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Allelic exchange

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https://www.readbyqxmd.com/read/28421716/identification-of-a-new-hla-dqb1-06-allele-hla-dqb1-06-210-by-monoallelic-sanger-sequencing
#1
E Kuzmich, A Nasredinova, A Alyanskiy, B Afanasyev
Sequence of the novel allele, HLA-DQB1*06:210, differs from HLA-DQB1*06:03:01 by 1 nucleotide exchange in exon 2.
April 18, 2017: HLA
https://www.readbyqxmd.com/read/28405281/patterns-of-genetic-phenotypic-and-acoustic-variation-across-a-chiffchaff-phylloscopus-collybita-abietinus-tristis-hybrid-zone
#2
Daria Shipilina, Maksym Serbyn, Vladimir Ivanitskii, Irina Marova, Niclas Backström
Characterizing patterns of evolution of genetic and phenotypic divergence between incipient species is essential to understand how evolution of reproductive isolation proceeds. Hybrid zones are excellent for studying such processes, as they provide opportunities to assess trait variation in individuals with mixed genetic background and to quantify gene flow across different genomic regions. Here, we combine plumage, song, mtDNA and whole-genome sequence data and analyze variation across a sympatric zone between the European and the Siberian chiffchaff (Phylloscopus collybita abietinus/tristis) to study how gene exchange between the lineages affects trait variation...
April 2017: Ecology and Evolution
https://www.readbyqxmd.com/read/28402705/interaction-of-factor-h-binding-protein-of-streptococcus-suis-with-globotriaosylceramide-promotes-the-development-of-meningitis
#3
Decong Kong, Zhe Chen, Junping Wang, Qingyu Lv, Hua Jiang, Yuling Zheng, Maokai Xu, Xuyu Zhou, Huaijie Hao, Yongqiang Jiang
Streptococcus suis is an important emerging zoonotic agent that causes acute bacterial meningitis in humans with high mortality and morbidity. Our previous work showed that factor H-binding protein (Fhb) contributed to virulence of S. suis, but the role of Fhb in the development of S. suis meningitis remained unclear. In this study, we demonstrated for the first time that Fhb contributed to the traversal of S. suis across the human blood-brain barrier by allelic-exchange mutagenesis, complementation and specific antibody blocking studies...
April 12, 2017: Virulence
https://www.readbyqxmd.com/read/28401080/comparison-of-the-frequency-of-y-short-tandem-repeats-markers-between-sadat-and-non-sadat-populations-in-isfahan-province-of-iran
#4
Reihaneh Seyedebrahimi, Ebrahim Esfandiari, Bahman Rashidi, Rasoul Salehi, Ali Gholami Dahghi, Shahriar Dabiri, Majid Kheirollahi
BACKGROUND: Y chromosome is one of the two sex chromosomes and is male specific. Due to limited genetic exchange, the main part of that is passed virtually unchanged from one generation to next generation. The short tandem repeats (STRs) are almost constant on chromosomes that make them as an appropriate factor for use in population genetic studies. In this study, we used the STRs of Y chromosome markers in Sadat families and comparison with other families was investigated. MATERIALS AND METHODS: In this study, sampling was done from fifty unrelated males of Sadat families and fifty unrelated males of non-Sadat families...
2017: Advanced Biomedical Research
https://www.readbyqxmd.com/read/28400017/screening-of-the-two-component-system-histidine-kinases-of-listeria-monocytogenes-egd-e-lias-is-needed-for-growth-under-heat-acid-alkali-osmotic-ethanol-and-oxidative-stresses
#5
Anna Pöntinen, Miia Lindström, Mikael Skurnik, Hannu Korkeala
To study the role of each two-component system (TCS) histidine kinase (HK) in stress tolerance of Listeria monocytogenes EGD-e, we monitored the growth of individual HK deletion mutant strains under heat (42.5 °C), acid (pH 5.6), alkali (pH 9.4), osmotic (6% NaCl), ethanol (3.5 vol%), and oxidative (5 mM H2O2) stresses. The growth of ΔliaS (Δlmo1021) strain was impaired under each stress, with the most notable decrease under heat and osmotic stresses. The ΔvirS (Δlmo1741) strain showed nearly completely restricted growth at high temperature and impaired growth in ethanol...
