keyword
MENU ▼
Read by QxMD icon Read
search

intergenic spacer region

keyword
https://www.readbyqxmd.com/read/28549151/borrelia-species-detected-in-ticks-feeding-on-wild-korean-water-deer-hydropotes-inermis-using-molecular-and-genotypic-analyses
#1
D VanBik, S H Lee, M G Seo, B R Jeon, Y K Goo, S J Park, M H Rhee, O D Kwon, T H Kim, P J L Geraldino, D Kwak
Lyme borreliosis is a vector-borne disease transmitted through the bite of ticks infected by Borrelia burgdorferi sensu lato group, including B. burgdorferi sensu stricto, B. afzelii, and B. garinii. The goal of the present study was to detect Borrelia species in ticks infesting wild Korean water deer (KWD; Hydropotes inermis Swinhoe), using molecular and genotypic analyses. In total, 48 ticks were collected from KWD, all of which were morphologically identified as Haemaphysalis longicornis Neumann that is dominant in Korea...
May 26, 2017: Journal of Medical Entomology
https://www.readbyqxmd.com/read/28534230/trueperella-pyogenes-isolated-from-a-brain-abscess-of-an-adult-roebuck-capreolus-capreolus
#2
Jörn-Peter Wickhorst, Abdulwahed Ahmed Hassan, Omar Hashim Sheet, Tobias Eisenberg, Osama Sammra, Mazen Alssahen, Christoph Lämmler, Ellen Prenger-Berninghoff, Michael Zschöck, Markus Timke, Amir Abdulmawjood
The present study was designed to characterize phenotypically and genotypically a Trueperella pyogenes strain isolated from a brain abscess of an adult roebuck (Capreolus capreolus). The species identity could be confirmed by phenotypical investigations, by MALDI-TOF MS analysis, and by sequencing the 16S ribosomal RNA (rRNA) gene, the 16S-23S rRNA intergenic spacer region (ISR); by sequencing the target genes rpoB, gap, and tuf; and by detection of T. pyogenes chaperonin-encoding gene cpn60 with a previously developed loop-mediated isothermal amplification (LAMP) assay...
May 23, 2017: Folia Microbiologica
https://www.readbyqxmd.com/read/28521734/higher-order-organisation-of-extremely-amplified-potentially-functional-and-massively-methylated-5s-rdna-in-european-pikes-esox-sp
#3
Radka Symonová, Konrad Ocalewicz, Lech Kirtiklis, Giovanni Battista Delmastro, Šárka Pelikánová, Sonia Garcia, Aleš Kovařík
BACKGROUND: Pikes represent an important genus (Esox) harbouring a pre-duplication karyotype (2n = 2x = 50) of economically important salmonid pseudopolyploids. Here, we have characterized the 5S ribosomal RNA genes (rDNA) in Esox lucius and its closely related E. cisalpinus using cytogenetic, molecular and genomic approaches. Intragenomic homogeneity and copy number estimation was carried out using Illumina reads. The higher-order structure of rDNA arrays was investigated by the analysis of long PacBio reads...
May 18, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28502098/-fix-me-another-marguerite-species-delimitation-in-a-group-of-intensively-hybridising-lineages-of-ox-eye-daisies-leucanthemum-mill-compositae-anthemideae
#4
Florian Wagner, Sabine Härtl, Robert Vogt, Christoph Oberprieler
Delineating species boundaries in the framework of the multi-species coalescent (MSC) proves to be a reliable, objective, and reproducible method in an increasing number of studies. However, the underlying model assumes the lack of gene flow after speciation; an assumption which may be frequently violated in plant evolution. The present study evaluates the robustness of currently available species delimitation methods implemented in beast (BFD, BFD*, and dissect) in the closely-knit ox-eye daisy group around Leucanthemum ageratifolium Pau...
May 14, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28486518/complete-mitochondrial-genomes-of-two-blattid-cockroaches-periplaneta-australasiae-and-neostylopyga-rhombifolia-and-phylogenetic-relationships-within-the-blattaria
#5
Jinnan Ma, Chao Du, Chuang Zhou, Yongmei Sheng, Zhenxin Fan, Bisong Yue, Xiuyue Zhang
Complete mitochondrial genomes (mitogenomes) of two cockroach species, Periplaneta australasiae and Neostylopyga rhombifolia, 15,605 bp and 15,711 bp in length, respectively, were determined. As reported for other cockroach mitogenomes, the two mitogenomes possessed typical ancestral insect mitogenome gene composition and arrangement. Only several small intergenic spacers were found: one, which was common in all sequenced cockroach mitogenomes except for the genus Cryptocercus, was between tRNA-Ser (UCN) and ND1 and contained a 7bp highly conserved motif (WACTTAA)...
