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Sten König, Olivier Gros, Stefan E Heiden, Tjorven Hinzke, Andrea Thürmer, Anja Poehlein, Susann Meyer, Magalie Vatin, Didier Mbéguié-A-Mbéguié, Jennifer Tocny, Ruby Ponnudurai, Rolf Daniel, Dörte Becher, Thomas Schweder, Stephanie Markert
The shallow water bivalve Codakia orbicularis lives in symbiotic association with a sulfur-oxidizing bacterium in its gills. The endosymbiont fixes CO2 and thus generates organic carbon compounds, which support the host's growth. To investigate the uncultured symbiont's metabolism and symbiont-host interactions in detail we conducted a proteogenomic analysis of purified bacteria. Unexpectedly, our results reveal a hitherto completely unrecognized feature of the C. orbicularis symbiont's physiology: the symbiont's genome encodes all proteins necessary for biological nitrogen fixation (diazotrophy)...
October 24, 2016: Nature Microbiology
Abhishek Srivastava, Katherine D McMahon, Ramunas Stepanauskas, Hans-Peter Grossart
The National Center for Biotechnology Information [] database enlists more than 15,500 bacterial species. But this also includes a plethora of uncultured bacterial representations. Owing to their metabolism, they directly influence biogeochemical cycles, which underscores the the important status of bacteria on our planet. To study the function of a gene from an uncultured bacterium, we have undertaken a de novo gene synthesis approach. Actinobacteria of the acI-B subcluster are important but yet uncultured members of the bacterioplankton in temperate lakes of the northern hemisphere such as oligotrophic Lake Stechlin (NE Germany)...
December 2015: International Microbiology: the Official Journal of the Spanish Society for Microbiology
Chih-Ping Chen, Liang-Kai Wang, Schu-Rern Chern, Yen-Ni Chen, Shin-Wen Chen, Peih-Shan Wu, Dai-Dyi Town, Chen-Wen Pan, Chien-Wen Yang, Wayseen Wang
OBJECTIVE: We present prenatal diagnosis and molecular genetic analysis of mosaic trisomy 17 and a review of the literature of mosaic trisomy 17 at amniocentesis. MATERIALS AND METHODS: A 42-year-old woman underwent amniocentesis at 17 weeks of gestation because of advanced maternal age, which revealed a karyotype of 47,XX,+17[4]/46,XX[17]. Prenatal ultrasound findings were unremarkable. She underwent repeat amniocentesis at 20 weeks of gestation. Interphase fluorescence in situ hybridization (FISH), array comparative genomic hybridization, and quantitative fluorescent polymerase chain reaction assays were applied to uncultured amniocytes...
October 2016: Taiwanese Journal of Obstetrics & Gynecology
Chih-Ping Chen, Chen-Yu Chen, Schu-Rern Chern, Peih-Shan Wu, Yen-Ni Chen, Shin-Wen Chen, Chen-Chi Lee, Dai-Dyi Town, Meng-Shan Lee, Chien-Wen Yang, Wayseen Wang
OBJECTIVE: We present molecular cytogenetic characterization of an Xp22.32→pter deletion and an Xq26.3→qter duplication in a male fetus with congenital malformations and maternal X chromosome pericentric inversion. MATERIALS AND METHODS: A 22-year-old woman underwent amniocentesis at 17 weeks of gestation because of an abnormal maternal serum screening result. Prenatal ultrasound revealed a hypoplastic left heart and short limbs. Amniocentesis revealed a karyotype of 46,Y,der(X) t(X;?)(p22...