August 2017: Food Microbiology
https://www.readbyqxmd.com/read/28398839/foundational-and-translational-research-opportunities-to-improve-plant-health
#6
Richard W Michelmore, Gitta Coaker, Rebecca Bart, Gwyn A Beattie, Andrew Bent, Toby Bruce, Duncan Cameron, Jeff Dangl, Savithramma Dinesh-Kumar, Robert Edwards, Sebastian Eves-van den Akker, Walter Gassmann, Jean Greenberg, Richard Harrison, Ping He, Jagger Harvey, Alisa Huffaker, Scot Hulbert, Roger Innes, Jonathan D Jones, Isgouhi Kaloshian, Sophien Kamoun, Fumiaki Katagiri, Jan E Leach, Wenbo Ma, John M McDowell, June Medford, Blake Meyers, Rebecca Nelson, Richard Peter Oliver, Yiping Qi, Diane Saunders, Michael Shaw, Prasanta Subudhi, Leslie Torrance, Brett M Tyler, John Walsh
This whitepaper reports the deliberations of a workshop focused on biotic challenges to plant health held in Washington, D.C. in September 2016. Ensuring health of food plants is critical to maintaining the quality and productivity of crops and for sustenance of the rapidly growing human population. There is a close linkage between food security and societal stability; however, global food security is threatened by the vulnerability of our agricultural systems to numerous pests, pathogens, weeds, and environmental stresses...
April 11, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28384286/t-t-homozygosity-of-the-tenascin-c-gene-polymorphism-rs2104772-negatively-influences-exercise-induced-angiogenesis
#7
Paola Valdivieso, Marco Toigo, Hans Hoppeler, Martin Flück
BACKGROUND: Mechanical stress, including blood pressure related factors, up-regulate expression of the pro-angiogenic extracellular matrix protein tenascin-C in skeletal muscle. We hypothesized that increased capillarization of skeletal muscle with the repeated augmentation in perfusion during endurance training is associated with blood vessel-related expression of tenascin-C and would be affected by the single-nucleotide polymorphism (SNP) rs2104772, which characterizes the non-synonymous exchange of thymidine (T)-to-adenosine (A) in the amino acid codon 1677 of tenascin-C...
2017: PloS One
https://www.readbyqxmd.com/read/28381218/development-of-an-efficient-technique-for-gene-deletion-and-allelic-exchange-in-geobacillus-spp
#8
Leann F Bacon, Charlotte Hamley-Bennett, Michael J Danson, David J Leak
BACKGROUND: Geobacillus thermoglucosidasius is a thermophilic, natural ethanol producer and a potential candidate for commercial bioethanol production. Previously, G. thermoglucosidasius has been genetically modified to create an industrially-relevant ethanol production strain. However, creating chromosomal integrations and deletions in Geobacillus spp. is laborious. Here we describe a new technique to create marker-less mutations in Geobacillus utilising a novel homologous recombination process...
April 5, 2017: Microbial Cell Factories
https://www.readbyqxmd.com/read/28378497/genome-wide-analysis-of-admixture-and-adaptation-in-the-africanized-honeybee
#9
Ronald M Nelson, Andreas Wallberg, Zilá Luz Paulino Simões, Daniel J Lawson, Matthew T Webster
Genetic exchange by hybridization or admixture can make an important contribution to evolution, and introgression of favourable alleles can facilitate adaptation to new environments. A small number of honeybees (Apis mellifera) with African ancestry were introduced to Brazil ~60 years ago, which dispersed and hybridized with existing managed populations of European origin, quickly spreading across much of the Americas in an example of a massive biological invasion. Here we analyse whole genome sequences of 32 Africanized honeybees sampled from throughout Brazil in order to study the effect of this process on genome diversity...
April 5, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28374766/reprogramming-mhc-specificity-by-crispr-cas9-assisted-cassette-exchange
#10
William Kelton, Ann Cathrin Waindok, Theresa Pesch, Mark Pogson, Kyle Ford, Cristina Parola, Sai T Reddy
The development of programmable nucleases has enabled the application of new genome engineering strategies for cellular immunotherapy. While targeted nucleases have mostly been used to knock-out or knock-in genes in immune cells, the scarless exchange of entire immunogenomic alleles would be of great interest. In particular, reprogramming the polymorphic MHC locus could enable the creation of matched donors for allogeneic cellular transplantation. Here we show a proof-of-concept for reprogramming MHC-specificity by performing CRISPR-Cas9-assisted cassette exchange...