2017: PloS One
https://www.readbyqxmd.com/read/28467379/mycoviruses-in-the-plant-pathogen-ustilaginoidea-virens-are-not-correlated-with-the-genetic-backgrounds-of-its-hosts
#6
Jie Zhong, Chuan Yuan Cheng, Bi Da Gao, Qian Zhou, Hong Jian Zhu
Ustilaginoidea virens, the causal agent of rice false smut, is one of the most devastating grain diseases that causes loss of yield in most rice-growing areas worldwide. In this study, we performed a dsRNA screen to isolate mycoviruses from 35 U. virens strains. The results revealed that 34 of the tested isolates were infected by various dsRNA elements, displaying highly viral diversity and mixed infections. We characterized a 5.3 kbp dsRNA from a typical isolate containing dsRNA segments with sizes ranging from 0...
May 3, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28448637/45s-rdna-external-transcribed-spacer-organization-reveals-new-phylogenetic-relationships-in-avena-genus
#7
Joana Rodrigues, Wanda Viegas, Manuela Silva
The genus Avena comprises four distinct genomes organized in diploid (AA or CC), tetraploid (AABB or AACC) and hexaploid species (AACCDD), constituting an interesting model for phylogenetic analysis. The aim of this work was to characterize 45S rDNA intergenic spacer (IGS) variability in distinct species representative of Avena genome diversity-A. strigosa (AA), A. ventricosa (CvCv), A. eriantha (CpCp), A. barbata (AABB), A. murphyi (AACC), A. sativa (AACCDD) and A. sterilis (AACCDD) through the assessment of the 5' external transcribed spacer (5'-ETS), a promising IGS region for phylogenetic studies poorly studied in Avena genus...
2017: PloS One
https://www.readbyqxmd.com/read/28437593/tabula-rasa-in-the-patagonian-channels-the-phylogeography-of-oreobolus-obtusangulus-cyperaceae
#8
Simon Pfanzelt, Dirk C Albach, Klaus Bernhard von Hagen
The extent of the Pleistocene glaciations in the Patagonian Channel region (southwesternmost South America) and their impact on the vegetation there is largely unknown. Whether the regional flora was wiped out completely (tabula rasa) or survived in ice-free pockets (in situ survival) is still an open question. The molecular imprint of either scenario should still be visible in extant populations. Therefore, DNA sequence data of Oreobolus obtusangulus Gaudich. (Cyperaceae) were analyzed. This species is an abundant constitutent of Patagonian cushion peat bogs, one of the Patagonian Channel region's major vegetation types...
April 24, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28435087/the-complete-mitochondrial-genome-of-clostera-anachoreta-lepidoptera-notodontidae-and-phylogenetic-implications-for-noctuoidea-species
#9
Xiao-Yu Zhu, Zhao-Zhe Xin, Ying Wang, Hua-Bin Zhang, Dai-Zhen Zhang, Zheng-Fei Wang, Chun-Lin Zhou, Bo-Ping Tang, Qiu-Ning Liu
In this study, the complete mitochondrial genome (mitogenome) of Clostera anachoreta (Lepidoptera: Notodontidae) was sequenced. It comprises 15,456 base pairs (bp), including 13 protein-coding genes (PCGs), two ribosomal RNAs (rRNA), 22 transfer RNAs (tRNA) and one non-coding control region (CR), as found in other lepidopterans. Gene order is identical to that of typical lepidopterans. There are 15 intergenic spacers ranging from 1 to 49bp, and 9 overlapping regions ranging from 1 to 8bp, occurring throughout the genome...
April 20, 2017: Genomics
https://www.readbyqxmd.com/read/28421039/population-structure-of-sclerotinia-subarctica-and-sclerotinia-sclerotiorum-in-england-scotland-and-norway
#10
John P Clarkson, Rachel J Warmington, Peter G Walley, Matthew Denton-Giles, Martin J Barbetti, Guro Brodal, Berit Nordskog
Sclerotinia species are important fungal pathogens of a wide range of crops and wild host plants. While the biology and population structure of Sclerotinia sclerotiorum has been well-studied, little information is available for the related species S. subarctica. In this study, Sclerotinia isolates were collected from different crop plants and the wild host Ranuculus ficaria (meadow buttercup) in England, Scotland, and Norway to determine the incidence of Sclerotinia subarctica and examine the population structure of this pathogen for the first time...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28402789/rust-fungi-on-panicum
#11
Jill E Demers, Miao Liu, Sarah Hambleton, Lisa A Castlebury
Rusts are economically important diseases of switchgrass (Panicum virgatum) and other Paniceae grasses. Phylogenetic analyses based on sequences of the nuc rDNA 5.8S internal transcribed spacer 2 region (ITS2), partial 28S region, and intergenic spacer region (IGS) of nuc rDNA showed that species of rust fungi infecting switchgrass are closely related within Puccinia. Variation among rbcLa sequences for the associated hosts sampled concurred with the original identifications. Five species infecting switchgrass were recognized: Puccinia graminicola (≡ Uromyces graminicola), P...