October 2016: Taiwanese Journal of Obstetrics & Gynecology
Yizhi Song, Anne-Kristin Kaster, John Vollmers, Yanqing Song, Paul A Davison, Martinique Frentrup, Gail M Preston, Ian P Thompson, J Colin Murrell, Huabing Yin, C Neil Hunter, Wei E Huang
Cell sorting coupled with single-cell genomics is a powerful tool to circumvent cultivation of microorganisms and reveal microbial 'dark matter'. Single-cell Raman spectra (SCRSs) are label-free biochemical 'fingerprints' of individual cells, which can link the sorted cells to their phenotypic information and ecological functions. We employed a novel Raman-activated cell ejection (RACE) approach to sort single bacterial cells from a water sample in the Red Sea based on SCRS. Carotenoids are highly diverse pigments and play an important role in phototrophic bacteria, giving strong and distinctive Raman spectra...
October 17, 2016: Microbial Biotechnology
Jennifer Weida, Avinash S Patil, Frank P Schubert, Gail Vance, Holli Drendel, Angela Reese, Stephen Dlouhy, Shaochun Bai, Men-Jean Lee
PURPOSE: The purpose of this study is to evaluate the incidence of maternal cell contamination (MCC) in the first few milliliters of amniotic fluid withdrawn during amniocentesis. METHODS: A prospective observational study was performed. The initial 2-3 ml of amniotic fluid withdrawn during amniocentesis was divided into direct analysis (uncultured) and cultured samples. A matching maternal buccal swab was obtained for MCC testing. MCC was determined by short-tandem repeat analysis...
October 17, 2016: Journal of Maternal-fetal & Neonatal Medicine
Z Wilhelm de Beer, Seonju Marincowitz, Tuan A Duong, Jae-Jin Kim, Andre Rodrigues, Michael J Wingfield
There have been many recent studies using environmental nucleic acid sequences (ENAS) to assess fungal diversity. As a result, more than a third of all fungal sequences in GenBank are of environmental origin. But inconsistent annotation of the thousands of undescribed taxa represented by these sequences limits access to these data. Consequently, these ENAS and the taxa they represent are rarely considered in other studies, and especially not in taxonomic treatments. This problem is confounded by the fact that the current version of the International Code of Nomenclature for Algae, Fungi, and Plants (Melbourne Code) prohibits the description of novel taxa known only from ENAS...
November 2016: Fungal Biology
I-Min A Chen, Victor M Markowitz, Ken Chu, Krishna Palaniappan, Ernest Szeto, Manoj Pillay, Anna Ratner, Jinghua Huang, Evan Andersen, Marcel Huntemann, Neha Varghese, Michalis Hadjithomas, Kristin Tennessen, Torben Nielsen, Natalia N Ivanova, Nikos C Kyrpides
The Integrated Microbial Genomes with Microbiome Samples (IMG/M: system contains annotated DNA and RNA sequence data of (i) archaeal, bacterial, eukaryotic and viral genomes from cultured organisms, (ii) single cell genomes (SCG) and genomes from metagenomes (GFM) from uncultured archaea, bacteria and viruses and (iii) metagenomes from environmental, host associated and engineered microbiome samples. Sequence data are generated by DOE's Joint Genome Institute (JGI), submitted by individual scientists, or collected from public sequence data archives...
October 13, 2016: Nucleic Acids Research
C van der Veer, M Himschoot, S M Bruisten
OBJECTIVES: In this cross-sectional epidemiological study we aimed to identify molecular profiles for Trichomonas vaginalis and to determine how these molecular profiles were related to patient demographic and clinical characteristics. SETTING: Molecular typing methods previously identified two genetically distinct subpopulations for T. vaginalis; however, few molecular epidemiological studies have been performed. We now increased the sensitivity of a previously described multilocus sequence typing (MLST) tool for T...
October 13, 2016: BMJ Open
David S Younger
Medical science is just now realizing the full importance of the microbial world. Thanks to developments such as low-cost high-throughput sequencing of microbial communities comprising the human microbiome, the identity and function of unculturable microbes are being unveiled. Public health officials and neuroepidemiology researchers will be called on to guide the understanding of I-Cubed illnesses and the implications of the human microbiome for communicable and noncommunicable diseases, as the natural history is appreciated and the responsiveness of given medical and neurologic disorders to a variety of medical approaches, including strong antibiotics and immune-modulatory therapy is established...