April 4, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28367149/major-histocompatibility-complex-mhc-class-i-and-mhc-class-ii-proteins-conformational-plasticity-in-antigen-presentation
#11
REVIEW
Marek Wieczorek, Esam T Abualrous, Jana Sticht, Miguel Álvaro-Benito, Sebastian Stolzenberg, Frank Noé, Christian Freund
Antigen presentation by major histocompatibility complex (MHC) proteins is essential for adaptive immunity. Prior to presentation, peptides need to be generated from proteins that are either produced by the cell's own translational machinery or that are funneled into the endo-lysosomal vesicular system. The prolonged interaction between a T cell receptor and specific pMHC complexes, after an extensive search process in secondary lymphatic organs, eventually triggers T cells to proliferate and to mount a specific cellular immune response...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28345815/description-of-the-novel-hla-a-allele-hla-a-11-229-identified-by-sequence-based-typing-in-a-chinese-individual
#12
W-X Li, L Chen, Y Yang, Y Ma, G Shen
HLA-A*11:229 differs from HLA-A*11:01:01:01 by 1 nucleotide exchange at position 556 (G > A) with an amino exchange.
March 27, 2017: HLA
https://www.readbyqxmd.com/read/28327206/lessons-learned-from-additional-research-analyses-of-unsolved-clinical-exome-cases
#13
Mohammad K Eldomery, Zeynep Coban-Akdemir, Tamar Harel, Jill A Rosenfeld, Tomasz Gambin, Asbjørg Stray-Pedersen, Sébastien Küry, Sandra Mercier, Davor Lessel, Jonas Denecke, Wojciech Wiszniewski, Samantha Penney, Pengfei Liu, Weimin Bi, Seema R Lalani, Christian P Schaaf, Michael F Wangler, Carlos A Bacino, Richard Alan Lewis, Lorraine Potocki, Brett H Graham, John W Belmont, Fernando Scaglia, Jordan S Orange, Shalini N Jhangiani, Theodore Chiang, Harsha Doddapaneni, Jianhong Hu, Donna M Muzny, Fan Xia, Arthur L Beaudet, Eric Boerwinkle, Christine M Eng, Sharon E Plon, V Reid Sutton, Richard A Gibbs, Jennifer E Posey, Yaping Yang, James R Lupski
BACKGROUND: Given the rarity of most single-gene Mendelian disorders, concerted efforts of data exchange between clinical and scientific communities are critical to optimize molecular diagnosis and novel disease gene discovery. METHODS: We designed and implemented protocols for the study of cases for which a plausible molecular diagnosis was not achieved in a clinical genomics diagnostic laboratory (i.e. unsolved clinical exomes). Such cases were recruited to a research laboratory for further analyses, in order to potentially: (1) accelerate novel disease gene discovery; (2) increase the molecular diagnostic yield of whole exome sequencing (WES); and (3) gain insight into the genetic mechanisms of disease...
March 21, 2017: Genome Medicine
https://www.readbyqxmd.com/read/28320967/self-identity-reprogrammed-by-a-single-residue-switch-in-a-cell-surface-receptor-of-a-social-bacterium
#14
Pengbo Cao, Daniel Wall
The ability to recognize close kin confers survival benefits on single-celled microbes that live in complex and changing environments. Microbial kinship detection relies on perceptible cues that reflect relatedness between individuals, although the mechanisms underlying recognition in natural populations remain poorly understood. In myxobacteria, cells identify related individuals through a polymorphic cell surface receptor, TraA. Recognition of compatible receptors leads to outer membrane exchange among clonemates and fitness consequences...
April 4, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28297417/description-of-a-new-hla-a-02-allele-a-02-658-in-a-russian-individual
#15
M Loginova, T Jankevich, A Goltsov, O Altukhova, D Trofimov
Sequence of the novel allele, HLA-A*02:658, differs from HLA-A*02:01:01:01 by one-nucleotide exchange in exon 2.
April 2017: HLA
https://www.readbyqxmd.com/read/28296275/the-full-length-genomic-sequence-of-a-novel-hla-a-24-allele-hla-a-24-353-identified-in-a-patient-with-hepatitis-b-infection
#16
S-Q Gao, Y-P Xu, L-M He, H Zhang, A-L Yang
HLA-A*24:353 differs from HLA-A*24:02:01 by an amino acid exchange glutamine to glutamate at position 316.