2017: Mycologia
https://www.readbyqxmd.com/read/28381961/investigation-of-genetic-diversity-of-fusarium-oxysporum-f-sp-fragariae-using-pcr-rflp
#12
Ji-Su Kim, Nam Jun Kang, Youn-Sig Kwak, Choungkeun Lee
Fusarium wilts of strawberry, caused by Fusarium oxysporum f. sp. fragariae, is a serious soil-borne disease. Fusarium wilt causes dramatic yield losses in commercial strawberry production and it is a very stubborn disease to control. Reliable chemical control of strawberry Fusarium wilt disease is not yet available. Moreover, other well-known F. oxysporum have different genetic information from F. oxysporum f. sp. fragariae. This analysis investigates the genetic diversity of strawberry Fusairum wilt pathogen...
April 2017: Plant Pathology Journal
https://www.readbyqxmd.com/read/28372899/phylogenetically-diverse-group-of-native-bacterial-symbionts-isolated-from-root-nodules-of-groundnut-arachis-hypogaea-l-in-south-africa
#13
Sanjay K Jaiswal, Levini A Msimbira, Felix D Dakora
Groundnut is an economically important N​2-fixing legume that can contribute about 100-190kgNha(-1) to cropping systems. In this study, groundnut-nodulating native rhizobia in South African soils were isolated from root nodules. Genetic analysis of isolates was done using restriction fragment length polymorphism (RFLP)-PCR of the intergenic spacer (IGS) region of 16S-23S rDNA. A total of 26 IGS types were detected with band sizes ranging from 471 to 1415bp. The rhizobial isolates were grouped into five main clusters with Jaccard's similarity coefficient of 0...
March 7, 2017: Systematic and Applied Microbiology
https://www.readbyqxmd.com/read/28362313/identification-and-characterization-of-spontaneous-auxotrophic-mutants-in-fusarium-langsethiae
#14
Olga Gavrilova, Anna Skritnika, Tatiana Gagkaeva
Analysis of 49 strains of Fusarium langsethiae originating from northern Europe (Russia, Finland, Sweden, UK, Norway, and Latvia) revealed the presence of spontaneous auxotrophic mutants that reflect natural intraspecific diversity. Our investigations detected that 49.0% of F. langsethiae strains were auxotrophic mutants for biotin, and 8.2% of the strains required thiamine as a growth factor. They failed to grow on vitamin-free media. For both prototrophic and auxotrophic strains, no growth defect was observed in rich organic media...
March 31, 2017: Microorganisms
https://www.readbyqxmd.com/read/28360398/nucleotide-diversity-and-phylogenetic-relationships-among-gladiolus-cultivars-and-related-taxa-of-family-iridaceae
#15
Niraj Singh, Baleshwar Meena, Ashish Kumar Pal, Roop Kumar Roy, Sri Krishna Tewari, Sushma Tamta, Tikam Singh Rana
The plastid genome regions of two intergenic spacers, psbA-trnH and trnL-trnF, were sequenced to study the nucleotide diversity and phylogenetic relationships among Gladiolus cultivars. Nucleotide diversity of psbA-trnH region was higher than trnL-trnF region of chloroplast. We employed Bayesian, maximum parsimony (MP) and neighbour-joining (NJ) approaches for phylogenetic analysis of Gladiolus and related taxa using combined datasets from chloroplast genome. The psbA-trnH and trnL-trnF intergenic spacers of Gladiolus and related taxa-like Babiana, Chasmanthe, Crocus, Iris, Moraea, Sisyrinchium, Sparaxis and two out group species (Hymenocallis littoralis and Asphodeline lutea) were used in the present investigation...
