populations may be capable of evolving into new species within short periods of time. J. Morphol., 2009. © 2008 Wiley‐Liss, Inc. 相似文献
997.
The process of cell migration is definied by biochemical and biophysical properties of the invading cells. Accelarated investigations in the field of biomechanics are of high impact regarding the process of the migration into a 3‐D matrix of tumor cells. In contrast to use of several protein markers that determine tumor malignancy, a single cell mechanical parameter may delevop as a reliable, standard tool for tumor diagnostics. The cell mechanics of living cells shed light on tumor disease especially on the process of metastasis that involves the invasion of tumor cells through connective tissue. 相似文献
998.
Heidi O. Nousiainen Ileana B. Quintero Timo T. My?h?nen Vootele Voikar Jelena Mijatovic Mikael Segerstr?le Annakaisa M. Herrala Natalia Kulesskaya Anitta E. Pulkka Tanja Kivinummi Usama Abo-Ramadan Tomi Taira T. Petteri Piepponen Heikki Rauvala Pirkko Vihko 《PloS one》2014,9(5)
Prostatic acid phosphatase (PAP), the first diagnostic marker and present therapeutic target for prostate cancer, modulates nociception at the dorsal root ganglia (DRG), but its function in the central nervous system has remained unknown. We studied expression and function of TMPAP (the transmembrane isoform of PAP) in the brain by utilizing mice deficient in TMPAP (PAP−/− mice). Here we report that TMPAP is expressed in a subpopulation of cerebral GABAergic neurons, and mice deficient in TMPAP show multiple behavioral and neurochemical features linked to hyperdopaminergic dysregulation and altered GABAergic transmission. In addition to increased anxiety, disturbed prepulse inhibition, increased synthesis of striatal dopamine, and augmented response to amphetamine, PAP-deficient mice have enlarged lateral ventricles, reduced diazepam-induced loss of righting reflex, and increased GABAergic tone in the hippocampus. TMPAP in the mouse brain is localized presynaptically, and colocalized with SNARE-associated protein snapin, a protein involved in synaptic vesicle docking and fusion, and PAP-deficient mice display altered subcellular distribution of snapin. We have previously shown TMPAP to reside in prostatic exosomes and we propose that TMPAP is involved in the control of GABAergic tone in the brain also through exocytosis, and that PAP deficiency produces a distinct neurological phenotype. 相似文献
999.
André Grünbacher Tanja Throm Constanze Seidel Beatrice Gutt Julian R?hrig Timo Strunk Paul Vincze Stefan Walheim Thomas Schimmel Wolfgang Wenzel Reinhard Fischer 《PloS one》2014,9(4)
Hydrophobins are amphiphilic proteins able to self-assemble at water-air interphases and are only found in filamentous fungi. In Aspergillus nidulans two hydrophobins, RodA and DewA, have been characterized, which both localize on the conidiospore surface and contribute to its hydrophobicity. RodA is the constituent protein of very regularly arranged rodlets, 10 nm in diameter. Here we analyzed four more hydrophobins, DewB-E, in A. nidulans and found that all six hydrophobins contribute to the hydrophobic surface of the conidiospores but only deletion of rodA caused loss of the rodlet structure. Analysis of the rodlets in the dewB-E deletion strains with atomic force microscopy revealed that the rodlets appeared less robust. Expression of DewA and DewB driven from the rodA promoter and secreted with the RodA secretion signal in a strain lacking RodA, restored partly the hydrophobicity. DewA and B were able to form rodlets to some extent but never reached the rodlet structure of RodA. The rodlet-lacking rodA-deletion strain opens the possibility to systematically study rodlet formation of other natural or synthetic hydrophobins. 相似文献
1000.
Janine Kamke Christian Rinke Patrick Schwientek Kostas Mavromatis Natalia Ivanova Alexander Sczyrba Tanja Woyke Ute Hentschel 《PloS one》2014,9(1)
The candidate phylum Poribacteria is one of the most dominant and widespread members of the microbial communities residing within marine sponges. Cell compartmentalization had been postulated along with their discovery about a decade ago and their phylogenetic association to the Planctomycetes, Verrucomicrobia, Chlamydiae superphylum was proposed soon thereafter. In the present study we revised these features based on genomic data obtained from six poribacterial single cells. We propose that Poribacteria form a distinct monophyletic phylum contiguous to the PVC superphylum together with other candidate phyla. Our genomic analyses supported the possibility of cell compartmentalization in form of bacterial microcompartments. Further analyses of eukaryote-like protein domains stressed the importance of such proteins with features including tetratricopeptide repeats, leucin rich repeats as well as low density lipoproteins receptor repeats, the latter of which are reported here for the first time from a sponge symbiont. Finally, examining the most abundant protein domain family on poribacterial genomes revealed diverse phyH family proteins, some of which may be related to dissolved organic posphorus uptake. 相似文献