May 2017: HLA
https://www.readbyqxmd.com/read/28289408/mlva-for-salmonella-enterica-subsp-enterica-serovar-dublin-development-of-a-method-suitable-for-inter-laboratory-surveillance-and-application-in-the-context-of-a-raw-milk-cheese-outbreak-in-france-in-2012
#17
Marie-Léone Vignaud, Emeline Cherchame, Muriel Marault, Emilie Chaing, Simon Le Hello, Valerie Michel, Nathalie Jourdan-Da Silva, Renaud Lailler, Anne Brisabois, Sabrina Cadel-Six
Salmonella enterica subspecies enterica serovar Dublin (S. Dublin) figures among the most frequently isolated Salmonella strains in humans in France. This serovar may affect production and animal health mainly in cattle herds with corresponding high economic losses. Given that the current gold standard method, pulsed-field gel electrophoresis (PFGE), provides insufficient discrimination for epidemiological investigations, we propose a standard operating procedure in this study for multiple-locus variable number tandem repeat analysis (MLVA) of S...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28288567/determining-clostridium-difficile-intra-taxa-diversity-by-mining-multilocus-sequence-typing-databases
#18
Marina Muñoz, Dora Inés Ríos-Chaparro, Manuel Alfonso Patarroyo, Juan David Ramírez
BACKGROUND: Multilocus sequence typing (MLST) is a highly discriminatory typing strategy; it is reproducible and scalable. There is a MLST scheme for Clostridium difficile (CD), a gram positive bacillus causing different pathologies of the gastrointestinal tract. This work was aimed at describing the frequency of sequence types (STs) and Clades (C) reported and evalute the intra-taxa diversity in the CD MLST database (CD-MLST-db) using an MLSA approach. RESULTS: Analysis of 1778 available isolates showed that clade 1 (C1) was the most frequent worldwide (57...
March 14, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28277220/multi-laboratory-validation-study-of-multilocus-variable-number-tandem-repeat-analysis-mlva-for-salmonella-enterica-serovar-enteritidis-2015
#19
Tansy Peters, Sophie Bertrand, Jonas T Björkman, Lin T Brandal, Derek J Brown, Tímea Erdõsi, Max Heck, Salha Ibrahem, Karin Johansson, Christian Kornschober, Saara M Kotila, Simon Le Hello, Taru Lienemann, Wesley Mattheus, Eva Møller Nielsen, Catherine Ragimbeau, Jillian Rumore, Ashley Sabol, Mia Torpdahl, Eija Trees, Alma Tuohy, Elizabeth de Pinna
Multilocus variable-number tandem repeat analysis (MLVA) is a rapid and reproducible typing method that is an important tool for investigation, as well as detection, of national and multinational outbreaks of a range of food-borne pathogens. Salmonella enterica serovar Enteritidis is the most common Salmonella serovar associated with human salmonellosis in the European Union/European Economic Area and North America. Fourteen laboratories from 13 countries in Europe and North America participated in a validation study for MLVA of S...
March 2, 2017: Euro Surveillance: Bulletin Européen sur les Maladies Transmissibles, European Communicable Disease Bulletin
https://www.readbyqxmd.com/read/28275334/clinical-significance-of-an-alloantibody-against-the-kell-blood-group-glycoprotein
#20
Stella Maris Mattaloni, Carine Arnoni, Rosario Céspedes, Claudia Nonaka, Carolina Trucco Boggione, Melina Eliana Luján Brajovich, Andrea Trejo, Néstor Zani, Claudia Silvia Biondi, Lilian Castilho, Carlos Miquel Cotorruelo
BACKGROUND: Kell null (K0) individuals can produce anti-Ku, an antibody against many epitopes in the Kell glycoprotein, after transfusion and/or pregnancy. Since sensitized K0 patients are rare, little is known about anti-Ku clinical relevance and in particular about its association to hemolytic disease of the fetus and newborn. CASE REPORT: This work describes a case of neonatal hyperbilirubinemia due to immune-mediated erythrocyte destruction by an alloantibody directed against the Kell glycoprotein...
January 2017: Transfusion Medicine and Hemotherapy
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