November 2016: Neurologic Clinics
Kensuke Seto, Maiko Kagami, Yousuke Degawa
Chytrids are true fungi that reproduce with posteriorly uniflagellate zoospores. In the last decade, environmental DNA surveys revealed a large number of uncultured chytrids as well as undescribed order-level novel clades in Chytridiomycota. Although many species have been morphologically described, only some DNA sequence data of parasitic chytrids are available from the database. We herein discuss five cultures of parasitic chytrids on diatoms Aulacoseira spp. and Asterionella formosa. In order to identify the chytrids examined, thallus morphologies were observed using light microscopy...
October 7, 2016: Journal of Eukaryotic Microbiology
Susanne Mueller-Rompa, Tobias Janke, Karin Schwaiger, Melanie Mayer, Johann Bauer, Jon Genuneit, Charlotte Braun-Fahrlaender, Elisabeth Horak, Andrzej Boznanski, Erika von Mutius, Markus Johannes Ege
BACKGROUND: Exposure to moulds has been related to asthma risk both positively and negatively, depending on the environmental setting. The pertinent results are based on generic markers or culturing methods though the majority of present fungi cannot be cultured under laboratory conditions. The aim of the present analysis was to assess environmental dust samples for asthma-protective fungal candidates with a comprehensive molecular technique covering also non-cultivable and non-viable fungi...
October 6, 2016: Pediatric Allergy and Immunology
Pengyuan Ding, Libing Chu, Jianlong Wang
A novel process integrating anaerobic hydrolysis-acidification (HA) and anoxic/oxic (A/O) reactors was developed to treat the actual petrochemical wastewater, which was operated for more than 8 months, the removal efficiency of COD and NH4(+)-N was monitored, and the microbial community was analyzed. The results showed that the effluent concentrations were maintained at around 99 and 1.3 mg/L, with the removal efficiency of 70.6 and 95.4 %, respectively at a total hydraulic retention time (HRT) of 20 h...
October 5, 2016: Applied Microbiology and Biotechnology
Sara Tanaskovic, Patricia Price, Martyn A French, Sonia Fernandez
HIV patients beginning antiretroviral therapy (ART) with advanced immunodeficiency often retain low CD4<sup>+</sup> T-cell counts despite virological control. We examined proliferative responses and upregulation of costimulatory molecules following anti-CD3 stimulation, in HIV patients with persistent CD4<sup>+</sup> T-cell deficiency on ART. Aviraemic HIV patients with nadir CD4<sup>+</sup> T-cell counts <100 cells/μl who had received ART for a median time of 7 (range 1-11) years were categorized into those achieving low (<350 cells/μL; n=13) or normal (>500 cells/μL; n=20) CD4<sup>+</sup> T-cell counts...
October 5, 2016: AIDS Research and Human Retroviruses
Arjun Saha, Susan Buntz, Paula Scotland, Li Xu, Pamela Noeldner, Sachit Patel, Amy Wollish, Aruni Gunaratne, Tracy Gentry, Jesse Troy, Glenn K Matsushima, Joanne Kurtzberg, Andrew E Balber
Microglia and monocytes play important roles in regulating brain remyelination. We developed DUOC-01, a cell therapy product intended for treatment of demyelinating diseases, from banked human umbilical cord blood (CB) mononuclear cells. Immunodepletion and selection studies demonstrated that DUOC-01 cells are derived from CB CD14(+) monocytes. We compared the ability of freshly isolated CB CD14(+) monocytes and DUOC-01 cells to accelerate remyelination of the brains of NOD/SCID/IL2Rγ(null) mice following cuprizone feeding-mediated demyelination...