March 2017: Journal of Genetics
https://www.readbyqxmd.com/read/28345224/involvement-of-multiple-chlamydia-suis-genotypes-in-porcine-conjunctivitis
#16
R Chahota, H Ogawa, K Ohya, T Yamaguchi, K D E Everett, H Fukushi
Chlamydia suis has been detected in numerous disease conditions of pigs, particularly in eye infections. This study examined recurring conjunctivitis cases in five commercial pig farms in Japan. 40.5% of the cases were identified as Chlamydia positive using impression cytology of ocular smears and a genus-specific direct fluorescent antibody. C. suis was detected in 59.5% of the samples using PCR tests targeting 16S-23S rRNA intergenic spacer region (ISR) and ompA gene. Genetic analysis of PCR amplicons revealed nine sequence variants of 16S-23S rRNA ISR and 20 sequence variants within ompA gene...
March 27, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/28338961/expressed-structurally-stable-inverted-duplicates-in-mammalian-genomes-as-functional-noncoding-elements
#17
Zhen-Xia Chen, Brian Oliver, Yong E Zhang, Ge Gao, Manyuan Long
Inverted duplicates are a type of repetitive DNA motifs consist of two copies of reverse complementary sequences separated by a spacer sequence. They can lead to genome instability and many may have no function, but some functional small RNAs are processed from hairpins transcribed from these elements. It is not clear whether the pervasive numbers of such elements in genomes, especially those of mammals, is the result of high generation rates of neutral or slightly deleterious duplication events or positive selection for functionality...
March 13, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/28324231/occurrence-and-virulence-properties-of-vibrio-and-salinivibrio-isolates-from-tropical-lagoons-of-the-southern-caribbean-sea
#18
Milagro Fernández-Delgado, Paula Suárez, Sandra Giner, Virginia Sanz, Jessy Peña, Damarys Sánchez, M Alexandra García-Amado
The Vibrionaceae are Gram-negative bacteria present in marine and estuarine environments worldwide, including several species known as important pathogens to humans and aquatic organisms. The aim of this research was to investigate the occurrence and virulence properties of Vibrio and Salinivibrio isolated from lagoons at Cuare Wildlife Refuge and Margarita Island in the southern Caribbean Sea. Water, plankton and oyster samples were collected during October 2011 and March 2012 and examined by specific PCR and culture methods...
March 21, 2017: Antonie Van Leeuwenhoek
https://www.readbyqxmd.com/read/28262480/presence-of-borrelia-in-different-populations-of-ixodes-pararicinus-from-northwestern-argentina
#19
Maria N Saracho Bottero, Patrick S Sebastian, Luis A Carvalho, Leonor Guardia Claps, Mariano Mastropaolo, Atilio J Mangold, José M Venzal, Santiago Nava
This work was performed to evaluate the presence of Borrelia in different populations of Ixodes pararicinus from northwestern Argentina (Jujuy, Salta and Tucumán provinces). Questing adults and nymphs of I. pararicinus were collected from vegetation, and I. pararicinus nymphs were also collected on birds. Eighty-two ticks were tested for Borrelia presence by PCR targeting the gene flagellin and the rrfA-rrlB intergenic spacer region. Pools of ticks positive to Borrelia were formed by two nymphs collected on Turdus rufiventris in Tucumán, one nymph collected on Syndactyla rufosuperciliata in Jujuy, one nymph collected on Turdus nigriceps in Tucumán, three nymphs collected on T...
February 27, 2017: Ticks and Tick-borne Diseases
https://www.readbyqxmd.com/read/28187538/first-record-of-the-root-knot-nematode-i-meloidogyne-i-i-minor-i-in-new-zealand-with-description-sequencing-information-and-key-to-known-species-of-i-meloidogyne-i-in-new-zealand
#20
Zeng Qi Zhao, Wellcome Ho, Ruth Griffin, Michael Surrey, Robert Taylor, Lee T Aalders, Nigel L Bell, Yu Mei Xu, Brett J R Alexander
Meloidogyne minor Karssen et al. 2004 was collected from perennial ryegrass (Lolium perenne L.) growing in a sports ground in Christchurch, New Zealand. This is a new record for M. minor, the first report of this nematode occurring in New Zealand, and the second report from the southern hemisphere (after Chile). In general, the New Zealand isolate of M. minor corresponds well to the descriptions of M. minor given by Karssen et al. (2004). The New Zealand isolate is characterized by having a female with dorsally curved stylet, 13-14 μm long, with transversely ovoid knobs slightly sloping backwards from shaft; rounded perineal pattern; and male with stylet 16-19 μm long, large transversely ovoid knobs sloping slightly backwards from shaft; head region not set off, labial disc elevated, lateral lips prominent; and second stage juvenile 370-390 μm long, with hemizonid posterior but adjacent to excretory pore; tail 53-63 μm long; and a distinct hyaline tail terminus 14-18 μm long...
February 9, 2017: Zootaxa
keyword
keyword
75803
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"