August 18, 2016: JCI Insight
Janaina Rigonato, Natalia Gonçalves, Ana Paula Dini Andreote, Marcio Rodrigues Lambais, Marli Fátima Fiore
Cyanobacterial communities on the phyllosphere of 4 plant species inhabiting the endangered Brazilian Atlantic Forest biome were evaluated using cultivation-independent molecular approaches. Total genomic DNA was extracted from cells detached from the surface of leaves of Euterpe edulis, Guapira opposita, Garcinia gardneriana, and Merostachys neesii sampled in 2 Brazilian Atlantic Forest locations along an elevational gradient, i.e., lowland and montane forest. The DNA fingerprinting method PCR-DGGE revealed that the cyanobacterial phyllosphere community structures were mainly influenced by the plant species; geographical location of the plant had little effect...
June 20, 2016: Canadian Journal of Microbiology
Philippe Foubert, Melanie Doyle-Eisele, Andreina Gonzalez, Felipe Berard, Waylon Weber, Diana Zafra, Zeni Alfonso, Sherry Zhao, Mayer Tenenhaus, John K Fraser
PURPOSE: The objective of this study was to develop an approach that models the cutaneous healing that occurs in a patient with full thickness thermal burn injury complicated by total body radiation exposure sufficient to induce sub-lethal prodromal symptoms. An assessment of the effects of an autologous cell therapy on wound healing on thermal burn injury with concomitant radiation exposure was used to validate the utility of the model. METHODS: Göttingen minipigs were subjected to a 1...
October 3, 2016: International Journal of Radiation Biology
Lukas Schuster, Monika Bright
Symbioses between ciliate hosts and prokaryote or unicellular eukaryote symbionts are widespread. Here, we report on a novel ciliate species within the genus Zoothamnium Bory de St. Vincent, 1824, isolated from shallow-water sunken wood in the North Adriatic Sea (Mediterranean Sea), proposed as Zoothamnium ignavum sp. nov. We found this ciliate species to be associated with a novel genus of bacteria, here proposed as "Candidatus Navis piranensis" gen. nov., sp. nov. The descriptions of host and symbiont species are based on morphological and ultrastructural studies, the SSU rRNA sequences, and in situ hybridization with symbiont-specific probes...
2016: PloS One
Antje Lauer, Ketil Bernt Sørensen, Andreas Teske
Sequencing surveys of microbial communities in marine subsurface sediments have focused on organic-rich, continental margins; the database for organic-lean deep-sea sediments from mid-ocean regions is underdeveloped. The archaeal community in subsurface sediments of ODP Site 1225 in the eastern equatorial Pacific (3760 m water depth; 1.1 and 7.8 m sediment depth) was analyzed by PCR, cloning and sequencing, and by denaturant gradient gel electrophoresis (DGGE) of 16S rRNA genes. Three uncultured archaeal lineages with different depth distributions were found: Marine Group I (MG-I) within the Thaumarchaeota, its sister lineage Marine Benthic Group A (MBG-A), the phylum-level archaeal lineage Marine Benthic Group B (also known as Deep-Sea Archaeal Group or Lokiarchaeota), and the Deep-Sea Euryarchaeotal Group 3...
September 6, 2016: Microorganisms
Kati Hokynar, Jani J Sormunen, Eero J Vesterinen, Esa K Partio, Thomas Lilley, Veera Timonen, Jaana Panelius, Annamari Ranki, Mirja Puolakkainen
Ticks carry several human pathogenic microbes including Borreliae and Flavivirus causing tick-born encephalitis. Ticks can also carry DNA of Chlamydia-like organisms (CLOs). The purpose of this study was to investigate the occurrence of CLOs in ticks and skin biopsies taken from individuals with suspected tick bite. DNA from CLOs was detected by pan-Chlamydiales-PCR in 40% of adult ticks from southwestern Finland. The estimated minimal infection rate for nymphs and larvae (studied in pools) was 6% and 2%, respectively...
August 18, 2016: Microorganisms
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